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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
MSTLYLTQPDAVLSKKHEAFHVALKQEDGSWKKQPIPAQTLEDIVLLGYPSITGEALGYALELGLPVHYLTQFGKYVGSA
LPSESRNGQLRLAQFRAHEDPIQRLDIVKAFVKGKVHNQYNLLYRRGQVDNPLKGRGKLVMRQQTLEQVRGIEGLAAREY
FASWQEMLGHEWTFTGRFRRPPTDPVNALLSFGYGLLRTQVTAAVHIAGLDPYIGFLHETTRGQPAMILDLMEEFRALVA
DSVVLTVLKQREIQRQDFTESLGAFRLTDSATKTFLGAFDRKLSSEFKHPIFNYKCTYRRAIELQARLLARHLQEGVVYE
PLVIR

The query sequence (length=325) 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 7cr6:C 325 325 1.0000 1.0000 1.0000 0.0 7cr6:B, 7cr6:D, 7cr6:A, 7cr8:J, 7cr8:K, 7cr8:L, 7cr8:I, 7cr8:R, 7cr8:S, 7cr8:T, 7cr8:Q, 7cr8:b, 7cr8:c, 7cr8:d, 7cr8:a, 7cr8:j, 7cr8:k, 7cr8:l, 7cr8:i, 7cr8:r, 7cr8:s, 7cr8:t, 7cr8:q, 7cr8:B, 7cr8:C, 7cr8:D, 7cr8:A
2 7mi4:A 554 288 0.3600 0.2112 0.4062 4.11e-61 7mi4:B, 7mi4:C, 7mi4:D, 7mi5:A, 7mi5:B, 7mi5:D, 7mi5:C, 7mi9:A, 7mi9:B, 7mi9:C, 7mi9:D, 7mib:A, 7mib:B, 7mib:C, 7mib:D, 7mid:A, 7mid:B
3 8d3p:B 346 332 0.3723 0.3497 0.3645 3.63e-55 8d3l:A, 8d3l:B, 8d3l:C, 8d3l:D, 8d3m:A, 8d3m:B, 8d3m:C, 8d3p:C, 8d3p:A, 8d3p:D, 8d3q:B, 8d3q:C, 8d3q:A
4 6opm:C 359 275 0.2492 0.2256 0.2945 1.02e-27 6opm:A, 6opm:B, 6opm:D
5 6kdv:B 283 78 0.0954 0.1095 0.3974 1.08e-06 6kdv:D, 6kdv:C, 6kdv:A
6 8q2n:B 289 92 0.0892 0.1003 0.3152 2.16e-05 8pk1:B, 8pk1:C, 8pk1:F, 8pk1:E, 8q2n:C, 8q2n:F, 8q2n:E, 6qxf:J, 6qxf:M, 6qxf:P, 6qxf:S, 6qy3:J, 6qy3:M, 6qy3:P, 6qy3:S, 6qy3:V, 6qy3:Z, 6qy3:j, 6qy3:m, 6qy3:p, 6qy3:s, 6qy3:v, 6qy3:z
7 5dqz:B 301 134 0.1262 0.1362 0.3060 1.86e-04 5dlj:D, 5dlj:A, 5dlj:B, 5dlj:C, 5dqt:D, 5dqt:C, 5dqt:A, 5dqt:B, 5dqt:K, 5dqt:L, 5dqt:I, 5dqt:J, 5dqu:A, 5dqu:D, 5dqu:C, 5dqu:B, 5dqz:D, 5dqz:C, 5dqz:A, 5ds4:A, 5ds4:C, 5ds4:D, 5ds4:B, 5ds5:A, 5ds5:C, 5ds5:D, 5ds5:B, 5ds6:A, 5ds6:C, 5ds6:D, 5ds6:B, 3nke:C, 5vvj:A, 5vvj:B, 5vvj:C, 5vvj:D, 5vvk:C, 5vvk:D, 5vvk:A, 5vvk:B, 5vvl:C, 5vvl:D, 5vvl:A, 5vvl:B, 5wfe:A, 5wfe:B, 5wfe:C, 5wfe:D
8 5xvn:B 288 136 0.1262 0.1424 0.3015 0.001 5xvn:A, 5xvn:C, 5xvn:I, 5xvn:J, 5xvn:K, 5xvn:L, 5xvo:A, 5xvo:B, 5xvo:C, 5xvo:I, 5xvo:J, 5xvo:K, 5xvo:L, 5xvo:D, 5xvp:A, 5xvp:B, 5xvp:C, 5xvp:D
9 8fyc:C 310 101 0.0862 0.0903 0.2772 0.064 8fy9:C, 8fy9:F, 8fya:B, 8fya:C, 8fya:F, 8fyb:B, 8fyb:C, 8fyb:E, 8fyb:F, 8fyc:E, 8fyc:B, 8fyd:B, 8fyd:E, 8fyd:F, 8fyd:C
10 2e9f:B 450 148 0.1292 0.0933 0.2838 0.39 2e9f:A, 2e9f:D, 2e9f:C
11 8hi1:A 289 101 0.0954 0.1073 0.3069 1.6 8hi1:C
12 5xvn:D 259 67 0.0615 0.0772 0.2985 1.6
13 6guu:B 204 33 0.0338 0.0539 0.3333 1.9 6guu:A
14 8rf0:A 2780 51 0.0492 0.0058 0.3137 3.4 8rfe:A, 8rfg:A
15 8k21:E 295 101 0.0800 0.0881 0.2574 3.4 8k21:d, 8k21:e, 8k21:D, 8k22:E, 8k22:d, 8k22:e, 8k22:D, 8k23:E, 8k23:d, 8k23:e, 8k23:D, 8k24:d, 8k24:e, 8k24:E, 8k24:D, 8k25:d
16 4b65:A 456 53 0.0492 0.0351 0.3019 4.1 4b63:A, 4b64:A, 4b66:A, 4b67:A, 4b68:A, 4b69:A, 5cku:A, 7jvk:A, 7jvk:B, 7jvk:C, 7jvk:D, 7jvl:A, 7jvl:B, 7jvl:C, 7jvl:D, 4nzh:A, 6x0h:A, 6x0h:B, 6x0h:C, 6x0h:D, 6x0i:A, 6x0i:B, 6x0i:C, 6x0i:D, 6x0j:A, 6x0j:B, 6x0j:C, 6x0j:D, 6x0k:A, 6x0k:B, 6x0k:C, 6x0k:D, 6x0k:E, 6x0k:F, 6x0k:G, 6x0k:H
17 4gyd:A 86 46 0.0400 0.1512 0.2826 7.7 4gyd:B, 4gyd:C, 4gyd:D, 4gyd:E, 4gyd:F, 4h0j:A, 4h0j:B, 4h0j:C, 4h0j:D, 4h0j:E, 4h0j:F, 4h0k:A, 4h0k: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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