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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
FVFRDPSLHANTQYQHAWPLLSHDDLGNSDQSNNTKNIMYSMYMPKRNKGTAPWFRGADTYSVKYCEQGRYEYQRYLMIN
RFPSEYKKHFLSFLSNIRMSSGSATIPQEALHWLLRMIVDNFNPQHVHYIAAMKTLQSAGELDMARDVWKIMERQQTWPC
TATICAYLDVCVEAGEKTWAMEAWNRYCTELKFLEPGEVDPKPISRVPFSLTREELLYLPKWKKHFDHDPNLDVMDLNRF
NRTREVYLRMAQVMLAGGERNAFQHFFTKLEEAMLNKPTPVPEPPNPHLVRRPRWAPYEHCKSVHHSPWRLQNNGRALAL
GPPVTIEDEMQSRFFSNDQFLVHSVKEVLRIVLQEHKRAHPTECTRCKTEAFFYKTKDADETLKFCDDLIERLFASLGVR
LSNLNTSSLLSTILEVFRVVGKESGAALLQRANEFLERKASLGDAEGSRENLTASNYLQVLSGFADESAFVYNTKKDGTC
QYKTGFDPRTTMRHLADVVQEIAGNPHVTWAADMHLQVVETMVGCGTMKANDYFVRNVLRQFSWDSRFLEALYVEYRRQD
DVDMWAELTKRALVWTARYNAPASERLRRLIEDDYDTIRVQTRTFRELAVFQFRDVEERRHSRDVVNELPNPWYDYVAHA
LPFPDRDAGYPDEYGDLGQWRAPGGPGSPVRGPGYYAPPMEGEHQRGYTAEWRDLRNPMRPPEFPTPWERKYRQYARGQH
PSYDMVYAGPMPEIFPMRRDFRKPTRWDFHDIEKQGKYRTSGPY

The query sequence (length=764) 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 6hiv:DD 791 758 0.9751 0.9418 0.9828 0.0 6hiw:DD, 6hiy:DD, 7pua:DD, 7pub:DD, 6sga:DD, 6sgb:DD
2 7aor:ad 801 757 0.8586 0.8190 0.8666 0.0
3 7ane:ad 694 683 0.6754 0.7435 0.7555 0.0
4 5i9f:A 388 144 0.0393 0.0773 0.2083 0.25 5i9g:C
5 5i9f:A 388 136 0.0380 0.0747 0.2132 3.6 5i9g:C
6 3rvr:B 131 66 0.0262 0.1527 0.3030 0.28 1a0o:A, 1a0o:C, 1a0o:E, 1a0o:G, 2b1j:A, 2b1j:B, 1bdj:A, 1chn:A, 2che:A, 3chy:A, 5chy:A, 5d2c:A, 5d2c:B, 5dgc:A, 5dgc:B, 5dkf:A, 5dkf:B, 1f4v:A, 1f4v:B, 1f4v:C, 3f7n:A, 3f7n:B, 1ffg:A, 1ffg:C, 1ffs:A, 1ffs:C, 1ffw:A, 1ffw:C, 3fft:A, 3fft:B, 3ffw:A, 3ffw:B, 3ffx:A, 3ffx:B, 3fgz:A, 3fgz:B, 2fka:A, 2flk:A, 2flw:A, 2fmf:A, 2fmh:A, 2fmi:A, 2fmk:A, 1fqw:A, 1fqw:B, 1kmi:Y, 1mih:A, 1mih:B, 3myy:A, 3myy:B, 3olv:A, 3olv:B, 3olw:A, 3olw:B, 3olx:A, 3olx:B, 3oly:A, 3oly:B, 3oo0:A, 3oo0:B, 3oo1:A, 3oo1:B, 2pl9:A, 2pl9:B, 2pl9:C, 2pmc:A, 2pmc:B, 3rvj:A, 3rvj:B, 3rvk:A, 3rvl:A, 3rvl:B, 3rvm:A, 3rvn:A, 3rvn:B, 3rvo:A, 3rvp:A, 3rvp:B, 3rvq:A, 3rvr:A, 3rvs:A, 3rvs:B, 6tg7:A, 1u8t:A, 1u8t:B, 1ymv:A, 1zdm:A, 1zdm:B
7 5i9h:A 368 144 0.0393 0.0815 0.2083 0.93 5i9d:A
8 5i9h:A 368 138 0.0393 0.0815 0.2174 1.2 5i9d:A
9 6eej:A 264 58 0.0288 0.0833 0.3793 2.2 6eej:B, 6eej:C, 6eej:D, 4zbt:A, 4zbt:B, 4zbt:C, 4zbt:D
10 3ldf:A 380 50 0.0183 0.0368 0.2800 4.9
11 3pgv:A 259 26 0.0170 0.0502 0.5000 7.7 3pgv:B, 3pgv:C, 3pgv:D

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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).
  • yangzhanglabumich.edu | (734) 647-1549 | 100 Washtenaw Avenue, Ann Arbor, MI 48109-2218