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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
MHFETTKDGFTIAIGNRIILSHSPDKPAFFAGFGEERMDMYRGNFDIEDYVIERTALRHAEVSGDSVTLSSAPGQAPRLR
LTLDGNAIRLTALDETINRLWLRVVAETDEHVWGGGEQMSYFDMRGRRFPLWTSEPGVGRDKTTEITFKSDVSGKAGGDY
YNTNYPQPTWLSSRKYALHVETSAYSVFDFRNGDFHEIEIWAVPEKIEFFAGDSFADIVSALSLHFGRQPELPDWVYNGA
IIGLKDGVNSFARLEKIRAAGTKVSGLWCEDWVGLRQTSFGARLFWDWQANDTRYPHLRQKIAELADQGIRFLGYVNPYL
CVDGPLFPVAESAGYFATDVDGKTALVDFGEFDCGVVDFTNPAAADWFAAAIIGKNMLDFGLSGWMADFGEYLPIDIKLS
NGVDAKLMHNAWPTLWAEVNAKGVESRGKTGEALFFMRAGFTGVQAHCPLIWGGNQSVDFSRHDGLVTVICGALSSGLMG
NAYHHSDIGGYTSLFGNVRTAELIMRWTEMAAFTPVMRTHEGNRPRDNLQIDQDETVLAHFARMTAIYVALAPYLKSLSA
EAAKTGLPVQRPLFLHYENEPQTYAVQDCYLYGADMLVAPVWKAGETQRSLYLPGHGEWVHLWSGKRHAGGRDITVETPL
GEPAVFYRADSSHHRLFEQLRTI

The query sequence (length=663) 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 7ofx:B 665 663 1.0000 0.9970 1.0000 0.0 7ofx:A, 7ofx:C, 7ofx:D, 5ohs:A, 5ohs:B, 5ohs:C, 5ohs:D, 5ohs:E, 5ohs:F, 5ohs:G, 5ohs:H, 5ohy:A, 5ohy:B, 5ohy:C, 5ohy:D
2 8r56:D 673 672 0.5551 0.5468 0.5476 0.0 8r56:A, 8r56:B, 8r56:C
3 6pnr:A 667 665 0.5204 0.5172 0.5188 0.0 6pnr:C
4 5aed:A 674 671 0.4842 0.4763 0.4784 0.0 5aed:B, 5aee:A, 5aee:B, 5aeg:A, 5aeg:B, 5oht:A, 5oht:B
5 4ba0:A 781 561 0.2127 0.1805 0.2513 1.79e-44 4b9y:A, 4b9z:A, 5i23:A, 5i24:A, 5npb:A, 5npc:A, 5npd:A, 5npe:A, 7p4c:AAA, 7p4d:AAA, 8rw3:C, 8rw3:A, 8rw3:B
6 2f2h:A 773 600 0.2157 0.1850 0.2383 2.57e-37 2f2h:B, 2f2h:C, 2f2h:D, 2f2h:E, 2f2h:F, 1xsk:A, 1xsk:B, 1xsk:C, 1xsk:E
7 5hxm:A 1060 638 0.2428 0.1519 0.2524 4.83e-37 5f7u:A, 5hpo:A, 5i0d:A, 5i0d:B, 4kmq:A, 4kwu:A
8 6jr7:A 812 572 0.2157 0.1761 0.2500 1.63e-35 6jr7:B, 6jr7:C, 6jr7:D, 6jr8:A, 6jr8:B, 6jr8:C, 6jr8:D
9 5zn7:A 680 520 0.1961 0.1912 0.2500 1.51e-28 5zn7:C, 5zn7:D, 5zn7:F, 5zn7:H
10 5i0g:B 730 588 0.2247 0.2041 0.2534 7.11e-28 5f7s:A, 5f7s:B, 5i0e:B, 5i0f:B
11 5x3j:A 718 594 0.2247 0.2075 0.2508 1.16e-27 5x3j:B, 5x3k:A, 5x3k:B
12 7knc:A 919 241 0.1071 0.0773 0.2946 1.06e-22
13 5ief:A 858 395 0.1629 0.1259 0.2734 2.80e-21 5h9o:A, 5h9o:C, 5hjo:A, 5hjo:C, 5hjr:A, 5hjr:C, 5ied:A, 5iee:A, 5ieg:A, 7jty:A, 7jty:C, 7k9n:A, 7k9n:C, 7k9o:A, 7k9o:C, 7k9q:A, 7k9q:C, 7k9t:A, 7k9t:C, 7kad:A, 7kad:C, 7kb6:A, 7kb6:C, 7kb8:A, 7kb8:C, 7kbj:A, 7kbj:C, 7kbr:A, 7kbr:C, 7kry:A, 7kry:C
14 2xvk:A 944 262 0.1041 0.0731 0.2634 4.84e-20 2xvl:A
15 7qqg:B 623 406 0.1599 0.1701 0.2611 1.09e-19 7qqg:A, 7qqg:C, 7qqh:A, 7qqh:B, 7qqh:C, 7qqh:D
16 5jov:A 949 484 0.1569 0.1096 0.2149 2.94e-19
17 6dru:A 718 417 0.1508 0.1393 0.2398 3.22e-19 6dru:B
18 5x7o:A 1247 439 0.1554 0.0826 0.2346 3.08e-18 5x7o:B, 5x7p:B, 5x7p:A, 5x7q:A, 5x7q:B, 5x7r:A, 5x7r:B, 5x7s:A, 5x7s:B
19 7qqg:D 496 406 0.1569 0.2097 0.2562 9.80e-18
20 6c9x:A 666 391 0.1327 0.1321 0.2251 2.11e-15 6c9x:B, 6c9z:A, 6c9z:B, 6ca1:A, 6ca1:B, 6ca3:A, 6ca3:B, 3mkk:B, 3mkk:A, 3pha:A, 3pha:B, 3pha:C, 3pha:D, 3poc:B, 3poc:A
21 3wem:A 830 244 0.1041 0.0831 0.2828 4.05e-15 3w37:A, 3wel:A, 3wen:A, 3weo:A
22 4xpq:A 670 390 0.1373 0.1358 0.2333 1.04e-13 4xpp:A, 4xps:A
23 5kzw:A 850 197 0.0845 0.0659 0.2843 3.08e-13 8cb1:A, 8cb6:A, 5kzx:A, 5nn4:A, 5nn5:A, 5nn6:A, 5nn8:A, 7p2z:AaA, 7p32:AAA
24 6m77:A 907 225 0.1011 0.0739 0.2978 4.68e-13 7f7q:A, 7f7r:A
25 3lpp:B 869 372 0.1237 0.0944 0.2204 9.69e-12 3lpp:D
26 8j51:A 510 375 0.1373 0.1784 0.2427 7.39e-11 8j51:B, 8j52:A, 8j52:B
27 3l4u:A 864 212 0.0860 0.0660 0.2689 2.50e-10 3ctt:A, 3l4t:A, 3l4v:A, 3l4w:A, 3l4x:A, 3l4y:A, 3l4z:A, 2qmj:A
28 7wj9:A 733 179 0.0709 0.0641 0.2626 3.92e-10 7wj9:B, 7wj9:C, 7wj9:D, 7wj9:F, 7wj9:E, 7wjb:A, 7wjc:A, 7wjd:A, 7wje:A, 7wjf:A
29 3top:A 890 180 0.0769 0.0573 0.2833 7.27e-10 3top:B
30 7xoi:B 436 242 0.0905 0.1376 0.2479 2.66e-09 7xoi:D, 7xoi:F, 7xoi:H, 7xoi:J, 7xoi:L, 7xoi:N, 7xoi:P
31 5dky:A 928 191 0.0724 0.0517 0.2513 1.35e-07 5dkz:A, 5dl0:A
32 4amw:A 1025 233 0.0769 0.0498 0.2189 8.64e-04 4amw:B, 4amw:C, 4amw:D, 4amx:A, 4amx:B, 4amx:C, 4amx:D, 2x2i:A, 2x2i:B, 2x2i:C, 2x2i:D, 2x2j:A, 2x2j:B, 2x2j:C, 2x2j:D
33 6gne:B 494 77 0.0362 0.0486 0.3117 0.20 6gne:A
34 1yqq:A 273 66 0.0317 0.0769 0.3182 4.4 1yqq:B, 1yqq:C, 1yqu:A, 1yqu:B, 1yqu:C, 1yr3:A, 1yr3:B, 1yr3:C, 1yr3:D, 1yr3:E, 1yr3:F
35 6y87:A 470 86 0.0392 0.0553 0.3023 6.3 6y87:B, 6y87:C, 6y87:D, 6y87:E, 6y87:F
36 6zxf:z 373 42 0.0196 0.0349 0.3095 7.2 6zxg:z, 6zxh:z
37 5fgs:D 123 86 0.0317 0.1707 0.2442 7.6
38 4pbg:A 468 45 0.0271 0.0385 0.4000 8.2 4pbg:B
39 4xyd:A 445 65 0.0302 0.0449 0.3077 9.5
40 6zhp:B 341 60 0.0256 0.0499 0.2833 9.9 7fdy:A, 7fdy:B, 7fdy:C, 7ff7:A, 7ff7:B, 7ff7:C, 3fyx:A, 4gcp:A, 4gcp:B, 4gcq:A, 4gcq:B, 4gcs:A, 1gfm:A, 1gfn:A, 1gfo:A, 1gfp:A, 1gfq:A, 4lse:A, 4lse:B, 4lse:C, 4lsi:A, 4lsi:B, 4lsi:C, 1mpf:A, 5nuo:C, 5nuo:A, 5nuo:E, 5nuq:A, 5nuq:B, 5nuq:D, 5nuq:F, 5nur:E, 5nur:C, 5nur:A, 3o0e:A, 3o0e:F, 3o0e:C, 3o0e:D, 3o0e:E, 3o0e:B, 2omf:A, 2zfg:A, 6zhv:B, 6zhv:A, 6zhv:C, 2zld:A, 2zld: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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