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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
DNYQELRVQFAAQAVDRNEIEQWVREFAYQGFDARRVIELLKQYGGADWEKDAKKMIVLALTRGNKPRRMMMKMSKEGKA
TVEALINKYKLKEGNPSRDELTLSRVAAALAGWTCQALVVLSEWLPVTGTTMDGLSPAYPRHMMHPSFAGMVDPSLPGDY
LRAILDAHSLYLLQFSRVINPNLRGRTKEEVAATFTQPMNAAVNSNFISHEKRREFLKAFGLVDSNGKPSAAVMAAAQAY
KTAA

The query sequence (length=244) 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 3ov9:A 245 244 1.0000 0.9959 1.0000 0.0 4h5o:A, 4h5o:B, 4h5o:D, 4h5o:F, 4h5o:G, 4h5o:C, 4h5o:E, 4h5o:H, 4h5o:I, 4h5o:J, 4h5p:A, 4h5p:B, 4h5p:C, 4h5p:D, 4h5q:A, 4h5q:B, 4h5q:C, 3ouo:A, 3ouo:B, 3ouo:C, 3ov9:B, 3ov9:C, 4v9e:AA, 4v9e:AB, 4v9e:AC, 4v9e:AD, 4v9e:AE, 4v9e:AF, 4v9e:AG, 4v9e:AH, 4v9e:AI, 4v9e:AJ, 4v9e:AK, 4v9e:AL, 4v9e:AM, 4v9e:AN, 4v9e:AO, 4v9e:AP, 4v9e:AQ, 4v9e:AR, 4v9e:BA, 4v9e:BB, 4v9e:BC, 4v9e:BD, 4v9e:BE, 4v9e:BF, 4v9e:BG, 4v9e:BH, 4v9e:BI, 4v9e:BJ, 4v9e:BK, 4v9e:BL, 4v9e:BM, 4v9e:BN, 4v9e:BO, 4v9e:BP, 4v9e:BQ, 4v9e:BR
2 4csf:K 251 245 0.5000 0.4861 0.4980 1.91e-85 4csf:A, 4csf:B, 4csf:F, 4csf:C, 4csf:D, 4csf:E, 4csf:G, 4csf:H, 4csf:L, 4csf:I, 4csf:J, 4csf:M, 4csf:N, 4csf:R, 4csf:O, 4csf:P, 4csf:Q, 4csf:S, 4csf:T, 4csf:X, 4csf:U, 4csf:V, 4csf:W
3 4j4v:D 246 240 0.3811 0.3780 0.3875 4.04e-48 4j4v:A, 4j4v:B, 4j4v:C, 4j4v:E
4 3m83:A 325 66 0.0943 0.0708 0.3485 0.41 5jib:A, 5jib:B, 5jib:C, 5jib:D, 5jib:E, 5jib:F, 3m81:A, 3m81:C, 3m81:B, 3m81:D, 3m81:E, 3m81:F, 3m82:A, 3m82:C, 3m82:B, 3m82:D, 3m82:E, 3m82:F, 3m83:B, 3m83:C, 3m83:D, 3m83:E, 3m83:F
5 6vsp:B 252 110 0.1148 0.1111 0.2545 0.44 6vsp:A, 6xew:A, 6xew:B, 6xex:A
6 4qkb:A 190 49 0.0697 0.0895 0.3469 0.56 4qkb:B, 4qkb:C, 4qkd:A, 4qkd:B, 4qkd:C, 4qkf:A, 4qkf:B, 4qkf:C
7 7kb1:A 428 71 0.0779 0.0444 0.2676 3.0 7kb1:B, 7kb1:C, 7kb1:D
8 4cnj:A 391 35 0.0574 0.0358 0.4000 6.9 4cnj:B, 4cnj:C, 4cnj:D, 4cnk:A, 4cnk:B
9 6d03:A 641 40 0.0656 0.0250 0.4000 7.6 6d03:B, 6d04:A, 6d04:B, 6d05:A, 6d05:B, 1de4:C, 1de4:F, 1de4:I, 3s9l:A, 3s9l:B, 3s9m:A, 3s9m:B, 3s9n:A, 3s9n:B, 6wrv:A, 6wrv:B, 6wrv:E, 6wrw:A, 6wrw:B, 6wrx:A, 6wrx:B, 7zqs:B, 7zqs: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).
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