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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
NFPRQMLPFSKKTKQWRKDCLLWANQKNYSLVRKSVIHKKINYDLLNGRLHMSDLELVLIKAAYIPDRLQHYPIMNSKLN
VLRGEESKRVFDFKVVVTNPNAISEIEDNKKNELLQRLQEMITDTSISEDEYNIKLEKLNDYYTYEWQDIREVRANELLN
HYIKEYDIPLIFNNGFMDAMTCGEEIYQCDIVGGEPVIERVNPLKIRIFKSGYSNKVEDADMIILEDYWSPGRVIDTYYD
VLSPKDIKYIETMPDYAGNLRVLRLYWKSKRKILKVKSYDPETGEEEWNFYPENYVVNKEAGEEVQSFWVNEAWEGTMIG
NEIFVNMRPRLIQYNRLNNPSRCHFGIVGSIYNLNDSRPFSLVDMMKPYNYLYDAIHDRLNKAIASNWGSILELDLSKVP
KGWDVGKWMYYARVNHIAVIDSFKEGTIGASTGKLAGALNNAGKGMIETNIGNYIQQQINLLEFIKMEMADVAGISKQRE
GTLQSSHITEWLFTIHDDVKKRALECFLETAKVALKGRNKKFQYILSDTSTRVMEIDGDEFAEADYGLVVDNSNGTQELQ
QKLDTLAQAALQTQTLSFSTITKLYTSSSLAEKQRLIEKDEKQIRERQAQAQKEQLEAQQQIAAMQQQQKEAELLQKEEA
NIRDNQTKIIIAQIQSE

The query sequence (length=657) 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 8ckb:H005 660 660 1.0000 0.9955 0.9955 0.0 7qoi:FE, 7qoj:A, 7qol:A, 7qol:O
2 8ckb:H003 684 684 1.0000 0.9605 0.9605 0.0 8ckb:H002, 8ckb:H011, 8ckb:H012, 7qoi:FB, 7qoi:FC, 7qoi:FK, 7qoi:FL
3 8ckb:H004 705 705 1.0000 0.9319 0.9319 0.0 8ckb:H001, 8ckb:H006, 8ckb:H007, 8ckb:H008, 8ckb:H009, 8ckb:H010, 7qoi:FA, 7qoi:FD, 7qoi:FF, 7qoi:FG, 7qoi:FH, 7qoi:FI, 7qoi:FJ
4 1mdc:A 131 57 0.0244 0.1221 0.2807 1.3
5 4u7p:A 426 51 0.0289 0.0446 0.3725 2.0 3a1a:A, 3a1b:A, 8ba5:A, 6brr:A, 6brr:D, 6f57:A, 6f57:D, 6pa7:K, 6pa7:P, 4qbq:C, 4qbq:A, 4qbr:A, 4qbr:C, 4qbs:A, 2qrv:A, 2qrv:D, 2qrv:E, 2qrv:H, 8tdr:A, 8tdr:B, 8tdr:C, 8tdr:D, 8te1:A, 8te1:B, 8te1:C, 8te1:D, 8te3:A, 8te3:B, 8te3:C, 8te3:D, 8te4:A, 8te4:B, 8te4:C, 8te4:D, 4u7t:A, 4u7t:C, 6w89:A, 6w89:D, 6w89:G, 6w89:J, 6w8b:A, 6w8b:D, 6w8b:H, 6w8b:K, 6w8d:A, 6w8d:D, 6w8j:A, 6w8j:D, 5yx2:A, 5yx2:D
6 7zjw:E 519 65 0.0304 0.0385 0.3077 3.1 5izl:A, 5izl:B
7 5k0s:C 497 138 0.0472 0.0624 0.2246 6.3 5k0s:A, 5k0s:B, 5k0t:A, 5k0t:C, 4py2:A, 4py2:B, 4py2:C
8 8vzl:A 646 103 0.0411 0.0418 0.2621 6.7 9bs3:A, 9bs3:E, 9bs4:A, 9bs4:E, 7kr3:A, 7kr4:A, 7l34:A, 7l35:A, 6p09:A, 6p0a:A, 6p0b:A, 6p0c:A, 6p0d:A, 6p0e:A, 6q1v:A, 7qnz:A, 7qo1:A, 7sum:A, 7sx5:A, 7sxe:A, 8vdn:A, 8vds:A, 8vdt:A, 8vzm:A, 1x9n:A
9 3vkg:B 2853 105 0.0441 0.0102 0.2762 9.8
10 7pog:A 2382 64 0.0244 0.0067 0.2500 9.9 4dmw:A, 3ho6:A, 3ho6:B, 4r04:A, 3srz:A, 3ss1:A, 7u2p:A, 7uby:B, 7uby:A, 5uqk:A, 5uql: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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