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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
SKRNKPGKATGKGKPVNNKWLNNAGKDLGSPVPDRIANKLRDKEFKSFQDFRKKFWEEVSKDPELSKQFSRNNNDRMKVG
KAPKTRTQDVSGKRTSFELHHEKPISQNGGVYDMDNISVVTPKRHIDIHRGK

The query sequence (length=132) 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 3fbd:A 132 132 1.0000 1.0000 1.0000 6.84e-95 7cei:B, 3fbd:D, 3gjn:B, 3gjn:C, 3gkl:A, 2ivh:A, 2jaz:B, 2jaz:D, 2jb0:B, 2jbg:B, 2jbg:D, 1m08:A, 1m08:B, 1mz8:B, 1mz8:D, 1pt3:A, 1pt3:B, 3zfk:A, 3zfk:B, 1zns:A, 1znv:B, 1znv:D
2 3u43:B 132 132 0.7424 0.7424 0.7424 1.41e-68
3 1fsj:B 134 132 0.6970 0.6866 0.6970 2.37e-62 1fr2:B, 1fsj:C, 1fsj:D, 1fsj:E, 2gyk:B, 2gyk:F, 2gze:B, 2gzf:B, 2gzg:B, 2gzi:B, 2gzj:B, 2gzj:F, 1v13:A, 1v13:B, 1v14:A, 1v14:B, 1v14:C, 1v14:D, 1v15:B, 1v15:D, 1v15:C
4 4qko:D 133 129 0.4924 0.4887 0.5039 7.35e-45 4qko:B, 4qko:F, 4qko:H
5 1v15:A 106 129 0.5455 0.6792 0.5581 4.14e-40
6 8qlg:A 624 22 0.0909 0.0192 0.5455 0.37 8qlg:B
7 8xop:A 178 49 0.1288 0.0955 0.3469 0.53 8xop:B, 8xop:C, 8xop:D, 8xop:E, 8xop:F, 8xop:G
8 3i58:A 328 19 0.0606 0.0244 0.4211 6.1 3i53:A, 3i53:B, 3i58:B, 3i5u:A, 3i5u:B, 3i64:A, 3i64:B
9 7moq:C 4159 23 0.0833 0.0026 0.4783 7.3 6zyy:C
10 6zyw:C 4433 23 0.0833 0.0025 0.4783 7.3
11 7mq8:SP 1993 55 0.1136 0.0075 0.2727 7.5 7mq9:SP
12 7mqa:SP 2485 55 0.1136 0.0060 0.2727 7.6
13 5l4g:L 389 40 0.1061 0.0360 0.3500 8.0 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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