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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
NRFTVAELKQLVARPDVVEMHDVTAQDPKLLVHLKATRNSVPVPRHWCFKRKYLQGKRGIEKPPFELPDFIKRTGIIDYQ
KLHDAFFKWQTKPKLTIHGDLYYEGKEFETRLKKPGDLSDELRISLGMPVGPNAHKVPPPWLIAMQRYGPPPSYPNLKIP
GLNSPIPESCSFGKPLYGDVF

The query sequence (length=181) 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 8i0r:2 250 230 1.0000 0.7240 0.7870 6.68e-122 8ch6:E, 6ff4:8, 6ff7:8, 8i0p:2, 8i0s:2, 8i0t:2, 8i0u:2, 8i0v:2, 8qo9:B2, 7qtt:E, 6qx9:B2, 8qxd:B2, 8r08:B2, 8r0a:B2, 8r0b:B2
2 7vpx:2 187 184 0.9282 0.8984 0.9130 2.09e-116 7evo:2, 8hk1:2, 7onb:I, 7q4o:B, 7q4p:B, 6y50:8
3 7dvq:2 216 204 0.8729 0.7315 0.7745 1.08e-103 7abh:T, 7abi:T, 8y7e:2, 5z56:2, 5z57:2, 5z58:2
4 7q3l:B 110 111 0.5304 0.8727 0.8649 6.37e-62
5 7dco:2 220 217 0.4365 0.3591 0.3641 1.12e-33 6g90:Q, 5gm6:H, 5nrl:Q, 5zwm:2
6 1gxu:A 88 28 0.0608 0.1250 0.3929 0.16
7 7s7b:F 352 54 0.1050 0.0540 0.3519 0.41 7s7b:B, 7s7c:B
8 6qmu:A 184 65 0.0994 0.0978 0.2769 8.4 3by0:A, 3by0:B, 3by0:C, 3cbc:A, 3cbc:B, 3cbc:C, 3cmp:A, 3cmp:B, 3cmp:C, 1dfv:A, 1dfv:B, 3fw4:A, 3fw4:C, 3fw5:A, 3fw5:B, 3fw5:C, 3hwe:A, 3hwe:B, 3hwe:C, 3hwf:A, 3hwf:B, 3hwf:C, 3hwg:A, 3hwg:B, 3hwg:C, 3i0a:A, 3i0a:B, 3i0a:C, 4k19:A, 4k19:B, 4k19:C, 3k3l:A, 3k3l:C, 5khp:A, 5khp:B, 5khp:C, 5kic:A, 5kic:B, 5kic:C, 5kid:A, 5kid:B, 5kid:C, 1l6m:A, 1l6m:B, 1l6m:C, 4mvi:A, 4mvk:A, 4mvl:A, 4mvl:B, 4mvl:C, 4mvl:D, 3pec:C, 3ped:A, 3ped:B, 3ped:C, 6qmu:B, 3t1d:A, 3t1d:B, 3t1d:C, 3tf6:A, 3tf6:B, 3tf6:C, 3tzs:A, 3tzs:B, 3tzs:C, 3u0d:A, 3u0d:B, 3u0d:C, 3u0d:D, 8uyn:A, 8uyn:B, 8uyn:C, 8uz9:A, 8uz9:B, 8uz9:C, 1x71:A, 1x71:B, 1x71:C, 1x89:A, 1x89:B, 1x89:C, 1x8u:A, 1x8u:B, 1x8u:C, 4zfx:A, 4zfx:C, 4zhc:A, 4zhc:B, 4zhc:C, 4zhd:A, 4zhd:B, 4zhd:C, 4zhf:A, 4zhf:B, 4zhf:C, 4zhf:D, 4zhf:E, 4zhf:F, 4zhg:A, 4zhg:B, 4zhg:C, 4zhg:D, 4zhg:E, 4zhg:F, 4zhh:A, 4zhh:B, 4zhh:C, 4zhh:D, 4zhh:E, 4zhh:F
9 7f79:C 458 43 0.0773 0.0306 0.3256 8.8 7f79:A, 7f79:B, 7f79:D, 7f79:E, 7f79:F
10 2je9:A 238 50 0.0884 0.0672 0.3200 9.3 3a0k:A, 3a0k:C, 3a0k:E, 3a0k:G, 3ax4:A, 6cj9:A, 1dgl:A, 1dgl:B, 2gdf:B, 2gdf:D, 1h9p:A, 1h9w:A, 1h9w:B, 2jdz:A, 2je7:A, 2je9:B, 2je9:C, 2je9:D, 2jec:A, 2jec:B, 2jec:C, 2jec:D, 7ljg:A, 7ljg:B, 4mye:A, 4not:A, 3rrd:A, 3rs6:A, 3sh3:A, 5tg3:A, 5tg3:B, 5tg3:C, 5tg3:D, 5uuy:A, 8ux7:A, 8ux7:B, 4z8b:A, 2zbj:A

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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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