InstructPro2: Natural Language and Biological Grounding Guided De Novo Protein Design
Paper • 2610.19592 • Published
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The dataset generation failed
Error code: DatasetGenerationError
Exception: TypeError
Message: Couldn't cast array of type
struct<source: string, accession: string, organism: string, gene_name: string, protein_full_name: string, cdrh1_seq: string, cdrh2_seq: string, cdrh3_seq: string, light_chain_seq: string, description_extraction_audit: struct<organism_source: string, organism_method: string, organism_resolution_method: string, germline_source: string, germline_full_match: struct<v: string, d: string, j: string>, isotype_source: string, isotype_value: string, membrane_bound_detected: bool, target_source: string, target_extraction_method: string>, pdb_id: string, cdrl1_seq: string, cdrl2_seq: string, cdrl3_seq: string, cdrh1_pos: string, cdrh2_pos: string, cdrh3_pos: string, cdrl1_pos: string, cdrl2_pos: string, cdrl3_pos: string, cdrh3_split: string, cdrh3_cluster: string, design_blueprint_metadata: struct<extracted_parameters: struct<antibody_name: string, antibody_format: string, heavy_subclass: string, light_subclass: string, is_engineered: bool, target_antigen: string, target_domain: string, functional_role: string, evidence_quote: string>>, hchain: string, lchain: string, heavy_species: string, heavy_subclass: string, light_subclass: string, light_ctype: string, scfv: string, engineered: string, antigen_type: string, antigen_name: string, compound: string, resolution: string, method: string>
to
{'pdb_id': Value('string'), 'light_chain_seq': Value('string'), 'cdrh1_seq': Value('string'), 'cdrh2_seq': Value('string'), 'cdrh3_seq': Value('string'), 'cdrl1_seq': Value('string'), 'cdrl2_seq': Value('string'), 'cdrl3_seq': Value('string'), 'cdrh1_pos': Value('string'), 'cdrh2_pos': Value('string'), 'cdrh3_pos': Value('string'), 'cdrl1_pos': Value('string'), 'cdrl2_pos': Value('string'), 'cdrl3_pos': Value('string'), 'cdrh3_split': Value('string'), 'cdrh3_cluster': Value('string'), 'design_blueprint_metadata': {'extracted_parameters': {'antibody_name': Value('string'), 'antibody_format': Value('string'), 'heavy_subclass': Value('string'), 'light_subclass': Value('string'), 'is_engineered': Value('bool'), 'target_antigen': Value('string'), 'target_domain': Value('string'), 'functional_role': Value('string'), 'evidence_quote': Value('string')}}}
Traceback: Traceback (most recent call last):
File "/usr/local/lib/python3.14/site-packages/datasets/builder.py", line 1827, in _prepare_split_single
for key, table in generator:
^^^^^^^^^
File "/src/services/worker/src/worker/job_runners/config/parquet_and_info.py", line 613, in wrapped
for item in generator(*args, **kwargs):
~~~~~~~~~^^^^^^^^^^^^^^^^^
File "/usr/local/lib/python3.14/site-packages/datasets/packaged_modules/json/json.py", line 343, in _generate_tables
self._cast_table(pa_table, json_field_paths=json_field_paths),
~~~~~~~~~~~~~~~~^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "/usr/local/lib/python3.14/site-packages/datasets/packaged_modules/json/json.py", line 132, in _cast_table
pa_table = table_cast(pa_table, self.info.features.arrow_schema)
File "/usr/local/lib/python3.14/site-packages/datasets/table.py", line 2378, in table_cast
return cast_table_to_schema(table, schema)
File "/usr/local/lib/python3.14/site-packages/datasets/table.py", line 2312, in cast_table_to_schema
cast_array_to_feature(
~~~~~~~~~~~~~~~~~~~~~^
table[name] if name in table_column_names else pa.array([None] * len(table), type=schema.field(name).type),
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
feature,
^^^^^^^^
)
^
File "/usr/local/lib/python3.14/site-packages/datasets/table.py", line 1861, in wrapper
return pa.chunked_array([func(chunk, *args, **kwargs) for chunk in array.chunks])
~~~~^^^^^^^^^^^^^^^^^^^^^^^^
File "/usr/local/lib/python3.14/site-packages/datasets/table.py", line 2158, in cast_array_to_feature
raise TypeError(f"Couldn't cast array of type\n{_short_str(array.type)}\nto\n{_short_str(feature)}")
TypeError: Couldn't cast array of type
struct<source: string, accession: string, organism: string, gene_name: string, protein_full_name: string, cdrh1_seq: string, cdrh2_seq: string, cdrh3_seq: string, light_chain_seq: string, description_extraction_audit: struct<organism_source: string, organism_method: string, organism_resolution_method: string, germline_source: string, germline_full_match: struct<v: string, d: string, j: string>, isotype_source: string, isotype_value: string, membrane_bound_detected: bool, target_source: string, target_extraction_method: string>, pdb_id: string, cdrl1_seq: string, cdrl2_seq: string, cdrl3_seq: string, cdrh1_pos: string, cdrh2_pos: string, cdrh3_pos: string, cdrl1_pos: string, cdrl2_pos: string, cdrl3_pos: string, cdrh3_split: string, cdrh3_cluster: string, design_blueprint_metadata: struct<extracted_parameters: struct<antibody_name: string, antibody_format: string, heavy_subclass: string, light_subclass: string, is_engineered: bool, target_antigen: string, target_domain: string, functional_role: string, evidence_quote: string>>, hchain: string, lchain: string, heavy_species: string, heavy_subclass: string, light_subclass: string, light_ctype: string, scfv: string, engineered: string, antigen_type: string, antigen_name: string, compound: string, resolution: string, method: string>
to
{'pdb_id': Value('string'), 'light_chain_seq': Value('string'), 'cdrh1_seq': Value('string'), 'cdrh2_seq': Value('string'), 'cdrh3_seq': Value('string'), 'cdrl1_seq': Value('string'), 'cdrl2_seq': Value('string'), 'cdrl3_seq': Value('string'), 'cdrh1_pos': Value('string'), 'cdrh2_pos': Value('string'), 'cdrh3_pos': Value('string'), 'cdrl1_pos': Value('string'), 'cdrl2_pos': Value('string'), 'cdrl3_pos': Value('string'), 'cdrh3_split': Value('string'), 'cdrh3_cluster': Value('string'), 'design_blueprint_metadata': {'extracted_parameters': {'antibody_name': Value('string'), 'antibody_format': Value('string'), 'heavy_subclass': Value('string'), 'light_subclass': Value('string'), 'is_engineered': Value('bool'), 'target_antigen': Value('string'), 'target_domain': Value('string'), 'functional_role': Value('string'), 'evidence_quote': Value('string')}}}
The above exception was the direct cause of the following exception:
Traceback (most recent call last):
File "/src/services/worker/src/worker/job_runners/config/parquet_and_info.py", line 1369, in compute_config_parquet_and_info_response
parquet_operations, partial, estimated_dataset_info = stream_convert_to_parquet(
~~~~~~~~~~~~~~~~~~~~~~~~~^
builder, max_dataset_size_bytes=max_dataset_size_bytes
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
)
^
File "/src/services/worker/src/worker/job_runners/config/parquet_and_info.py", line 948, in stream_convert_to_parquet
builder._prepare_split(split_generator=splits_generators[split], file_format="parquet")
~~~~~~~~~~~~~~~~~~~~~~^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "/usr/local/lib/python3.14/site-packages/datasets/builder.py", line 1694, in _prepare_split
for job_id, done, content in self._prepare_split_single(
~~~~~~~~~~~~~~~~~~~~~~~~~~^
gen_kwargs=gen_kwargs, job_id=job_id, **_prepare_split_args
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
):
^
File "/usr/local/lib/python3.14/site-packages/datasets/builder.py", line 1879, in _prepare_split_single
raise DatasetGenerationError("An error occurred while generating the dataset") from e
datasets.exceptions.DatasetGenerationError: An error occurred while generating the datasetNeed help to make the dataset viewer work? Make sure to review how to configure the dataset viewer, and open a discussion for direct support.
modality_type string | text string | target_protein string | metadata dict | tokenized_instruction list | antigen list |
|---|---|---|---|---|---|
antibody | Give me the HCDR sequences that can form the binding loops of an antibody with the following function: A rabbit Fab, 43A2 (IGHV1/IGKV1-Kappa), targeting the Envelope glycoprotein gp120 of Human immunodeficiency virus 1. The gp120 surface protein attaches the virus to the host lymphoid cell by binding to the primary rec... | RQLVESGGGLVQPEGSLTLTCKAS<M1>MCWVRQAPGKGLEWITC<M2>YYATWAKGRFTISKTSSTTVTLRLTSLTEADTATYFC<M3>WGPGTLV<SEP><M1>GFSFSRSQY<M2>VYPDDDTP<M3>ARTSGFGGYSYAAHGVDL | {
"pdb_id": "6vo0",
"light_chain_seq": "DIVMTQTPASVSEPVGGTVTIKCQASHNIRSYLSWYQQKVGQPPKRLIYETSNLASGVPSRFAGSGSGTEFTLTISDLECADAATYYCQSNFGLSDSRTYNFGGGTEVVVKGD",
"cdrh1_seq": "GFSFSRSQY",
"cdrh2_seq": "VYPDDDTP",
"cdrh3_seq": "ARTSGFGGYSYAAHGVDL",
"cdrl1_seq": "HNIRSY",
"cdrl2_seq": "ETS",
"cdrl3_seq": "QSNFG... | [
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11... | [
"AENLWVTVYYGVPVWKDAETTLFCASDAKKKHNVWATHCCVPTDPNPQEIHLENVTEEFNMWKNNMVEQMHTDIISLWDQSLKPCVKLTPLCVTLQCTNVTNNITDDMRGELKNCSFNMTTELRDKKQKVYSLFYRLDVVQIKEYRLINCNTSAITQACPKVSFEPIPIHYCAPAGFAILKCKDKKFNGTGPCPSVSTVQCTHGIKPVVSTQLLLNGSLAEEEVMIRSENITNNAKNILVQFNTPVQINCTRPNNNTRKSIRIGPGQWFYATGDIIGDIRQAHCNVSKATWNETLGKVVKQLRKHFGNNTIIRFA... |
antibody | Design the HCDRs for an antibody that will have the following function: A human Fab, PGT151 (IGHV3/IGKV2-Kappa), targeting the engineered Envelope glycoprotein gp160 of Human immunodeficiency virus 1 (BG505 delCT N332T). The Envelope glycoprotein gp160 oligomerizes into trimers and is proteolytically cleaved to produce... | VQLVESGGGVVQPGKSVRLSCVVS<M1>MYWVRQAPGKGLEWVAA<M2>VYSNSVQGRFLVSRDNVKNTLYLEMNSLKIEDTAVYRC<M3>WGQGTTVTVSSA<SEP><M1>DFPFSKYP<M2>ISGDAWHV<M3>ARMFQESGPPRLDRWSGRNYYYYSGMDV | {
"pdb_id": "6mar",
"light_chain_seq": "IVMTQTPLSLSVTPGQPASISCKSSESLRQSNGKTSLYWYRQKPGQSPQLLVFEVSNRFSGVSDRFVGSGSGTDFTLRISRVEAEDVGFYYCMQSKDFPLTFGGGTKVDLKR",
"cdrh1_seq": "DFPFSKYP",
"cdrh2_seq": "ISGDAWHV",
"cdrh3_seq": "ARMFQESGPPRLDRWSGRNYYYYSGMDV",
"cdrl1_seq": "ESLRQSNGKTS",
"cdrl2_seq": "EVS",
"cdrl3... | [
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"AVGIGAVFLGFLGAAGSTMGAASMTLTVQARNLLSGIVTVWGIKQLQARVLAVERYLRDQQLLGIWGCSGKLICTTNVPWNSSWSNRNLSEIWDNMTWLQWDKEISNYTQIIYGLLEESQNQQEKNEQDLLALD",
"ENLWVTVYYGVPVWKDAETTLFCASHNVWATHACVPTDPNPQEIHLENVTEEFNMWKNNMVEQMHTDIISLWDQSLKPCVKLTPLCVTLQCTNVTNNITDDMRGELKNCSFNMTTELRDKKQKVYSLFYRLDVVQINNKEYRLINCNTSAITQACPKVSFEPIPIHYCAPAGFAI... |
antibody | Given the following functional description of an antibody, generate the HCDRs that perform the described role. The desired function is: A murine Fab, 5D3 (IGHV3/IGKV13-Kappa), targeting the engineered human Broad substrate specificity ATP-binding cassette transporter ABCG2. ABCG2 is a multidrug transporter that activel... | VQLQESGPGLVKPSQSLSLTCTVT<M1>WNWIRQFPGKKLEWMGY<M2>TYNPSLRGRISITRDTSKNQFFLQLRSVTPEDTATYYC<M3>WGQGTSVTVSS<SEP><M1>GFSITSDYA<M2>INFDGGT<M3>ATFYGAKGTLDY | {
"pdb_id": "8qcm",
"light_chain_seq": "DIVLTQSPSSFSVSLGDRVTISCKASGYILNRLAWYQQKPGNAPRLLISGATSLETGFPSRFSGTGSGKDYTLSISSLQTEDVGTYYCQQYWSTPWTFGGGTKLEIR",
"cdrh1_seq": "GFSITSDYA",
"cdrh2_seq": "INFDGGT",
"cdrh3_seq": "ATFYGAKGTLDY",
"cdrl1_seq": "GYILNR",
"cdrl2_seq": "GAT",
"cdrl3_seq": "QQYWSTPWT",
"cdr... | [
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"GAVLSFHNICYRVEKEILSNINGIMKPGLNAILGPTGGGKSSLLDVLAARKDPSGLSGDVLINGAPRPANFKCNSGYVVQDDVVMGTLTVRENLQFSAALRLATTMTNHEKNERINRVIQELGLDKVADSKVGTQFIRGVSGGERKRTSIGMELITDPSILFLDEPTTGLDSSTANAVLLLLKRMSKQGRTIIFSIHQPRYSIFKLFDSLTLLASGRLMFHGPAQEALGYFESAGYHCEAYNNPADFFLDIINGLIEKLAEIYVNSSFYKETKAELHQLSYTTSFCHQLRWVSKRSFKNLLGNPQASIAQIIVTV... |
antibody | The antibody I want to design has this role: A human Fab, 537-10D (IGHV3/IGLV2-Lambda), targeting the V3 loop of the Envelope glycoprotein of Human immunodeficiency virus 1. The V3 loop is a variable region of gp120 that is critical for viral tropism and host cell recognition. The antibody is designed as a type-specifi... | QVQLVQSGGGLVQPGGSLRLSCVAS<M1>MSWVRQAPGKGLEWVAN<M2>YYVDSVKGRFTISRDNAKNSLFLQMNSLRAEDTAVYFC<M3>WGKGTTVTVSSA<SEP><M1>GFTFNNYW<M2>IKQDGNDK<M3>AREFSSYTDHLEYYYDYYYMDV | {
"pdb_id": "3ghe",
"light_chain_seq": "QSALTQPASVSGSPGQSITISCTGTSTDVNGYNYVSWYQQYAGKAPKLIIFDVSKRPSGVSNRFSGSKSGDTASLTISGLQAEDEADYHCSSYTSSTPYVLFGGGTKLTVLGQ",
"cdrh1_seq": "GFTFNNYW",
"cdrh2_seq": "IKQDGNDK",
"cdrh3_seq": "AREFSSYTDHLEYYYDYYYMDV",
"cdrl1_seq": "STDVNGYNY",
"cdrl2_seq": "DVS",
"cdrl3_seq": ... | [
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"RKRIHIGPGRAFYAT"
] |
antibody | Provide the HCDR sequences of an antibody with the following function: A human Fab (IGHV3/IGKV1-Kappa) targeting the BRIL-SLC19A1 chimera, an engineered construct of the Reduced folate transporter fused to BRIL for structural stabilization. The Reduced folate transporter mediates the import of reduced folates and cycli... | EVQLVESGGGLVQPGGSLRLSCAAS<M1>LHWVRQAPGKGLEWVAY<M2>SYADSVKGRFTISADTSKNTAYLQMNSLRAEDTAVYYC<M3>WGQGTLVTVSSA<SEP><M1>GFNVVDFS<M2>ISSSSGST<M3>ARWGYWPGEPWWKAFDY | {
"pdb_id": "8hij",
"light_chain_seq": "DIQMTQSPSSLSASVGDRVTITCRASQSVSSAVAWYQQKPGKAPKLLIYSASSLYSGVPSRFSGSRSGTDFTLTISSLQPEDFATYYCQQYLYYSLVTFGQGTKVEIKRT",
"cdrh1_seq": "GFNVVDFS",
"cdrh2_seq": "ISSSSGST",
"cdrh3_seq": "ARWGYWPGEPWWKAFDY",
"cdrl1_seq": "QSVSSA",
"cdrl2_seq": "SAS",
"cdrl3_seq": "QQYLYYSLVT... | [
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"ADLEDNWETLNDNLKVIEKADNAAQVKDALTKMRAAALDAQKATPPKLEDKSPDSPEMKDFRHGFDILVGQIDDALKLANEGKVKEAQAAAEQLKTTRNAYIQKYLSWRHLVCYLCFYGFMAQIRPGESFITPYLLGPDKNFTREQVTNEITPVLSYSYLAVLVPVFLLTDYLRYTPVLLLQGLSFVSVWLLLLLGHSVAHMQLMELFYSVTMAARIAYSSYIFSLVRPARYQRVAGYSRAAVLLGVFTSSVLGQLLVTVGRVSFSTLNYISLAFLTFSVVLALFLKRPKRSLFFNVLARMLRELGDSLRRPQLR... |
antibody | Generate the HCDRs according to this antibody functional description: A rhesus macaque Fab, V031-a.01 (IGHV2/IGKV2-Kappa), targeting the trimeric Envelope glycoprotein gp120 of Human immunodeficiency virus 1. The Envelope glycoprotein gp120 attaches the virus to the host lymphoid cell by binding to the primary receptor... | LVTLKESGPALVTPTQTLTLTCTLS<M1>VNWIRQAPGKALEWLAR<M2>FYSSSLKTRLSISTDASKNQVVLRMTNMAPVDTGTYYC<M3>WGQGVVVTVSS<SEP><M1>GFSLTTTGMR<M2>IDYNEAR<M3>ARSQQHYYEDATFDWYYFHSRDNGLDS | {
"pdb_id": "9bnk",
"light_chain_seq": "DIVMTQTPLSLPVTPGEPASISCRSSQSLLDSDGYTHLSWYLQKPGQSPQLLISLVSNRASGVPDRFSGSGSGTDFTLKLNRVEAEDVGLYYCMQGLQTPYTFGQGTKVEIK",
"cdrh1_seq": "GFSLTTTGMR",
"cdrh2_seq": "IDYNEAR",
"cdrh3_seq": "ARSQQHYYEDATFDWYYFHSRDNGLDS",
"cdrl1_seq": "QSLLDSDGYTH",
"cdrl2_seq": "LVS",
"cdrl3... | [
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"ENLWVTVYYGVPVWKDAETTLFCASDAHNVWATHACVPTDPNPQEIHLENVTEEFNMWKNNMVEQMHTDIISLWDQSLKPCVKLTPLCVTLQCTNVTNNITDDMRGELKNCSFNMTTELRDKKQKVYSLFYRLDVVQINENQGNRSNNSNKEYRLINCNTSACTQACPKVSFEPIPIHYCAPAGFAILKCKDKKFNGTGPCPSVSTVQCTHGIKPVVSTQLLLNGSLAEEEVMIRSENITNNAKNILVQFNTPVQINCTRPNNNTRKSIRIGPGQAFYATGDIIGDIRQAHCNVSKATWNETLGKVVKQLRKHFG... |
antibody | Generate the HCDRs according to this antibody functional description: A human Fab, 5A2 (IGHV4/IGKV1-Kappa), targeting the engineered C-terminal Fc-binding domain of Envelope glycoprotein E from Human alphaherpesvirus 3 (varicella zoster virus). Envelope glycoprotein E, in heterodimer with glycoprotein I, is essential f... | QVQLQESGPGLVKPSETLSLTCIVS<M1>WSWIRQPPGRGLEWIGN<M2>NYNPSLQSRVTISLDTSKNQFSLRLTSVTAADTAVYYC<M3>WGQGTLVTVSSA<SEP><M1>GGSISRYY<M2>IYYTGTT<M3>ARIGGVSFGERPIDY | {
"pdb_id": "8v5p",
"light_chain_seq": "DIQMTQSPSSLSASVGDRVTITCRASQTISTYLNWYQQKPGKAPKLLIYAASTLQSGVPSRFSGSGSGTDFTLTITSLQPEDFAAYYCQQSYSIPLTFGGGTKVEIKGQ",
"cdrh1_seq": "GGSISRYY",
"cdrh2_seq": "IYYTGTT",
"cdrh3_seq": "ARIGGVSFGERPIDY",
"cdrl1_seq": "QTISTY",
"cdrl2_seq": "AAS",
"cdrl3_seq": "QQSYSIPLT",
... | [
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] |
antibody | I want to design an antibody that can perform the following function: A murine Fab, M2-7 (IGHV14/IGKV14-Kappa), targeting the Spike glycoprotein of Severe acute respiratory syndrome coronavirus 2. The Spike glycoprotein attaches the virion to the cell membrane by interacting with host ACE2 receptor, initiating infectio... | EVQLQQSGAELVKPGASVKLSCTAS<M1>MNWVRQRPKQGLEWIGR<M2>KYDPKFQGKATITADTSSNIAYLQLSGLTSEDTAVYYC<M3>WGQGTSVTV<SEP><M1>GFNIKDTY<M2>IDPANGNT<M3>ARFDYDGYYVHVMDY | {
"pdb_id": "8xxw",
"light_chain_seq": "DIKMTQSPSSMYASLGERVTITCKASQDINSYLSWFQQKPGKSPKTLIYRANRLVDGVPSRFSGSGSGQDYSLTINSLEYEDMGIYYCLQYDEFPFTFGSGTKLEIK",
"cdrh1_seq": "GFNIKDTY",
"cdrh2_seq": "IDPANGNT",
"cdrh3_seq": "ARFDYDGYYVHVMDY",
"cdrl1_seq": "QDINSY",
"cdrl2_seq": "RAN",
"cdrl3_seq": "LQYDEFPFT",
"... | [
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5481,
... | [
"CPFGEVFNATRFASVYAWNRKRISVLYNSASFSTFKCYGVNVYADSFVIRGDEVRQIAPGQTGKIADYNYKLPDDFTGCVIAWNSNNLDSKVGGNYNYLYRLFRKSNLKPFERDISTEIYQAGSTPCNGVEGFNCYFPLQSYGFQPTNGVGYQPYRVVVLSF"
] |
antibody | The antibody I want to design has this role: A human Fab (IGHV3/IGKV1-Kappa) targeting an engineered fusion construct of the Vasopressin V2 receptor with BRIL. The Vasopressin V2 receptor is a G protein-coupled receptor for arginine vasopressin that promotes renal water reabsorption by triggering signaling via G protei... | EVQLVESGGGLVQPGGSLRLSCAAS<M1>LHWVRQAPGKGLEWVAY<M2>SYADSVKGRFTISADTSKNTAYLQMNSLRAEDTAVYYC<M3>WGQGTLVTVSSA<SEP><M1>GFNVVDFS<M2>ISSSSGST<M3>ARWGYWPGEPWWKAFDY | {
"pdb_id": "9hb3",
"light_chain_seq": "DIQMTQSPSSLSASVGDRVTITCRASQSVSSAVAWYQQKPGKAPKLLIYSASSLYSGVPSRFSGSRSGTDFTLTISSLQPEDFATYYCQQYLYYSLVTFGQGTKVEIKRT",
"cdrh1_seq": "GFNVVDFS",
"cdrh2_seq": "ISSSSGST",
"cdrh3_seq": "ARWGYWPGEPWWKAFDY",
"cdrl1_seq": "QSVSSA",
"cdrl2_seq": "SAS",
"cdrl3_seq": "QQYLYYSLVT... | [
2,
1920,
3533,
51,
12914,
1942,
3036,
2258,
2052,
2770,
30,
43,
2616,
6914,
12,
20733,
1020,
1010,
19,
7021,
1040,
7390,
17,
12093,
13,
5133,
1925,
11091,
5289,
6377,
1927,
1920,
20671,
12701,
3148,
1956,
2387,
1970,
18,
1920,
20671,
... | [
"LLARAELALLSIVFVAVALSNGLVLAALARRGRRGHWAPIHVFIGHLCLADLAVALFQVLPQLAWKATDRFRGDALCRAVKYLQMVGMYASSYMILAMTLDRHRAICRPNRPVLVAWAFSLLLSLPQLFIFAQTDCWACFWGRRTYVTWIALMVFVAPTLGIAACQVLIFREIHAAAVAKTVRMTLVIVVVYVLCWAPFFLVQLWAAWDPPFVLLMLLASLNSCTNPWIYASFSSSVSSELRARRQLADLEDNWETLNDNLKVIEKADNAAQVKDALTKMRAAALDAQKATPMKDFRHGFDILVGQIDDALKLAN... |
antibody | Design the HCDRs for an antibody that will have the following function: A murine Fab, 4C4 (IGHV5/IGKV3-Kappa), targeting a synthetic peptide corresponding to the G-H loop of VP1 from Foot-and-mouth disease virus. The G-H loop contains the receptor-recognition motif Arg-Gly-Asp and represents the major antigenic site A.... | MLVESGGDLVKPGGSLKLSCAAS<M1>MSWVRQTPEKRLEWVAT<M2>YYPDSVKGRFTISDDNAESTLYLQMSSLRSEDTAMYYC<M3>WGHRTLVTVSAA<SEP><M1>GFTFSSYT<M2>ISSGGAYT<M3>VRRAFDSDVGFAS | {
"pdb_id": "1ejo",
"light_chain_seq": "DIVLTQSPASLAVSLGQRATISCRASESVDSYGNSFMHWYQQKPGQPPKLLIYRASNLESGIPARFSGSGSRTDFTLTINPVEADDVATYYCQQSNEDPLTFGAGTKLELKRA",
"cdrh1_seq": "GFTFSSYT",
"cdrh2_seq": "ISSGGAYT",
"cdrh3_seq": "VRRAFDSDVGFAS",
"cdrl1_seq": "ESVDSYGNSF",
"cdrl2_seq": "RAS",
"cdrl3_seq": "QQSNEDP... | [
2,
3036,
1920,
27203,
5675,
1958,
1925,
3533,
1988,
2832,
2162,
1920,
2894,
2347,
30,
43,
7135,
6914,
16,
8235,
1006,
12,
20733,
1020,
1015,
19,
7021,
1040,
1020,
1010,
17,
12093,
13,
16,
5133,
43,
6830,
4207,
3980,
1942,
1920,
49,
... | [
"YTTSTRGDLAHVT"
] |
antibody | Generate the HCDRs according to these antibody design specifications: A human Fab, antibody b12 (IGHV1/IGKV3-Kappa), targeting the Envelope glycoprotein gp120 of Human immunodeficiency virus 1. The gp120 glycoprotein must bind to cell-surface CD4, alter its conformation to reveal a site for co-receptor attachment, and ... | EVQLVESGAEVKKPGSSVKVSCKAS<M1>FTWVRQAPGQGLEWMGR<M2>HYAPHLQGRVTITADKSTSTVYLELRNLRSDDTAVYFC<M3>WGQGTLVTVSSA<SEP><M1>GDTFIRYS<M2>IITILDVA<M3>AGVYEGEADEGEYDNNGFLKH | {
"pdb_id": "2ny6",
"light_chain_seq": "DIVMTQSPATLSVSPGERATLSCRASESVSSDLAWYQQKPGQAPRLLIYGASTRATGVPARFSGSGSGAEFTLTISSLQSEDFAVYYCQQYNNWPPRYTFGQGTRLEIKRT",
"cdrh1_seq": "GDTFIRYS",
"cdrh2_seq": "IITILDVA",
"cdrh3_seq": "AGVYEGEADEGEYDNNGFLKH",
"cdrl1_seq": "ESVSSD",
"cdrl2_seq": "GAS",
"cdrl3_seq": "QQYNN... | [
2,
5655,
1920,
27203,
5675,
3147,
1942,
2144,
3533,
3036,
22437,
30,
43,
2616,
6914,
16,
3533,
17492,
12,
20733,
7390,
19,
7021,
1040,
1020,
1010,
17,
12093,
13,
16,
5133,
1920,
11262,
11424,
16102,
1927,
2616,
13141,
3413,
21,
18,
19... | [
"EVVLVNVTENFNWCKNDMVEQMHEDICSLWDQSLKPCVKLCPLCVGAGSCNTSVITQACPKVSFEPIPIHYCAPAGFAILKCNNKTFNGTGPCTNVSTVQCTHGIRPVVSSQLLLNGSLAEEEVVIRSCNFTDNAKTIIVQLNTSVEINCTGAGHCNIARAKWNNTLKQIASKLREQFGNNKTIIFKQSSGGDPEIVTHWFNCGGEFFYCNSTQLFNSTWFNGSDTITLPCRIKQIINMWCKVCKAMYAPPISGQIRCSSNITGLLLTRDGGNSNNESEIFRPGGGDMRDNWRSELYKYKVVKI"
] |
antibody | The antibody I want to design has this role: A human Fab, N49P6 (IGLV2-Lambda), targeting the clade A/E 93TH057 HIV-1 gp120 core of Human immunodeficiency virus 1. The gp120 core mediates attachment of the virion to the host cell CD4 receptor to initiate infection. N49P6 is designed as a broadly neutralizing antibody t... | GLMQSGAVMKNSGASVRVSCQAD<M1>IHWFRQRRGEGLEWLGW<M2>NYPRPFQGKVTMTRDTSTETAYLDVRGLTYDDTAVYYC<M3>WGRGTQITVVSA<SEP><M1>GYDFIDYV<M2>MNPSGGGT<M3>VRDRANGSGRRRFESVNWFLDL | {
"pdb_id": "6oz2",
"light_chain_seq": "ALTQPRSVSASPGQSVTISCTGTHNYVSWCQQKPGQAPKLLIYDFNKRPSGVSDRFSGSTSGNTASLTISGLQADDEGHYFCWAFENIGGGTKLTVLGQ",
"cdrh1_seq": "GYDFIDYV",
"cdrh2_seq": "MNPSGGGT",
"cdrh3_seq": "VRDRANGSGRRRFESVNWFLDL",
"cdrl1_seq": "HNY",
"cdrl2_seq": "DFN",
"cdrl3_seq": "WAFEN",
"cdrh1_po... | [
2,
1920,
3533,
51,
12914,
1942,
3036,
2258,
2052,
2770,
30,
43,
2616,
6914,
16,
27982,
1026,
26974,
12,
28961,
15755,
17,
18279,
13,
16,
5133,
1920,
11315,
43,
19,
47,
6156,
1963,
15264,
1027,
3525,
17,
21,
16102,
4728,
1927,
2616,
... | [
"PVWKDADTTLFCASDAKAHETEVHNVWATHACVPTDPNPQEIHLENVTENFNMWKNNMVEQMQEDVISLWDQSLQPCVKLTGGSVIKQACPKISFDPIPIHYCTPAGYVILKCNDKNFNGTGPCKNVSSVQCTHGIKPVVSTQLLLNGSLAEEEIIIRSENLTNNAKTIIVHLNKSVEINCTRPSDIRKAYCEINGTKWNKVLKQVTEKLKEHFNNKTIIFQPPSGGDLEITMHSFNCRGEFFYCNTTQLFNNTCICNGTITLPCKIKQIINMWQGTGQAMYAPPIDGKINCVSNITGILLTRDGGANNTSNETF... |
antibody | What would be the HCDR sequences of an antibody with the following function: A human Fab, SM5-1 (IGHV1/IGLV1-Lambda), targeting the Envelope glycoprotein B of Human Cytomegalovirus. Envelope glycoprotein B plays a role in host cell entry, cell-to-cell virus transmission, and fusion of infected cells by interacting with... | QVQLVQSGAEVRKPGASVKVSCKAS<M1>MVWVRQAPGQGLEWMGW<M2>GYGQKFQGRVTMTRDTSTNTAYMILSSLRSDDTAVYFC<M3>WGQGTMVTVSSA<SEP><M1>GYSLKDHY<M2>INPQSGGT<M3>ARDGAKTVSNSGLSLLYYHNRLDA | {
"pdb_id": "4ot1",
"light_chain_seq": "QSVLTQPPSVSAAPGQMVTISCSGSSSNIGKNYVSWYQQLPGAAPKLLIFDNNKRPSGTPDRFSGSKSGTSATLVITGLQTGDEADYYCGTPDRSLSVVFGGGTKVTVLGQ",
"cdrh1_seq": "GYSLKDHY",
"cdrh2_seq": "INPQSGGT",
"cdrh3_seq": "ARDGAKTVSNSGLSLLYYHNRLDA",
"cdrl1_seq": "SSNIGKNY",
"cdrl2_seq": "DNN",
"cdrl3_seq": "... | [
2,
4663,
2962,
1998,
1920,
27203,
1005,
3709,
1927,
1925,
3533,
1956,
1920,
2894,
2347,
30,
43,
2616,
6914,
16,
2426,
1015,
17,
21,
12,
20733,
7390,
19,
28961,
7390,
17,
18279,
13,
16,
5133,
1920,
11262,
11424,
44,
1927,
2616,
21110,
... | [
"EDLDEGIMVVYKRNIAGSGCQLTFWEASERTIRSEAEDSYHFSSAKMTATFLSKKQEVNMSDSALDCVRDEAAAKLQQIFNTSYNQTYEKYGNVSVFETTGGLVVFWQGIKQK"
] |
antibody | Generate the heavy chain CDRs for an antibody that will have the following function: A human Fab, 334 (IGHV3/IGKV1-Kappa), targeting the Circumsporozoite protein of Plasmodium falciparum. The Circumsporozoite protein is an essential sporozoite protein required for sporozoite migration through the host dermis and infect... | VQLVESGGGVVQPGRSLTLSCAAS<M1>MHWVRQTPGKGLAWVAI<M2>YYEDSVKGRFTISRDNSKNTLYLQMNSLRVDDTAVYYC<M3>WGQGTLVTVSS<SEP><M1>GFTFSNYG<M2>IWYDGSKT<M3>ARVRHSSSRHGSAFDL | {
"pdb_id": "8dyy",
"light_chain_seq": "IQMTQSPSTLSASVGDRVTITCRASQSVSTWLAWYQQKPGQGPKLLIYEASSLESGVPSRFSGSGSGTEFTLTISSLQPDDFATYYCQQYNSYSFWTFGQGTKVEIK",
"cdrh1_seq": "GFTFSNYG",
"cdrh2_seq": "IWYDGSKT",
"cdrh3_seq": "ARVRHSSSRHGSAFDL",
"cdrl1_seq": "QSVSTW",
"cdrl2_seq": "EAS",
"cdrl3_seq": "QQYNSYSFWT",
... | [
2,
5655,
1920,
7881,
4659,
20170,
1036,
1958,
1925,
3533,
1988,
2832,
2162,
1920,
2894,
2347,
30,
43,
2616,
6914,
16,
26403,
12,
20733,
1020,
1010,
19,
7021,
1040,
7390,
17,
12093,
13,
16,
5133,
1920,
28868,
2074,
26553,
2213,
1927,
1... | [
"DPNANPNVDPNANPNANPNANPNANPNANPNANPNANPNANPNANPNANPNANPNANPNANPNANPNANPNA"
] |
antibody | What would the HCDRs of an antibody with the following function look like? Here is the function: A human Fab (IGHV3/IGLV1-Lambda) targeting the Induced myeloid leukemia cell differentiation protein Mcl-1 of Mus musculus. Mcl-1 is involved in the regulation of apoptosis versus cell survival and maintenance of viability ... | QVTLKESGGGLVKPGGSLRLSCAAS<M1>MNWVRQAPGKGLEWVSS<M2>YYADSVKGRFTISRDNAKNSLYLQMNSLRAEDTAVYYC<M3>WGQGTLVTVSAA<SEP><M1>GFTFSSYS<M2>ISSSSSYI<M3>ARQVGATWAFDI | {
"pdb_id": "5mev",
"light_chain_seq": "SVLTQPPSASGTPGQRVTISCSGSSSNIGSNTVNWYQQLPGTAPKLLIYSNNQRPSGVPDRFSGSKSGTSASLAISGLQSEDEADYYCAAWDDSLNAWVFGGGTKLTVLGQ",
"cdrh1_seq": "GFTFSSYS",
"cdrh2_seq": "ISSSSSYI",
"cdrh3_seq": "ARQVGATWAFDI",
"cdrl1_seq": "SSNIGSNT",
"cdrl2_seq": "SNN",
"cdrl3_seq": "AAWDDSLNAWV"... | [
2,
4663,
2962,
1920,
27203,
5675,
1927,
1925,
3533,
1956,
1920,
2894,
2347,
8120,
3189,
35,
3410,
1977,
1920,
2347,
30,
43,
2616,
6914,
12,
20733,
1020,
1010,
19,
28961,
7390,
17,
18279,
13,
5133,
1920,
2719,
9677,
8111,
2024,
4155,
2... | [
"DDLYRQSLEIISRYLREQATGSKDSKPLGEAGAAGRRALETLRRVGDGVQRNHETAFQGMLRKLDIKNEDDVKSLSRVMIHVFSDGVTNWGRIVTLISFGAFVAKHLKTINQESCIEPLAESITDVLVRTKRDWLVKQRGWDGFVEFFHVE"
] |
antibody | I want to make an antibody that can have this function: A murine Fab, C179 (IGHV7/IGKV12-Kappa), targeting the Hemagglutinin of Influenza A virus (H2N2 subtype). Hemagglutinin binds sialic acid-containing receptors on the cell surface to mediate viral attachment and entry, and is a class I viral fusion protein responsi... | VKLVESGGGLVQPGGSLRLSCGTS<M1>MTWVRQPPGKALEWLGF<M2>EYSASVKGRFTISRDNSQSIVYLQMNTLRVEDSATYYC<M3>WGQGTSVIVSST<SEP><M1>GFTLTDDY<M2>IRDRANGYTT<M3>ARPKGYFPYAMDY | {
"pdb_id": "4hlz",
"light_chain_seq": "DIQMTQSPASQSASLGESVTITCLASQTIGTWLAWYQQKPGKSPQLLIYAATSLADGVPSRFSGSGSGTKFSFKISSLQAEDFVSYYCQQLYSTPWTFGGGTRLEIKRA",
"cdrh1_seq": "GFTLTDDY",
"cdrh2_seq": "IRDRANGYTT",
"cdrh3_seq": "ARPKGYFPYAMDY",
"cdrl1_seq": "QTIGTW",
"cdrl2_seq": "AAT",
"cdrl3_seq": "QQLYSTPWT",
... | [
2,
51,
12914,
1942,
5144,
1925,
3533,
1988,
2112,
2162,
2052,
2347,
30,
43,
7135,
6914,
16,
29957,
1026,
12,
20733,
1020,
1027,
19,
7021,
1040,
7390,
1028,
17,
12093,
13,
16,
5133,
1920,
26141,
1927,
7108,
43,
3413,
12,
4881,
9090,
... | [
"GLFGAIAGFIEGGWQGMVDGWYGYHHSNDQGSGYAADKESTQKAFDGITNKVNSVIEKMNTEAVGKEFSNLERRLENLNKKMEDGFLDVWTYNAELLVLMENERTLDFHDSNVKNLYDKVRMQLRDNVKELGNGCFEFYHKCDDECMNSVKNGTYDYPKYEEESKLNRNE",
"PGDQICIGYHANNSTEKVDTILERNVTVTHAKDILEKTHNGKLCKLNGIPPLELGDCSIAGWLLGNPECDRLLSVPEWSYIMEKENPRDGLCYPGSFNDYEELKHLLSSVKHFEKVKILPKDRWTQHTTTGGSRACAVS... |
antibody | Generate the HCDR sequences given the following functional description of an antibody. The desired function is: A human Fab, 10G4 (IGHV3/IGKV1-Kappa), targeting the engineered Spike glycoprotein of Severe acute respiratory syndrome coronavirus 2. The Spike glycoprotein attaches the virion to the cell membrane by intera... | QVQLVESGGGVVQPGRSLRLSCAAS<M1>MHWVRQAPGKGLEWVAV<M2>YYADSVKGRFTISRDNSKNTLYLQINSLRAEDTAMYYC<M3>WGQGNLVTVSSA<SEP><M1>GFTFSSYG<M2>IWYDGSDK<M3>AREATAGFDY | {
"pdb_id": "8cwi",
"light_chain_seq": "NIQMTQSPSAMSASVGDRVTITCRARQDISSYLAWFQQKPGKVPKHLIYAASTLLSGVPSRFSGSGSGTEFTLTISSLQPEDFATYYCLQHNSYPYTFGQGTKLEINRT",
"cdrh1_seq": "GFTFSSYG",
"cdrh2_seq": "IWYDGSDK",
"cdrh3_seq": "AREATAGFDY",
"cdrl1_seq": "QDISSY",
"cdrl2_seq": "AAS",
"cdrl3_seq": "LQHNSYPYT",
"cdr... | [
2,
5655,
1920,
27203,
1005,
3709,
3258,
1920,
2894,
3183,
8418,
1927,
1925,
3533,
18,
1920,
9465,
2347,
1977,
30,
43,
2616,
6914,
16,
2119,
21784,
12,
20733,
1020,
1010,
19,
7021,
1040,
7390,
17,
12093,
13,
16,
5133,
1920,
11091,
1042... | [
"NLCPFGEVFNATRFASVYAWNRKRISNCVADYSVLYNSASFSTFKCYGVSPTKLNDLCFTNVYADSFVIRGDEVRQIAPGQTGKIADYNYKLPDDFTGCVIAWNSNNLDSKVGGNYNYLYRLFRKSNLKPFERDISTEIYQAGSTPCNGVEGFNCYFPLQSYGFQPTNGVGYQPYRVVVLSFELLHAPATVCGPK"
] |
antibody | Given the following functional description of an antibody, generate the HCDRs that perform the described role. The desired function is: A murine Fab, M8a-31 (IGHV14/IGKV8-Kappa), targeting the engineered Spike glycoprotein of Severe acute respiratory syndrome coronavirus 2. The Spike glycoprotein attaches the virion to... | EVQLKQSVAELVRPGASVKVSCTAS<M1>MHWVKQRPEQGLDWIGR<M2>RYAPKFQDKATITADTSSNTAYLQLSSLTSEDTAIYYC<M3>WGQGTLVTVSA<SEP><M1>GFNIKNIY<M2>IDPANGNS<M3>ADEGWGFAN | {
"pdb_id": "7uz8",
"light_chain_seq": "DIVMTQSPSSLTVTAGEKVTMSCKSSQSLLNSGNQKNYLTWYQQKVGQPPKLLIYWASTRDPGVPDRFTGSGFGTDFTLTISSVQAEDLAVYYCQNDYSYPLTFGAGTKVEL",
"cdrh1_seq": "GFNIKNIY",
"cdrh2_seq": "IDPANGNS",
"cdrh3_seq": "ADEGWGFAN",
"cdrl1_seq": "QSLLNSGNQKNY",
"cdrl2_seq": "WAS",
"cdrl3_seq": "QNDYSYPLT"... | [
2,
3258,
1920,
2894,
3183,
8418,
1927,
1925,
3533,
16,
5655,
1920,
27203,
5675,
1988,
2385,
1920,
2910,
2770,
18,
1920,
9465,
2347,
1977,
30,
43,
7135,
6914,
16,
55,
16269,
17,
3470,
12,
20733,
7390,
1006,
19,
7021,
1040,
1020,
1025,
... | [
"AYTNSFTRGVYYPDKVFRSSVLHSTQDLFLPFFSNVTWFHVIKRFDNPVLPFNDGVYFASIEKSNIIRGWIFGTTLDSKTQSLLIVNNATNVVIKVCEFQFCNDPFLDMESEFRVYSSANNCTFEYVSQPFLMDKNLREFVFKNIDGYFKIYSKHTPIIVREPEDLPQGFSALEPLVDLPIGINITRFQTLLALHRSYLSSGWTAGAAAYYVGYLQPRTFLLKYNENGTITDAVDCALDPLSETKCTLKSFTVEKGIYQTSNFRVQPTESIVRFPNITNLCPFDEVFNATRFASVYAWNRKRISNCVADYSVLYN... |
antibody | Generate the heavy chain CDRs for an antibody that will have the following function: A human Fab (IGHV4/IGLV1-Lambda) targeting the engineered Envelope glycoprotein B of Human betaherpesvirus 5. Envelope glycoprotein B is a class III membrane fusion protein essential for initial attachment to heparan sulfate moieties o... | QLQLQESGPGLVKPSETLSLTCTVS<M1>WGWIRQPPGKGLEWIAN<M2>VYSPSLKSRVTISVDTSKNQFSLKVRSLTAADTAVYYC<M3>WGRGTLVTV<SEP><M1>GASIDRSTYY<M2>IYYNGRA<M3>ATRWNYFFDFDY | {
"pdb_id": "8vym",
"light_chain_seq": "SVLTQPPSASGTPGQRVTISCSGSSSNIETNYVSWYQQFPGTAPKLLIYRNNQRPSGVPDRFSGSKSGTSASLAISGLRSEDEAEYYCGTWDDNSWVFGGGTKLTV",
"cdrh1_seq": "GASIDRSTYY",
"cdrh2_seq": "IYYNGRA",
"cdrh3_seq": "ATRWNYFFDFDY",
"cdrl1_seq": "SSNIETNY",
"cdrl2_seq": "RNN",
"cdrl3_seq": "GTWDDNSWV",
"c... | [
2,
5655,
1920,
7881,
4659,
20170,
1036,
1958,
1925,
3533,
1988,
2832,
2162,
1920,
2894,
2347,
30,
43,
2616,
6914,
12,
20733,
1020,
1006,
19,
28961,
7390,
17,
18279,
13,
5133,
1920,
11091,
11262,
11424,
44,
1927,
2616,
4666,
2380,
11860,... | [
"IRFERNIVCTSMDLDEGIMVVYKRNIVAHTFKVRVYQKVLNTEYVAPPMWEIHHINSHSQCYSSYSFVAYHRDSYENKTMQLMPDDYSNTHSTRYVTVKETSNLNCMVTITTARSKYPYHFFATSTGDVVDISPFYNGTNRNASYFGENADKFFIFPNYTIVSDFGRPNSALETHRLVAFLERADSVISWDIQDEKNVTCQLTFWEASERTIRSEAEDSYHFSSAKMTATFLSKKQEVNMSDSALDCVRDEAINKLQQIFNTSYNQTYEKYGNVSVFETTGGLVVFWQGIKQKSLVEVHNLVYAQLQFTYDTLRG... |
antibody | Generate the HCDR loops for an antibody with the following function: A murine Fab, HyHEL-63 (IGHV3/IGKV5-Kappa), targeting Lysozyme C of Gallus gallus. Lysozyme C has bacteriolytic activity and is associated with the monocyte-macrophage system. This antibody forms a complex with Lysozyme C within the C-type lysozyme do... | EVQLQESGPSLVKPSQTLSLTCSVT<M1>WSWIRKFPGNKLEYMGY<M2>YYHPSLKSRISITRDTSKNQYYLQLNSVTTEDTATYYC<M3>WGAGTTVTVSSA<SEP><M1>GDSVTSDV<M2>ISYSGST<M3>ASWGGDV | {
"pdb_id": "1xgq",
"light_chain_seq": "DIVLTQSPATLSVTPGDSVSLSCRASQSISNNLHWYQQKSHESPRLLIKYASQSISGIPSRFSGSGSGTDFTLSINSVETEDFGMYFCQQSNSWPYTFGGGTKLEIKRA",
"cdrh1_seq": "GDSVTSDV",
"cdrh2_seq": "ISYSGST",
"cdrh3_seq": "ASWGGDV",
"cdrl1_seq": "QSISNN",
"cdrl2_seq": "YAS",
"cdrl3_seq": "QQSNSWPYT",
"cdrh1_p... | [
2,
5655,
1920,
27203,
1005,
11109,
1958,
1925,
3533,
1956,
1920,
2894,
2347,
30,
43,
7135,
6914,
16,
4527,
23285,
17,
4968,
12,
20733,
1020,
1010,
19,
7021,
1040,
1020,
1015,
17,
12093,
13,
16,
5133,
18581,
45,
1927,
9354,
1957,
9354,... | [
"KVFGRCELAAAMKRHGLDNYRGYSLGNWVCAAKFESNFNTQATNRNTDGSTDYGILQINSRWWCNDGRTPGSRNLCNIPCSALLSSDITASVNCAKKIVSDGNGMNAWVAWRNRCKGTDVQAWIRGCRL"
] |
antibody | Generate the HCDRs according to this antibody functional description: A human Fab, S41 (IGHV1/IGKV3-Kappa), targeting the engineered Spike glycoprotein of Middle East respiratory syndrome-related coronavirus. The Spike glycoprotein attaches the virion to the cell membrane by interacting with host DPP4 receptor to initi... | QVQLVQSGAEVKKPGSSVKVSCKAS<M1>ITWVRQAPGQGLEWMGR<M2>RSVQKFQGRITITADKSTSTAYMDLSGLTSDDTAVYYC<M3>WGQGTLVTVSSA<SEP><M1>GGTFSSYG<M2>IIPILGIS<M3>AREGGSGYDFFDY | {
"pdb_id": "7x28",
"light_chain_seq": "EIVLTQSPGTLSLSPGERATLSCRASQSVSSSYLAWYQQRPGQAPRLLIYGASSRATGIPDRFSGSGSGTDFTLTIGRLEPEDSAVYYCQQYGSSPWTFGQGTKVEIKRT",
"cdrh1_seq": "GGTFSSYG",
"cdrh2_seq": "IIPILGIS",
"cdrh3_seq": "AREGGSGYDFFDY",
"cdrl1_seq": "QSVSSSY",
"cdrl2_seq": "GAS",
"cdrl3_seq": "QQYGSSPWT",
... | [
2,
5655,
1920,
27203,
5675,
3147,
1942,
2052,
3533,
3183,
8418,
30,
43,
2616,
6914,
16,
6934,
1009,
12,
20733,
7390,
19,
7021,
1040,
1020,
1010,
17,
12093,
13,
16,
5133,
1920,
11091,
10429,
11424,
1927,
5576,
10319,
5481,
4741,
17,
27... | [
"YVDVGPDSVKSACIEVDIQQTFFDKTWPRPIDVSKADGIIYPQGRTYSNITITYQGLFPYQGDHGDMYVYSAGHATGTTPQKLFVANYSQDVKQFANGFVVRIGAAANSTGTVIISPSTSATIRKIYPAFMLGSSVGNFSDGKMGRFFNHTLVLLPDGCGTLLRAFYCILEPRSGNHCPAGNSYTSFATYHTPATDCSDGNYNRNASLNSFKEYFNLRNCTFMYTYNITEDEILEWFGITQTAQGVHLFSSRYVDLYGGNMFQFATLPVYDTIKYYSIIPHSIRSIQSDRKAWAAFYVYKLQPLTFLLDFSVDGY... |
antibody | Here is the antibody function: A murine Fab, E8 (IGHV14/IGKV12-Kappa), targeting cytochrome c of Equus caballus. Cytochrome c is an electron carrier protein in the mitochondrial electron-transport chain and plays a role in apoptosis. This antibody forms a complex with cytochrome c. Generate the corresponding HCDRs. | EVQLQQSGAELVKPGASVKLSCTAS<M1>MHWVKQRPEKGLEWIGR<M2>KYDPKFQDKATITADTSSNTAYLQLSSLTSEDTAVYYC<M3>WGQGTTLTVSSA<SEP><M1>GFNIKDTY<M2>IDPASGNT<M3>AGYDYGNFDY | {
"pdb_id": "1wej",
"light_chain_seq": "DIQMTQSPASLSASVGETVTITCRASGNIHNYLAWYQQKQGKSPQLLVYNAKTLADGVPSRFSGSGSGTQYSLKINSLQPEDFGSYYCQHFWSTPWTFGGGTKLEIKRA",
"cdrh1_seq": "GFNIKDTY",
"cdrh2_seq": "IDPASGNT",
"cdrh3_seq": "AGYDYGNFDY",
"cdrl1_seq": "GNIHNY",
"cdrl2_seq": "NAK",
"cdrl3_seq": "QHFWSTPWT",
"cdr... | [
2,
3410,
1977,
1920,
3533,
2347,
30,
43,
7135,
6914,
16,
24824,
12,
20733,
7390,
1006,
19,
7021,
1040,
7390,
1028,
17,
12093,
13,
16,
5133,
9387,
45,
1927,
3009,
1957,
11026,
2214,
1957,
18,
9387,
45,
1977,
1925,
4995,
9685,
2213,
1... | [
"GDVEKGKKIFVQKCAQCHTVEKGGKHKTGPNLHGLFGRKTGQAPGFTYTDANKNKGITWKEETLMEYLENPKKYIPGTKMIFAGIKKKTEREDLIAYLKKATNE"
] |
antibody | I want an antibody that has the function: A murine Fab (IGHV3/IGKV1-Kappa) targeting activated beta-arrestin-2 from Bos taurus. Beta-arrestin-2 regulates agonist-mediated G protein-coupled receptor signaling by mediating receptor desensitization, resensitization, and endocytosis. This antibody is intended as a structur... | VQLVESGGGLVQPGGSLRLSCAAS<M1>IHWVRQAPGKGLEWVAS<M2>YYADSVKGRFTISADTSKNTAYLQMNSLRAEDTAVYYC<M3>WGQGTLVTVSS<SEP><M1>GFNVYSSS<M2>ISSYYGYT<M3>ARSRQFWYSGLDY | {
"pdb_id": "8i10",
"light_chain_seq": "DIQMTQSPSSLSASVGDRVTITCRASQSVSSAVAWYQQKPGKAPKLLIYSASSLYSGVPSRFSGSRSGTDFTLTISSLQPEDFATYYCQQYKYVPVTFGQGTKVE",
"cdrh1_seq": "GFNVYSSS",
"cdrh2_seq": "ISSYYGYT",
"cdrh3_seq": "ARSRQFWYSGLDY",
"cdrl1_seq": "QSVSSA",
"cdrl2_seq": "SAS",
"cdrl3_seq": "QQYKYVPVT",
"cdrh... | [
2,
51,
12914,
1925,
3533,
1988,
2258,
1920,
2347,
30,
43,
7135,
6914,
12,
20733,
1020,
1010,
19,
7021,
1040,
7390,
17,
12093,
13,
5133,
4128,
4666,
17,
16639,
17,
22,
2037,
16159,
7462,
3176,
1036,
18,
4666,
17,
16639,
17,
22,
7014,... | [
"TRVFKKSSPNGKLTVYLGKRDFVDHLDKVDPVDGVVLVDPDYLKDRKVFVTLTVAFRYGREDCDVLGLSFRKDLFIANYQAFPPTPNPPPPTRLQERLLRKLGQHAHPFFFTIPQNLPSSVTLQPGPEDTGKALGVDFEIRAFVAKSLEEKSHKRNSVRLVIRKVQFAPEKPGPQPSAETTRHFLMSDRSLHLEASLDKELYYHGEPLNVNVHVTNNSTKTVKKIKVSVRQYADIVLFSTAQYKVPVAQVEQDDQVSPSSTFSKVYTITPFLANNREKRGLALDGKLKHEDTNLASSTIVKEGANKEVLGILVSY... |
antibody | Given the following functional description of an antibody, generate the HCDRs that perform the described role. The desired function is: A murine Fab (IGHV2/IGKV3-Kappa) targeting human Zinc transporter 7, a Golgi-localized zinc ion transporter that mediates zinc entry from the cytosol into the lumen of organelles along... | EVQLQESGPGLVAPSQSLSITCTVS<M1>VHWVRQSPGKGLEWLGV<M2>DYNAAFISRLSISKDNSKSQVFFKMNSLQADDTAIYYC<M3>WGQGTSVTVSSA<SEP><M1>GFSLTNYA<M2>IWSNGRT<M3>ARKLAYEGAMDY | {
"pdb_id": "8j7y",
"light_chain_seq": "DIVLTQSPASLAVSLRRRATISCRASESVDGYGHSFMHWYQQKSGQPPKLLIYRASNLESGVPARFSGSGSRTDFTLTIDPVEADDAATYYCQQSNEDPYTFGSGTKLEIKRA",
"cdrh1_seq": "GFSLTNYA",
"cdrh2_seq": "IWSNGRT",
"cdrh3_seq": "ARKLAYEGAMDY",
"cdrl1_seq": "ESVDGYGHSF",
"cdrl2_seq": "RAS",
"cdrl3_seq": "QQSNEDPYT... | [
2,
3258,
1920,
2894,
3183,
8418,
1927,
1925,
3533,
16,
5655,
1920,
27203,
5675,
1988,
2385,
1920,
2910,
2770,
18,
1920,
9465,
2347,
1977,
30,
43,
7135,
6914,
12,
20733,
15755,
19,
7021,
1040,
1020,
1010,
17,
12093,
13,
5133,
2616,
799... | [
"ISGWFRSILSDKTSRNLFFFLCLNLSFAFVELLYGIWSNCLGLISDSFHMFFDSTAILAGLAASVISKWRDNDAFSYGYVRAEVLAGFVNGLFLIFTAFFIFSEGVERALAPPLLLVSILGFVVNLIGIFVFKHGTTGPSRQILQGVFLHILADTLGSIGVIASAIMMQADPICSILIAILIVVSVIPLLRESVGILMQRTPPLLENSLPQCYQRVQQLQGVYSLQEQHFWTLCSDVYVGTLKLIVAPDADARWILSQTHNIFTQAGVRQLYVQIDFAAM"
] |
antibody | What would be the HCDR sequences of an antibody with the following function: A human Fab, IY-2A (IGHV4/IGLV6-Lambda), targeting the Receptor-binding domain (RBD) of the Spike glycoprotein of Severe acute respiratory syndrome coronavirus 2. The Spike glycoprotein attaches the virion to the host cell membrane by interact... | QVQLVEWGAGLLKPSETLSLTCAVY<M1>WSWIRQPPGKGLEWIGL<M2>NYNPSLKSRVTISLDTSKNQFSLKLTSVTAADTAVYYC<M3>WGQGTTVTVSSA<SEP><M1>GGSFSGYY<M2>INHSGST<M3>ARGLGIFGVVTLSDV | {
"pdb_id": "7ycn",
"light_chain_seq": "NFMLTQPHSVSESPGKTVTISCTGSSGSIASNYVQWYQQRPGSAPTTVIYEDNQRPSGVPDRFSGSIDSSSNSASLTISGLRTEDEADYYCQSYDSGIWVFGGGTKLTVLGQ",
"cdrh1_seq": "GGSFSGYY",
"cdrh2_seq": "INHSGST",
"cdrh3_seq": "ARGLGIFGVVTLSDV",
"cdrl1_seq": "SGSIASNY",
"cdrl2_seq": "EDN",
"cdrl3_seq": "QSYDSGIWV... | [
2,
4663,
2962,
1998,
1920,
27203,
1005,
3709,
1927,
1925,
3533,
1956,
1920,
2894,
2347,
30,
43,
2616,
6914,
16,
51,
1012,
17,
5251,
12,
20733,
1020,
1006,
19,
28961,
25606,
17,
18279,
13,
16,
5133,
1920,
3148,
17,
2743,
3418,
12,
25... | [
"NLCPFGEVFNATRFASVYAWNRKRISNCVADYSVLYNSASFSTFKCYGVSPTKLNDLCFTNVYADSFVIRGDEVRQIAPGQTGKIADYNYKLPDDFTGCVIAWNSNNLDSKVGGNYNYLYRLFRKSNLKPFERDISTEIYQAGSTPCNGVEGFNCYFPLQSYGFQPTNGVGYQPYRVVVLSFELLHAPATVCGP"
] |
antibody | Generate the HCDR loops for an antibody with the following function: A human Fab, D2 H1-1/H3-1 (IGHV3/IGKV1-Kappa), targeting the engineered Hemagglutinin of Influenza A virus (A/Texas/50/2012(H3N2)). Hemagglutinin binds sialic acid-containing receptors on the cell surface to mediate viral attachment and entry, and is ... | VQLVQSGGGLVRPGGSLRLSCAAS<M1>MTWVRQAPGKGLEWVAN<M2>YYVDSVKGRFSISRDNAKNSLYLQISSLRAEDTAVYYC<M3>WGQGTMVTVSGA<SEP><M1>GFTFSSAW<M2>IKEDGSEK<M3>ARRFVERLWGQSKPYDAVDI | {
"pdb_id": "6xpr",
"light_chain_seq": "DIQMTQSPSSLSASVGDRVTITCRASQSISNYLNWYQQKPGKAPKLLIYVASNLQSGVPSRFSGSGSGTDFALTISSLQPEDFASYYCQQSYSPVTTFGGGTKVEIKRT",
"cdrh1_seq": "GFTFSSAW",
"cdrh2_seq": "IKEDGSEK",
"cdrh3_seq": "ARRFVERLWGQSKPYDAVDI",
"cdrl1_seq": "QSISNY",
"cdrl2_seq": "VAS",
"cdrl3_seq": "QQSYSPVT... | [
2,
5655,
1920,
27203,
1005,
11109,
1958,
1925,
3533,
1956,
1920,
2894,
2347,
30,
43,
2616,
6914,
16,
8631,
9169,
17,
21,
19,
8170,
17,
21,
12,
20733,
1020,
1010,
19,
7021,
1040,
7390,
17,
12093,
13,
16,
5133,
1920,
11091,
26141,
192... | [
"TELVQNSSIGEICDSPHQILDGENCTLIDALLGDPQCDGFQNKKWDLFVERSKAYSNCYPYDVPDYASLRSLVASSGTLEFNNESFNWNGVTQNGTSSACIRRSNNSFFSRLNWLTHLNFKYPALNVTMPNNEQFDKLYIWGVHHPVTDKDQIFLYAQPSGRITVSTKRSQQAVIPNIGFRPRIRNIPSRISIYWTIVKPGDILLINSTGNLIAPRGYFKIRSGKSSIMRSDAPIGKCKSECITPNGSIPNDKPFQNVNRITYGACPRY"
] |
antibody | Please generate the HCDR sequences for an antibody with the following role: A human Fab, ES4.431 (IGHV3/IGKV1-Kappa), targeting the engineered P domain of the Pro-secreted protein ORF2 of Hepatitis E virus genotype 3. The Pro-secreted protein ORF2 forms an icosahedral capsid with T=1 symmetry and binds to heparin surfa... | EVQLLESGGGLVQPGGSLRLSCTAS<M1>MSWVRQGPGKGLEWVSS<M2>YYAGSVKGRFTISRDNSKNTLFLHMNSLRVEDTGVYYC<M3>WGQGTLVTVSS<SEP><M1>GFTFDTHV<M2>ISAASGT<M3>ANVVHRCTTNTCFRGADN | {
"pdb_id": "9fnt",
"light_chain_seq": "SSLSASVGDRVTITCRASQSVDTYLNWYQQKPGETPKLLIYAASTLQSGVPSRFSGSGSGTTFTLTISSLQPEDFATYYCQQSYTTLMYTFGQGTKLEIK",
"cdrh1_seq": "GFTFDTHV",
"cdrh2_seq": "ISAASGT",
"cdrh3_seq": "ANVVHRCTTNTCFRGADN",
"cdrl1_seq": "QSVDTY",
"cdrl2_seq": "AAS",
"cdrl3_seq": "QQSYTTLMYT",
"cdrh... | [
2,
11586,
5655,
1920,
27203,
1005,
3709,
1958,
1925,
3533,
1956,
1920,
2894,
2770,
30,
43,
2616,
6914,
16,
2376,
1006,
18,
29672,
12,
20733,
1020,
1010,
19,
7021,
1040,
7390,
17,
12093,
13,
16,
5133,
1920,
11091,
58,
3418,
1927,
1920,... | [
"PFSVLRANDVLWLSLTAAEYDQTTYGSSTNPMYVSDTVTFVNVATGAQAVARSLDWSKVTLDGRPLTTIQQYSKTFYVLPLRGKLSFWEASTTKAGYPYNYNTTASDQILIENAAGHRVAISTYTTSLGAGPTSISAVGVLHHH"
] |
antibody | Give me the HCDR sequences that can form the binding loops of an antibody with the following function: A human Fab, DH63-B02 (IGHV3/IGLV6-Lambda), derived from a dermatitis herpetiformis patient, targeting Protein-glutamine gamma-glutamyltransferase E (TG3) of Homo sapiens. TG3 catalyzes calcium-dependent formation of ... | EVQLVESGGGLVQPGRSLRLSCTAS<M1>MHWVRQAPGKGLEWVSR<M2>AYADSVKGRFTISRDSAKNSLYLQMNSLRTEDTALYYC<M3>WGQGTTVTVSSA<SEP><M1>GFTFDDYA<M2>ISWNSRSI<M3>AKDHYLGSDSYGMDV | {
"pdb_id": "8oxv",
"light_chain_seq": "NFMLTQPHSVSESPGKTVTISCTRSSGSIDSNYVQWYQQRPGSAPTIVIHEDNQRPSGVPDRFSGSIDTSSNSASLTISGLKTEDEADYYCQSYDPSNVVFGGGTKLTVLGQ",
"cdrh1_seq": "GFTFDDYA",
"cdrh2_seq": "ISWNSRSI",
"cdrh3_seq": "AKDHYLGSDSYGMDV",
"cdrl1_seq": "SGSIDSNY",
"cdrl2_seq": "EDN",
"cdrl3_seq": "QSYDPSNV... | [
2,
7031,
2142,
1920,
27203,
1005,
3709,
1988,
2112,
2386,
1920,
2743,
11109,
1927,
1925,
3533,
1956,
1920,
2894,
2347,
30,
43,
2616,
6914,
16,
6781,
7576,
17,
27143,
1028,
12,
20733,
1020,
1010,
19,
28961,
25606,
17,
18279,
13,
16,
35... | [
"MAALGVQSINWQTAFNRQAHHTDKFSSQELILRRGQNFQVLMIMNKGLGSNERLEFIVSTGPYPSESAMTKAVFPLSNGSSGGWSAVLQASNGNTLTISISSPASAPIGRYTMALQIFSQGGISSVKLGTFILLFNPWLNVDSVFMGNHAEREEYVQEDAGIIFVGSTNRIGMIGWNFGQFEEDILSICLSILDRSLNFRRDAATDVASRNDPKYVGRVLSAMINSNDDNGVLAGNWSGTYTGGRDPRSWNGSVEILKNWKKSGFSPVRYGQCWVFAGTLNTALRSLGIPSRVITNFNSAHDTDRNLSVDVYYDP... |
antibody | Please generate the HCDR sequences for an antibody with the following role: A human Fab, 1A7 (IGHV1/IGKV1-Kappa), targeting the engineered extracellular domain of Tumor necrosis factor receptor superfamily member 4 (OX40R/CD134) from Homo sapiens. OX40R is a costimulatory molecule implicated in long-term T-cell immunit... | EVQLVQSGAEVKKPGASVKVSCKAS<M1>MSWVRQAPGQGLEWIGD<M2>SYNQKFRERVTITRDTSTSTAYLELSSLRSEDTAVYYC<M3>WGQGTLVTVSSA<SEP><M1>GYTFTDSY<M2>MYPDNGDS<M3>VLAPRWYFSV | {
"pdb_id": "6okn",
"light_chain_seq": "DIQMTQSPSSLSASVGDRVTITCRASQDISNYLNWYQQKPGKAPKLLIYYTSRLRSGVPSRFSGSGSGTDFTLTISSLQPEDFATYYCQQGHTLPPTFGQGTKVEIKRT",
"cdrh1_seq": "GYTFTDSY",
"cdrh2_seq": "MYPDNGDS",
"cdrh3_seq": "VLAPRWYFSV",
"cdrl1_seq": "QDISNY",
"cdrl2_seq": "YTS",
"cdrl3_seq": "QQGHTLPPT",
"cdr... | [
2,
11586,
5655,
1920,
27203,
1005,
3709,
1958,
1925,
3533,
1956,
1920,
2894,
2770,
30,
43,
2616,
6914,
16,
5123,
1027,
12,
20733,
7390,
19,
7021,
1040,
7390,
17,
12093,
13,
16,
5133,
1920,
11091,
5329,
3418,
1927,
2798,
7476,
2991,
31... | [
"CGPGFYNDCKPCTWCNLRSGSERKQLCTATQDTVCRCRAGTQPLDSYKPGVDCAPCPPGHFSPGDNQACKPWTNCTLAGKHTLQPASNSSDAIC"
] |
antibody | What would be the HCDR sequences of an antibody with the following function: A human F(ab')2, C10 (IGHV1/IGLV2-Lambda), targeting the trimeric Envelope protein E of Dengue virus type 2. The Envelope protein E mediates viral entry and is the primary target of neutralizing antibodies. The antibody is designed as a broadl... | EVQLVESGAEVKKPGASVKVSCKAS<M1>MHWVRQAPGQRLEWMGW<M2>KYSQKFQDRVTITRDTSASTAYMELSSLRSEDTAIYYC<M3>WGQGTLVTVSSA<SEP><M1>GYTFTSYA<M2>INAGNGNT<M3>ARDKVDDYGDYWFPTLWYFDY | {
"pdb_id": "7v3j",
"light_chain_seq": "SALTQPASVSGSPGQSITISCTGTSSDVGGFNYVSWFQQHPGKAPKLMLYDVTSRPSGVSSRFSGSKSGNTASLTISGLQAEDEADYYCSSHTSRGTWVFGGGTKLTVLGQ",
"cdrh1_seq": "GYTFTSYA",
"cdrh2_seq": "INAGNGNT",
"cdrh3_seq": "ARDKVDDYGDYWFPTLWYFDY",
"cdrl1_seq": "SSDVGGFNY",
"cdrl2_seq": "DVT",
"cdrl3_seq": "SS... | [
2,
4663,
2962,
1998,
1920,
27203,
1005,
3709,
1927,
1925,
3533,
1956,
1920,
2894,
2347,
30,
43,
2616,
48,
12,
2186,
11,
13,
22,
16,
24523,
12,
20733,
7390,
19,
28961,
15755,
17,
18279,
13,
16,
5133,
1920,
29177,
11262,
2213,
47,
192... | [
"MRCIGISNRDFVEGVSGGSWVDIVLEHGSCVTTMAKNKPTLDFELIETEAKQPATLRKYCIEAKLTNTTTDSRCPTQGEPSLNEEQDKRFVCKHSMVDRGWGNGCGLFGKGGIVTCAMFTCKKNMKGKVVQPENLEYTIVITPHSGEEHAVGNDTGKHGKEIKITPQSSITEAELTGYGTVTMECSPRTGLDFNEMVLLQMENKAWLVHRQWFLDLPLPWLPGADTQGSNWIQKETLVTFKNPHAKKQDVVVLGSQEGAMHTALTGATEIQMSSGNLLFTGHLKCRLRMDKLQLKGMSYSMCTGKFKVVKEIAET... |
antibody | I want to make an antibody that can have this function: A human Fab, C38-VRC18.02 (IGKV3-Kappa), targeting the Envelope glycoprotein gp160 of Human immunodeficiency virus 1. The Envelope glycoprotein gp160 attaches the virus to the host lymphoid cell by binding to the primary receptor CD4, inducing structural rearrange... | VRLVQSGNQVRKPGASVRISCEAS<M1>IHWVRQVPGHGLEWLGW<M2>NYSRSFQGKLSMTMTRDNFEETAYLDLSKLNPGDTAVYFC<M3>WGQGTLVIVSSA<SEP><M1>GYKFIDHF<M2>INPRGGGV<M3>ARGFAGYEWSFI | {
"pdb_id": "4ydl",
"light_chain_seq": "EIVLTQSPGTLSLSPGETATLSCRTSQGILSNQLAWHQQRRGQPPRLLIYGGSNRAPGIPERFTGSGSGTDFVLTIKRLERDDFAVYYCQILEFFGRGTRVEMNRT",
"cdrh1_seq": "GYKFIDHF",
"cdrh2_seq": "INPRGGGV",
"cdrh3_seq": "ARGFAGYEWSFI",
"cdrl1_seq": "QGILSNQ",
"cdrl2_seq": "GGS",
"cdrl3_seq": "QILEF",
"cdrh1_p... | [
2,
51,
12914,
1942,
5144,
1925,
3533,
1988,
2112,
2162,
2052,
2347,
30,
43,
2616,
6914,
16,
8351,
1025,
17,
12110,
5800,
1025,
18,
5725,
12,
7021,
1040,
1020,
1010,
17,
12093,
13,
16,
5133,
1920,
11262,
11424,
4882,
16954,
1927,
2616,... | [
"VWKDADTTLFCASDAKAHETEVHNVWATHACVPTDPNPQEIHLENVTENFNMWKNNMVEQMQEDVISLWDQSLQPCVKLTGSVIKQACPKISFDPIPIHYCTPAGYVILKCNDKNFNGTGPCKNVSSVQCTHGIKPVVSTQLLLNGSLAEEEIIIRSENLTNNAKTIIVHLNKSVEINCTRPSNGDIRKAYCEINGTKWNKVLKQVTEKLKEHFNNKTIIFQPPSGGDLEITMHHFNCRGEFFYCNTTQLFNNTCIGMKGCNGTITLPCKIKQIINMWQGTGQAMYAPPIDGKINCVSNITGILLTRDGGANNTS... |
antibody | Generate the HCDRs according to this antibody functional description: A human Fab (IGHV1/IGKV1-Kappa) targeting the Envelope glycoprotein gp160 of Human immunodeficiency virus 1. The Envelope glycoprotein gp160 oligomerizes into trimers and is proteolytically cleaved to produce gp120, which attaches the virus to the ho... | VRLMQSGDEVKKPGASVRLSCKAD<M1>LHWVRQAPGQGLEWLGF<M2>NYSKRFQGRITMTRDMSINTVYMELRSLTSDDTAQYYC<M3>WGWGTVVIVSS<SEP><M1>GYEFSDYF<M2>IRPRLGSV<M3>ARMYDTDSYKFDS | {
"pdb_id": "8ulr",
"light_chain_seq": "PMTQSPSSLSISVGDRVTITCRSSQYAAHNVNWYQQRSGKPPKLLIYDTSKLQAGVPSRFRGGGFGTEFTFTISSLQPEDVATYYCQHYEFFGQGTRLEIT",
"cdrh1_seq": "GYEFSDYF",
"cdrh2_seq": "IRPRLGSV",
"cdrh3_seq": "ARMYDTDSYKFDS",
"cdrl1_seq": "QYAAHN",
"cdrl2_seq": "DTS",
"cdrl3_seq": "QHYEF",
"cdrh1_pos": ... | [
2,
5655,
1920,
27203,
5675,
3147,
1942,
2052,
3533,
3183,
8418,
30,
43,
2616,
6914,
12,
20733,
7390,
19,
7021,
1040,
7390,
17,
12093,
13,
5133,
1920,
11262,
11424,
4882,
16954,
1927,
2616,
13141,
3413,
21,
18,
1920,
11262,
11424,
4882,
... | [
"NLWVTVYYGVPVWKDAETTLFCASDHNVWATHACVPTDPNPQEIHLENVTEEFNMWKNNMVEQMHTDIISLWDQSLKPCVKLTPLCVTLQCTNVTNNITDDMRGELKNCSFNMTTELRDKKQKVYSLFYRLDVVQINNKEYRLINCNTSAITQACPKVSFEPIPIHYCAPAGFAILKCKDKKFNGTGPCPSVSTVQCTHGIKPVVSTQLLLNGSLAEEEVMIRSENITNNAKNILVQFNTPVQINCTRPNNNTRKSIRIGPGQAFYATGDIIGDIRQAHCNVSKATWNETLGKVVKQLRKHFGNNTIIRFANSSG... |
antibody | Return only the raw HCDR sequences for an antibody with function: A murine Fab, 15C5 (IGHV1/IGKV9-Kappa), targeting the Capsid protein VP3 of Enterovirus D68. The capsid protein VP3 is a component of the viral capsid that undergoes conformational transformation between mature, cell-entry intermediate (A-particle), and ... | QVQLQQSGTELAKPGASVKMSCKAS<M1>MHWFKQRPGQGLEWIGY<M2>DYNHKFKDKATLTADKSSSTAYMQLSSLTSEDSAVYFC<M3>WGQGTLV<SEP><M1>GYTFTNYW<M2>VNPNTDYT<M3>ARGTFGNYASFAY | {
"pdb_id": "6aj7",
"light_chain_seq": "IQMIQSPSSMFVSLSCRASQDIRGNLDWYQQKPGGTIKLLIYSTSNLNSGVPSRFSGSGSGSDYSLTISSLESEDFADYYCLQRNAYPLTFGGGTK",
"cdrh1_seq": "GYTFTNYW",
"cdrh2_seq": "VNPNTDYT",
"cdrh3_seq": "ARGTFGNYASFAY",
"cdrl1_seq": "QDIRGN",
"cdrl2_seq": "STS",
"cdrl3_seq": "LQRNAYPLT",
"cdrh1_pos": "... | [
2,
7215,
2444,
1920,
7429,
27203,
1005,
3709,
1958,
1925,
3533,
1956,
2347,
30,
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6914,
16,
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20733,
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1040,
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17,
12093,
13,
16,
5133,
1920,
14681,
2213,
9314,
1010,
1927,
5553,
7414,
15... | [
"GVPTYLLPGSGQFLTTDDHSSAPALPCFNPTPEMHIPGQVRNMLEVVQVESMMEINNTESAVGMERLKVDISALTDVDQLLFNIPLDIQLDGPLRNTLVGNISRYYTHWSGSLEMTFMFCGSFMATGKLILCYTPPGGSCPTTRETAMLGTHIVWDFGLQSSVTLIIPWISGSHYRMFNNDAKSTNANVGYVTCFMQTNLIVPSESSDTCSLIGFIAAKDDFSLRLMRDSPDIGQLDHLHAAEAAYQ",
"LQLKLGNSAIVTQEAANYCCAYGEWPNYLPDHEAVAIDKPTQPETATDRFYTLKSVKWETGS... |
antibody | What would the HCDRs of an antibody with the following function look like? Here is the function: A human Fab, BD-236 (IGHV3/IGKV1-Kappa), targeting the Spike glycoprotein of Severe acute respiratory syndrome coronavirus 2. The Spike glycoprotein attaches the virion to the host cell membrane by interacting with the ACE2... | EVQLVESGGGLIQPGGSLRLSCAAS<M1>MSWVRQAPGKGLEWVSV<M2>DYADSVKGRFTISRDKSKNTLYLQMNSLRAEDTAVYYC<M3>WGQGTTVTVSSA<SEP><M1>GITVSSNY<M2>IYSGGST<M3>ARDLGEAGGMDV | {
"pdb_id": "7che",
"light_chain_seq": "IQLTQSPSSLSASVGDRVTITCRASQGISSYLAWYQQKPGKAPKLLIYAASTLQSGVPSRFSGSGSGTDFTLTISSLQPEDFATYYCQQLNSYPPAFGGGTKVEIKRT",
"cdrh1_seq": "GITVSSNY",
"cdrh2_seq": "IYSGGST",
"cdrh3_seq": "ARDLGEAGGMDV",
"cdrl1_seq": "QGISSY",
"cdrl2_seq": "AAS",
"cdrl3_seq": "QQLNSYPPA",
"cdr... | [
2,
4663,
2962,
1920,
27203,
5675,
1927,
1925,
3533,
1956,
1920,
2894,
2347,
8120,
3189,
35,
3410,
1977,
1920,
2347,
30,
43,
2616,
6914,
16,
5238,
17,
20098,
12,
20733,
1020,
1010,
19,
7021,
1040,
7390,
17,
12093,
13,
16,
5133,
1920,
... | [
"TNLCPFGEVFNATRFASVYAWNRKRISNCVADYSVLYNSASFSTFKCYGVSPTKLNDLCFTNVYADSFVIRGDEVRQIAPGQTGKIADYNYKLPDDFTGCVIAWNSNNLDSKVGGNYNYLYRLFRKSNLKPFERDISTEIYQAGSTPCNGVEGFNCYFPLQSYGFQPTNGVGYQPYRVVVLSFEATVCG"
] |
antibody | Provide the HCDR sequences of an antibody with the following function: A murine Fab, GY-5 (IGHV1/IGKV1-Kappa), targeting the Ig-like V-type domain of human Programmed cell death protein 1 (PD-1). PD-1 is an inhibitory receptor on antigen-activated T cells that delivers inhibitory signals upon binding to ligands CD274/P... | LQQSGPELVRPGVSVKISCKG<M1>LHWVRQSHVKSLEWIGV<M2>NYNQRFKGKATMTVDKSSSTAYLELARLTSEDSAIYYC<M3>WGQGTTLTVSSA<SEP><M1>DYA<M2>ISSYNGIT<M3>SREEWDVFYYFDY | {
"pdb_id": "6j15",
"light_chain_seq": "DIMLTQSPLSLPVSLGDQASISCRSSQGIVHSDGNTYLEWYLQKPGQSPKLLIYKVSNRFSGVPDRFSGSGSGTDFILKISRVEAEDLGVYYCFQGSHVPYTFGGGTKLEIKRA",
"cdrh1_seq": "DYA",
"cdrh2_seq": "ISSYNGIT",
"cdrh3_seq": "SREEWDVFYYFDY",
"cdrl1_seq": "QGIVHSDGNTY",
"cdrl2_seq": "KVS",
"cdrl3_seq": "FQGSHVPYT"... | [
2,
3394,
1920,
27203,
1005,
3709,
1927,
1925,
3533,
1956,
1920,
2894,
2347,
30,
43,
7135,
6914,
16,
8415,
17,
25,
12,
20733,
7390,
19,
7021,
1040,
7390,
17,
12093,
13,
16,
5133,
1920,
7021,
17,
3189,
64,
17,
2601,
3418,
1927,
2616,
... | [
"DGIQWNPPTFSPALLVVTEGDNATFTCSFSNTSESFVLNWYRMTDKLAAFPCRFRVTQLPNGRDFHMSVVRARRNDSGTYLCGAISLAPKAQIKESLRAELRVTER"
] |
antibody | Given the following functional description of an antibody, generate the HCDRs that perform the described role. The desired function is: A human Fab (IGHV3/IGKV1-Kappa) targeting Immunoglobulin G-binding protein A of Staphylococcus aureus. Immunoglobulin G-binding protein A inhibits host innate and adaptive immune respo... | EVQLVESGGGLVQPGGSLRLSCAAS<M1>IHWVRQSPGKGLEWVAR<M2>RYADSVKGRFTISADTSKNTAYLQMNSLRAEDTAIYYC<M3>WGQGTLVTVSSA<SEP><M1>GFNIKDTY<M2>IYPTNGYT<M3>SRWGGDGFYAMDY | {
"pdb_id": "5u6a",
"light_chain_seq": "DIQMTQSPILLSASVGDRVTITCRASQDVNTAVAWYQQRTNGSPRLLIYSASFLYSGVPSRFSGSRSGTDFTLTISSLQPEDEADYYCQQHYTTPPTFGAGTKVEIKRT",
"cdrh1_seq": "GFNIKDTY",
"cdrh2_seq": "IYPTNGYT",
"cdrh3_seq": "SRWGGDGFYAMDY",
"cdrl1_seq": "QDVNTA",
"cdrl2_seq": "SAS",
"cdrl3_seq": "QQHYTTPPT",
"... | [
2,
3258,
1920,
2894,
3183,
8418,
1927,
1925,
3533,
16,
5655,
1920,
27203,
5675,
1988,
2385,
1920,
2910,
2770,
18,
1920,
9465,
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1977,
30,
43,
2616,
6914,
12,
20733,
1020,
1010,
19,
7021,
1040,
7390,
17,
12093,
13,
5133,
11837,
49,... | [
"GSYNKDQQSAFYEILNMPNLNEAQRNGFIQSLKDDPSQSTNVLGEAKKLNESQA",
"SEVTIKVNLIFADGKIQTAEFKGTFEEATAEAYRYAALLAKVNGEYTADLEDGGNHMNIKFAG"
] |
antibody | A human Fab (IGHV3/IGKV1-Kappa) targeting the Cation-efflux pump FieF of Shewanella oneidensis MR-1. The Cation-efflux pump FieF is a divalent metal cation transporter that exports Zn²⁺, Cd²⁺ and possibly Fe²⁺, functioning as a Zn²⁺/H⁺ antiporter capable of using the proton motive force to remove Zn²⁺ from the cytoplas... | EVQLVESGGGLVQPGGSLRLSCAAS<M1>IHWVRQAPGKGLEWVAS<M2>YYADSVKGRFTISADTSKNTAYLQMNSLRAEDTAVYYC<M3>WGQGTLVTVFNQ<SEP><M1>GFTIYSSS<M2>IYSSSGST<M3>ARQSYSGLSPRRHWSYGAMDY | {
"pdb_id": "8f6i",
"light_chain_seq": "DIQMTQSPSSLSASVGDRVTITCRASQSVSSAVAWYQQKPGKAPKLLIYSASSLYSGVPSRFSGSRSGTDFTLTISSLQPEDFATYYCQQIWSWPLITFGQGTKVEIKRT",
"cdrh1_seq": "GFTIYSSS",
"cdrh2_seq": "IYSSSGST",
"cdrh3_seq": "ARQSYSGLSPRRHWSYGAMDY",
"cdrl1_seq": "QSVSSA",
"cdrl2_seq": "SAS",
"cdrl3_seq": "QQIWSW... | [
2,
43,
2616,
6914,
12,
20733,
1020,
1010,
19,
7021,
1040,
7390,
17,
12093,
13,
5133,
1920,
9976,
17,
11247,
8912,
14856,
7726,
1927,
4693,
13956,
28690,
1019,
2340,
24522,
8362,
2852,
17,
21,
18,
1920,
9976,
17,
11247,
8912,
14856,
77... | [
"DFWVKLASRASVATALTLITIKLLAWLYSGSASMLASLTDSFADTLASIINFIAIRRYGHGKAEPLAALAQSAFIMGSAFLLLFYGGERLLNPSPVENATLGVVVSVVAIVLTLALVLLQKRALAATNSTVVEADSLHYKSDLFLNAAVLLALVLSQYGWWWADGLFAVLIACYIGQQAFDLGYRSIQALLDRELDEDTRQRIKLIAKEDPRVLGLHDLRTRQAGKTVFIQFHLELDGNLSLNEAHSITDTTGLRVKAAFEDAEVIIHQDPVQVEP"
] |
antibody | I want to build an antibody that will have the following function: A murine Fab (IGHV3/IGKV1-Kappa) targeting the heterotrimeric G(i) protein complex, specifically the G(i) subunit alpha-1 and the engineered G(i)/G(s)/G(t) subunit beta-1 of Homo sapiens. The G(i) alpha subunit functions as a transducer downstream of G ... | VQLVESGGGLVQPGGSLRLSCAAS<M1>IHWVRQAPGKGLEWVAS<M2>SYADSVKGRFTISADTSKNTAYLQMNSLRAEDTAVYYC<M3>WGQGTLVTVS<SEP><M1>GFNFYYSS<M2>IYSYSGST<M3>ARYPWYWWMEKPYLSLYGMDY | {
"pdb_id": "6ot0",
"light_chain_seq": "MTQSPSSLSASVGDRVTITCRASQSVSSAVAWYQQKPGKAPKLLIYSASSLYSGVPSRFSGSRSGTDFTLTISSLQPEDFATYYCQQSSSSLITFGQGTKVEIK",
"cdrh1_seq": "GFNFYYSS",
"cdrh2_seq": "IYSYSGST",
"cdrh3_seq": "ARYPWYWWMEKPYLSLYGMDY",
"cdrl1_seq": "QSVSSA",
"cdrl2_seq": "SAS",
"cdrl3_seq": "QQSSSSLIT",
... | [
2,
51,
12914,
1942,
10071,
1925,
3533,
1988,
2832,
2162,
1920,
2894,
2347,
30,
43,
7135,
6914,
12,
20733,
1020,
1010,
19,
7021,
1040,
7390,
17,
12093,
13,
5133,
1920,
27042,
19103,
49,
12,
51,
13,
2213,
2796,
16,
4475,
1920,
49,
12,... | [
"MGCTLSAEDKAAVERSKMIDRNLREDGEKAAREVKLLLLGAGESGKNTIVKQMKIIHEAGYSEEECKQYKAVVYSNTIQSIIAIIRAMGRLKIDFGDSARADDARQLFVLAGAAEEGFMTAELAGVIKRLWKDSGVQACFNRSREYQLNDSAAYYLNDLDRIAQPNYIPTQQDVLRTRVKTTGIVETHFTFKDLHFKMFDVGAQRSERKKWIHCFEGVTAIIFCVALSDYDLVLAEDEEMNRMHASMKLFDSICNNKWFTDTSIILFLNKKDLFEEKIKKSPLTICYPEYAGSNTYEEAAAYIQCQFEDLNKRKD... |
antibody | Please generate the HCDR sequences for an antibody with the following role: A human Fab, SNV-42 (IGHV3/IGLV1-Lambda), targeting the engineered Envelope polyprotein of Sin Nombre orthohantavirus. The Envelope polyprotein forms hetero-oligomeric complexes on the virion surface that facilitate viral attachment and fusion ... | EVQLVESGGGLVQPGGSLRLSCAAS<M1>MNWVRQAPGKGLEWISY<M2>YYADSVKGRFTISRDNAKNLLYLQMNSLRAGDTAVYYC<M3>WGQGALVTVSSA<SEP><M1>GFTFSTYE<M2>IRSSGSTV<M3>ARIPGGYTGYFDY | {
"pdb_id": "8ahn",
"light_chain_seq": "SVLTQPPSVSGAPGQRVTISCTGSSSNIGAGYYVHWYQQLPGTVPKLLIYGNNNRPSGVPDRFSGSKSGTSASLAITGLQTEDEADYYCQSYDSSLSGWVFGGGTKLTVLGQ",
"cdrh1_seq": "GFTFSTYE",
"cdrh2_seq": "IRSSGSTV",
"cdrh3_seq": "ARIPGGYTGYFDY",
"cdrl1_seq": "SSNIGAGYY",
"cdrl2_seq": "GNN",
"cdrl3_seq": "QSYDSSLSG... | [
2,
11586,
5655,
1920,
27203,
1005,
3709,
1958,
1925,
3533,
1956,
1920,
2894,
2770,
30,
43,
2616,
6914,
16,
3437,
1020,
17,
3858,
12,
20733,
1020,
1010,
19,
28961,
7390,
17,
18279,
13,
16,
5133,
1920,
11091,
11262,
6240,
5684,
1927,
31... | [
"NLYELKIECPHTVGLGQGYVTGSVETTPILLTQVADLKIESSCNFDLHVPATTTQKYNQVDWTKGGSGFEAKTKEVNLKGTCNIPPTTFEAAYKSRKTVICYDLACNQTHCLPTVHLIAPVQTCMSVRSCMIGLLSSRIQVIYEKTYCVTGQLIEGLCFIPTDTMTLPVTCFLVAKKELEKLITGVSCTENSFQGYYICFIGKHSEPLFVPTMEDYRSAELFTRMVLNPRGEDHLMRIAGPVTAKVPSTETTETMQGIAFAGAPMYSSFSTLVRKADPEYVFSPGIIAESNHSVCDKKTVPLTWTGFLAVSGEI"... |
antibody | I want to make an antibody that can have this function: A human Fab (IGHV4) targeting the Envelope glycoprotein gp160 of Human immunodeficiency virus 1, serving as a crystallization chaperone in a lattice-engineered crystal complex. The Envelope glycoprotein gp160 oligomerizes into trimers and is proteolytically cleave... | QVQLQESGPGLVKPSETLSLTCTVS<M1>WSWIRQSPGKGLEWIGY<M2>NYNPSLKSRVIISVDTSKNQLSLKLNSVTAADSAIYYC<M3>WGKGTTVTVSSA<SEP><M1>GGSISNYY<M2>ISDSEST<M3>ARAQQGKRIYGMVSFGEFFYYYYMDV | {
"pdb_id": "6mu6",
"light_chain_seq": "LSVALGETASISCGRQALGSRAVQWYQHRPGQAPILLIYNNQDRPSGIPERFSGTPDINFGTRATLTISGVEAGDEADYYCHMWDSRSGFSWSFGGATRLTVLGQ",
"cdrh1_seq": "GGSISNYY",
"cdrh2_seq": "ISDSEST",
"cdrh3_seq": "ARAQQGKRIYGMVSFGEFFYYYYMDV",
"cdrl1_seq": "ALGSRA",
"cdrl2_seq": "NNQ",
"cdrl3_seq": "HMWDSRS... | [
2,
51,
12914,
1942,
5144,
1925,
3533,
1988,
2112,
2162,
2052,
2347,
30,
43,
2616,
6914,
12,
20733,
1020,
1006,
13,
5133,
1920,
11262,
11424,
4882,
16954,
1927,
2616,
13141,
3413,
21,
16,
13915,
1966,
43,
15416,
14044,
1922,
43,
13018,
... | [
"ENLWVTVYYGVPVWKDAETTLFCASDAKAKHNVWATHACVPTDPNPQEIHLENVTEEFNMWKNNMVEQMHTDIISLWDQSLKPCVKLTPLCVTLQCTNVTNAITDDMRGELKNCSFNMTTELRDKKQKVYSLFYRLDVVQINNKEYRLINCNTSAITQACPKVSFEPIPIHYCAPAGFAILKCKDKKFNGTGPCPSVSTVQCTHGIKPVVSTQLLLNGSLAEEEVMIRSENITNNAKNILVQFNTPVQINCTRPNNNTRKSIRIGPGQAFYATGDIIGDIRQAHCNVSKATWNETLGKVVKQLRKHFGNNTIIRF... |
antibody | Can you generate an antibody's HCDRs given the following functional description? A human Fab, 251249 (IGHV3/IGKV3-Kappa), targeting the Reticulocyte-binding protein 2b (PvRBP2b) of Plasmodium vivax. PvRBP2b mediates parasite invasion into human reticulocytes by binding to reticulocytes via human transferrin receptor pr... | EVQLVESGGGLVKPGGSLRLSCEAS<M1>MNWVRQAPGKGLEWVSS<M2>FYTDSVKGRFTVSRDNSKNSLYLQMDSLRAEDTAVYYC<M3>WGRGTLVTVSSA<SEP><M1>GFLFSSYS<M2>ITGYSSEV<M3>ARALTIFGVVITDYWFFDL | {
"pdb_id": "6woz",
"light_chain_seq": "EIVLTQSPATLSLSPGDRATLSCRASQSVTTFLAWYQQKPGQAPRLLIYDVSNRATGIPARFSGSGSGTDFTLTISSLEPEDFAVYYCQQRSNWGLTFGGGTKVEIKRT",
"cdrh1_seq": "GFLFSSYS",
"cdrh2_seq": "ITGYSSEV",
"cdrh3_seq": "ARALTIFGVVITDYWFFDL",
"cdrl1_seq": "QSVTTF",
"cdrl2_seq": "DVS",
"cdrl3_seq": "QQRSNWGLT... | [
2,
2112,
6253,
5655,
1925,
3533,
11,
61,
27203,
5675,
3258,
1920,
2894,
3183,
8418,
35,
43,
2616,
6914,
16,
21648,
29445,
12,
20733,
1020,
1010,
19,
7021,
1040,
1020,
1010,
17,
12093,
13,
16,
5133,
1920,
18905,
4463,
17,
2743,
2213,
... | [
"NTTDNIDYFDISDESNYYLISQLRPHFSNIYFFDEFKRYASYHTEIKRYEDIHKTKVNSLLNEASRAIGICNRAKNTVKGLINILENPQKFKTQRESYDVKLRQYEEKKEAFRGCLLNKNRKNLDQIKKINNEIRDLLEKLKCSQDCQTNVYFDMIKIYLVDFKKMPYENYDTFIKQYKNSYLSGVDMIRKIEKQIDNPVTINAIKFTQKEMGYIIDRFEYHLQKVKHSIDQVTALSDGVKPKQVTKNRLKEYYFNIGNYYSIFKFGKDSLNMLNKALIHKEKIVHNLLGELFGHL"
] |
antibody | Provide the HCDR sequences of an antibody with the following function: A human Fab, dmCBTAU-27.1 (IGHV5/IGKV4-Kappa), a double mutant (S31Y, T100I) of CBTAU-27.1, targeting the Microtubule-associated protein tau of Homo sapiens. Tau promotes microtubule assembly and stability and functions as a linker protein between m... | QVQLVESGPEMRKPGESLKISCKTS<M1>TAWVRQLPGKGLQWMGI<M2>RYHPSVQGHVTMSTDSSLTTAYLQWSSLKASDTGIYYC<M3>WGQGTLVTVSSA<SEP><M1>GYIFSDYW<M2>IYSGDSDT<M3>ARLDARVDAGWQLDS | {
"pdb_id": "6gk7",
"light_chain_seq": "IQLTQSPDSLAVSLGERATINCKSSQSVFYRDNNKNYLAWYQHKSGQPPKLLFFWASSRESGVSDRFSGSGSGTDFTLTIDNLQAEDVALYYCQHYFNIPHNFGQGTKLEIKRT",
"cdrh1_seq": "GYIFSDYW",
"cdrh2_seq": "IYSGDSDT",
"cdrh3_seq": "ARLDARVDAGWQLDS",
"cdrl1_seq": "QSVFYRDNNKNY",
"cdrl2_seq": "WAS",
"cdrl3_seq": "QH... | [
2,
3394,
1920,
27203,
1005,
3709,
1927,
1925,
3533,
1956,
1920,
2894,
2347,
30,
43,
2616,
6914,
16,
3931,
18598,
3857,
1032,
17,
3225,
18,
21,
12,
20733,
1020,
1015,
19,
7021,
1040,
1020,
1006,
17,
12093,
13,
16,
43,
4825,
3606,
12,... | [
"IVYKPVDLSKV"
] |
antibody | I want to design an antibody that can perform the following function: A human Fab, 2E08 (IGHV1/IGKV3-Kappa), targeting the prefusion Fusion glycoprotein F0 of Respiratory syncytial virus A2. The Fusion glycoprotein F0 is a class I viral fusion protein that mediates fusion of viral and cellular membranes during entry an... | QVQLVESGAEAKKPGSSVKVSCKIS<M1>IRWVRQAPGQGLEWMGG<M2>YETQKFQGRLTLTADELTSTVYMELRYLTSEDAAVYFC<M3>WGQGTRVTVSSA<SEP><M1>GGTLNDYP<M2>IIPILGTS<M3>ATMTSPVFIDALDV | {
"pdb_id": "8ulj",
"light_chain_seq": "IVTQSPGTLSLSPGERATLSCRASQNVGSNLLAWYQQKPGQAPRLLIYGASNRATGIPDRFSGSGSGTDFTLTISRLEPEDFVVYHCQQYGSSPRTFGQGTKVEIRRT",
"cdrh1_seq": "GGTLNDYP",
"cdrh2_seq": "IIPILGTS",
"cdrh3_seq": "ATMTSPVFIDALDV",
"cdrl1_seq": "QNVGSNL",
"cdrl2_seq": "GAS",
"cdrl3_seq": "QQYGSSPRT",
... | [
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"FLGFLLGVGSAIASGVAVCKVLHLEGEVNKIKSALLSTNKAVVSLSNGVSVLTFKVLDLKNYIDKQLLPILNKQSCSISNIETVIEFQQKNNRLLEITREFSVNAGVTTPVSTYMLTNSELLSLINDMPITNDQKKLMSNNVQIVRQQSYSIMCIIKEEVLAYVVQLPLYGVIDTPCWKLHTSPLCTTNTKEGSNICLTRTDRGWYCDNAGSVSFFPQAETCKVQSNRVFCDTMNSLTLPSEVNLCNVDIFNPKYDCKIMTSKTDVSSSVITSLGAIVSCYGKTKCTASNKNRGIIKTFSNGCDYVSNKGVDTVS... |
antibody | Generate the HCDR loops for an antibody with the following function: A human Fab, 65C6 (IGHV5/IGKV3-Kappa), targeting the engineered globular head domain of Hemagglutinin from Influenza A virus (A/Anhui/1/2005(H5N1)). Hemagglutinin binds sialic acid-containing receptors on the cell surface to mediate viral attachment a... | VQLVQSGAEVKKPGESLRISCK<M1>ISWVRQMPGKGLEWMGR<M2>NYSPSFQGHVTISVDRSISTVYLQWSSLKASDTAMYYC<M3>WGQGTLVTVSSA<SEP><M1>GFAYSSTYFW<M2>IDPTDSYI<M3>AYHRRGHFYGSGSAWDWFES | {
"pdb_id": "5dum",
"light_chain_seq": "IVLTQSPLTLSVSPGERATLSCRASQSVSSNLAWYQQMPGQAPRLLIYGASTRATGIPARLSGSASGTEFTLTISSLQSEDFAVYYCQQYNNWPYTFGQGTKLEIKRT",
"cdrh1_seq": "GFAYSSTYFW",
"cdrh2_seq": "IDPTDSYI",
"cdrh3_seq": "AYHRRGHFYGSGSAWDWFES",
"cdrl1_seq": "QSVSSN",
"cdrl2_seq": "GAS",
"cdrl3_seq": "QQYNNWP... | [
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... | [
"PLILRDCSVAGWLLGNPMCIVEKANPANDLCYPGNFNDYEELKHLLSRINHFEKIQIIPKSSWSDHEASSGVSSACPYQGTPSFFRNVVWLIKKNNTYPTIKRSYNNTNQEDLLILWGIHHSNDAAEQTKLYQNPTTYISVGTSTLNQRLVPKIATRSKVNGQSGRMDFFWTILKPNDAINFESNGNFIAPEYAYKI"
] |
antibody | A human Fab (IGHV3/IGKV1-Kappa) targeting the Spike protein S1 of Severe acute respiratory syndrome coronavirus 2, one of two antibodies (IMCAS-123 and IMCAS-72) in a bispecific antibody complex. The Spike glycoprotein attaches the virion to the cell membrane by interacting with host receptors, initiating infection and... | QVQLVESGGGLVQPGGSLRLSCAAS<M1>MSWVRQAPGKGLEWVSA<M2>YYADSVKGRFTISRDNSKNTLYLQMNSLRAEDTAVYYC<M3>WGQGTLVTVSSA<SEP><M1>GFTFSSYA<M2>ISGSGGST<M3>AKDHLITMVQPEYFHH | {
"pdb_id": "8xse",
"light_chain_seq": "DIQMTQSPSSVSASVGDSVTITCRASQGISRWLAWYQQRPGKAPKLLIYAAGNLETGVPSRFSGSGSGTDFTLTISDLQAEDFATYYCQQADSFPLTFGGGTKVDIKRT",
"cdrh1_seq": "GFTFSSYA",
"cdrh2_seq": "ISGSGGST",
"cdrh3_seq": "AKDHLITMVQPEYFHH",
"cdrl1_seq": "QGISRW",
"cdrl2_seq": "AAG",
"cdrl3_seq": "QQADSFPLT",
... | [
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"TNLCPFGEVFNATRFASVYAWNRKRISNCVADYSVLYNSASFSTFKCYGVSPTKLNDLCFTNVYADSFVIRGDEVRQIAPGQTGKIADYNYKLPDDFTGCVIAWNSNNLDSKVGGNYNYLYRLFRKSNLKPFERDISTEIYQAGSTPCNGVEGFNCYFPLQSYGFQPTNGVGYQPYRVVVLSFELLHAPATVCGP"
] |
antibody | Can you generate an antibody's HCDRs given the following functional description? A human Fab, VRC34.01 (IGHV1/IGKV1-Kappa), targeting the engineered Envelope glycoprotein gp160 of Human immunodeficiency virus type 1. The Envelope glycoprotein gp160 attaches the virus to the host lymphoid cell by binding to the primary ... | QEVLVQSGAEVKKPGASVKVSCRAF<M1>LHWVRQAPGQGLEWLGW<M2>TTSQKFQGRVYMTRDKSINTAFLDVTRLTSDDTGIYYC<M3>WGQGTSVTVSSA<SEP><M1>GYTFTGNA<M2>INPHSGDT<M3>ARDKYYGNEAVGMDV | {
"pdb_id": "6me1",
"light_chain_seq": "DIQLTQSPSFLSASVGDKVTITCRASQGVRNELAWYQQKPGKAPNLLIYYASTLQSGVPSRFSATGSGTHFTLTVSSLQPEDFATYFCQHMSSYPLTFGGGTKVEIKRT",
"cdrh1_seq": "GYTFTGNA",
"cdrh2_seq": "INPHSGDT",
"cdrh3_seq": "ARDKYYGNEAVGMDV",
"cdrl1_seq": "QGVRNE",
"cdrl2_seq": "YAS",
"cdrl3_seq": "QHMSSYPLT",
... | [
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4882,... | [
"AVGLGAVFLG"
] |
antibody | Design the HCDRs for an antibody that will have the following function: A human Fab, CC12.1 (IGHV3/IGKV1-Kappa), targeting the engineered Spike protein S1 of Severe acute respiratory syndrome coronavirus 2. The Spike glycoprotein attaches the virion to the cell membrane by interacting with host receptors, initiating in... | EVQLVESGGGLIQPGGSLRLSCAAS<M1>MSWVRQAPGKGLEWVSV<M2>FYADSVKGRFTISRDNSKNTLYLQMNSLRAEDTAVYYC<M3>WGQGTTVTVSSA<SEP><M1>GLTVSSNY<M2>IYSGGST<M3>ARDLDVYGLDV | {
"pdb_id": "8elo",
"light_chain_seq": "DIVMTQSPSFLSASVGDRVTITCRASQGISSYLAWYQQKPGKAPKLLIYAASTLQSGVPSRFSGSGSGTEFTLTISSLQPEDFATYYCQQLNSYPPKFTFGPGTKVEIKRT",
"cdrh1_seq": "GLTVSSNY",
"cdrh2_seq": "IYSGGST",
"cdrh3_seq": "ARDLDVYGLDV",
"cdrl1_seq": "QGISSY",
"cdrl2_seq": "AAS",
"cdrl3_seq": "QQLNSYPPKFT",
... | [
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"NLCPFGEVFNATRFASVYAWNRKRISNCVADYSVLYNSASFSTFKCYGVSPTKLNDLCFTNVYADSFVIRGDEVRQIAPGQTGKIADYNYKLPDDFTGCVIAWNSNNLDSKVGGNYNYLYRLFRKSNLKPFERDISTEIYQAGSTPCNGVEGFNCYFPLQSYGFQPTNGVGYQPYRVVVLSFELLHAPATVC"
] |
antibody | Generate the heavy chain CDRs for an antibody that will have the following function: A human Fab, 95Mat5 (IGHV1/IGKV1-Kappa), targeting the Long neurotoxin 2 of the king cobra (Ophiophagus hannah). Long neurotoxin 2 binds with high affinity to muscular and neuronal nicotinic acetylcholine receptors and inhibits acetylc... | VQLVQSGAEVKKPGSSVKVSCKAS<M1>ISWVRQAPGQGLEWMGG<M2>NYAQKFQGRVTITADESTSTAYMELSSLRSEDTAVYYC<M3>WGQGTLVTVSSA<SEP><M1>GGTFSSYA<M2>YIPIFGTA<M3>ARIPLRWYESGPYESGVFDY | {
"pdb_id": "8sxp",
"light_chain_seq": "DIQMTQSPSSLSASVGDRVTITCRASQSISSYLNWYQQKPGKAPKLLIYDASSLQSGVPSRFSGSGSGTDFTLTISSLQPEDFATYYCQQSYSTPYTFGQGTKLEIKRT",
"cdrh1_seq": "GGTFSSYA",
"cdrh2_seq": "YIPIFGTA",
"cdrh3_seq": "ARIPLRWYESGPYESGVFDY",
"cdrl1_seq": "QSISSY",
"cdrl2_seq": "DAS",
"cdrl3_seq": "QQSYSTPY... | [
2,
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22,
... | [
"TKCYVTPDATSQTCPDGQDICYTKTWCDGFCSSRGKRIDLGCAATCPKVKPGVDIKCCSTDNCNPFPT"
] |
antibody | Here is the functional description of an antibody I want to create: A murine Fab, c#17 (IGHV5/IGKV1-Kappa), targeting pyroglutamate-modified Amyloid-beta (Aβ pE3-12), a truncated and post-translationally modified form of the Amyloid-beta precursor protein from Homo sapiens. Aβ pE3 exhibits enhanced aggregation potentia... | EVKLVESGGGLVQPGGSRKLSCAAS<M1>MAWVRQAPGKGPEWVAF<M2>YYADTVTGRFTISRENAKNTLYLEMSSLRSEDTAMYYC<M3>WGQGTSVTVSSA<SEP><M1>GFTFSDYG<M2>ISNLAYSI<M3>ARYDYDNILDYVMDY | {
"pdb_id": "5my4",
"light_chain_seq": "DVVMTQTPLSLPVSLGDQASISCRSSQSLVHSDGNTYLHWYLQKPGQSPKLLIYKVSNRFSGVPDRFSGSGSGTDFTLKISRVEAEDLGVYFCSQSTHVPPTFGGGTKLEIKRA",
"cdrh1_seq": "GFTFSDYG",
"cdrh2_seq": "ISNLAYSI",
"cdrh3_seq": "ARYDYDNILDYVMDY",
"cdrl1_seq": "QSLVHSDGNTY",
"cdrl2_seq": "KVS",
"cdrl3_seq": "SQS... | [
2,
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21084,
17,
4795,
8186,
17,
4666,
12,
... | [
"FRHDS"
] |
antibody | Design the HCDRs for an antibody that will have the following function: Human Fabs targeting the Envelope glycoprotein gp41 of Human immunodeficiency virus 1, specifically the clade C transmitted/founder Du172.17 strain with a redesigned HR1 bend. The Envelope glycoprotein mediates fusion of viral and host cell membran... | EGQLVQSGAELKKPGASVKISCKTS<M1>INWIRQTAGRGPEWMGW<M2>NLAPAFQDRVIMTTDTEVPVTSFTSTGAAYMEIRNLKFDDTGTYFC<M3>WGQGTLLTVSSA<SEP><M1>GYRFNFYH<M2>ISPYSGDK<M3>AKGLLRDGSSTWLPYL | {
"pdb_id": "7kmd",
"light_chain_seq": "SVLTQSASVSGSLGQSVTISCTGPNSVCCSHKSISWYQWPPGRAPTLIIYEDNERAPGISPRFSGYKSYWSAYLTISDLRPEDETTYYCCSYTHNSGCVFGTGTKVSVLGQ",
"cdrh1_seq": "GYRFNFYH",
"cdrh2_seq": "ISPYSGDK",
"cdrh3_seq": "AKGLLRDGSSTWLPYL",
"cdrl1_seq": "NSVCCSHKS",
"cdrl2_seq": "EDN",
"cdrl3_seq": "CSYTHNS... | [
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39... | [
"VFLGFLGAAGSTMGAASMTLTVQARQLLSGNFDIPGPKTVWGIKQLQTRVLAIERYLKDQQLLGIWGCSGKLICCTAVPWNASWSNKSYEEIWGNMTWMQWDREINNYTNTIYSLLEESQNQQEKNEKDLLALD"
] |
antibody | I am designing an antibody with the following function: A Chinese hamster Fab (IGHV3/IGKV8-Kappa) targeting the Bifunctional arginine demethylase and lysyl-hydroxylase JMJD6 of Homo sapiens. JMJD6 is a Jumonji C domain-containing dioxygenase that catalyzes arginine demethylation and lysyl hydroxylation of target protei... | QIQLQESGPGLVTPSQSLTLTCSVT<M1>WSWIRQFPGKKLEWMGY<M2>DYNPSLKSRVSITREISRNQLFLQLNSVTTEDTATYYC<M3>WGQGTMVTVSSA<SEP><M1>GDSITSYH<M2>IYNSGGT<M3>ARRDYGTYYFDY | {
"pdb_id": "3ld8",
"light_chain_seq": "DIVMTQSPSSLAVSAGEKVTMSCRSSQSLYYSGIKKNLLAWYQLKPGQSPKLLIYYASTLFTGVPDRFTGSGSGTDYTLTITSVQAEDMGQYFCQQGISNPYTFGAGTKLEIKRA",
"cdrh1_seq": "GDSITSYH",
"cdrh2_seq": "IYNSGGT",
"cdrh3_seq": "ARRDYGTYYFDY",
"cdrl1_seq": "QSLYYSGIKKNL",
"cdrl2_seq": "YAS",
"cdrl3_seq": "QQGIS... | [
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"MNHKSKKRIREAKRSARPELKDSLDWTRHNYYESFSLSPAAVADNVERADALQLSVEEFVERYERPYKPVVLLNAQEGWSAQEKWTLERLKRKYRNQKFKCGEDNDGYSVKMKMKYYIEYMESTRDDSPLYIFDSSYGEHPKRRKLLEDYKVPKFFTDDLFQYAGEKRRPPYRWFVMGPPRSGTGIHIDPLGTSAWNALVQGHKRWCLFPTSTPRELIKVTRDEGGNQQDEAITWFNVIYPRTQLPTWPPEFKPLEILQKPGETVFVPGGWWHVVLNLDTTIAITQNFASSTNFPVVWHKTVRGRPKLSRKWYRI... |
antibody | I am designing an antibody with the following function: A human Fab, Trastuzumab (IGHV3/IGKV1-Kappa), targeting an engineered fusion construct of the Receptor tyrosine-protein kinase erbB-2 (HER2) with a Maltose/maltodextrin-binding periplasmic protein scaffold (N- to C-terminus). HER2 is a protein tyrosine kinase that... | EVQLVESGGGLVQPGGSLRLSCAAS<M1>IHWVRQAPGKGLEWVAR<M2>RYADSVKGRFTISADTSKNTAYLQMNSLRAEDTAVYYC<M3>WGQGTLVTVSSA<SEP><M1>GFNIKDTY<M2>IYPTNGYT<M3>SRWGGDGFYAMDY | {
"pdb_id": "7mn8",
"light_chain_seq": "DIQMTQSPSSLSASVGDRVTITCRASQDVNTAVAWYQQKPGKAPKLLIYSASFLYSGVPSRFSGSRSGTDFTLTISSLQPEDFATYYCQQHYTTPPTFGQGTKVEIKRT",
"cdrh1_seq": "GFNIKDTY",
"cdrh2_seq": "IYPTNGYT",
"cdrh3_seq": "SRWGGDGFYAMDY",
"cdrl1_seq": "QDVNTA",
"cdrl2_seq": "SAS",
"cdrl3_seq": "QQHYTTPPT",
"... | [
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"QVCTGTDMKLRLPASPETHLDMLRHLYQGCQVVQGNLELTYLPTNASLSFLQDIQEVQGYVLIAHNQVRQVPLQRLRIVRGTQLFEDNYALAVLDNGGGLRELQLRSLTEILKGGVLIQRNPQLCYQDTILWKDIFHKNNQLALTLIDTNRSRACHPCSPMCKGSRCWGESSEDCQSLTRTVCAGGCARCKGPLPTDCCHEQCAAGCTGPKHSDCLACLHFNHSGICELHCPALVTYNTDTFESMPNPEGRYTFGASCVTACPYNYLSTDVGFCTLVCPLHNQEVTATQRCEKCSKPCARVCYGLGMEHLREVRA... |
antibody | I want an antibody that has the function: A human Fab, L4B-18 (IGHV3/IGLV6-Lambda), targeting the Hemagglutinin of Influenza A virus (H7N9). Hemagglutinin binds to sialic acid-containing receptors on the cell surface to mediate viral attachment and entry, and is responsible for membrane fusion during infection. The ant... | EVQLVESGGGLVQPLRLSCAAS<M1>MSWVRQAPGKGLEWVSA<M2>YYADSVKGRFTISRDNSKNTLYLQMNSLRAEDTAVYYC<M3>WGQGTLV<SEP><M1>GFTFSSYA<M2>ISGSGGST<M3>AKDRLLWFGELLFEGFDY | {
"pdb_id": "6ii8",
"light_chain_seq": "MLTQPHSVSTISCTRSSGSIASNYVQWYQQRPGSSPTTVIYEDNQRPSGVPDRFSGSIDSSSNSASLTISGLKTEDEADYYCQSYDSSNVVFGGGTKL",
"cdrh1_seq": "GFTFSSYA",
"cdrh2_seq": "ISGSGGST",
"cdrh3_seq": "AKDRLLWFGELLFEGFDY",
"cdrl1_seq": "SGSIASNY",
"cdrl2_seq": "EDN",
"cdrl3_seq": "QSYDSSNVV",
"cdrh... | [
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"DKICLGHHAVSNGTKVNTLTERGVEVVNATETVERTNIPRICSKGKRTVDLGQCGLLGTITGPPQCDQFLEFSADLIIERREGSDVCYPGKFVNEEALRQILRESGGIDKEAMGFTYSGIRTNGATSACRRSGSSFYAEMKWLLSNTDNAAFPQMTKSYKNTRKSPALIVWGIHHSVSTAEQTKLYGSGNKLVTVGSSNYQQSFVPSPGARPQVNGLSGRIDFHWLMLNPNDTVTFSFNGAFIAPDRASFLRGKSMGIQSGVQVDANCEGDCYHSGGTIISNLPFQNIDSRAVGKCPRYVKQRSLLLATGMKNVP... |
antibody | Provide the HCDR sequences of an antibody with the following function: A human Fab, P17 (IGHV3/IGKV1-Kappa), targeting the Spike glycoprotein of Severe acute respiratory syndrome coronavirus 2. The Spike glycoprotein attaches the virion to the host cell membrane by interacting with ACE2 and mediates fusion of viral and... | QQLVESGGGVVQPGRSLRLSCAAS<M1>MHWVRQAPGKGLEWVAV<M2>YYADSVKGRFTISRDNSKNTLYLQMNSLRAEDTAVYYC<M3>WGQGTLVTVSSA<SEP><M1>GFTFSSYA<M2>ISYDGSNK<M3>ARHATLMNNKDI | {
"pdb_id": "7cwm",
"light_chain_seq": "DIQLTQSPSSLSASVGDRVTITCRASQSISSYLNWYQQKPGKAPKLLIYAASSLQSGVPSRFSGSGSGTDFTLTISSLQPEDFATYYCQQSYSTPRTFGQGTKVEIK",
"cdrh1_seq": "GFTFSSYA",
"cdrh2_seq": "ISYDGSNK",
"cdrh3_seq": "ARHATLMNNKDI",
"cdrl1_seq": "QSISSY",
"cdrl2_seq": "AAS",
"cdrl3_seq": "QQSYSTPRT",
"cdr... | [
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4741,
55... | [
"QCVNLTTRTQLPPAYTNSFTRGVYYPDKVFRSSVLHSTQDLFLPFFSNVTWFHAIHVSGTNGTKRFDNPVLPFNDGVYFASTEKSNIIRGWIFGTTLDSKTQSLLIVNNATNVVIKVCEFQFCNDPFLGVYYHKNNKSWMESEFRVYSSANNCTFEYVSQPFLMDLEGKQGNFKNLREFVFKNIDGYFKIYSKHTPINLVRDLPQGFSALEPLVDLPIGINITRFQTLLALHRSYLTPSGWTAGAAAYYVGYLQPRTFLLKYNENGTITDAVDCALDPLSETKCTLKSFTVEKGIYQTSNFRVQPTESIVRFNLC... |
antibody | Generate the HCDR sequences given the following functional description of an antibody. The desired function is: A human Fab, H2214 (IGHV3/IGKV3-Kappa), targeting the engineered Hemagglutinin of Influenza A virus (A/Aichi/2/1968 H3N2). Hemagglutinin binds sialic acid-containing receptors on the cell surface to mediate v... | EVQLLESGGGLVQPGGSLRLSCAAS<M1>MTWVRQAPGKGLEWVAS<M2>YYTDSVKGRFSVSRDNSKNTLYLQMNSLRAEDTAVYYC<M3>WGQGTTVTVSGA<SEP><M1>GFTFNHYA<M2>SSGSGRST<M3>AKSSNYYGSGSYSPDDYYHMDV | {
"pdb_id": "6e56",
"light_chain_seq": "EIVMTQSPDTLSVSPGERATLSCRASESISSNLAWYQQKPGQVPRLLIYGASTRATGVPARFTGSGSGTEFTLTISSLQSEDFAVYYCQQYNNRLPYTFGQGTKLEIKRT",
"cdrh1_seq": "GFTFNHYA",
"cdrh2_seq": "SSGSGRST",
"cdrh3_seq": "AKSSNYYGSGSYSPDDYYHMDV",
"cdrl1_seq": "ESISSN",
"cdrl2_seq": "GAS",
"cdrl3_seq": "QQYNN... | [
2,
5655,
1920,
27203,
1005,
3709,
3258,
1920,
2894,
3183,
8418,
1927,
1925,
3533,
18,
1920,
9465,
2347,
1977,
30,
43,
2616,
6914,
16,
4881,
4716,
1006,
12,
20733,
1020,
1010,
19,
7021,
1040,
1020,
1010,
17,
12093,
13,
16,
5133,
1920,
... | [
"TELVQSSSTGKICNNPHRILDGIDCTLIDALLGDPHCDVFQNETWDLFVERSKAFSNCYPYDVPDYASLRSLVASSGTLEFITEGFTWTGVTQNGGSNACKRGPGSGFFSRLNWLTKSGSTYPVLNVTMPNNDNFDKLYIWGIHHPSTDQEQTSLYVQASGRVTVSTRRSQQTIIPNIGSRPWVRGLSSRISIYWTIVKPGDVLVINSNGNLIAPRGYFKMRTGKSSIMRSDAPIDTCISECITPNGSIPNDKPFQNVNKITYGACPKYVKQN"
] |
antibody | The antibody I want to design has this role: A murine Fab, Ab45 (IGHV5/IGKV12-Kappa), targeting the Minor capsid protein A1 of Escherichia phage Qbeta. The Minor capsid protein A1 self-assembles to form an icosahedral capsid with T=3 symmetry and is involved in viral genome encapsidation and translational repression of... | VQLVESGGGLVKPGGSLKLSCAAS<M1>MYWVRQAPEKGLEWVAY<M2>YYADTVKGRFTISRDNGKNTLFLQMTSLRSEDTAIYYC<M3>WGQG<SEP><M1>GFTFSDYG<M2>IGSGSGVI<M3>ARKRGYEYDGQYFFEY | {
"pdb_id": "8w5q",
"light_chain_seq": "MTQSPASLSASVGETVTITCRASENIYNYLAWYQRKQGKSPQLLVFNAKTLADGVPSRFSGSGSGTQYSLKIISLQPEDFGTYYCQHFWRTPWTFGGG",
"cdrh1_seq": "GFTFSDYG",
"cdrh2_seq": "IGSGSGVI",
"cdrh3_seq": "ARKRGYEYDGQYFFEY",
"cdrl1_seq": "ENIYNY",
"cdrl2_seq": "NAK",
"cdrl3_seq": "QHFWRTPWT",
"cdrh1_po... | [
2,
1920,
3533,
51,
12914,
1942,
3036,
2258,
2052,
2770,
30,
43,
7135,
6914,
16,
2186,
6803,
12,
20733,
1020,
1015,
19,
7021,
1040,
7390,
1028,
17,
12093,
13,
16,
5133,
1920,
5857,
14681,
2213,
8080,
1927,
10210,
10503,
59,
20440,
18,
... | [
"AKLETVTLGNIGKDGKQTLVLNPRGVNPTNGVASLSQAGAVPALEKRVTVSVSQPNYKVQVKIQNPTACTANGSCDPSVTRQAYADVTFSFTQYSTDEERAFVRTELAALLASPLLIDAIDQLNPA",
"AKLETVTLGNIGKDGKQTLVLNPRGVNPTNGVASLSQAGAVPALEKRVTVSVSQPKNYKVQVKIQNPTACTANGSCDPSVTRQAYADVTFSFTQYSTDEERAFVRTELAALLASPLLIDAIDQLNPAY"
] |
antibody | Return only the raw HCDR sequences for an antibody with function: A human Fab (IGHV8/IGKV6-Kappa) targeting the Ebola secreted glycoprotein (sGP) of Zaire ebolavirus, one of two antibodies in a complex with sGP (alongside c13C6). The Ebola secreted glycoprotein functions as a decoy for anti-GP antibodies, contributing ... | DVKLLESGGGLVQPGGSLKLSCAAS<M1>VGWFRQPSGKGLEWLAL<M2>YYNPSLKSQLSISKDFSRNQVFLKISNVDIADTATYYC<M3>WGQGTSVTVS<SEP><M1>GFSLSTSGVG<M2>IWWDDDK<M3>ARRDPFGYDNAMGY | {
"pdb_id": "5kem",
"light_chain_seq": "DIVMTQSPLSLSTSVGDRVSLTCKASQNVGTAVAWYQQKPGQSPKLLIYSASNRYTGVPDRFTGSGSGTDFTLTISNMQSEDLADYFCQQYSSYPLTFGAGTKLELR",
"cdrh1_seq": "GFSLSTSGVG",
"cdrh2_seq": "IWWDDDK",
"cdrh3_seq": "ARRDPFGYDNAMGY",
"cdrl1_seq": "QNVGTA",
"cdrl2_seq": "SAS",
"cdrl3_seq": "QQYSSYPLT",
"... | [
2,
7215,
2444,
1920,
7429,
27203,
1005,
3709,
1958,
1925,
3533,
1956,
2347,
30,
43,
2616,
6914,
12,
20733,
1020,
1025,
19,
7021,
1040,
25606,
17,
12093,
13,
5133,
1920,
24497,
8366,
11424,
12,
10075,
1034,
13,
1927,
26112,
2952,
24497,
... | [
"CRDKLSSTNQLRSVGLNLEGNGVATDVPSATKRWGFRSGVPPKVVNYEAGEWAENCYNLEIKKPDGSECLPAAPDGIRGFPRCRYVHKVSGTGPCAGDFAFHKEGAFFLYDRLASTVIYRGTTFAEGVVAFLILPQAKKDFFSSHPLREPVNATEDPSSGYYSTTIRYQATGFGTNETEYLFEVDNLTYVQLESRFTPQFLLQLNETIYTSGKRSNTTGKLIWKVNPEIDTT"
] |
antibody | What would be the HCDR sequences of an antibody with the following function: A murine Fab (IGHV4/IGKV4-Kappa) targeting the H(+)/Cl(-) exchange transporter ClcA of Escherichia coli. The transporter functions as a proton-coupled chloride antiport system, exchanging two chloride ions for one proton as part of the extreme... | VRLLESGGGLVQPGGSLKLSCAAS<M1>MSWVRQAPGKGLKWIGE<M2>NYTPSLKDKFIISRDNAKDTLYLQISKVRSEDTALYYC<M3>WGAGTTVTVSSA<SEP><M1>GFDYSRYW<M2>INPVSSTI<M3>ARLYYGYGYWYFDV | {
"pdb_id": "2h2s",
"light_chain_seq": "DIVLTQSPAIMSAAPGDKVTMTCSASSSVSYIHWYQQKSGTSPKRWIYDTSKLTSGVPVRFSGSGSGTSYSLTINTMEAEDAATYYCQQWSSHPQTFGGGTKLEILRA",
"cdrh1_seq": "GFDYSRYW",
"cdrh2_seq": "INPVSSTI",
"cdrh3_seq": "ARLYYGYGYWYFDV",
"cdrl1_seq": "SSVSY",
"cdrl2_seq": "DTS",
"cdrl3_seq": "QQWSSHPQT",
"c... | [
2,
4663,
2962,
1998,
1920,
27203,
1005,
3709,
1927,
1925,
3533,
1956,
1920,
2894,
2347,
30,
43,
7135,
6914,
12,
20733,
1020,
1006,
19,
7021,
1040,
1020,
1006,
17,
12093,
13,
5133,
1920,
50,
12,
15,
13,
19,
2111,
12,
17,
13,
6818,
... | [
"RRQLIRQLLERDKTPLAILFMAAVVGTLVGLAAVAFDKGVAWLQNQRMGALVHTADNYPLLLTVAFLCSAVLAMFGYFLVRKYAPEAGGSGIPEIEGALEDQRPVRWWRVLPVKFFGGLGTLGGGMVLGRAGPTVQIGGNIGRMVLDIFRLKGDEARHTLLATGAAAGLAAAFNAPLAGILFIIEEMRPQFRYTLISIKAVFIGVIMSTIMYRIFNHEVALIDVGKLSDAPLNTLWLYLILGIIFGIFGPIFNKWVLGMQDLLHRVHGGNITKWVLMGGAIGGLCGLLGFVAPATSGGGFNLIPIATAGNFSMGM... |
antibody | Design the HCDRs for an antibody that will have the following function: A murine antibody (IGHV3/IGKV10-Kappa) targeting the Cytochrome b-c1 complex subunit Rieske, mitochondrial of Saccharomyces cerevisiae. The Rieske protein is a catalytic core subunit of the ubiquinol-cytochrome c oxidoreductase complex, containing ... | EVKLQESGAGLVQPSQSLSLTCSVT<M1>WNWIRLFPGNKLEWVGY<M2>NYNPSLKDRLSITRDTSKNQFFLKLNSVTTEDTATYYC<M3>WGQGTTVTVSSA<SEP><M1>GYSITSGYY<M2>ISNVGDN<M3>ARSEYYSVTGYAMDY | {
"pdb_id": "4pd4",
"light_chain_seq": "DIELTQTPVSLAASLGDRVTISCRASQDINNFLNWYQQKPDGTIKLLIYYTSRLHAGVPSRFSGSGSGTDYSLTISNLEPEDIATYFCQHHIKFPWTFGAGTKLEIK",
"cdrh1_seq": "GYSITSGYY",
"cdrh2_seq": "ISNVGDN",
"cdrh3_seq": "ARSEYYSVTGYAMDY",
"cdrl1_seq": "QDINNF",
"cdrl2_seq": "YTS",
"cdrl3_seq": "QHHIKFPWT",
"... | [
2,
3036,
1920,
27203,
5675,
1958,
1925,
3533,
1988,
2832,
2162,
1920,
2894,
2347,
30,
43,
7135,
3533,
12,
20733,
1020,
1010,
19,
7021,
1040,
7390,
1008,
17,
12093,
13,
5133,
1920,
9387,
44,
17,
8817,
2796,
5903,
11280,
1918,
3324,
16,... | [
"KSTYRTPNFDDVLKENNDADKGRSYAYFMVGAMGLLSSAGAKSTVETFISSMTATADVLAMAKVEVNLAAIPLGKNVVVKWQGKPVFIRHRTPHEIQEANSVDMSALKDPQTDADRVKDPQWLIMLGICTHLGCVPIGEAGDFGGWFCPCHGSHYDISGRIRKGPAPLNLEIPAYEFDGDKVIVG"
] |
antibody | Here is the functional description of an antibody I want to create: A human Fab, ION-360 (IGHV3/IGKV1-Kappa), targeting the engineered Spike glycoprotein of Severe acute respiratory syndrome coronavirus 2. The Spike glycoprotein attaches the virion to the cell membrane by interacting with host receptor ACE2, initiating... | EVQLVQSGGGLVKPGGSLRLSCAAS<M1>MSWVRQAPGKGLEWVSV<M2>YYADSVKGRFTISRDNSKNTLYLQMNSLRAEDTAVYYC<M3>WGQGTLVTVSSA<SEP><M1>GITVSSNY<M2>IYSGGST<M3>ARGEGGSIVGVTSDY | {
"pdb_id": "7np1",
"light_chain_seq": "DIQMTQSPSSLSASVGDRVTITCRASQSISRYLNWYQQKPGKAPKLLIYAASSLQSGVPSRFSGSGSETEFTLTISSLHPDDFATYYCQQSYSTLPYTFGQGTKVEIKRT",
"cdrh1_seq": "GITVSSNY",
"cdrh2_seq": "IYSGGST",
"cdrh3_seq": "ARGEGGSIVGVTSDY",
"cdrl1_seq": "QSISRY",
"cdrl2_seq": "AAS",
"cdrl3_seq": "QQSYSTLPYT",
... | [
2,
3410,
1977,
1920,
3183,
8418,
1927,
1925,
3533,
51,
12914,
1942,
7762,
30,
43,
2616,
6914,
16,
4755,
17,
15533,
12,
20733,
1020,
1010,
19,
7021,
1040,
7390,
17,
12093,
13,
16,
5133,
1920,
11091,
10429,
11424,
1927,
4010,
3939,
5481... | [
"FGEVFNATRFASVYAWNRKRISNCVALYNSASFSTFKCYGVSPFTNVYADSFVIRGDEVRQIAPGQTGKIADYNYKLPDDFTGCVIAWNSNNLDSKVGGNYNYLYRLFRKSNLKPFERDISTEIYQAGSTPCNGVEGFNCYFPLQSYGFQPTNGVGYQPYRVVVLSFE"
] |
antibody | Generate the heavy chain CDRs for an antibody that will have the following function: A human Fab (IGHV3/IGKV3-Kappa), one of two antibodies in a complex (M22-44 and CC12.3), targeting the engineered Spike glycoprotein of Severe acute respiratory syndrome coronavirus 2. The Spike glycoprotein attaches the virion to the ... | QVQLVESGGGLIQPGGSLRLSCAAS<M1>MSWVRQAPGKGLEWVSV<M2>FYADSVKGRFTISRDNSKSTLYLQMNSLRVEDTAVYYC<M3>WGQGTLVTVSSA<SEP><M1>GFTVSSNY<M2>IYSGGST<M3>ARDFGDFYFDY | {
"pdb_id": "9cpq",
"light_chain_seq": "EIVLTQSPGTLSLSPGERATLSCRASQSVSSYLAWYQQKPGQAPRLLIYGASSRATGIPDRFSGSGSGTDFTLTISRLEPEDFAVYYCQQYGSSPRTFGQGTKLEIKRT",
"cdrh1_seq": "GFTVSSNY",
"cdrh2_seq": "IYSGGST",
"cdrh3_seq": "ARDFGDFYFDY",
"cdrl1_seq": "QSVSSY",
"cdrl2_seq": "GAS",
"cdrl3_seq": "QQYGSSPRT",
"cdr... | [
2,
5655,
1920,
7881,
4659,
20170,
1036,
1958,
1925,
3533,
1988,
2832,
2162,
1920,
2894,
2347,
30,
43,
2616,
6914,
12,
20733,
1020,
1010,
19,
7021,
1040,
1020,
1010,
17,
12093,
13,
16,
2340,
1927,
2288,
3788,
1922,
43,
2796,
12,
6056,
... | [
"NLCPFGEVFNATRFASVYAWNRKRISNCVADYSVLYNSASFSTFKCYGVSPTKLNDLCFTNVYADSFVIRGDEVRQIAPGQTGKIADYNYKLPDDFTGCVIAWNSNNLDSKVGGNYNYLYRLFRKSNLKPFERDISTEIYQAGSTPCNGVEGFNCYFPLQSYGFQPTNGVGYQPYRVVVLSFELAPATVCGPK"
] |
antibody | What would be the HCDR sequences of an antibody with the following function: A murine Fab, 6C5 (IGHV1/IGKV4-Kappa), targeting the capsid proteins VP1 and VP3 of Echovirus E30. The capsid proteins are components of immature procapsids that are cleaved during maturation and remain part of the mature virion structure. The... | QVQLQQSGSELVRPGASVKLSCRAS<M1>MHWVKQRPGQGLEWIGN<M2>NYDERFKSKATLTVDTSSSTAYMQLSSLTSEDSAVYYC<M3>WGQGTTVTVSSP<SEP><M1>GYTFTTYW<M2>IYPHSGNT<M3>TRDLRGFAY | {
"pdb_id": "7c81",
"light_chain_seq": "DIELTQSPAIMSASPGEKVTMTCSASSSLRYMHWYQQKSGTSPKRWIYDTYNLASGVPVRFSGSGSGTSYSLTISSMEAEDAATYYCQQWSSNPPTFGAGTKLELKRA",
"cdrh1_seq": "GYTFTTYW",
"cdrh2_seq": "IYPHSGNT",
"cdrh3_seq": "TRDLRGFAY",
"cdrl1_seq": "SSLRY",
"cdrl2_seq": "DTY",
"cdrl3_seq": "QQWSSNPPT",
"cdrh1_... | [
2,
4663,
2962,
1998,
1920,
27203,
1005,
3709,
1927,
1925,
3533,
1956,
1920,
2894,
2347,
30,
43,
7135,
6914,
16,
10784,
1015,
12,
20733,
7390,
19,
7021,
1040,
1020,
1006,
17,
12093,
13,
16,
5133,
1920,
14681,
2697,
22814,
1930,
9314,
1... | [
"RAVGRVADTVASGPVNTEQIPALTAVETGHTSQVVPSDTMQTRHVINYHTRSESSIENFMGRAACVYIAQYATEKVNDELDRYTNWEITTRQVAQLRRKLEMFTYMRFDLEITFVITSSQRTSTTYASDSPPLTHQVMYVPPGGPIPKSYEDFAWQTSTNPSVFWTEGNAPPRMSIPFMSVGNAYCNFYDGWSHFSQSGVYGYTTLNNMGHLYFRHVNKSTAYPVNSVARVYFKPKHVKAWVPRAPRLCPYLKARNVNFNVQGVTESRNKITLDRS",
"GLPTMNTPGSTQFLTSDDFQSPSAMPQFDVTPE... |
antibody | I want to design an antibody that has the following function: A human Fab (IGHV3/IGKV3-Kappa) targeting the Envelope E protein of Zika virus. The Envelope E protein is a component of the viral surface that mediates interactions with host cells. This antibody forms a complex with the Envelope E protein. Please generate ... | VQLVESGGGLVQPGGSLRLSCSAS<M1>MHWVRQAPGKGLEYVSA<M2>FYADSVKGRFTISRDNSKNTLYFEMNSLRPEDTAVYYC<M3>WGQGTTVTVSS<SEP><M1>GFTFSTYS<M2>ITGEGDSA<M3>VGGYSNFYYYYTMDV | {
"pdb_id": "8cxg",
"light_chain_seq": "EIVLTQSPATLSLSPGERATLSCRASQSISTFLAWYQHKPGQAPRLLIYDASTRATGVPARFSGSRSGTDFTLTISTLEPEDFAVYYCQQRYNWPPYTFGQGTKVEIK",
"cdrh1_seq": "GFTFSTYS",
"cdrh2_seq": "ITGEGDSA",
"cdrh3_seq": "VGGYSNFYYYYTMDV",
"cdrl1_seq": "QSISTF",
"cdrl2_seq": "DAS",
"cdrl3_seq": "QQRYNWPPYT",
... | [
2,
51,
12914,
1942,
3036,
1925,
3533,
1988,
2258,
1920,
2894,
2347,
30,
43,
2616,
6914,
12,
20733,
1020,
1010,
19,
7021,
1040,
1020,
1010,
17,
12093,
13,
5133,
1920,
11262,
47,
2213,
1927,
28593,
3413,
18,
1920,
11262,
47,
2213,
1977,... | [
"IRCIGVSNRDFVEGMSGGTWVDVVLEHGGCVTVMAQDKPTVDIELVTTTVSNMAEVRSYCYEASISDMASDSRCPTQGEAYLDKQSDTQYVCKRTLVDRGWGNGCGLFGKGSLVTCAKFACSKKMTGKSIQPENLEYRIMLSVHGSQHSGTDENRAKVEITPNSPRAEATLGGFGSLGLDCEPRTGLDFSDLYYLTMNNKHWLVHKEWFHDIPLPWHAGADTGTPHWNNKEALVEFKDAHAKRQTVVVLGSQEGAVHTALAGALEAEMDGAKGRLSSGHLKCRLKMDKLRLKGVSYSLCTAAFTFTKIPAETLHG... |
antibody | Give me the HCDR sequences that can form the binding loops of an antibody with the following function: A human Fab, CAT-2200 (IGHV3/IGLV6-Lambda), targeting Interleukin-17A. Interleukin-17A is a pro-inflammatory cytokine produced by Th17 cells that signals via the IL17RA-IL17RC heterodimeric receptor complex to activat... | EVQLLESGGGLVQPGGSLRLSCAAS<M1>MSWVRQAPGKGLEWVSA<M2>YYADSVKGRFTISRDNSKNTLYLQMNSLRAEDTAVYYC<M3>WGQGTLVTVSSA<SEP><M1>GFTFSSYA<M2>ISGSGGST<M3>ARDLIHGVTRN | {
"pdb_id": "2vxs",
"light_chain_seq": "NFMLTQPHSVSESPGKTVTISCTRSSGSLANYYVQWYQQRPGSSPTIVIFANNQRPSGVPDRFSGSIDSSSNSASLTISGLKTEDEADYYCQTYDPYSVVFGGGTKLTVLGQ",
"cdrh1_seq": "GFTFSSYA",
"cdrh2_seq": "ISGSGGST",
"cdrh3_seq": "ARDLIHGVTRN",
"cdrl1_seq": "SGSLANYY",
"cdrl2_seq": "ANN",
"cdrl3_seq": "QTYDPYSVV",
... | [
2,
7031,
2142,
1920,
27203,
1005,
3709,
1988,
2112,
2386,
1920,
2743,
11109,
1927,
1925,
3533,
1956,
1920,
2894,
2347,
30,
43,
2616,
6914,
16,
3115,
17,
12391,
1008,
12,
20733,
1020,
1010,
19,
28961,
25606,
17,
18279,
13,
16,
5133,
91... | [
"NPKRSSDYYNRSTSPWNLHRNEDPERYPSVIWEAKCRHLGCINADGNVDYHMNSVPIQQEILVILVSVGCTCVTPIV"
] |
antibody | I want an antibody that has the function: A human Fab, MERS-27 (IGHV3/IGKV1-Kappa), targeting the engineered Spike glycoprotein of Middle East respiratory syndrome-related coronavirus. The Spike glycoprotein attaches the virion to the cell membrane by interacting with the host receptor DPP4, initiating infection. The a... | VQLLETGGGLVKPGGSLRLSCAAS<M1>MNWIRQAPGKGLEWVAY<M2>NYGDSVKGRFTISRDHAKNSLYLQMNSLRVEDTAVYYC<M3>WGLGTLVTVSSA<SEP><M1>GFSLSDYY<M2>ISSSSGYT<M3>VRDRDDFWSGYYKH | {
"pdb_id": "4zs6",
"light_chain_seq": "AIRMTQSPSFLSASVGDRVTITCRASQDINSFLAWYQQRPGKAPKLLIYGASNLETGVPSRFSGGGSGTDFTLTISSLQPEDIATYYCQQYDKLPTFGQGTRLEIKRT",
"cdrh1_seq": "GFSLSDYY",
"cdrh2_seq": "ISSSSGYT",
"cdrh3_seq": "VRDRDDFWSGYYKH",
"cdrl1_seq": "QDINSF",
"cdrl2_seq": "GAS",
"cdrl3_seq": "QQYDKLPT",
"c... | [
2,
51,
12914,
1925,
3533,
1988,
2258,
1920,
2347,
30,
43,
2616,
6914,
16,
20197,
17,
3225,
12,
20733,
1020,
1010,
19,
7021,
1040,
7390,
17,
12093,
13,
16,
5133,
1920,
11091,
10429,
11424,
1927,
5576,
10319,
5481,
4741,
17,
2712,
5548,... | [
"VECDFSPLLSGTPPQVYNFKRLVFTNCNYNLTKLLSLFSVNDFTCSQISPAAIASNCYSSLILDYFSYPLSMKSDLSVSSAGPISQFNYKQSFSNPTCLILATVPHNLTTITKPLKYSYINKCSRLLSDDRTEVPQLVNANQYSPCVSIVPSTVWEDGDYYRKQLSPLEGGGWLVASGSTVAMTEQLQMGFGITVQYGTDTNSVCPK"
] |
antibody | I am designing an antibody with the following function: A murine Fab (IGHV4/IGKV4-Kappa) targeting the H(+)/Cl(-) exchange transporter ClcA of Escherichia coli. The ClcA protein functions as a proton-coupled chloride transporter that exchanges two chloride ions for one proton, acting as an electrical shunt for an outwa... | VRLLESGGGLVQPGGSLKLSCAAS<M1>MSWVRQAPGKGLKWIGE<M2>NYTPSLKDKFIISRDNAKDTLYLQISKVRSEDTALYYC<M3>WGAGTTVTVSSA<SEP><M1>GFDYSRYW<M2>INPVSSTI<M3>ARLYYGYGYWYFDV | {
"pdb_id": "2ht4",
"light_chain_seq": "DIVLTQSPAIMSAAPGDKVTMTCSASSSVSYIHWYQQKSGTSPKRWIYDTSKLTSGVPVRFSGSGSGTSYSLTINTMEAEDAATYYCQQWSSHPQTFGGGTKLEILRA",
"cdrh1_seq": "GFDYSRYW",
"cdrh2_seq": "INPVSSTI",
"cdrh3_seq": "ARLYYGYGYWYFDV",
"cdrl1_seq": "SSVSY",
"cdrl2_seq": "DTS",
"cdrl3_seq": "QQWSSHPQT",
"c... | [
2,
51,
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3533,
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1920,
2894,
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30,
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19,
7021,
1040,
1020,
1006,
17,
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21234,
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10210,
... | [
"RRQLIRQLLERDKTPLAILFMAAVVGTLVGLAAVAFDKGVAWLQNQRMGALVHTADNYPLLLTVAFLCSAVLAMFGYFLVRKYAPEAGGSGIPEIEGALEDQRPVRWWRVLPVKFFGGLGTLGGGMVLGREGPTVQIGGNIGRMVLDIFRLKGDEARHTLLATGAAAGLAAAFNAPLAGILFIIEEMRPQFRYTLISIKAVFIGVIMSTIMYRIFNHEVALIDVGKLSDAPLNTLWLYLILGIIFGIFGPIFNKWVLGMQDLLHRVHGGNITKWVLMGGAIGGLCGLLGFVAPATSGGGFNLIPIATAGNFSMGM... |
antibody | What would the HCDRs of an antibody with the following function look like? Here is the function: A human single-chain Fv (scFv), 3B4 (IGHV1/IGLV2-Lambda), targeting C-X-C motif chemokine 13 (CXCL13). CXCL13 is chemotactic for B-lymphocytes and binds to the BLR1/CXCR5 receptor. This antibody forms a complex with CXCL13. | QVQLVQSGAEVKKPGSSVKVSCKAS<M1>ISWVRQAPGQGLEWMGG<M2>NYAQKFQGRVTITADESTSTAYMELSSLRSEDTAVYYC<M3>WGQGTTVTVSS<SEP><M1>GGTFSSYA<M2>IIPIFGTA<M3>AREPDYYDSSGYYPIDAFDI | {
"pdb_id": "5cba",
"light_chain_seq": "QSALTQPASVSASPGQSITISCTGTSSDVGAYDWVSWYQQHPGKAPKLLIFDVNNRPSGVSHRFSGSKSGNTASLTISGLQAEDEADYYCSSYTRRDTYVFGTGTKVTVLGE",
"cdrh1_seq": "GGTFSSYA",
"cdrh2_seq": "IIPIFGTA",
"cdrh3_seq": "AREPDYYDSSGYYPIDAFDI",
"cdrl1_seq": "SSDVGAYDW",
"cdrl2_seq": "DVN",
"cdrl3_seq": "SS... | [
2,
4663,
2962,
1920,
27203,
5675,
1927,
1925,
3533,
1956,
1920,
2894,
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1977,
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13,
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28961,
15755,
17,
18279,
13,
... | [
"RCRCVQESSVFIPRRFIDRIQILPRGNGCPRKEIIVWKKNKSIVCVDPQAEWIQRMMEVLR"
] |
antibody | Generate the HCDR loops for an antibody with the following function: A murine Fab (IGHV2/IGKV3-Kappa) targeting the Mitochondrial import inner membrane translocase subunit TIM44 of Saccharomyces cerevisiae. TIM44 is an essential component of the PAM complex, which recruits mitochondrial HSP70 and its co-chaperone to dr... | QVQLKQSGPGLVQPSQSLSITCTVS<M1>VHWVRQSPGKGLEWLGV<M2>DFNAAFMSRLSITKDNSKSQVFFKMNSLQADDTAIYYC<M3>WGQGTSVTVSS<SEP><M1>GFSLTTYG<M2>MWRGGST<M3>ARYGNYDAMDY | {
"pdb_id": "8e1m",
"light_chain_seq": "DIVLTQSPASLAVSLGQRATISCRASESVDIYGISFMNWFQQKPGQPPKLLIYATSNQGSGVPARFSGSGSGTDFSLNIHPMEEDDTAMYFCQQSKEVPRTFGGGTKLEIK",
"cdrh1_seq": "GFSLTTYG",
"cdrh2_seq": "MWRGGST",
"cdrh3_seq": "ARYGNYDAMDY",
"cdrl1_seq": "ESVDIYGISF",
"cdrl2_seq": "ATS",
"cdrl3_seq": "QQSKEVPRT",
... | [
2,
5655,
1920,
27203,
1005,
11109,
1958,
1925,
3533,
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1920,
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12,
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19,
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1020,
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17,
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5133,
1920,
4596,
2582,
6671,
3260,
12930,
2051,
5903,
2267,
6609,
1927,
16285... | [
"KTLKKTGETMEHIATKAWESELGKNTRKAAAATAKKLDESFEPVRQTKIYKEVSEVIDDGESSRYGGFITKEQRRLKRERDLASGKRRKITNKVGGFFAETESSRVYSQFKLMDPTFSNESFTRHLREYIVPEILEAYVKGDVKVLKKWFSEAPFNVYAAQQKIFKEQDVYADGRILDIRGVEIVSAKLLAPQDIPVLVVGCRAQEINLYRKKKTGEIAAGDEANILMSSYAMVFTRDPEQIDDDETEGWKILEFVRGGSRQFT"
] |
antibody | Please generate the HCDR sequences for an antibody with the following role: A human Fab, TJ5-13 (IGHV1/IGLV1-Lambda), targeting the engineered H3 COBRA Hemagglutinin of Influenza A virus. Hemagglutinin binds to sialic acid-containing receptors on the cell surface to mediate viral attachment and entry, and functions as ... | VKKPGSSVKVSCEAS<M1>INWVRQAPGQGLEWMGG<M2>NYAQRFQGRITITVDRSTSLVHMELTNLRSDDTAVYYC<M3>RGQGTLVSVSS<SEP><M1>GDTFTTYSG<M2>VLPNFGSP<M3>TETGAYNSVGYFPYFQF | {
"pdb_id": "9b7g",
"light_chain_seq": "SVLTQPPSVSGAPGQRVTISCTGSSSNIGADYDVHWYQQLPGTAPKLLIFGNNNRPSGVPDRFSGSKSGTSASLAITGLQAEDEADYYCQSFDKSLSGSFVFGTGTKVT",
"cdrh1_seq": "GDTFTTYSG",
"cdrh2_seq": "VLPNFGSP",
"cdrh3_seq": "TETGAYNSVGYFPYFQF",
"cdrl1_seq": "SSNIGADYD",
"cdrl2_seq": "GNN",
"cdrl3_seq": "QSFDKSL... | [
2,
11586,
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5524,
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1927,
... | [
"VKTITNDRIEVTNATELVQNSSIGEICDSPHQILDGENCTLIDALLGDPQCDGFQNKKWDLFVERSKAYSNCYPYDVPDYASLRSLVASSGTLEFKNESFNWTGVTQNGTSSACIRGSSSSFFSRLNWLTHLNYTYPALNVTMPNNEQFDKLYIWGVHHPGTDKDQIFLYAQSSGRITVSTKRSQQAVIPNIGSRPRIRDIPSRISIYWTIVKPGDILLINSTGNLIAPRGYFKIRSGKSSIMRSDAPIGKCKSECITPNGSIPNDKPFQNVNRITYGACPRYVKQSTLKLNEKFHQIEKEFSEVEGRIQDLEKY... |
antibody | Generate the heavy chain CDRs for an antibody that will have the following function: A murine Fab, JMB2002 (IGHV1/IGKV1-Kappa), targeting the Spike glycoprotein of Severe acute respiratory syndrome coronavirus 2 (Omicron variant). The Spike glycoprotein attaches the virion to the cell membrane by interacting with host ... | QVQLVQSGAEVKKPGSSVKVSCKAS<M1>ISWVRQAPGQGLEWMGR<M2>NYAQKFQGRVTITADESTSTAYMELSSLRSEDTAVYYC<M3>WGQGTMVTVS<SEP><M1>GGTFSSYA<M2>IIPIFGTA<M3>ASLASYSSGWEDVFDI | {
"pdb_id": "7wrv",
"light_chain_seq": "DIQMTQSPSSLSASVGDRVTITCRASQGISSWLAWYQQKPGKAPKLLIYDASNLETGVPSRFSGSGSGTDFTFTISSLQPEDIATYYCQQYDNLPLTFGGGTKVEI",
"cdrh1_seq": "GGTFSSYA",
"cdrh2_seq": "IIPIFGTA",
"cdrh3_seq": "ASLASYSSGWEDVFDI",
"cdrl1_seq": "QGISSW",
"cdrl2_seq": "DAS",
"cdrl3_seq": "QQYDNLPLT",
"... | [
2,
5655,
1920,
7881,
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20170,
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... | [
"NITNLCPFDEVFNATRFASVYAWNRKRISNCVADYSVLYNLAPFFTFKCYGVSPTKLNDLCFTNVYADSFVIRGDEVRQIAPGQTGNIADYNYKLPDDFTGCVIAWNSNKLDSKVSGNYNYLYRLFRKSNLKPFERDISTEIYQAGNKPCNGVAGFNCYFPLRSYSFRPTYGVGHQPYRVVVLSFELLHAPATVCGPKK"
] |
antibody | Generate the HCDR sequences given the following functional description of an antibody. The desired function is: A human Fab, HDIT102 (IGHV1/IGLV3-Lambda), targeting the Envelope glycoprotein B of Human alphaherpesvirus 1. Envelope glycoprotein B forms spikes at the virion surface, binds host cell entry receptors to pro... | VQLVQSGAEVKTPGASVRVSCKAS<M1>INWVRQAAGQGLEWMGW<M2>GYARQFQGRVTMTRNISANTAYMELRGLRFDDTAVYYC<M3>WGQGTTVTV<SEP><M1>GHTFRTFD<M2>MSPNSGNT<M3>ARGPGSTGTTGSMDV | {
"pdb_id": "8rh0",
"light_chain_seq": "GLTQPPSVSVAPGKTARISCGGNNIGSKSVHWYQQKPGQAPVLVIYYDSDRPSGIPERFSGSNSGNTATLTISRVEAGDEADYYCQVWDSGSVVFGGGTKLTVL",
"cdrh1_seq": "GHTFRTFD",
"cdrh2_seq": "MSPNSGNT",
"cdrh3_seq": "ARGPGSTGTTGSMDV",
"cdrl1_seq": "NIGSKS",
"cdrl2_seq": "YDS",
"cdrl3_seq": "QVWDSGSVV",
"cdr... | [
2,
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5133,
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114... | [
"ANFYVCPPPTGATVVQFEQPRRCPTRPEGQNYTEGIAVVFKENIAPYKFKATMYYKDVTVSQVWFGHRYSQFMGIFEDRAPVPFEEVIDKINAKGVCRSTAKYVRNNLETTAFHRDDHETDMELKPANAATRTSRGWHTTDLKYNPSRVEAFHRYGTTVNCIVEEVDARSVYPYDEFVLATGDFVYMSPFYGYREGSHTEHTSYAADRFKQVDGFYARDLTTKARATAPTTRNLLTTPKFTVAWDWVPKRPSVCTMTKWQEVDEMLRSEYGGSFRFSSDAISTTFTTNLTEYPLSRVDLGDCIGKDARDAMDRIF... |
antibody | Generate the HCDRs according to these antibody design specifications: A human Fab, H2 (IGHV3/IGKV1-Kappa), targeting the peptide-MHC complex formed by the p53 R175H neoantigen (HMTEVVRHC) presented on HLA-A*02:01. The p53 R175H mutation is a common driver of cancer, and the antibody is designed to recognize this mutati... | EVQLVESGGGLVQPGGSLRLSCAAS<M1>MHWVRQAPGKGLEWVAK<M2>YYADSVKGRFTISADTSKNTAYLQMNSLRAEDTAVYYC<M3>WGQGTLVTVSSA<SEP><M1>GFNVYASG<M2>IYPDSDYT<M3>SRDSSFYYVYAMDY | {
"pdb_id": "6w51",
"light_chain_seq": "DIQMTQSPSSLSASVGDRVTITCRASQDVNTAVAWYQQKPGKAPKLLIYSAYFLYSGVPSRFSGSRSGTDFTLTISSLQPEDFATYYCQQYSRYSPVTFGQGTKVEIKRT",
"cdrh1_seq": "GFNVYASG",
"cdrh2_seq": "IYPDSDYT",
"cdrh3_seq": "SRDSSFYYVYAMDY",
"cdrl1_seq": "QDVNTA",
"cdrl2_seq": "SAY",
"cdrl3_seq": "QQYSRYSPVT",
... | [
2,
5655,
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5675,
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2144,
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3036,
22437,
30,
43,
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16,
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5133,
1920,
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17,
8709,
2796,
5333,
2007,
1920,
5105,
12041,
8245,
1023... | [
"GSHSMRYFFTSVSRPGRGEPRFIAVGYVDDTQFVRFDSDAASQRMEPRAPWIEQEGPEYWDGETRKVKAHSQTHRVDLGTLRGYYNQSEAGSHTVQRMYGCDVGSDWRFLRGYHQYAYDGKDYIALKEDLRSWTAADMAAQTTKHKWEAAHVAEQLRAYLEGTCVEWLRRYLENGKETLQRTDAPKTHMTHHAVSDHEATLRCWALSFYPAEITLTWQRDGEDQTQDTELVETRPAGDGTFQKWAAVVVPSGQEQRYTCHVQHEGLPKPLTLRW",
"HMTEVVRHC"
] |
antibody | Generate the HCDRs according to this antibody functional description: A human Fab, AR3D (IGHV1/IGKV3-Kappa), targeting the Envelope glycoprotein E2 of Hepatitis C virus genotype 6a. The E2 glycoprotein mediates viral attachment and entry into host cells. The antibody is designed as a broadly neutralizing antibody targe... | LLEQSGAEVKKPGSSVKVSCKAS<M1>ITWARQAPGQGLEWMGA<M2>NLAQKFQGRVTITADESTKTVYMDLSSLRSDDTAVYYC<M3>WGQGTLVTVSSA<SEP><M1>GDTFRSYV<M2>IIPFFGTT<M3>AKAGDLSVGGVLAGGVPHLRHFDP | {
"pdb_id": "6bkd",
"light_chain_seq": "ELTQSPGTLSLSPGERATLSCRAGQTVASNSLAWYQHKPGQAPRLLIYGASIRASGIPDRFSGSGSGTDFTLTISRLEPEDFAVYYCQQYGSTFGQGTRLEIKRT",
"cdrh1_seq": "GDTFRSYV",
"cdrh2_seq": "IIPFFGTT",
"cdrh3_seq": "AKAGDLSVGGVLAGGVPHLRHFDP",
"cdrl1_seq": "QTVASNS",
"cdrl2_seq": "GAS",
"cdrl3_seq": "QQYGST"... | [
2,
5655,
1920,
27203,
5675,
3147,
1942,
2052,
3533,
3183,
8418,
30,
43,
2616,
6914,
16,
2245,
19494,
12,
20733,
7390,
19,
7021,
1040,
1020,
1010,
17,
12093,
13,
16,
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1920,
11262,
11424,
6602,
1927,
7977,
45,
3413,
5619,
8021,
18,... | [
"HINRTALNCNDSLQTGFITSLFYPRPCDVVSARTVCGPVYCFTPSPVVVGTTDKLGIPTYNWGENETDVFMLESLRPPGWFGCTWMNSTGFTKTCGAPPPTDGGSGPWITPRCLVDYPYRLWHYPCTVNFTLHKVRMFVGIEHRFDAACN"
] |
antibody | A human Fab, 1-1-1F05 (IGHV4/IGKV3-Kappa), targeting the Hemagglutinin HA1 chain of Influenza A virus (A/New Caledonia/20/1999(H1N1)). Hemagglutinin binds to sialic acid-containing receptors on the cell surface to mediate viral attachment and entry, and functions as a class I viral fusion protein responsible for membra... | QVQLQESGPGLVKPSATLSLTCTLS<M1>WSWIRQPPGKGLEYIGN<M2>NYNPSLRSRVTISVGTSKNQFSLKLTSVTAADTAVYYC<M3>WGQGTLVIV<SEP><M1>GGSLSTHY<M2>IHYSGST<M3>ARDAPYSDFLSGVETGWFDP | {
"pdb_id": "8tp3",
"light_chain_seq": "EIVMTQSPATLSVSPGERATLSCRASQSVSSNLAWYQQKPGQAPRLLIYGASTRATGIPARFSGSGSGTDFTLTISSLQSEDFAVYSCQQYNNWPWTFGQGTKVE",
"cdrh1_seq": "GGSLSTHY",
"cdrh2_seq": "IHYSGST",
"cdrh3_seq": "ARDAPYSDFLSGVETGWFDP",
"cdrl1_seq": "QSVSSN",
"cdrl2_seq": "GAS",
"cdrl3_seq": "QQYNNWPWT",
... | [
2,
43,
2616,
6914,
16,
21,
17,
21,
17,
14078,
15264,
12,
20733,
1020,
1006,
19,
7021,
1040,
1020,
1010,
17,
12093,
13,
16,
5133,
1920,
26141,
2118,
1009,
4659,
1927,
7108,
43,
3413,
12,
43,
19,
2814,
2570,
1919,
6114,
19,
2036,
19... | [
"DTICIGYHANNSTDTVDTVLEKNVTVTHSVNLLEDSHNGKLCLLKGIAPLQLGNCSVAGWILGNPECELLISKESWSYIVETPNPENGTCYPGYFADYEELREQLSSVSSFERFEIFPKESSWPNHTVTGVSASCSHNGKSSFYRNLLWLTGKNGLYPNLSKSYVNNKEKEVLVLWGVHHPPNIGNQRALYHTENAYVSVVSSHYSRRFTPEIAKRPKVRDQEGRINYYWTLLEPGDTIIFEANGNLIAPWYAFALSRGFGSGIITSNAPMDECDAKCQTPQGAINSSLPFQNVHPVTIGECPKYVRSAKLRMVT... |
antibody | I want to design an antibody that has the following function: A human Fab (IGHV5/IGKV3-Kappa), designated 221-5, targeting the Outer surface protein A of Borreliella burgdorferi B31. Outer surface protein A induces host cytokine release by monocyte cell lines via TLR2 and CD14 signaling. This antibody forms a complex w... | EVQLVQSGAEVKKPGESLKISCKGS<M1>IGWVRQMPGKGLEWMGI<M2>RYSPSFQGQVTISADKSISTAYLQWSSLKASDTAMYYC<M3>WGQGTTVTVSSA<SEP><M1>GYSFTSYW<M2>IYPGDSDT<M3>ARHLGIDYFFGMDV | {
"pdb_id": "8tv3",
"light_chain_seq": "EIVLTQSPATLSLSPGERATLSCRASQSVSSYLAWYQQKPGQAPRLLIYDASTRDTGIPARFSGSGSGTDFTLTISSLEPEDFAVYYCQHHSNWYTFGQGTKLEIKRT",
"cdrh1_seq": "GYSFTSYW",
"cdrh2_seq": "IYPGDSDT",
"cdrh3_seq": "ARHLGIDYFFGMDV",
"cdrl1_seq": "QSVSSY",
"cdrl2_seq": "DAS",
"cdrl3_seq": "QHHSNWYT",
"c... | [
2,
51,
12914,
1942,
3036,
1925,
3533,
1988,
2258,
1920,
2894,
2347,
30,
43,
2616,
6914,
12,
20733,
1020,
1015,
19,
7021,
1040,
1020,
1010,
17,
12093,
13,
16,
10176,
17043,
17,
25,
16,
5133,
1920,
7642,
3154,
2213,
43,
1927,
27037,
1... | [
"SLDEKNSVSVDLPGEMKVLVSKEKNKDGKYDLIATVDKLELKGTSDKNNGSGVLEGVKADKSKVKLTISDDLGQTTLEVFKEDGKTLVSKKVTSKDKSSTEEKFNEKGEVSEKIITRADGTRLEYTGIKSDGSGKAKEVLKGYVLEGTLTAEKTTLVVKGTVTLSKNISKSGEVSVEFTKENTEITKLDEIKNA"
] |
End of preview.
InstructPro2Bench
Training and evaluation data for InstructPro2, which designs proteins from natural-language function descriptions.
Contents
stage1/ instruction-following pretraining
train.jsonl valid.jsonl test.jsonl
ligand/ ligand-binding protein design
train.jsonl valid.jsonl test_ligand.jsonl test_ligand_unseen.jsonl
antibody/ antibody HCDR design
train.jsonl valid.jsonl final_antibody_test.jsonl
eval_structures/ ground-truth structures for Stage 1 evaluation
cluster_<id>/ predicted structures for one cluster
targets.csv row -> cluster manifest
| Split | Rows | |
|---|---|---|
stage1/train |
200,000 | sample of 205,727,986 |
stage1/valid |
1,000 | complete |
stage1/test |
1,000 | complete |
ligand/train |
50,000 | sample of 8,727,514 |
ligand/valid |
3,263 | complete |
ligand/test_ligand |
1,500 | complete |
ligand/test_ligand_unseen |
127 | complete; held-out ligands |
antibody/train |
21,384 | complete |
antibody/valid |
433 | complete |
antibody/final_antibody_test |
444 | complete |
The two Stage 1 and ligand training splits are samples of much larger datasets, the full sets are available on request. Every other split is complete.
About a third of the antibody training rows (7,068 of 21,384) carry an antigen. The rest are heavy chains without a paired structure, and train the infilling behaviour alone.
Every row is one JSON object per line:
| Field | Present in | |
|---|---|---|
instruction |
stage1 | the natural-language design request |
text |
ligand, antibody | the same, under a different name |
tokenized_instruction |
all | the request as PubMedBERT token ids, which is what the model reads |
output |
stage1 | the reference protein |
target_protein |
ligand, antibody | the same, under a different name |
ligand |
ligand | SMILES strings |
antigen |
antibody | antigen chain sequences |
task_type |
stage1 | autoregressive or infilling |
modality_type |
ligand, antibody | ligand or antibody |
metadata |
all | provenance: UniProt or PDB id, InterPro annotations, cluster id, CDR positions |
A target may contain <SEP> and <M1>–<M30>, which mark spans to
infill: the scaffold precedes the separator and the spans that fill it
follow. Antibody targets use this to mark HCDR1-3 in a heavy chain.
Evaluation structures
eval_structures/ holds the ground truth for Stage 1 scoring: 1,000
cluster folders, each with the structures of related proteins, and
targets.csv mapping each test row to its cluster. A design is scored
against every member of the cluster, and the best match is reported.
Ground-truth structures for the ligand and antibody tasks are not included.
Usage
huggingface-cli download charlesnovak/InstructPro2Bench \
--repo-type dataset --local-dir $WORK_ROOT/data
The code repository reads this layout directly. To design proteins from your own descriptions instead, see its README — you do not need this dataset for that.
Notes
Proteins longer than 1,024 tokens are outside the model's context and are skipped at generation time, so some test rows produce no design and have no ground-truth structure.
Citation
@article{instructpro2,
title = {InstructPro2: Natural Language and Biological Grounding Guided De Novo Protein Design},
author = {Charles Novak and Zhenqiao Song and Chuan Li and Jianwen Xie and Lei Li},
journal = {arXiv preprint arXiv:2610.19592},
year = {2026}
}
License
MIT.
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