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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
PTLHILLQFNHRGLEARIFRHGQLWAETHAEVVLRSKTKQISFLSNGSYPSMDATTPLNPWKSTYQAVLRAEPHRVTMDV
YHKRIRPFRLPLVQKEWRTCEENVFGLYHVFETHYAGYFSDLLIH

The query sequence (length=125) 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 7nwt:BB 130 125 1.0000 0.9615 1.0000 5.68e-93 7nwt:AA, 7nwt:CC
2 4xjc:A 177 43 0.1200 0.0847 0.3488 0.13 4xjc:E, 4xjc:C, 4xjc:B, 4xjc:F, 4xjc:D
3 7kz3:D 439 52 0.1360 0.0387 0.3269 1.8 7kz5:A, 7kz5:B, 7kz5:C, 7kz5:D, 7kz6:A, 7kz6:B, 7kz6:C, 7kz6:D, 7kzd:A, 7kzd:B, 7kzd:C, 7kzd:D, 7kzd:E, 7kzd:H, 7kzd:F, 7kzd:G
4 7xjp:B 509 49 0.1120 0.0275 0.2857 2.1
5 8rg0:P 88 24 0.0800 0.1136 0.4167 7.7
6 8ifd:3L 140 24 0.0800 0.0714 0.4167 9.1 7a01:a5, 7a09:i, 5a2q:O, 5aj0:BO, 9bdl:AS14, 9bdn:AS14, 9bdp:AS14, 8bhf:P3, 9bkd:P, 9bln:P, 8btk:An, 7cpu:SO, 7cpv:SO, 4d5l:O, 4d61:O, 6d90:PP, 6d9j:PP, 9f1b:An, 9f1c:An, 9f1d:An, 6fec:j, 5flx:O, 6g18:O, 6g4s:O, 6g4w:O, 6g51:O, 6g53:O, 6g5h:O, 6g5i:O, 8g5y:SO, 8g5z:SO, 8g60:SO, 8g61:SO, 8g6j:SO, 8glp:SO, 6gz3:BO, 6gz4:BO, 6gz5:BO, 6hcf:P1, 6hcj:P2, 6hcm:P1, 6hcq:P2, 8ife:3L, 6ip5:3L, 6ip6:3L, 6ip8:3L, 8ip8:na, 8ip9:na, 8ipa:na, 8ipb:na, 3j7p:SO, 3j7r:SO, 3jag:OO, 3jah:OO, 3jai:OO, 3jaj:SO, 3jan:SO, 8jdj:AA, 8jdk:AA, 8jdl:AA, 8jdm:AA, 7jqb:X, 7jqc:X, 5k0y:j, 8k2c:SO, 7k5i:O, 4kzx:O, 4kzy:O, 4kzz:O, 5lks:SO, 7ls1:O3, 7ls2:O3, 5lzs:OO, 5lzt:OO, 5lzu:OO, 5lzv:OO, 5lzw:OO, 5lzx:OO, 5lzy:OO, 5lzz:OO, 7mdz:OO, 7mq8:NG, 7mq9:NG, 7mqa:NG, 6mtb:OO, 6mtc:OO, 6mtd:OO, 6mte:OO, 7nwg:P2, 7nwh:OO, 7nwi:OO, 7o7y:An, 7o7z:An, 7o80:An, 7o81:An, 5oa3:O, 6ole:SO, 6olf:SO, 6olg:BO, 6oli:SO, 6olz:BO, 7olc:SO, 7old:SO, 6om0:SO, 6om7:SO, 8oo0:SO, 5oql:t, 7oya:O2, 7oyb:O2, 7oyc:O2, 7oyd:OO, 8oz0:T, 8p03:Q, 8p09:Q, 8p2k:An, 6p4g:P, 6p4h:P, 6p5i:P, 6p5j:P, 6p5k:P, 6p5n:P, 8pj1:P, 8pj2:P, 8pj3:P, 8pj4:P, 8pj5:P, 8pj6:P, 8ppk:O, 8ppl:AO, 8q7z:An, 8q87:An, 7qgg:SO, 7qix:S, 7qiz:IA, 8qoi:SO, 7qp6:P, 7qp7:P, 7qvp:SO, 7qvp:RO, 6qzp:SO, 7r4x:O, 6r5q:MM, 6r6g:MM, 6r6p:MM, 6r7q:MM, 7r81:P2, 6rxt:Ci, 6rxu:Ci, 6rxv:Ci, 6rxx:Ci, 6rxy:Ci, 6rxz:Ci, 8scb:OO, 6sgc:P1, 7syg:P, 7syh:P, 7syi:P, 7syj:P, 7syk:P, 7syl:P, 7sym:P, 7syn:P, 7syo:P, 7syp:P, 7syq:P, 7syr:P, 7sys:P, 7syt:P, 7syu:P, 7syv:P, 7syw:P, 7syx:P, 5t2c:AO, 8t4s:O, 7toq:AS14, 7tor:AS14, 7tql:P, 7ucj:OO, 7uck:OO, 4ug0:SO, 4ujc:CO, 4ujd:CO, 4uje:BO, 4v3p:SK, 4v5z:Ak, 4v6w:AO, 4v6x:AO, 4v7e:BO, 5vyc:O1, 5vyc:O2, 5vyc:O3, 5vyc:O4, 5vyc:O5, 5vyc:O6, 6w2s:P, 6w2t:P, 7wts:O, 7wtt:O, 7wtu:O, 7wtv:O, 7wtw:O, 7wtx:O, 7wtz:O, 7wu0:O, 6xa1:SO, 7xnx:SO, 7xny:SO, 8xsx:SO, 8xsy:SO, 8xsz:SO, 6xu6:AO, 6xu7:AO, 6xu8:AO, 8xxl:SO, 8xxm:SO, 8xxn:SO, 6y0g:SO, 8y0w:SO, 8y0x:SO, 6y2l:SO, 6y57:SO, 6yal:Q, 6yam:Q, 6yan:Q, 6ybw:P, 8yoo:SO, 8yop:SO, 7z3n:SO, 7z3o:SO, 6z6l:SO, 6z6m:SO, 6z6n:SO, 7zjw:SZ, 7zjx:SZ, 6zlw:P, 6zm7:SO, 6zme:SO, 6zmi:SO, 6zmo:SO, 6zmt:P, 6zmw:P, 6zn5:P, 6zoj:O, 6zok:O, 6zon:i, 6zp4:i, 6zuo:O, 6zv6:O, 6zvh:O, 6zvj:i, 6zvk:a5, 6zxd:O, 6zxe:O, 6zxf:O, 6zxg:O, 6zxh:O
7 6fxr:A 700 25 0.0800 0.0143 0.4000 9.1 6fxk:A, 6fxm:A, 6fxt:A, 6fxx:A, 6fxy:A, 8one:A, 6te3:A, 6tec:A, 6tes:A, 6teu:A, 6tex:A, 6tez:A, 6wfv: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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