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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
SKNVVIYADGVYDMLHLGHMKQLEQAKKLFENTTLIVGVTSDNETKLFKGQVVQTLEERTETLKHIRWVDEIISPCPWVV
TPEFLEKYKIDYVAHDDIYAWLKRAGKFKATQRTEGVSTTDLIVRILKNY

The query sequence (length=130) 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 4zcs:A 141 139 0.9923 0.9149 0.9281 6.00e-91 7pui:A, 7pve:A, 7pvf:A, 7pvg:A, 7py9:A, 7pya:A, 7pyb:A, 7pyc:A, 7q2i:A, 7q2k:A, 7q2l:A, 7q2m:A, 7q2v:A, 7q3m:A, 7q3w:A, 7q9v:A, 7q9w:A, 7qa7:A, 7qad:A, 7qd3:A, 7qvn:A, 7qvo:A, 7z9v:A, 4zcp:A, 4zcq:A, 4zcr:A, 4zcs:C, 4zcs:E, 4zcs:B, 4zcs:D, 4zcs:F
2 4mvd:B 253 139 0.5308 0.2727 0.4964 2.30e-45 3hl4:A, 3hl4:B, 4mvc:A, 4mvc:B, 4mvd:A, 4mvd:D, 4mvd:C, 4mvd:F, 4mvd:E, 4mvd:H, 4mvd:G
3 4xsv:A 306 136 0.4385 0.1863 0.4191 4.14e-30 3elb:A
4 4xsv:A 306 139 0.3769 0.1601 0.3525 1.62e-18 3elb:A
5 1coz:A 126 125 0.3231 0.3333 0.3360 2.12e-11 1coz:B, 1n1d:A, 1n1d:B, 1n1d:C, 1n1d:D
6 3glv:B 122 36 0.1154 0.1230 0.4167 0.003
7 5x3d:A 126 93 0.1769 0.1825 0.2473 0.006
8 1s4m:A 277 87 0.2077 0.0975 0.3103 0.42 1s4m:B, 1t6x:A, 1t6x:B, 1t6y:A, 1t6y:B, 1t6z:A, 1t6z:B
9 5ts2:A 165 67 0.1385 0.1091 0.2687 0.89 4ruk:A, 4ruk:F, 4ruk:B, 4ruk:E, 4ruk:C, 4ruk:D, 5ts2:B, 5ts2:C, 5ts2:D, 5ts2:E, 5ts2:F, 3x1j:A, 3x1j:C, 3x1j:B, 3x1k:A, 3x1k:B, 3x1k:C, 3x1k:D, 3x1k:E, 3x1k:F, 3x1m:A, 3x1m:C, 3x1m:B
10 1od6:A 155 33 0.1000 0.0839 0.3939 2.5
11 3iu7:A 284 54 0.1769 0.0810 0.4259 2.6 4iec:A, 4if7:A, 3iu8:A, 3iu9:A, 4ook:A, 3pka:A, 3pkb:A, 3pkc:A, 3pkd:A, 3pke:A, 3ror:A, 1yj3:A, 5yoh:A, 5yoi:A, 5ypd:A, 5ypj:A, 5yxf:A
12 2rvn:A 83 44 0.1154 0.1807 0.3409 2.8
13 2pbj:A 274 87 0.2000 0.0949 0.2989 3.7 2pbj:B, 2pbj:C, 2pbj:D, 1z9h:A, 1z9h:B, 1z9h:C, 1z9h:D
14 8w2h:A 761 48 0.1154 0.0197 0.3125 4.1 7lw1:A, 7lw1:D, 7lw1:E, 7lw1:F, 8w2g:A, 8w2g:B, 8w2g:D, 8w2g:C, 8w2h:B, 8w2h:C, 8w2h:D, 8w2j:E, 8w2j:F, 8w2j:G, 8w2j:H, 8w2j:A, 8w2j:B, 8w2j:C, 8w2j:D
15 6gyf:B 366 64 0.1538 0.0546 0.3125 4.4 6gye:A, 6gye:B, 6gyf:A, 6gzo:A, 6gzo:B
16 3nd6:A 152 60 0.1154 0.0987 0.2500 4.8 3nd6:B, 3nd6:C, 3nd6:D, 3nd6:E, 3nd6:F, 3nd7:A, 3nd7:B, 3nd7:C, 3nd7:D, 3nd7:E, 3nd7:F
17 4bkm:A 304 66 0.1308 0.0559 0.2576 6.3 4bkm:B, 4bkm:C, 4bkm:D

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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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