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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
PADFVPDSVSGMFRSHDFSYLRLRPDHASRPLWISPSDGRIILESFSPLAEQAQDFLVTIAEPISRPSHIHEYKITAYSL
YAAVSVGLETDDIISVLDRLSKVPVAESIINFIKGATISYGKVKLVIKHNRYFVETTQADILQMLLNDSVIGPLRIDSDH
QVQPPEDVLEREEEDDDIDAVHSFEIANESVEVVKKRCQEIDYPVLEEYDFRNDHRNPDLDIDLKPSTQIRPYQEKSLSK
MFGNGRARSGIIVLPCGAGKTLVGITAACTIKKSVIVLCTSSVSVMQWRQQFLQWCTLQPENCAVFTSDNKEMFQTESGL
VVSTYSMVANTRNRSHDSQKVMDFLTGREWGFIILDEVHVVPAAMFRRVVSTIAAHAKLGLTATLVREDDKIGDLNFLIG
PKLYEANWMELSQKGHIANVQCAEVWCPMTAEFYQEYLRETARKRMLLYIMNPTKFQACQFLIQYHERRGDKIIVFSDNV
YALQEYALKMGKPFIYGSTPQQERMNILQNFQYNDQINTIFLSKVGDTSIDLPEATCLIQISSHYGSRRQEAQRLGRILR
AKRRNDEGFNAFFYSLVSKDTQEMYYSTKRQAFLVDQGYAFKVITHLHGMENIPNLAYASPRERRELLQEVLLK

The query sequence (length=634) 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 7k04:7 638 634 1.0000 0.9937 1.0000 0.0 5fmf:1, 7m2u:7, 7ml0:7, 7ml1:7, 7ml2:7, 5sva:Z
2 7zsa:7 616 634 0.9574 0.9854 0.9574 0.0 8cen:7, 8ceo:7, 7o4i:7, 7o4j:7, 7o4k:7, 7o4l:7, 7o72:7, 7o73:7, 7o75:7, 7zs9:7, 7zsb:7
3 7ml3:7 548 429 0.6767 0.7828 1.0000 0.0
4 7ml3:7 548 119 0.1877 0.2172 1.0000 1.09e-73
5 7ena:6 652 612 0.6057 0.5890 0.6275 0.0 7ad8:A, 8bvw:0, 8ebs:A, 8ebv:A, 8ebw:A, 7egb:6, 7egc:6, 7enc:6, 8gxq:HH, 8gxs:HH, 5ivw:V, 5iy6:V, 5iy7:V, 5iy8:V, 5iy9:V, 7nvr:7, 7nvv:7, 7nvw:7, 7nvx:7, 7nvy:7, 7nvz:7, 7nw0:7, 6o9l:7, 6ro4:A, 8wak:6, 8wal:6, 8wan:6, 8wao:6, 8wap:6, 8waq:6, 8war:6, 8was:6
6 8ebu:A 604 610 0.5978 0.6275 0.6213 0.0 8ebt:A, 8ebx:A, 8eby:A
7 7lbm:W 574 611 0.5820 0.6429 0.6039 0.0
8 6gym:7 408 404 0.5678 0.8824 0.8911 0.0 5oqj:7, 5oqm:7
9 6p4f:C 436 399 0.1656 0.2408 0.2632 1.49e-24 6p4f:A, 6p4w:A
10 1z63:A 468 177 0.0710 0.0962 0.2542 5.15e-04 1z63:B
11 1z63:A 468 139 0.0615 0.0833 0.2806 0.003 1z63:B
12 6x2f:A 1144 440 0.1420 0.0787 0.2045 0.020 7ssg:A, 6x26:A, 6x2n:A, 6x43:A, 6x4w:A, 6x4y:A, 6x50:A
13 7r7j:B 574 167 0.0710 0.0784 0.2695 0.020 8h5y:B, 8h5y:A, 8h5z:B, 8h5z:A, 6jde:B, 6jde:A, 7r7j:A
14 6xeo:A 1118 440 0.1420 0.0805 0.2045 0.021
15 7x3t:V 792 190 0.0615 0.0492 0.2053 0.045 6iro:L, 6jyl:K, 6k1p:K, 7x3w:K, 2y9z:A
16 8he5:O 516 126 0.0552 0.0678 0.2778 0.058
17 7yav:A 501 88 0.0426 0.0539 0.3068 0.10 7yav:B
18 7zke:E 1623 185 0.0584 0.0228 0.2000 0.15
19 7z8s:E 1514 185 0.0584 0.0244 0.2000 0.16 7zb5:E, 7zb5:H
20 6pwf:K 454 186 0.0631 0.0881 0.2151 0.23
21 6l5n:A 377 106 0.0442 0.0743 0.2642 0.34 6l5m:A, 6l5m:B, 6l5m:C, 6l5m:D, 6l5m:E, 6l5n:B, 6l5o:A
22 6m13:b 688 73 0.0331 0.0305 0.2877 0.68 7dsy:a, 7dsy:b, 7dts:a, 7dts:b, 7elw:a, 7elw:b, 6m11:a, 6m11:b, 6m12:a, 6m12:b, 6m13:a, 4o1o:A, 4o1o:B, 4o1o:C, 4o1o:D, 4o1p:A, 4o1p:B, 4o1p:C, 4o1p:D
23 6l8n:A 810 192 0.0694 0.0543 0.2292 2.6
24 7xyf:K 656 95 0.0426 0.0412 0.2842 3.3 7xyg:K
25 7vyx:A 1211 80 0.0347 0.0182 0.2750 5.0 7vyx:B
26 1hcy:A 644 76 0.0347 0.0342 0.2895 5.4
27 1e3a:B 560 102 0.0442 0.0500 0.2745 7.1 1ai4:B, 1ai5:B, 1ai6:B, 1ai7:B, 1ajn:B, 1ajp:B, 1ajq:B, 1fxh:B, 1fxv:B, 1gk9:B, 1gkf:B, 1gm7:B, 1gm8:B, 1gm9:B, 1h2g:B, 1jx9:B, 1k5q:B, 1k5s:B, 1k7d:B, 1kec:B, 1pnk:B, 1pnl:B, 1pnm:B
28 8hf0:A 1561 228 0.0852 0.0346 0.2368 8.1 8hf0:D, 8hf1:A, 8hf1:D, 8hf1:G, 7w0a:A, 7w0a:E, 7w0c:A, 7w0d:A, 7w0e:A, 7w0f:A
29 7w0b:A 1586 45 0.0252 0.0101 0.3556 8.2 7w0d:F
30 5bpx:A 153 40 0.0205 0.0850 0.3250 8.6 4p9g:A

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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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