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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
KRYGEKLKEVFLMLDNNVVECIKEITESSRNGKLVFFVGAGVSTLSDYPQWWRLVDKYHEELYGSPKKGNYSSDEYLRIP
QIFYNVKGEMAFDGILKDFFQVDKPTNPIHDKILAMNPAHVITTNYDNLIDTACWKRGKYFSVISAEEDVANATSSRYLL
KVHGDFRKGFKGENVVLKEDDYLNYDQNYPLISNLMKTIIATHTIVFIGYGLGDYNINMLLNWVRKLQKDSFHKPFFIRT
DPSPIENETLIYYENKGLRIIDAASLIDSNEYDYLERYSAVMDLLIESQENKFITKDDEVIDYIYGKISPLFALQYIRKI
DLKHVFEYDYHFEVNGTVVRHKNKGFGYMERFFELKESCDERSKLSKKQYERFNALFNFFEKNGVICMAKDAGTLNTSIE
INSLAYHGKYDVMKKFIEEQSVSIEDDYKKAFFLACLGRWEESYDLYSNIILNSIDESNGCVYYLSQINRYRIYQSITQA
VTQFNGLGLLTFGRHYKPFTDEFLARIEREMTNFNIDDLFNGMPFEFQKKYKILEFLSDNQFLYDDTVKLFELTNKVRSE
MSEGSYSFGMSSDIVVLLRLYDNLRFLYENCLWSVSFHEFHQYIRNSMSLLIEKAEYERTRDIDELGFSFFGKKSGFFME
YYDFVNISRHFKIDDIKNLERSCSIDKIRFGEQEKIEEYLVGIAEEITKQFSANGMNVVFYTQFISEAKAALYFAKYVKL
SEEGLGKIVKALLFYFPERDLDIGKRYVWLERLTKCNELPKSIISIIDDFLVLQAEKHIDQNYSEVSSNGLYSRDYGALI
KHFEKNFISKRLSEITLCLTQDKQKQIDFLFKLLPLLSTNAKSHLLSFKSVENINDLMNGIRIGLIDEFTPEHEELIIEY
LETRKVNYIVEKEKGIQTFSSNDYMSTFGIWYFLEEINNSKMEEFIGMDDQYDFFVDPENFDYKKFIPSWLKNYNDKLLG
KIAGNKHMKHHVIEVLKERVKNSNDKRYLEILMNYFI

The query sequence (length=997) 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 8zc9:A 1000 997 0.9990 0.9960 0.9990 0.0 8wyc:C, 8wyc:D, 8wyf:C, 8wyf:D, 8ylt:A, 8ylt:B, 8ylt:C, 8ylt:D, 8zc9:D
2 8zc9:B 971 997 0.9709 0.9969 0.9709 0.0 8wyb:A, 8wyb:B, 8wyb:C, 8wyb:D, 8wyc:A, 8wyc:B, 8wyf:A, 8wyf:B, 8zc9:E
3 8bto:A 473 219 0.0642 0.1353 0.2922 1.83e-07 8bto:B, 8bto:C, 8bto:D, 8bto:E, 8bto:F, 8bto:G, 8bto:H, 8bto:I, 8bto:J, 8bto:K, 8bto:L, 8btp:A, 8btp:B, 8btp:C, 8btp:D, 8btp:E, 8btp:F, 8btp:G, 8btp:H, 8btp:I, 8btp:J, 8btp:K, 8btp:L, 7uxs:B, 7uxs:A
4 8jkz:A 584 177 0.0481 0.0822 0.2712 0.32 8in8:B, 8jl0:A, 8k87:B, 8k87:G, 8k88:B
5 1q17:C 295 78 0.0251 0.0847 0.3205 0.94 7f4e:A, 7f51:A, 2od2:A, 2od7:A, 2od9:A, 1q14:A, 1q17:A, 1q17:B, 1q1a:A, 2qqf:A, 2qqg:A, 1szc:A, 1szd:A
6 3gqc:B 440 187 0.0391 0.0886 0.2086 1.3 3gqc:A, 3gqc:D, 3gqc:C
7 6qe7:A 291 56 0.0160 0.0550 0.2857 4.0 6qe7:B, 6qe7:C
8 7zcu:S 94 53 0.0140 0.1489 0.2642 4.3 7zdi:S, 7ze3:S, 7ze8:S
9 1prh:A 554 66 0.0181 0.0325 0.2727 5.4 2ayl:B, 2ayl:A, 1cqe:A, 1cqe:B, 1diy:A, 1ebv:A, 1eqg:A, 1eqg:B, 1eqh:A, 1eqh:B, 1fe2:A, 1ht5:A, 1ht5:B, 1ht8:A, 1ht8:B, 1igx:A, 1igz:A, 7jxt:A, 7jxt:B, 3kk6:A, 3kk6:B, 3n8v:A, 3n8v:B, 3n8w:A, 3n8w:B, 3n8x:A, 3n8x:B, 3n8y:A, 3n8y:B, 3n8z:A, 3n8z:B, 4o1z:A, 4o1z:B, 2oye:P, 2oyu:P, 1pge:A, 1pge:B, 1pgf:A, 1pgf:B, 1pgg:A, 1pgg:B, 1prh:B, 1pth:A, 1pth:B, 1q4g:A, 1q4g:B, 1u67:A, 5u6x:A, 5u6x:B, 5wbe:A, 5wbe:B
10 3nv8:B 464 133 0.0331 0.0711 0.2481 5.6 2b7o:A, 2b7o:B, 5ckv:A, 5ckv:B, 5ckx:A, 5ckx:B, 5e2l:A, 5e2l:B, 5e40:A, 5e40:B, 5e4n:A, 5e4n:B, 5e5g:A, 5e5g:B, 5e7z:A, 5e7z:B, 5ex4:A, 5ex4:B, 3kgf:A, 3kgf:B, 3nud:A, 3nud:B, 3nue:A, 3nue:B, 3nv8:A, 6pbj:A, 6pbj:B, 3pfp:A, 3pfp:B, 3rzi:A, 3rzi:B, 2w1a:A, 2w1a:B, 2ypo:A, 2ypo:B, 2ypp:A, 2ypp:B, 2ypq:A, 2ypq:B
11 3qqz:A 243 29 0.0110 0.0453 0.3793 6.4
12 7jgh:A 1421 101 0.0281 0.0197 0.2772 7.4
13 8c0j:A 200 63 0.0181 0.0900 0.2857 7.4 8c0j:C
14 1ay0:A 678 68 0.0201 0.0295 0.2941 7.6 1ay0:B, 1gpu:A, 1gpu:B, 1ngs:A, 1ngs:B, 1tka:A, 1tka:B, 1tkb:A, 1tkb:B, 1tkc:A, 1tkc:B, 1trk:A, 1trk:B
15 8zdv:A 320 94 0.0251 0.0781 0.2660 8.4 8zdv:B, 8zdv:C
16 8egr:H 313 79 0.0261 0.0831 0.3291 8.9 8egr:G
17 8u2r:A 664 43 0.0150 0.0226 0.3488 9.4 8sf3:A, 8u2s:A, 8u2s:B, 8u2t:A, 8u2u: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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