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I-TASSER I-TASSER-MTD C-I-TASSER CR-I-TASSER QUARK C-QUARK LOMETS MUSTER CEthreader SEGMER DeepFold DeepFoldRNA FoldDesign COFACTOR COACH MetaGO TripletGO IonCom FG-MD ModRefiner REMO DEMO DEMO-EM DMFold SPRING COTH Threpp PEPPI BSpred ANGLOR EDock BSP-SLIM SAXSTER FUpred ThreaDom ThreaDomEx EvoDesign BindProf BindProfX SSIPe GPCR-I-TASSER MAGELLAN ResQ STRUM DAMpred

TM-score TM-align US-align MM-align RNA-align NW-align LS-align EDTSurf MVP MVP-Fit SPICKER HAAD PSSpred 3DRobot MR-REX I-TASSER-MR SVMSEQ NeBcon ResPRE TripletRes DeepPotential WDL-RF ATPbind DockRMSD DeepMSA FASPR EM-Refiner GPU-I-TASSER

BioLiP E. coli GLASS GPCR-HGmod GPCR-RD GPCR-EXP Tara-3D TM-fold DECOYS POTENTIAL RW/RWplus EvoEF HPSF THE-DB ADDRESS Alpaca-Antibody CASP7 CASP8 CASP9 CASP10 CASP11 CASP12 CASP13 CASP14

BioLiP
>protein
QVPDPNQGLRAEWMRGALGMLWLPERTFNGNIEGIRIDDFLTQIKDIRTVDYVQLPLTSPNIFSPTHVAPHPIIESLWQG
DTDANGDPINLVAPRESVDDPLLSWLKALRAAGLRTEIYVNSYNLLARIPEDTQADYPDVSARWMEWCDTNTEAQAFINS
QTYHEGNGRRKYMFCYAEFILKEYAQRYGDLIDAWCFDSADNVMEDECGDDPASEDVNDQRIYQAFADACHAGNPNAAIA
FNNSVGDREGNPFTSATLFDDYTFGHPFGGAGNMVVPEALYTYNHDLVVFMQTNNGYAFRDDTRTWNDNVVAHFFPKQST
TSWNAGNTPCLTDEQFVEWTSTGIVNGGGITWGTPLVRTNLENAPVLTLQPYALNQFELTDTYLKEFQSPGKPNWSRQYT
ILPAIYPGQPYSHNLVEGVDFWDPEGVGITGLTASGTLPAWLTISQTATGTWTLSGTPPVSEASNYTFELMAQDSDGVTN
REVKLEVISHPAGFTNPGDGTPVWFSNPMVLAKATALKDYGSLLKLGVDFYDFEGDVLTITKTSGPDWLVLTQNSDDTWR
LSGMPTAADAGENSFTFNVSDGILSSDTEIKITVDHVAGFTNLGNGAPVWSSPILNLTDGKGSFAYNYTLQLGTDYYDFE
GDALTITKTSGPDWLTIQQTDANSWKLSGTPINSDAGENSFTFNLSDDTNSTTAEILINVIATI

The query sequence (length=704) is searched through a non-redundant set of database sequences protein_nr.fasta.gz clustered at 90% identity cutoff to identify representative hits. Homologs that belong to the same sequence cluster of the representative hit are listed in the last column of the table.

# Hit Hit
length
Aligned
length
Identity
(normalized by query)
Identity
(normalized by hit)
Identity (normalized
by aligned length)
E-value Homologs
to hit
1 6dlh:A 704 704 1.0000 1.0000 1.0000 0.0 6dms:A, 6dns:A
2 1kop:A 223 96 0.0384 0.1211 0.2812 0.16 8dpc:A, 8dpc:C, 8dpc:E, 8dpc:G, 8dpo:A, 8dpo:C, 8dpo:E, 8dpo:G, 8dqf:A, 8dqf:C, 8dqf:E, 8dqf:G, 8dr2:A, 8dr2:C, 8dr2:E, 8dr2:G, 8drb:A, 8drb:C, 8drb:E, 8drb:G, 8dyq:A, 8dyq:C, 8dyq:E, 8dyq:G, 1kop:B, 1koq:A, 1koq:B
3 5djq:B 197 79 0.0355 0.1269 0.3165 1.3 5djq:E, 5djq:H, 5djq:L, 3mk7:B, 3mk7:E, 3mk7:H, 3mk7:L
4 8smr:F 200 79 0.0327 0.1150 0.2911 2.7 8snh:F
5 6t7j:B 632 111 0.0355 0.0396 0.2252 5.9 6t7j:A, 6t7j:D
6 1hlv:A 131 57 0.0227 0.1221 0.2807 6.6
7 2d0f:A 637 76 0.0341 0.0377 0.3158 7.5 2d0g:A, 2d0h:A, 1izj:A, 1izk:A, 1ji1:A, 1ji1:B, 1uh2:A, 1uh3:A, 1uh4:A, 5z0t:A, 5z0t:B, 5z0u:A
8 5l4g:L 389 41 0.0199 0.0360 0.3415 8.8 5gjq:L, 5gjr:L, 5gjr:z, 5m32:f, 6msb:E, 6msd:E, 6mse:E, 6msg:E, 6msh:E, 6msj:E, 7qxn:E, 7qxp:E, 7qxu:E, 7qxw:E, 7qxx:E, 7qy7:E, 7qya:E, 5t0c:AE, 5t0c:BE, 5t0g:E, 5t0h:E, 5t0i:E, 5t0j:E, 5vfp:E, 5vfr:E, 5vfs:E, 7w37:E, 7w38:E, 7w39:E, 7w3a:E, 7w3b:E, 7w3c:E, 7w3f:E, 7w3i:E, 7w3j:E, 7w3k:E, 7w3m:E, 6wjd:E, 6wjn:E

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Reference:
  • Chengxin Zhang, Xi Zhang, Peter L Freddolino, and Yang Zhang. BioLiP2: an updated structure database for biologically relevent ligand-protein interactions, Nucleic Acids Research, gkad630 (2023).
  • Jianyi Yang, Ambrish Roy, and Yang Zhang. BioLiP: a semi-manually curated database for biologically relevant ligand-protein interactions, Nucleic Acids Research, 41: D1096-D1103 (2013) (download the PDF file).
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