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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
PTRLSLEAMLAERAMVARQDLAGLKRKLAGADRVLAPQSPEQCGRESAQAQARSVTSELKSAVKEAQGLEHQTLDFLEQL
GEYPVCGILHGDHPVHPSGTHNNNGKVSVKRQFAAGVNTSDALTCAFRFEDSDLVRETALKTTYTDGTWAGFVQRLKMQT
TRKCVQEKVSRKLLKQLFPYDPQKLVDVSGELSELVLGIKTNAIASAGPPYWRTKRDALPDMLDCVLPLLYDHIVRKDLT
TLRNKHPELFLAECKNKTDRYEVESLGEKTRPYFSHPFHLSALVSVLSQSFSGALKIMTEDSTSFNAYGFSWTNGGAEDL
AIWARQAGEAGKKPPRIACYGDDTDIYYRKDGKLYRICPDFKQMDGSVDATTIEAVVDYVVDAHVKQYPTARQFWEEVGK
LWVEMATQSPFLIDGTKVYRKMQKDGLMTGVVGTTLFDTVKSALAYNDWADQLMFGSLNLLEEKYAIEFFKNKHGLVIKE
GTWKPALVNEDPGFGELWTEQKFLGLQLKVVRRENEKVYVPNLPFEDWLTMWVTPRSKYRSKETETMRERTLFDRARGLL
VTGAVFDERARGLMGAVINSTAPEVVCMRVQEGGGRGAPPAYAFLTRDGVFEFPISDGYPSYDWVVSLYSRDHPCDMPRV
FPEAATLIASYRKQVMDTRVVIKEE

The query sequence (length=665) 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 5cx6:B 665 665 1.0000 1.0000 1.0000 0.0 5cx6:A, 5cyr:B, 7om6:B, 7om6:A, 7om7:A, 7om7:B, 7om7:C, 7om7:D, 7oma:A, 7oma:B, 7oma:C, 7oma:D
2 2yi9:A 771 385 0.1308 0.1128 0.2260 3.33e-04 2yi9:B, 2yi9:C, 2yi9:D, 2yi9:E, 3zed:A, 3zed:B, 3zed:C
3 5eko:A 341 109 0.0421 0.0821 0.2569 2.7 5ekn:A, 4eyj:A, 4eym:A
4 4yd9:B 825 73 0.0376 0.0303 0.3425 4.0 4yd9:E, 4yd9:H, 4yd9:K, 4yd9:N, 4yd9:Q, 4yd9:T, 4yd9:W, 4yd9:Z, 4yd9:c
5 5da8:Q 502 340 0.1143 0.1514 0.2235 4.0 5da8:V
6 5zfs:B 294 90 0.0331 0.0748 0.2444 5.0 5zfs:A
7 7yzm:A 422 90 0.0391 0.0616 0.2889 7.7 6eno:A, 7yyl:C, 7yyl:D, 7yyl:A, 7yyl:B, 7yzm:B, 7yzm:C, 7yzm:D, 7yzq:C, 7yzq:D, 7yzq:A, 7yzq:B
8 3n75:A 711 96 0.0421 0.0394 0.2917 7.8 3n75:D, 3n75:B, 3n75:E, 3n75:C, 6q7l:A, 6q7l:F, 6q7l:B, 6q7l:C, 6q7l:D, 6q7l:J, 6q7l:E, 6q7l:H, 6q7l:G, 6q7l:I, 6q7l:K, 6q7l:R, 6q7l:L, 6q7l:Q, 6q7l:M, 6q7l:P, 6q7l:N, 6q7l:T, 6q7l:O, 6q7l:S, 6q7m:A, 6q7m:F, 6q7m:B, 6q7m:C, 6q7m:D, 6q7m:J, 6q7m:E, 6q7m:H, 6q7m:G, 6q7m:I, 6q7m:K, 6q7m:R, 6q7m:L, 6q7m:Q, 6q7m:M, 6q7m:P, 6q7m:N, 6q7m:O, 6q7m:S, 6q7m:T
9 5iuv:A 495 80 0.0271 0.0364 0.2250 8.8 5iuv:B, 5iuw:A, 5iuw:B, 7jso:A, 7jso:B, 7jso:C, 7jso:D, 7jso:E, 7jso:F, 7jso:G, 7jso:H
10 2r72:A 765 317 0.1008 0.0876 0.2114 8.9

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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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