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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
IVFKVNNQVVSLKPEIIVDQHEYKYPAIKDLKKPCITLGKAPDLNKAYKSVLSGMSAAKLDPDDVCSYLAAAMQFFEGTC
PEDWTSYGIVIARKGDKIGNWALTGGMELTRDPTVPEHASLVGLLLSLYRLSKISGQNTGNYKTNIADRIEQIFETAPFV
KIVEHHTTHKMCANWSTIPNFRFLAGTYDMFFSRIEHLYSAIRVGTVVTAYEDCSGLVSFTGFIKQINLTAREAILYFFH
KNFEEEIRRMFEPGQETAVPHSYFIHFRSLGLSGKSPYSSNAVGHVFNLIHFVGCYMGQVRSLNATVIAACAPHEMSVLG
GYLGEEFFGKGTFERRFFRDEKELQEYEAETRSPEAVYTRIMMNGGRLKRSHIRRYVSVSSNHQARPNSFAEFLNKTYSS

The query sequence (length=400) 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 2gtt:P 399 400 0.9950 0.9975 0.9950 0.0
2 8ffr:K 420 418 1.0000 0.9524 0.9569 0.0 8ffr:A, 8ffr:B, 8ffr:C, 8ffr:D, 8ffr:E, 8ffr:F, 8ffr:G, 8ffr:H, 8ffr:I, 8ffr:J, 8ffr:L, 8ffr:M, 8ffr:N, 8ffr:O, 8ffr:P, 8ffr:Q, 8ffr:R, 8ffr:S, 8ffr:T, 8ffr:U, 8ffr:V, 2gtt:A, 2gtt:B, 2gtt:C, 2gtt:D, 2gtt:E, 2gtt:F, 2gtt:G, 2gtt:H, 2gtt:I, 2gtt:J, 2gtt:K, 2gtt:L, 2gtt:M, 2gtt:N, 2gtt:O, 2gtt:Q, 2gtt:R, 2gtt:S, 2gtt:T, 2gtt:U, 2gtt:V
3 7uws:G 382 290 0.1825 0.1911 0.2517 1.22e-21 7uml:A
4 7uws:E 422 294 0.1925 0.1825 0.2619 1.75e-21 6bjy:A, 6bjy:B, 6bjy:C, 6bjy:D, 6bjy:E, 2gic:A, 2gic:B, 2gic:C, 2gic:D, 2gic:E, 3hhz:K, 3hhz:L, 3hhz:M, 3hhz:N, 3hhz:O, 3pmk:A, 3pmk:D, 3pmk:B, 3pmk:C, 3ptx:A, 3ptx:B, 3ptx:C, 3ptx:D, 3ptx:E, 3pu0:A, 3pu0:B, 3pu0:C, 3pu0:D, 3pu0:E, 3pu1:A, 3pu1:B, 3pu1:C, 3pu1:D, 3pu1:E, 3pu4:A, 3pu4:B, 3pu4:C, 3pu4:D, 3pu4:E, 5uk4:P, 5uk4:Q, 5uk4:N, 5uk4:M, 5uk4:O, 5uk4:R, 5uk4:S, 5uk4:T, 5uk4:K, 5uk4:L, 5uk4:B, 5uk4:C, 5uk4:D, 5uk4:E, 5uk4:F, 5uk4:G, 5uk4:H, 5uk4:I, 5uk4:J, 5uk4:A, 5ukb:D, 5ukb:C, 5ukb:B, 5ukb:A, 5ukb:E, 7umk:A, 7uws:A, 7uws:B, 7uws:C, 7uws:D, 7uws:F, 2wyy:A, 2wyy:C, 2wyy:D, 2wyy:F, 2wyy:H, 2wyy:I, 2wyy:J, 2wyy:K, 2wyy:L, 2wyy:M
5 7yg7:A 414 310 0.2050 0.1981 0.2645 6.96e-20 7yg7:B, 7yg7:C, 7yg7:D, 7yg7:E, 7yg7:F, 7yg7:G, 7yg7:H, 7yg7:I, 7yg7:J, 7yg7:K
6 6gfm:A 440 72 0.0525 0.0477 0.2917 2.5
7 8any:AH 140 44 0.0425 0.1214 0.3864 3.6 7a5f:H6, 7a5g:H6, 7a5i:H6, 7a5k:H6, 5aj3:J, 5aj4:AJ, 8csp:H, 8cst:H, 6gaw:AJ, 6gaz:AJ, 3j9m:AH, 3jd5:J, 8k2a:SJ, 7l08:AH, 6neq:J, 6nf8:J, 7nqh:AJ, 7nql:AJ, 7nsi:AJ, 7nsj:AJ, 6nu2:AH, 6nu3:AH, 7og4:AH, 8oin:AH, 8oip:AH, 8oir:AH, 8ois:AH, 7p2e:H, 7pnx:H, 7pny:H, 7pnz:H, 7po0:H, 7po1:H, 7po2:H, 7po3:H, 7qi4:AH, 7qi5:AH, 7qi6:AH, 8qrk:H, 8qrl:H, 8qrm:H, 8qrn:H, 6rw4:H, 6rw5:H, 6vlz:AH, 6vmi:AH, 8xt0:SJ, 8xt2:SJ, 6ydp:AJ, 6ydw:AJ, 6zm5:AH, 6zm6:AH, 6zs9:AH, 6zsa:AH, 6zsb:AH, 6zsc:AH, 6zsd:AH, 6zse:AH, 6zsg:AH
8 4qfl:A 507 37 0.0350 0.0276 0.3784 4.8 4qfl:B, 4qfn:A, 4qfn:B, 4qfo:A, 4qfo:B, 4qfp:A, 4qfp:B
9 8hov:A 87 21 0.0225 0.1034 0.4286 5.5 8hov:C, 8hov:B, 8hov:D, 8hov:E, 8hov:F
10 6uvn:B 498 124 0.0775 0.0622 0.2500 5.6 8fuk:G
11 5o25:B 323 89 0.0625 0.0774 0.2809 6.6 5o1u:A, 5o1u:B, 5o25:A, 5o4z:A, 5o58:A, 5o70:A, 5o7f:A, 5o7f:B
12 4tpn:A 386 47 0.0475 0.0492 0.4043 7.0
13 8tua:A 1329 120 0.0750 0.0226 0.2500 8.1 5d3x:A, 5d3x:B, 5d3y:A, 5d3y:B, 5fi0:A, 5fi0:C, 5fi0:E, 5fi0:G
14 5d3u:A 403 47 0.0475 0.0471 0.4043 8.6 5d3u:B, 5d40:A, 5d40:B, 4l36:A, 4l36:B, 4tpo:A
15 1b8a:A 438 52 0.0325 0.0297 0.2500 10.0 1b8a:B, 3nel:A, 3nem:A, 3nem:B

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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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