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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
PKPYVAINMAELKNEPKTFEMFASVGPKVCMVTARHPGFVGFQNHWQIGILPFGNRYGGAKMDMTKESSTVRVLQYTFWK
DWKDHEEMHRQNWSYLFRLCYSCASQMIWGPWEPIYEIIYANMPINTEMTDFTAVVGKKFAEGKPLDIPVISQPYGKRVV
AFAEHSVIPGKEKQFEDAIVRTLEMLKKAPGFLGAMVLKEIGVSGIGSMQFGAKGFHQVLENPGSLEPDPNNVMYSVPEA
KNTPQQYIVHVEWANTDALMFGMGRVLLYPELRQVHDEVLDTLVYGPYIRILNPMMEGTFWREYLNE

The query sequence (length=307) 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 2cb2:A 307 307 0.9967 0.9967 0.9967 0.0 2cb2:B, 2cb2:C, 2cb2:D, 2cb2:E, 2cb2:F, 6qjc:A, 6qjc:B, 6qjc:C, 6qjc:D, 6qka:A, 6qka:B, 6qka:C, 6qka:D, 6qka:E, 6qka:F, 6qkm:A, 6qkm:B, 6qkm:C, 6qkm:D, 6qkm:E, 6qkm:F, 6qne:A, 6qne:B, 6qne:C, 6qne:D, 6qne:E, 6qne:F, 6qo0:A, 6qo0:B, 6qo0:C, 6qo0:D, 7x9w:A, 7x9w:B, 7x9w:C, 7x9w:D, 7x9w:E, 7x9w:F, 7x9w:G, 7x9w:H, 7x9w:I, 7x9w:J, 7x9w:K, 7x9w:L, 7x9w:M, 7x9w:N, 7x9w:O, 7x9w:P, 7x9w:Q, 7x9w:R, 7x9w:S, 7x9w:T, 7x9w:U, 7x9w:V, 7x9w:W, 7x9w:X, 2yav:A, 2yav:B, 2yav:C, 2yav:D, 2yav:E, 2yav:F, 2yaw:A, 2yaw:B, 2yaw:C, 2yaw:D, 2yaw:E, 2yaw:F, 2yax:A, 2yax:B, 2yax:C, 2yax:D, 2yax:E, 2yax:F
2 3bxv:A 308 307 0.8762 0.8734 0.8762 0.0
3 6m35:A 310 308 0.6938 0.6871 0.6916 7.44e-170 6m35:B, 6m35:C, 6m35:D, 6m35:E, 6m35:F, 6m35:G, 6m35:H, 6m3x:A, 6m3x:B, 6m3x:C, 6m3x:D, 6m3x:E, 6m3x:F, 6m3x:G, 6m3x:H, 6m3x:I, 6m3x:J, 6m3x:K, 6m3x:L, 6m3x:M, 6m3x:N, 6m3x:O, 6m3x:P, 6m3x:Q, 6m3x:R, 6m3x:S, 6m3x:T, 6m3x:U, 6m3x:V, 6m3x:W, 6m3x:X
4 6qpa:A 310 311 0.4072 0.4032 0.4019 3.92e-78 6qpa:B, 6qpa:C, 6qpa:D, 6qpa:E, 6qpa:F, 6qpa:G, 6qpa:H, 6qpa:I, 6qpa:J, 6qpa:K, 6qpa:L, 6qpa:M, 6qpa:N, 6qpa:O, 6qpa:P, 6qpa:Q, 6qpa:R, 6qpa:T, 6qpa:U, 6qpa:V, 6qpa:W, 6qpa:Y, 6qpa:Z
5 8euy:H 155 74 0.0586 0.1161 0.2432 1.8
6 3m5p:A 542 88 0.0782 0.0443 0.2727 2.8 3q7i:A, 3q88:A
7 8esq:H 183 78 0.0619 0.1038 0.2436 3.7 8esr:H, 8etc:H, 8etg:H, 8eti:H, 8etj:H, 8eug:H, 8eui:H, 8eup:H, 8ev3:H
8 3lvm:B 394 101 0.0814 0.0635 0.2475 5.2 3lvj:A, 3lvj:B, 3lvk:A, 3lvl:B, 3lvm:A, 1p3w:B, 1p3w: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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