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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
LVEDHLAVQSLIRAYQIRGHHVAQLDPLGILDADLDSSVPADIISSTDKLGFYGLDESDLDKVFHLPTTTFIGGQESALP
LREIIRRLEMAYCQHIGVEFMFINDLEQCQWIRQKFETPGIMQFTNEEKRTLLARLVRSTRFEEFLQRKWSSEKRFGLEG
CEVLIPALKTIIDKSSENGVDYVIMGMPHRGRLNVLANVIRKELEQIFCQFDSKLEAADEGSGDVKYHLGMYHRRINRVT
DRNITLSLVANPSHLEAADPVVMGKTKAEQFYCGDTEGKKVMSILLHGDAAFAGQGIVYETFHLSDLPSYTTHGTVHVVV
NNQIGFTTDPRMARSSPYPTDVARVVNAPIFHVNSDDPEAVMYVCKVAAEWRSTFHKDVVVDLVCYRRNGHNEMDEPMFT
QPLMYKQIRKQKPVLQKYAELLVSQGVVNQPEYEEEISKYDKICEEAFARSKDMSCPSTGLTEDILTHIGNVASSVPVEN
FTIHGGLSRILKTRGEMVKNRTVDWALAEYMAFGSLLKEGIHIRLSGQDVERGTFSHRHHVLHDQNVDKRTCIPMNHLWP
NQAPYTVCNSSLSEYGVLGFELGFAMASPNALVLWEAQFGDFHNTAQCIIDQFICPGQAKWVRQNGIVLLLPHGMEGMGP
EHSSARPERFLQMCNDDPDVLPDLKEANFDINQLYDCNWVVVNCSTPGNFFHVLRRQILLPFRKPLIIFTPKSLLRHPEA
RSSFDEMLPGTHFQRVIPEDGPAAQNPENVKRLLFCTGKVYYDLTRERKARDMVGQVAITRIEQLSPFPFDLLLKEVQKY
PNAELAWCQEEHKNQGYYDYVKPRLRTTISRAKPVWYAGRDPAAAPATGNKKTHLTELQRLLDTAFDLDVFKNFS

The query sequence (length=875) 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 8i0k:A 875 875 1.0000 1.0000 1.0000 0.0 8i0k:B, 7wgr:A, 7wgr:B
2 6km9:B 845 891 0.4354 0.4509 0.4276 0.0 6km9:A, 6kma:A, 6kma:B, 6kma:C, 6kma:D
3 8p5r:C 1109 889 0.4297 0.3390 0.4229 0.0 6i2q:A, 6i2r:A, 6i2r:C, 6i2s:A, 8p5r:A, 8p5r:B, 8p5r:D, 8p5r:E, 8p5r:F, 6r2b:A, 6r2b:D, 6r2c:A, 6r2c:B, 6r2c:C, 6r2c:D, 6r2d:A, 6r2d:B, 6r2d:C, 6r2d:D, 2xt6:A, 2xt6:B, 2xta:A, 2xta:B, 2xta:C, 2xta:D, 2y0p:D, 2yic:A, 2yic:B, 2yic:C, 2yic:D, 2yid:A, 2yid:B, 2yid:C, 2yid:D, 3zhq:A, 3zhq:B, 3zhq:C, 3zhq:D, 3zhr:A, 3zhr:B, 3zhr:C, 3zhr:D, 3zhs:A, 3zhs:B, 3zhs:C, 3zhs:D, 3zht:A, 3zht:B, 3zht:C, 3zht:D, 3zhu:A, 3zhu:B, 3zhu:C, 3zhu:D, 3zhv:A, 3zhv:B, 3zhv:C, 3zhv:D
4 2y0p:C 856 899 0.4286 0.4381 0.4171 0.0 6r29:A, 6r29:B, 6r2a:A, 6r2a:B, 6r2b:B, 6r2b:C, 2y0p:A, 2y0p:B
5 8p5v:A 1121 893 0.4034 0.3149 0.3953 0.0 8p5t:A, 8p5t:B, 8p5t:C, 8p5t:D, 8p5t:E, 8p5t:F, 8p5u:A, 8p5u:B, 8p5u:C, 8p5u:D, 8p5u:E, 8p5u:F, 8p5v:B, 8p5v:E, 8p5v:D, 8p5v:C, 8p5v:F, 8p5w:A, 8p5w:B, 8p5w:C, 8p5w:D, 8p5w:E, 8p5w:F
6 8p5s:A 1087 877 0.3966 0.3192 0.3957 0.0 8p5x:A, 8p5x:B, 8p5x:C, 8p5x:D, 8p5x:E, 8p5x:F
7 6vef:A 844 892 0.4091 0.4242 0.4013 0.0 6vef:B
8 6u3j:A 876 908 0.4023 0.4018 0.3877 0.0 5rvw:A, 5rvw:B, 5rvx:A, 5rvx:B, 5rvy:A, 5rvy:B, 5rvz:A, 5rvz:B, 5rw0:A, 5rw0:B, 5rw1:A, 5rw1:B, 6sy1:A, 6sy1:B, 6u3j:B
9 2jgd:A 812 892 0.3863 0.4163 0.3789 0.0 2jgd:B
10 3h9d:B 116 60 0.0240 0.1810 0.3500 0.009
11 2j9f:D 329 103 0.0354 0.0942 0.3010 0.020 1dtw:B, 2j9f:B
12 3exe:A 363 121 0.0377 0.0909 0.2727 0.044 6cfo:A, 6cfo:C, 3exe:C, 3exe:E, 3exe:G, 3exf:A, 3exf:C, 3exf:E, 3exf:G, 3exh:A, 3exh:C, 3exh:G, 1ni4:C, 1ni4:A, 2ozl:A, 2ozl:C
13 5xwi:A 503 113 0.0331 0.0577 0.2566 0.69
14 7sgx:D 208 62 0.0251 0.1058 0.3548 2.6 7n4p:A, 7scm:A, 7scm:B, 7sgx:A, 7sgx:B, 7sgx:C
15 8hyh:A 366 137 0.0411 0.0984 0.2628 3.0
16 6hiw:DC 1095 74 0.0217 0.0174 0.2568 3.1
17 7brn:A 133 76 0.0251 0.1654 0.2895 3.9 3vxw:A, 6wy6:A, 6wy6:B, 2zpn:A, 2zpn:D, 2zpn:B, 2zpn:C
18 7x6s:A 1453 74 0.0274 0.0165 0.3243 4.4 5ltf:A, 5ltn:A, 5ltn:B, 5t2t:A
19 7x6v:A 1381 74 0.0274 0.0174 0.3243 5.6
20 4ifd:J 948 103 0.0309 0.0285 0.2621 7.7 5c0x:J, 5jea:J, 2vnu:D
21 3b9t:A 419 67 0.0217 0.0453 0.2836 8.9 3b9t:B, 3b9t:C, 3b9t:D
22 4mz0:B 823 30 0.0126 0.0134 0.3667 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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