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data/validation_sequences.csv

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+target_id,sequence,temporal_cutoff,description,all_sequences
+R1107,GGGGGCCACAGCAGAAGCGUUCACGUCGCAGCCCCUGUCAGCCAUUGCACUCCGGCUGCGAAUUCUGCU,2022-05-28,"CPEB3 ribozyme
+Human
+human CPEB3 HDV-like ribozyme",">7QR4_1|Chain A|U1 small nuclear ribonucleoprotein A|Homo sapiens (9606)
+RPNHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKMRGQAFVIFKEVSSATNALRSMQGFPFYDKPMRIQYAKTDSDIIAKM
+>7QR4_2|Chain B|RNA CPEB3 ribozyme|Homo sapiens (9606)
+GGGGGCCACAGCAGAAGCGUUCACGUCGCAGCCCCUGUCAGCCAUUGCACUCCGGCUGCGAAUUCUGCU"
+R1108,GGGGGCCACAGCAGAAGCGUUCACGUCGCGGCCCCUGUCAGCCAUUGCACUCCGGCUGCGAAUUCUGCU,2022-05-27,"CPEB3 ribozyme
+Chimpanzee
+Chimpanzee CPEB3 HDV-like ribozyme",">7QR3_1|Chains A, B|U1 small nuclear ribonucleoprotein A|Homo sapiens (9606)
+RPNHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKMRGQAFVIFKEVSSATNALRSMQGFPFYDKPMRIQYAKTDSDIIAKM
+>7QR3_2|Chains C, D|chimpanzee CPEB3 ribozyme|Pan troglodytes (9598)
+GGGGGCCACAGCAGAAGCGUUCACGUCGCGGCCCCUGUCAGCCAUUGCACUCCGGCUGCGAAUUCUGCU"
+R1116,CGCCCGGAUAGCUCAGUCGGUAGAGCAGCGGCUAAAACAGCUCUGGGGUUGUACCCACCCCAGAGGCCCACGUGGCGGCUAGUACUCCGGUAUUGCGGUACCCUUGUACGCCUGUUUUAGCCGCGGGUCCAGGGUUCAAGUCCCUGUUCGGGCGCCA,2022-06-04,"Cloverleaf RNA
+Poliovirus
+Crystal Structure of Poliovirus (type 1 Mahoney) cloverleaf RNA with tRNA scaffold",">8S95_1|Chain A[auth C]|Lysine tRNA scaffold,Poliovirus cloverleaf RNA|Homo sapiens (9606)
+CGCCCGGAUAGCUCAGUCGGUAGAGCAGCGGCUAAAACAGCUCUGGGGUUGUACCCACCCCAGAGGCCCACGUGGCGGCUAGUACUCCGGUAUUGCGGUACCCUUGUACGCCUGUUUUAGCCGCGGGUCCAGGGUUCAAGUCCCUGUUCGGGCGCCA"
+R1117v2,UUGGGUUCCCUCACCCCAAUCAUAAAAAGG,2022-06-03,"PreQ1 class I type III riboswitch
+K. pneumoniae
+Additional Information:        This is a ligand-only target (re-release of R1117 with the corrected SMILES string).
+ID  Name    SMILES  Relevant
+001 PRF NCc1c[nH]c2nc(N)[nH]c(=O)c12    Yes
+Class I type III preQ1 riboswitch from E. coli",">8FZA_1|Chains A, B|PreQ1 Riboswitch (30-MER)|Escherichia coli (562)
+UUGGGUUCCCUCACCCCAAUCAUAAAAAGG"
+R1126,GGAAUCUCGCCCGAUGUUCGCAUCGGGAUUUGCAGGUCCAUGGAUUACACCAUGCAACGCAGACCUGUAGAUGCCACGCUAGCCGUGGUGAGGGUCGGGUCCAGAUGUCAUUCGACUUUAACGCGCCUAAGCGUUGAAGGCGUGUUAGAGCAGAUAGUUCGCUAUCUGGGGAGCCUGUUCGCAGGCUCAGGAGCCUUCGGGCUCCUAGCGCUAUUACCCCGGACACCACCGGGCAGACAAGUAAUGGUGCUCCUCGAAUGACUUCUGUUGAGUAGAGUGUGGGCUCCGCGGCUAGUGUGCACCUUAGCGGUGAAUGUCUGACACCGUUAAGGUGGUUACUCUUCGGAGUAACGCCGAGAUUCC,2022-06-11,"Traptamer
+Synthetic
+Additional Information: Contains a relevant ion.
+RNA origami 3-helix tile Traptamer",">8TVZ_1|Chain A[auth C]|RNA (363-MER)|synthetic construct (32630)
+GGAAUCUCGCCCGAUGUUCGCAUCGGGAUUUGCAGGUCCAUGGAUUACACCAUGCAACGCAGACCUGUAGAUGCCACGCUAGCCGUGGUGAGGGUCGGGUCCAGAUGUCAUUCGACUUUAACGCGCCUAAGCGUUGAAGGCGUGUUAGAGCAGAUAGUUCGCUAUCUGGGGAGCCUGUUCGCAGGCUCAGGAGCCUUCGGGCUCCUAGCGCUAUUACCCCGGACACCACCGGGCAGACAAGUAAUGGUGCUCCUCGAAUGACUUCUGUUGAGUAGAGUGUGGGCUCCGCGGCUAGUGUGCACCUUAGCGGUGAAUGUCUGACACCGUUAAGGUGGUUACUCUUCGGAGUAACGCCGAGAUUCC"
+R1128,GGAAUAUCGUCAUGGUGAUUCGUCACCAUGAGGCUAGAUCUCAUAUCUAGCGCUUUCGAGCGCUAGAGUCCUUAUCUAGCCGGUUUAUACUUUCGAGUGUGAACCCGAUAUUCCGCGGAUCACUAUGAGUCGUUCGCGGCUCAUAGUCCGGCUCAAAGGACAUCAUGGCCUGUUCGCAGGUUGUGAUUAUGAGUGAGCCGGGUAAGGCAUACCGUUCGCGGUAUGUCUUACGAUCCGC,2022-06-10,"6WJ
+Single-stranded Paranemic Crossover RNA Triangle (PXT)",">8BTZ_1|Chain A|RNA Paranemic croosover triangle (PXT)|synthetic construct (32630)
+GGAAUAUCGUCAUGGUGAUUCGUCACCAUGAGGCUAGAUCUCAUAUCUAGCGCUUUCGAGCGCUAGAGUCCUUAUCUAGCCGGUUUAUACUUUCGAGUGUGAACCCGAUAUUCCGCGGAUCACUAUGAGUCGUUCGCGGCUCAUAGUCCGGCUCAAAGGACAUCAUGGCCUGUUCGCAGGUUGUGAUUAUGAGUGAGCCGGGUAAGGCAUACCGUUCGCGGUAUGUCUUACGAUCCGC"
+R1136,GGAUACGUCUACGCUCAGUGACGGACUCUCUUCGGAGAGUCUGACAUCCGAACCAUACACGGAUGUGCCUCGCCGAACAGUCUACGGCGAGCUUAAGCGCUGGGGACGCCCAACGCAUCACAAAGACUGAGUGAUGAACCAGAAGUAUGGACUGGUUGCGUUGGUGGAGACGGUCGGGUCCAGUUCGCUGUCGAGUAGAGUGUGGGCUCCAUCGACGCCGCUUUAAGGUCCCCAAUCGUGGCGUGUCGGCCUGCUUCGGCAGGCACUGGCGCCGGGACCUUGAAGAGAUGAGAUUUCGAUCUCAUCUUUGGGUGUCUCUGGUGCUUGAGGGCCCUGUGUUCGCACAGGGCCGCUCACUGGGUGUGGACGUAUCC,2022-06-18,"Apta-FRET
+Additional Information:        Information about the bound ligand is provided in SMILES section below.
+ID        Name        SMILES        Relevant
+001        1TU        Cc1nc(Cc2cc(F)c(O)c(F)c2)c(O)n1C        Yes
+002        J93        CN(CCO)c1cc2sc(/C=C(\C#N)c3ccc(C#N)cc3)cc2s1        Yes
+003        K        [K+]        Yes
+Ligand bound state of a brocolli-pepper aptamer FRET tile",">7ZJ4_1|Chain A[auth E]|brocolli-pepper aptamer|synthetic construct (32630)
+GGAUACGUCUACGCUCAGUGACGGACUCUCUUCGGAGAGUCUGACAUCCGAACCAUACACGGAUGUGCCUCGCCGAACAGUCUACGGCGAGCUUAAGCGCUGGGGACGCCCAACGCAUCACAAAGACUGAGUGAUGAACCAGAAGUAUGGACUGGUUGCGUUGGUGGAGACGGUCGGGUCCAGUUCGCUGUCGAGUAGAGUGUGGGCUCCAUCGACGCCGCUUUAAGGUCCCCAAUCGUGGCGUGUCGGCCUGCUUCGGCAGGCACUGGCGCCGGGACCUUGAAGAGAUGAGAUUUCGAUCUCAUCUUUGGGUGUCUCUGGUGCUUGAGGGCCCUGUGUUCGCACAGGGCCGCUCACUGGGUGUGGACGUAUCC"
+R1138,GGGAGAGUACUAUUCAGAUGCAGACCGCAAGUUCAGAGCGGUUUGCAUCUAGGGUACGUUUUCGAACGUAUCCUCCGACUAAGUGUAUUCGUAUACUUAGUGCCUUGUGCCUGCUUCGGCAGGCAUGACCCAAAUGUGCCUUUCGGGGCACAUUUCCGGUCAUCCAAGUUCGCUUGGGUGAUGCGGGCGUAUAGGUUCGUCUAUACGUCCGCGUUUUCCGAGAAGAGGUAACUCGGGAAACCGGUCCACGUGACAAAGGUAGAGUUACGUGGAGGGAGCAGCUGCAAAGGGAUAAUGCAGUUGCUGGCUGGAUGCCAGAACUCACGACUGGCAUCUACGGGGAUGGUGCUCUCCCAAUUCUCCAUUUACCGCCGAAUCGACCCCAACGUGAGAGGGGUCGGUUCCCCGAGCAUAGACCAAUAUCCCAGGUUUAUGCUCCCCAACGCUGGACGAACUACCUACGUCUAGCGUUCCGGCAAAUGAGUCAAUACCUCAGACUUAUUUGCGGUGCCUGAGCCUAAACUGAACAUGGGUUCAGGCAUCUUGGCUCCAGUUCGCUGGAGCCGACGGUAGCGCUGCGUUCGCGCAGUGCUAGGGAGCAUCCGUUUUCGAGCGGAUGCUGGGCGGUUGCCUGUUCGCAGGCAAUCGGGCCUACUCAUGAUUCGUCAUGAGUGGUGACAGCGUGAUGUUCGCAUUACGCUGUCGGGUAGAUGGAGAAUU,2022-06-24,"6HBC-Young
+Additional Information:        This is a co-transcriptional product. The structure observed in the cryo-EM grids immediately after the transcription and that around 8 hours later have alternative conformations. You can submit alternative conformations as separate models (we still stick to 5 models per target maximum).
+Young conformer of a 6-helix bundle of RNA with clasp",">7PTK_1|Chain A[auth B]|RNA|synthetic construct (32630)
+GGGAGAGUACUAUUCAGAUGCAGACCGCAAGUUCAGAGCGGUUUGCAUCUAGGGUACGUUUUCGAACGUAUCCUCCGACUAAGUGUAUUCGUAUACUUAGUGCCUUGUGCCUGCUUCGGCAGGCAUGACCCAAAUGUGCCUUUCGGGGCACAUUUCCGGUCAUCCAAGUUCGCUUGGGUGAUGCGGGCGUAUAGGUUCGUCUAUACGUCCGCGUUUUCCGAGAAGAGGUAACUCGGGAAACCGGUCCACGUGACAAAGGUAGAGUUACGUGGAGGGAGCAGCUGCAAAGGGAUAAUGCAGUUGCUGGCUGGAUGCCAGAACUCACGACUGGCAUCUACGGGGAUGGUGCUCUCCCAAUUCUCCAUUUACCGCCGAAUCGACCCCAACGUGAGAGGGGUCGGUUCCCCGAGCAUAGACCAAUAUCCCAGGUUUAUGCUCCCCAACGCUGGACGAACUACCUACGUCUAGCGUUCCGGCAAAUGAGUCAAUACCUCAGACUUAUUUGCGGUGCCUGAGCCUAAACUGAACAUGGGUUCAGGCAUCUUGGCUCCAGUUCGCUGGAGCCGACGGUAGCGCUGCGUUCGCGCAGUGCUAGGGAGCAUCCGUUUUCGAGCGGAUGCUGGGCGGUUGCCUGUUCGCAGGCAAUCGGGCCUACUCAUGAUUCGUCAUGAGUGGUGACAGCGUGAUGUUCGCAUUACGCUGUCGGGUAGAUGGAGAAUU"
+R1149,GGACACGAGUAACUCGUCUAUCUUCUGCAGGCUGCUUACGGUUUCGUCCGUGUUGCAGCCGAUCAUCAGCACAUCUAGGUUUCGUCCGGGUGUGACCGAAAGGUAAGAUGGAGAGCCUUGUCCC,2022-07-02,"SARS-CoV-2 SL5
+Additional Information:        Alternative conformations present.
+SARS-CoV-2 5 proximal stem-loop 5",">8UYS_1|Chain A|SARS-CoV-2 RNA SL5 domain.|Severe acute respiratory syndrome coronavirus 2 (2697049)
+GGACACGAGUAACUCGUCUAUCUUCUGCAGGCUGCUUACGGUUUCGUCCGUGUUGCAGCCGAUCAUCAGCACAUCUAGGUUUCGUCCGGGUGUGACCGAAAGGUAAGAUGGAGAGCCUUGUCCC"
+R1156,GGAGCAUCGUGUCUCAAGUGCUUCACGGUCACAAUAUACCGUUUCGUCGGGUGCGUGGCAAUUCGGUGCACAUCAUGUCUUUCGUGGCUGGUGUGGCUCCUCAAGGUGCGAGGGGCAAGUAUAGAGCAGAGCUCC,2022-07-07,"BtCoV-HKU5 SL5
+BtCoV-HKU5 5 proximal stem-loop 5, conformation 1",">8UYE_1|Chain A|BtCoV-HKU5 5' proximal stem-loop 5|Pipistrellus bat coronavirus HKU5 (694008)
+GGAGCAUCGUGUCUCAAGUGCUUCACGGUCACAAUAUACCGUUUCGUCGGGUGCGUGGCAAUUCGGUGCACAUCAUGUCUUUCGUGGCUGGUGUGGCUCCUCAAGGUGCGAGGGGCAAGUAUAGAGCAGAGCUCC"
+R1189,GCGUACAGGGAACACGCAACCCCGAAGGAUCGGGGAAGGGACGUCGCCAGGGAGGCGAUUCCAUCAGGAUGAUGACGAGGGACUGAAGAGUGGGCGGGGUAAUACCCCGCCCCUUUUU,2022-08-11,"A-6B
+Additional Information:        The T1189/R1189 and T1190/R1190 complexes represent alternative conformations corresponding to different particles in the same cryo-EM data set. The complexes contain one RNA molecule and several (4 or 6) protein molecules. The R1189/T1189 target pair represent the A1B6 complex, while the R1190/T1190 pair - A1B4 complex. Predictions for the corresponding RNA and protein targets should be submitted in the same frame of reference so that the concatenation of corresponding models, say, R1189TS000_1 and T1189TS000_1 will give a coordinate set for the full RNA-protein complex.
+Cryo-EM structure of Pseudomonas aeruginosa RsmZ RNA in complex with three RsmA protein dimers",">7YR7_1|Chains A[auth B], B[auth C], C[auth D], D[auth E], F, G|Translational regulator CsrA|Pseudomonas aeruginosa (287)
+MLILTRRVGETLMVGDDVTVTVLGVKGNQVRIGVNAPKEVAVHREEIYQRIQKEK
+>7YR7_2|Chain E[auth A]|RsmZ RNA (118-MER)|Pseudomonas aeruginosa (287)
+GCGUACAGGGAACACGCAACCCCGAAGGAUCGGGGAAGGGACGUCGCCAGGGAGGCGAUUCCAUCAGGAUGAUGACGAGGGACUGAAGAGUGGGCGGGGUAAUACCCCGCCCCUUUUU"
+R1190,GCGUACAGGGAACACGCAACCCCGAAGGAUCGGGGAAGGGACGUCGCCAGGGAGGCGAUUCCAUCAGGAUGAUGACGAGGGACUGAAGAGUGGGCGGGGUAAUACCCCGCCCCUUUUU,2022-08-11,"A-4B
+Additional Information:        The T1189/R1189 and T1190/R1190 complexes represent alternative conformations corresponding to different particles in the same cryo-EM data set. The complexes contain one RNA molecule and several (4 or 6) protein molecules. The R1189/T1189 target pair represent the A1B6 complex, while the R1190/T1190 pair - A1B4 complex. Predictions for the corresponding RNA and protein targets should be submitted in the same frame of reference so that the concatenation of corresponding models, say, R1189TS000_1 and T1189TS000_1 will give a coordinate set for the full RNA-protein complex.
+Cryo-EM structure of Pseudomonas aeruginosa RsmZ RNA in complex with two RsmA protein dimers",">7YR6_1|Chains A[auth B], B[auth C], C[auth D], D[auth E]|Translational regulator CsrA|Pseudomonas aeruginosa (287)
+MLILTRRVGETLMVGDDVTVTVLGVKGNQVRIGVNAPKEVAVHREEIYQRIQKEK
+>7YR6_2|Chain E[auth A]|RsmZ RNA|Pseudomonas aeruginosa (287)
+GCGUACAGGGAACACGCAACCCCGAAGGAUCGGGGAAGGGACGUCGCCAGGGAGGCGAUUCCAUCAGGAUGAUGACGAGGGACUGAAGAGUGGGCGGGGUAAUACCCCGCCCCUUUUU"