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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
QKKKKIAVMTSGGDSPGMNAAVRAVVRTGIHFGCDVFAVYEGYEGLLRGGKYLKKMAWEDVRGWLSEGGTLIGTARSMEF
RKREGRRQAAGNLISQGIDALVVCGGDGSLTGADLFRHEWPSLVDELVAEGRFTKEEVAPYKNLSIVGLVGSIDNDMSGT
DSTIGAYSALERICEMVDYIDATAKSHSRAFVVEVMGRHCGWLALMAGIATGADYIFIPERAVPHGKWQDELKEVCQRHR
SKGRRNNTIIVAEGALDDQLNPVTANDVKDALIELGLDTKVTILGHVQRGGTAVAHDRWLATLQGVDAVKAVLEFTPETP
SPLIGILENKIIRMPLVESVKLTKSVATAIENKDFDKAISLRDTEFIELYENFLSTTVKDDGSELLPVSDRLNIGIVHVG
APSAALNAATRAATLYCLSHGHKPYAIMNGFSGLIQTGEVKELSWIDVENWHNLGGSEIGTNRSVASEDLGTIAYYFQKN
KLDGLIILGGFEGFRSLKQLRDGRTQHPIFNIPMCLIPATVSNNVPGTEYSLGVDTCLNALVNYTDDIKQSASATRRRVF
VCEVQGGHSGYIASFTGLITGAVSVYTPEKKIDLASIREDITLLKENFRHDKGENRNGKLLVRNEQASSVYSTQLLADII
SEASKGKFGVRTAIPGHVQQGGVPSSKDRVTASRFAVKCIKFIEQWNKKNEEDDSAAVICVNGSHVSFKPIANLWENETN
VELRKGFEVHWAEYNKIGDILSGRLKLRAEVA

The query sequence (length=752) 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 3o8o:E 752 752 1.0000 1.0000 1.0000 0.0 3o8o:A, 3o8o:C, 3o8o:G
2 3o8o:B 763 760 0.5691 0.5609 0.5632 0.0 3o8o:D, 3o8o:F, 3o8o:H
3 3o8o:B 763 314 0.1130 0.1114 0.2707 1.61e-23 3o8o:D, 3o8o:F, 3o8o:H
4 3opy:B 884 760 0.5532 0.4706 0.5474 0.0 3opy:D, 3opy:F, 3opy:H
5 3opy:B 884 318 0.1197 0.1018 0.2830 1.83e-26 3opy:D, 3opy:F, 3opy:H
6 8w2h:A 761 737 0.4348 0.4297 0.4437 0.0 7lw1:A, 7lw1:D, 7lw1:E, 7lw1:F, 8w2g:A, 8w2g:B, 8w2g:D, 8w2g:C, 8w2h:B, 8w2h:C, 8w2h:D, 8w2j:E, 8w2j:F, 8w2j:G, 8w2j:H, 8w2j:A, 8w2j:B, 8w2j:C, 8w2j:D
7 4xyj:A 768 750 0.4348 0.4258 0.4360 0.0 4rh3:A, 4rh3:B, 4rh3:C, 4rh3:D, 4u1r:A, 4u1r:B, 4u1r:C, 4u1r:D, 4wl0:A, 4wl0:B, 4wl0:C, 4wl0:D, 4xyj:B, 4xyj:C, 4xyj:D, 4xyj:E, 4xyj:F, 4xyj:G, 4xyj:H, 4xyk:A, 4xyk:B, 4xyk:C, 4xyk:D, 4xz2:A, 4xz2:B, 4xz2:C, 4xz2:D
8 3o8l:A 748 749 0.4295 0.4318 0.4312 0.0 3o8l:B, 3o8n:A, 3o8n:B
9 5xz7:A 322 336 0.1822 0.4255 0.4077 2.44e-64 5xz6:A, 5xz8:A, 5xz9:A, 5xza:A
10 5xz7:A 322 295 0.1024 0.2391 0.2610 1.47e-23 5xz6:A, 5xz8:A, 5xz9:A, 5xza:A
11 4i4i:A 319 343 0.1809 0.4263 0.3965 1.26e-62 4i4i:B, 4i4i:C, 4i4i:D, 4i7e:A, 4i7e:B, 4i7e:C, 4i7e:D, 1mto:A, 1mto:B, 1mto:C, 1mto:D, 1mto:E, 1mto:F, 1mto:G, 1mto:H, 3pfk:A, 4pfk:A, 6pfk:A, 6pfk:B, 6pfk:C, 6pfk:D
12 4i4i:A 319 293 0.1184 0.2790 0.3038 4.14e-35 4i4i:B, 4i4i:C, 4i4i:D, 4i7e:A, 4i7e:B, 4i7e:C, 4i7e:D, 1mto:A, 1mto:B, 1mto:C, 1mto:D, 1mto:E, 1mto:F, 1mto:G, 1mto:H, 3pfk:A, 4pfk:A, 6pfk:A, 6pfk:B, 6pfk:C, 6pfk:D
13 1pfk:A 320 345 0.1689 0.3969 0.3681 4.99e-56 1pfk:B
14 1pfk:A 320 299 0.0984 0.2313 0.2475 2.96e-19 1pfk:B
15 6qu3:A 464 257 0.0997 0.1616 0.2918 1.56e-11 3f5m:A, 3f5m:B, 3f5m:C, 3f5m:D, 6qu3:B, 6qu3:C, 6qu3:D, 6qu4:A, 6qu4:B, 6qu4:C, 6qu4:D, 6qu5:A, 6qu5:B, 6sy7:A, 6sy7:B, 6sy7:C, 6sy7:D, 6sy7:E, 6sy7:F, 6sy7:G, 6sy7:H
16 2f48:B 552 460 0.1223 0.1667 0.2000 2.52e-05 2f48:A, 1kzh:A
17 2f48:B 552 209 0.0572 0.0779 0.2057 0.088 2f48:A, 1kzh:A
18 1kzh:B 530 283 0.0811 0.1151 0.2155 9.71e-05
19 1kzh:B 530 336 0.1011 0.1434 0.2262 0.006
20 6lrb:E 409 95 0.0332 0.0611 0.2632 0.22
21 5w25:A 583 132 0.0399 0.0515 0.2273 1.3 5w25:B
22 3rh7:A 292 101 0.0386 0.0993 0.2871 3.1 3rh7:C, 3rh7:D, 3rh7:F
23 4v6w:AK 95 65 0.0279 0.2211 0.3231 3.3
24 6cty:C 353 41 0.0173 0.0368 0.3171 4.9 6cty:A, 6cty:B, 6cty:D, 6cty:E, 6cty:F
25 1ons:A 278 85 0.0279 0.0755 0.2471 5.7
26 4pxo:A 216 59 0.0253 0.0880 0.3220 7.4 4pxo:B
27 6ecv:A 286 79 0.0306 0.0804 0.2911 8.8 6ecu:A, 6ecu:B, 6ecv:B, 6ecw:A, 6ecw:B
28 1fk8:A 240 36 0.0186 0.0583 0.3889 9.4 1fk8: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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