Datasets:

RosettaCommons
/

PTMint

@@ -61,3 +61,5 @@ saved_model/**/* filter=lfs diff=lfs merge=lfs -text
 data/ptmint_all_with_splits.csv filter=lfs diff=lfs merge=lfs -text
 data/ptmint_final.csv filter=lfs diff=lfs merge=lfs -text
 data/ptmint_final_clustered.csv filter=lfs diff=lfs merge=lfs -text

 data/ptmint_all_with_splits.csv filter=lfs diff=lfs merge=lfs -text
 data/ptmint_final.csv filter=lfs diff=lfs merge=lfs -text
 data/ptmint_final_clustered.csv filter=lfs diff=lfs merge=lfs -text
+intermediate/df_exact.csv filter=lfs diff=lfs merge=lfs -text
+intermediate/ptmint_merged_with_uniprot_seqs.csv filter=lfs diff=lfs merge=lfs -text

intermediate/df_exact.csv ADDED Viewed

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+size 33566380

intermediate/ptmint_interactions.txt ADDED Viewed

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intermediate/ptmint_interm.csv ADDED Viewed

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intermediate/ptmint_iufeatures.txt ADDED Viewed

	@@ -0,0 +1,18 @@

+Organism	Gene	Uniprot	PTM	Site	AA	Int_uniprot	Int_gene	Effect	Method	Disease	Co_localized	PMID	Complex	Origin	Confidence	PDBRES	Score	Interface	Domain
+Human	AANAT	Q16613	Phos	31	T	P63104	YWHAZ	Enhance	Molecular dynamics simulation(MD)	None	None	28387381	Complex2735	PyMOL	Medium	A31:THR	0.5	True	None
+Human	AATF	Q9NY61	Phos	366	T	P19105	MYL12A	Inhibit	Peptide pull-down	Endometrial cancer	None	22909821	Complex3475	ZDOCK	Low	A366:THR	0.5	False	AATF-Che1
+Human	ABCG2	Q9UNQ0	Phos	362	T	Q9UNQ0	ABCG2	Enhance	Co-IP	Prostate cancer	Plasma membrane	18056989	Complex3607	PyMOL	Medium	A362:THR	0.5	False	None
+Human	ABI1	Q8IZP0	Phos	213	Y	P27986	PIK3R1	Enhance	Affinity capture binding assay	None	None	20598684	Complex2954	ZDOCK	Low	B213:TYR	0.5	False	None
+Human	ABI3	Q9P2A4	Phos	342	S	Q7L576	CYFIP1	Inhibit	Co-IP	Thyroid cancer	None	28978070	Complex3517	ZDOCK	Low	B342:SER	0.75	False	SH3_9
+Human	ABI3	Q9P2A4	Phos	342	S	Q9Y6W5	WASF2	Inhibit	Co-IP	Thyroid cancer	None	28978070	Complex3518	ZDOCK	Low	B342:SER	0.75	True	SH3_9
+Human	ABL1	P00519	Phos	735	T	P31946	YWHAB	Enhance	Co-IP	Cervical cancer, Breast cancer	Cytoplasm	15696159	Complex429	HDOCK	Low	A735:THR	0.5	False	None
+Human	ABL1	P00519	Phos	735	T	P31946	YWHAB	Enhance	Co-IP	Cervical cancer, Colon cancer	Cytoplasm	16888623	Complex429	HDOCK	Low	A735:THR	0.5	False	None
+Human	ABRAXAS1	Q6UWZ7	Phos	404	S	P38398	BRCA1	Enhance	Co-IP	Hereditary breast and ovarian cancer(HBOC)	None	26778126	Complex2881	HDOCK	Low	B404:SER	0.5	False	None
+Human	ABRAXAS1	Q6UWZ7	Phos	406	S	P38398	BRCA1	Enhance	Co-IP	Breast cancer	Nucleus	17525340	Complex2881	HDOCK	Low	B406:SER	0.5	False	None
+Human	ABRAXAS2	Q15018	Phos	377	Y	Q9UQQ2	SH2B3	Enhance	Co-IP	None	None	30755420	Complex2564	ZDOCK	Low	B377:TYR	0.5	False	None
+Human	ACAP1	Q15027	Phos	554	S	P05556	ITGB1	Enhance	Co-IP	Cervical cancer	Recycling endosome	16256741	Complex2568	ZDOCK	Low	B554:SER	0.5	False	None
+Human	ACE	P12821	Phos	1299	S	P35579	MYH9	Enhance	Co-IP	Cardiovascular disease(CVD)	Plasma membrane	16186248	Complex918	HDOCK	Low	B1299:SER	0.5	True	None
+Human	ACKR3	P25106	Phos	352	T	P49407	ARRB1	Enhance	Bioluminescence resonance energy transfer(BRET)-Based Recruitment Assay	Cardiovascular disease(CVD), Cancers	None	33799570	Complex1201	ZDOCK	Low	B352:THR	0.5	False	None
+Human	ACKR3	P25106	Phos	355	S	P49407	ARRB1	Enhance	Bioluminescence resonance energy transfer(BRET)-Based Recruitment Assay	Cardiovascular disease(CVD), Cancers	None	33799570	Complex1201	ZDOCK	Low	B355:SER	0.5	False	None
+Human	ACOT4	Q8N9L9	Phos	392	S	P0DMV8	HSPA1A	Inhibit	Co-IP	Pancreatic ductal adenocarcinoma(PDAC)	None	33148467	Complex2971	ZDOCK	Low	B392:SER	0.5	False	BAAT_C
+Human	ACTN1	P12814	Phos	12	Y	P12931	SRC	Enhance	Peptide pull-down	None	None	16291744	Complex917	ZDOCK	Low	A12:TYR	0.5	False	None

intermediate/ptmint_merged.csv ADDED Viewed

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intermediate/ptmint_merged_with_uniprot_seqs.csv ADDED Viewed

	@@ -0,0 +1,3 @@

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intermediate/seqwin_clusters_all_seqs.fasta ADDED Viewed

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intermediate/seqwin_clusters_cluster.tsv ADDED Viewed

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+5100	5106
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+5100	5108
+5100	5109
+5100	5110
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+5150	5150
+5151	5151
+5152	5152
+5153	5153
+5154	5154
+5155	5155

intermediate/seqwin_clusters_rep_seq.fasta ADDED Viewed

	@@ -0,0 +1,4892 @@

+>0
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+SSHILTPTRFL
+>4546
+EKLPLYMVLED
+>4547
+HDRAPSRKDSL
+>4548
+PSRKDSLESDS
+>4549
+AETPSTPGEFE
+>4550
+KRTKASMSEFL
+>4551
+TKASMSEFLES
+>4552
+SEFLESEDGEV
+>4553
+SGRDSSFTEVP
+>4554
+ELEDMYLKLQE
+>4555
+RIKSYSFPKPG
+>4556
+LRKEPSL
+>4557
+QNDSAYDSNDP
+>4558
+GLQMGSNRGAS
+>4559
+KKIQASTMAFK
+>4560
+NPRNFSDNQLQ
+>4561
+VKRRPSPYEME
+>4562
+RHRVPTTELCR
+>4563
+VYDLLKAEGQA
+>4564
+SLRSCSLGSLG
+>4565
+SCSLGSLGALG
+>4567
+MDSKSSGWGM
+>4568
+MRKSFSQPGLR
+>4569
+RRRANTLSHFP
+>4570
+RRRHASAPSHV
+>4571
+RRRAHTFSHPP
+>4572
+AKRSLTSSLEN
+>4574
+RKRTSSTCSNE
+>4576
+HKNIVKLFAIE
+>4577
+GQSVYKLTDFG
+>4578
+IDSRLSPGGSL
+>4580
+NARGDKVGASA
+>4582
+ECDGLKMDSNK
+>4583
+PVTNGKGRPAS
+>4584
+SSSDETDVEGK
+>4585
+RQKSGSQEDLG
+>4586
+DSDLDSDDEFV
+>4588
+IHGLSSLTACQ
+>4589
+QALPASPALKN
+>4590
+RRRGGSASRSL
+>4593
+GLLQIKKLKQD
+>4594
+LLQIKKLKQDQ
+>4595
+KYGPDYVPQKS
+>4596
+TSEPTYLRFIK
+>4597
+IKRTVSEPSLS
+>4602
+GVTSSSCPADL
+>4607
+DKDHLYSTVCK
+>4608
+LLVQRTIARTI
+>4609
+FPYEEYASWKT
+>4610
+PASENSSAAHS
+>4611
+DCSRRSSPVYV
+>4612
+CSRRSSPVYVG
+>4613
+FRRAVSELDAK
+>4615
+KNLHPSYSCKY
+>4616
+NAGEGSEFADS
+>4617
+SEFADSGIEGA
+>4618
+GIEGATTDTDL
+>4619
+STRSSSTPSIP
+>4620
+KKRSKSADIWR
+>4621
+CQRANSLGDLY
+>4622
+RSRFSSLWGLD
+>4623
+SNLEISQSPTM
+>4624
+AELHDYFNVLS
+>4625
+ASGQETFWRIP
+>4626
+DIEFIYTAPSS
+>4627
+NHHLFTTTINL
+>4628
+HLFTTTINLNS
+>4629
+TVLPGSPSKTR
+>4630
+SQASPSEDEET
+>4631
+MESFSSKS
+>4632
+RRLGLSDHEID
+>4633
+PPPPAYDDVAQ
+>4634
+NIDALSGMEGR
+>4635
+RRVRISADAMM
+>4637
+HAKKKSKISAS
+>4638
+KFKRPTLRRVR
+>4639
+ARAKESLDLRA
+>4640
+PQSQLSPNAKE
+>4641
+TTEAIYEEIDA
+>4642
+TVGCCSLRVEH
+>4643
+CSKDAKVPSPP
+>4644
+PSSRIKGEKDW
+>4645
+PKTKTSPKLSN
+>4646
+TSPKLSNKELK
+>4647
+KYLEESDEDDL
+>4649
+RARLASNLQWP
+>4650
+VPADASPDSKC
+>4653
+KGQSTSRHKKL
+>4654
+TEGPDSD
+>4655
+TSRHKKLMFKT
+>4657
+VEPPLSQETFS
+>4659
+SQETFSDLWKL
+>4661
+LSPLPSQAMDD
+>4662
+DDLMLSPDDIE
+>4663
+HSGTAKSVTCT
+>4664
+HLKSKKGQSTS
+>4666
+PLSQETFSDLW
+>4668
+LWVDSTPPPGT
+>4669
+TPPPGTRVRAM
+>4676
+IEQWFTEDPGP
+>4678
+SVTCTYSPALN
+>4679
+SVVVPYEPPEV
+>4680
+LLGRNSFEVRV
+>4681
+SSPQPKKKPLD
+>4682
+SPQPKKKPLDG
+>4683
+PQPKKKPLDGE
+>4684
+FSDLWKLLPEN
+>4695
+KTYQGSYGFRL
+>4697
+ENNVLSPLPSQ
+>4698
+APAAPTPAAPA
+>4699
+NNTSSSPQPKK
+>4704
+STSRHKKLMFK
+>4712
+HSSHLKSKKGQ
+>4716
+SKKGQSTSRHK
+>4719
+GSRAHSSHLKS
+>4721
+KLMFKTEGPDS
+>4728
+LHRTSSGTSLS
+>4729
+SEEERSPAKRG
+>4730
+FIVPSSPTEQE
+>4732
+VTGRQSVVVPY
+>4733
+PTHSPYAQPSS
+>4734
+SRRRSSEVEIF
+>4735
+FSDIYKIREIA
+>4736
+VNRPLSLKDQQ
+>4737
+ENELTSLAEDL
+>4742
+VTPPGSLELLQ
+>4746
+RDHVEKACKYR
+>4747
+WEEADSMKSSV
+>4748
+QKMSLSVLEGM
+>4749
+TICRPKGGSGD
+>4750
+QSWCLKRYDLE
+>4751
+YEAGTYPQTPL
+>4752
+LLLNSSQSSTS
+>4753
+VKRSRSGEGEV
+>4758
+PSLMRSQSPKA
+>4759
+LGAAKKPPVTF
+>4760
+HLRRYSTP
+>4761
+MQQQVYAQKHQ
+>4762
+HSGPQYSMMQP
+>4763
+KVVQVYADTQE
+>4765
+PKMKISPKRMS
+>4766
+DERRATRLGAG
+>4767
+DSSIDYDLNLP
+>4768
+VTHEDYVTTRL
+>4769
+RDRWSSVVPRV
+>4770
+PQATVTPPRKE
+>4771
+GCATSTPYSTS
+>4772
+RARSTSLNERP
+>4776
+RCRSISVSEHV
+>4778
+ADGNVSDFDNE
+>4779
+LSLLLKLEKNS
+>4780
+PDCDVKTDDSV
+>4781
+SSLLAKLEETK
+>4782
+RTPVVKNDFPP
+>4783
+QMPSDKTIGGG
+>4784
+LRMLFKDDYPS
+>4787
+DDYPSSPPKCK
+>4788
+LAQERKAWRKD
+>4789
+LARQISFKAEV
+>4790
+PKRPVSAMFIF
+>4791
+GFRAFSGSGNR
+>4792
+DSDDESQSSHT
+>4793
+EGGFASPRTGK
+>4794
+RSGSTSPLGFA
+>4795
+LARKMSLGGGR
+>4796
+MRGGRSPRPGS
+>4800
+IERRLSALLTG
+>4801
+LSALLTGICA
+>4802
+VFTVGSPPSGS
+>4806
+IERRLSALCHS
+>4807
+MIGQKTLYSFF
+>4808
+GQKTLYSFFSP
+>4809
+KRHAPSPEPAV
+>4810
+QEEPGTPPSSP
+>4811
+GTPPSSPLSAE
+>4812
+LLGADTQGSEF
+>4813
+RKRKNSTGSGH
+>4816
+LTMPGYGGAAS
+>4817
+MNNVVTRRFSK
+>4818
+KNEDGTWPRGP
+>4820
+EVLTSSPTRNL
+>4821
+KDRKFSWGQQR
+>4822
+NDSRVSPVSEN
+>4824
+RLRNDSVIVDT
+>4825
+LKRSYSSPDIT
+>4826
+EERMKSTEVLP
+>4829
+SGGIPSPDKGH
+>4830
+KTPPPSYNSAL
+>4831
+IERRVSNAGGP
+>4834
+EDEDLYDCVEN
+>4835
+GDEDIYSGLSD
+>4837
+EGDEIYEDLMR
+>4896
+GGAGPSQGSGG
+>4897
+SSAPATPTKAP
+>4898
+TKAPYSPTTSK
+>4899
+SNLDLSEEDSD
+>4900
+QWRYSSPWTKP
+>4902
+LRSVNSREPSQ
+>4903
+NSREPSQVIFC
+>4904
+GRRIHSYRGHL
+>4905
+VRSLVKPENYR
+>4906
+SLYASSPGGVY
+>4911
+PTPKSSPQKTR
+>4912
+WEQELYSQLVY
+>4913
+PLQETYDVCEQ
+>4914
+AELTATQVEEE
+>4915
+SSLPQTPEQEK
+>4917
+GFGSSSPVKSP
+>4918
+STGEDSAFQEP
+>4921
+LGSSFSPVRCG
+>4922
+MNRSVSLTIY
+>4924
+ESRSGSNRRER
+>4926
+RRFIVSPVPES
+>4927
+AGSAVSQELRE
+>4928
+SIMVQSPEKAY
+>4929
+NDSLGKLDFSR
+>4930
+KDGWVYYANHT
+>4933
+RTTTFKDPRPG
+>4934
+HVRSHSSPASL
+>4936
+HSSPASLQLGT
+>4937
+NFPSGSPVSAS
+>4940
+RHRKVSPNCRF
+>4941
+DYAHLTPRELA
+>4942
+LEVWGSQEALE
+>4947
+TRTPATAPVPA
+>4948
+DPYAGSTDENT
+>4949
+PYAGSTDENTD
+>4950
+STDENTDSEEH
+>4951
+NTPKYSQVLGL
+>4952
+VYDESTDEESE
+>4953
+CANLFSDVQFK
+>4954
+VLAATKLDKES
+>4957
+SSGQRYFLNHI
+>4959
+RKLPDSFFKPP
+>4960
+VRAHSSPASLQ
+>4962
+QLGAVSPGTLT
+>4963
+VTAPTSPPVQQ
+>4964
+PLAPQSPQGGV
+>4965
+QNPVSSPGMSQ
+>4971
+YDDMASAMKAV
+>4973
+GARRSSWRVVS
+>4974
+YEILNSPEKAC
+>4975
+LWTSDTQGDEA
+>4989
+MDTSVYESPYS
+>4997
+VYESPYSDPEE
+>4998
+AMVRDYVRQTW
+>4999
+LVNRHYAKISD
+>5003
+PYKKMKGPEVM
+>5016
+SQYFKKLFTSG
+>5019
+GLLKIKTEPLD
+>5020
+NLTFIKKEFSN
+>5021
+IFSRLSISDD
+>5022
+FPRRHSVTLPS
+>5024
+RDRSFSEGGER
+>5025
+LQHSFSFAGFP
+>5029
+QPGVDSLSPVA
+>5030
+GVDSLSPVASL
+>5031
+LSPVASLPKQI
+>5032
+VDLHTSGEHSE
+>5036
+ASSQVKREDTL
+>5037
+LLSRIKQEEHQ
+>5038
+ILSWIKQEEQP
+>5039
+YLSEVKEERDD
+>5040
+RTRAYSGSDLP
+>5041
+RPQEQSTGDTM
+>5042
+PQEQSTGDTMG
+>5043
+RDPGVSFKAVG
+>5045
+PREKVSSIDLE
+>5046
+NFHSFSREKKR
+>5055
+DNNSNSVCSDA
+>5064
+LSASGSFRNDS
+>5076
+LVKSLSASSFL
+>5088
+TPSHYTV
+>5100
+KGHVESVVKLK
+>5112
+LRRSRSAPRGD
+>5113
+PMGAMSPTFPM
+>5114
+PMFPPSPVYGA
+>5115
+NISVVTLESIE
+>5116
+MAGLRKPVMPL
+>5117
+GMAPPKDDHEL
+>5118
+HELNSKIKDLE
+>5119
+LNSKIKDLETD
+>5120
+LKRSNSAIEFD
+>5121
+SNRSASSEQDN
+>5122
+RAKSQTDVVSA
+>5123
+RVAELTDRISS
+>5124
+NTSLRTEAIKW
+>5125
+QSDELTVLKQR
+>5127
+HSRARSSPASL
+>5128
+KDPDEYDHLDY
+>5132
+VKKKWSFRSIS
+>5133
+KWSFRSISFGK
+>5134
+SFRSISFGKKD
+>5135
+HNAISSVS
+>5136
+AISSVS
+>5141
+QGRGRRRPLNE
+>5142
+ADDQGRGRRRP
+>5143
+DQGRGRRRPLN
+>5144
+GRGRRRPLNED
+>5145
+VEIGPTPQVYG
+>5146
+NGSILSSSDTS
+>5147
+SSSDTSEEEQE
+>5148
+NILQRTPLRSN
+>5149
+LENDSTEEASS
+>5150
+SSSLETEDEEV
+>5151
+KKKVVSPIKPL
+>5152
+PIKPLSPSRRP
+>5153
+KPLSPSRRPPL
+>5154
+EELSLTQLFEV
+>5155
+LFEVPSQAAFA

intermediate/seqwindows.fasta ADDED Viewed

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