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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
SHVKDILGLINAFNEVKKITVDGTTPITVAHVAALARRHDVKVALEAEQCRARVETCSSWVQRKAEDGADIAGVTTGFGA
CSSRRTNRLSELQESLIRCLLAGVFTELPATATRSAMLLRLNSFTYGCSGIRWEVMEALEKLLNSNVSPKVPLRGSVSGD
LIPLAYIAGLLIGKPSVIARIGDDVEVPAPEALSRVGLRPFKLQAKEGLALVNGTSFATAVASTVMYDANVLLLLVETLC
GMFCEVIFGREEFAHPLIHKVKPHPGQIESAELLEWLLRSSPFQELSREYYSIDKLKKPKQDRYALRSSPQWLAPLVQTI
RDATTTVETEVNSANDNPIIDHANDRALHGANFQGSAVGFYMDYVRIAVAGLGKLLFAQFTELMIEYYSNGLPGNLSLGP
DLSVDYGLKGLDIAMAAYSSELQYLANPVTTHVHSAEQHNQDINSLALISARKTEEALDILKLMIASHLTAMCQAVDLRQ
LEEALVKVVENVVSTLADECGLPNDTKARLLYVAKAVPVYTYLESPCDPTLPLLLGLKQSCFDTILALHTDTLVDRLAEF
EKRLSDRLENEMTAVRVLYEKVRIQGSKFLPFYRFVREELDTGVMSARREQTPQEDVQKVFDAIADGRITVPLLHCLQGF
L

The query sequence (length=641) 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 4c5s:C 642 643 0.9984 0.9969 0.9953 0.0 4c5r:A, 4c5r:B, 4c5r:C, 4c5r:D, 4c5s:A, 4c5s:B, 4c5s:D
2 6f6t:B 677 663 0.4587 0.4343 0.4434 0.0 6f6t:A, 6hqf:A, 6hqf:B
3 6rgs:B 626 650 0.4306 0.4409 0.4246 1.32e-175
4 5ltm:B 537 466 0.2637 0.3147 0.3627 4.88e-83 5ltm:A
5 9eq5:A 511 457 0.2356 0.2955 0.3304 1.64e-66 9eq5:D, 9eq5:B, 9eq5:C
6 3kdz:A 527 474 0.2371 0.2884 0.3207 8.25e-55 3kdz:B, 2qve:A, 2qve:B, 2rjr:A, 2rjs:A, 2rjs:B
7 3unv:A 514 464 0.2231 0.2782 0.3082 7.15e-54 3unv:B
8 1gkm:A 507 410 0.2075 0.2623 0.3244 7.32e-51
9 2o7d:A 515 441 0.2200 0.2738 0.3197 1.20e-47 2o7d:D, 2o7d:B, 2o7d:C, 2o7d:E, 2o7d:H, 2o7d:F, 2o7d:G, 2o7e:A, 2o7e:D, 2o7e:B, 2o7e:C, 2o7e:E, 2o7e:H, 2o7e:F, 2o7e:G
10 6s7q:A 497 458 0.1560 0.2012 0.2183 1.36e-21 6s7q:D, 6s7q:B, 6s7q:C, 6s7q:E, 6s7q:H, 6s7q:F, 6s7q:G
11 1pg6:A 216 39 0.0296 0.0880 0.4872 0.026
12 1kj3:H 279 42 0.0281 0.0645 0.4286 0.42 1bqh:A, 1bqh:D, 3c8k:A, 2ckb:H, 2ckb:I, 2clv:A, 2clv:H, 2clz:A, 2clz:H, 3cvh:A, 3cvh:M, 1fo0:H, 2fo4:A, 1fzj:A, 1fzk:A, 1fzm:A, 1fzo:A, 1g6r:H, 1g6r:I, 1g7p:A, 1g7q:A, 6gb6:A, 6gb6:D, 4hkj:A, 4hkj:E, 4hkj:I, 4hkj:M, 4hs3:A, 8jhv:A, 8jhv:D, 8jhw:A, 7ji2:A, 7ji2:D, 6jq2:A, 6jq3:A, 1kbg:H, 1kj2:H, 1kj2:I, 1kj3:I, 1kpu:A, 1kpv:A, 1leg:A, 1lek:A, 1lk2:A, 2mha:A, 2mha:C, 1mwa:H, 1mwa:I, 1n59:A, 1n59:C, 1nam:H, 1nan:H, 1nan:L, 2ol3:H, 1osz:A, 1p1z:A, 1p4l:A, 3p4m:D, 3p4m:A, 3p4n:D, 3p4n:A, 3p4o:D, 3p4o:A, 3p9l:D, 3p9l:A, 3p9m:D, 3p9m:A, 3pab:D, 3pab:A, 4pg9:A, 4pgb:A, 4pgb:D, 4pgc:A, 4pgc:D, 4pgd:A, 4pge:A, 4pv8:A, 4pv8:C, 4pv9:A, 4pv9:C, 3rgv:C, 1rjy:A, 1rjy:D, 1rjz:A, 1rjz:D, 1rk0:A, 1rk1:A, 3rol:A, 3rol:C, 3roo:A, 3roo:C, 1s7q:A, 1s7r:A, 1s7r:D, 1s7s:A, 1s7t:A, 1s7t:D, 1t0m:A, 1t0m:D, 1t0n:A, 1t0n:D, 3tid:A, 3tie:A, 3tie:D, 1vac:A, 1vad:A, 2vaa:A, 2vab:A, 1wbz:A, 1wbz:C, 7wcy:A, 7wcy:D, 6wl2:A, 6wl2:D, 6wl2:G, 6wl3:A, 6wl3:D, 6wl3:G, 6wl4:A, 6wl4:D, 6wl4:G, 2zsv:A, 2zsv:C, 2zsw:A, 2zsw:E, 2zsw:C, 2zsw:G
13 6kth:A 190 68 0.0312 0.1053 0.2941 1.4
14 4zus:A 274 81 0.0406 0.0949 0.3210 1.4 4zut:A, 4zuu:A, 4zuv:A, 4zuv:D, 4zuw:A
15 7r81:Z2 124 107 0.0452 0.2339 0.2710 3.6
16 8auv:H 127 47 0.0218 0.1102 0.2979 4.0 8b2l:H1, 7qix:U, 7qiz:KA
17 2v7y:A 504 86 0.0406 0.0516 0.3023 7.4
18 1zt7:A 275 37 0.0250 0.0582 0.4324 7.8 1zt1:A, 1zt7:C
19 6sga:FJ 353 71 0.0374 0.0680 0.3380 8.0 6sg9:FJ, 6sgb:FJ
20 4hpp:A 426 56 0.0374 0.0563 0.4286 8.8
21 8c3a:a 134 75 0.0343 0.1642 0.2933 8.8 8c3a:DL, 8cq7:a, 8cq7:DL, 8cqw:a, 8cqw:DL, 8cre:a, 8cre:DL, 8oeq:a, 8oeq:DL, 7pzy:Z, 7q08:Z, 7q0f:Z, 7q0p:Z, 7q0r:Z, 8q5i:Z
22 7o6z:A 588 52 0.0265 0.0289 0.3269 9.3 7o6z: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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