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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
HMQPFAIAPSILSADFARLGEDVDKVLAAGADIVHFDVMDNHYVPNLTIGPMVCSALRKYGVSAPIDVHLMVSPVDRIIG
DFIEAGATYITFHPEASQHIDRSLQLIRDGGCKAGLVFNPATPLEVLKYVMDKVDMVLLMSVNPGFQKFIPGTLDKLREA
RALIDASGREIRLEIDGGVNVKNIREIAAAGADTFVAGSAIFNAPDYAEVIRAMHAELAQA

The query sequence (length=221) 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 7u5y:A 227 221 1.0000 0.9736 1.0000 1.61e-162 7u5y:B, 7u5y:C, 7u5y:D, 7u5y:E, 7u5y:F
2 5umf:C 224 223 0.6878 0.6786 0.6816 2.82e-105 5umf:A, 5umf:B
3 7sbj:A 221 218 0.7285 0.7285 0.7385 1.26e-104 7sbj:B, 7sbj:C
4 1rpx:A 230 214 0.4570 0.4391 0.4720 8.12e-65 1rpx:B, 1rpx:C
5 7b1w:F 234 217 0.4480 0.4231 0.4562 1.25e-60 7b1w:J, 7b1w:A, 7b1w:B, 7b1w:C, 7b1w:D, 7b1w:E, 7b1w:G, 7b1w:H, 7b1w:I, 7b1w:K, 7b1w:L
6 2fli:C 219 214 0.4027 0.4064 0.4159 5.22e-53 2fli:A, 2fli:B, 2fli:D, 2fli:E, 2fli:F, 2fli:G, 2fli:H, 2fli:I, 2fli:J, 2fli:K, 2fli:L
7 3ct7:A 219 217 0.3891 0.3927 0.3963 1.08e-47 3ct7:B, 3ct7:C, 3ct7:D, 3ct7:E, 3ct7:F, 3ctl:A, 3ctl:B, 3ctl:C, 3ctl:D, 3ctl:E, 3ctl:F
8 4nu7:C 227 217 0.3982 0.3877 0.4055 3.03e-47 4nu7:A, 4nu7:B, 4nu7:D
9 1h1y:B 219 215 0.3982 0.4018 0.4093 5.49e-45 1h1z:A, 1h1z:B
10 3qc3:A 225 220 0.3891 0.3822 0.3909 5.94e-43 3ovp:A, 3ovp:B, 3ovq:A, 3ovq:B, 3ovr:A, 3ovr:B, 3qc3:B
11 1tqx:A 221 222 0.3439 0.3439 0.3423 8.04e-39 1tqx:B
12 2i1o:A 389 80 0.1041 0.0591 0.2875 0.16 1yte:A, 1ytk:A
13 3gnn:B 244 58 0.0995 0.0902 0.3793 0.25
14 3gnn:A 266 58 0.0995 0.0827 0.3793 0.27
15 5k0w:B 271 83 0.1222 0.0996 0.3253 0.48 5k0w:A
16 2cze:A 208 29 0.0588 0.0625 0.4483 0.49 2cze:B, 2czf:A, 2czf:B
17 6enz:A 487 42 0.0633 0.0287 0.3333 0.63 6enz:B
18 1qap:A 289 90 0.1041 0.0796 0.2556 0.78 1qap:B
19 2flh:B 153 92 0.1267 0.1830 0.3043 2.0 3c0v:A, 3c0v:B, 3c0v:C, 3c0v:D, 2flh:A, 2flh:C, 2flh:D, 4psb:A
20 1wa3:D 203 126 0.1448 0.1576 0.2540 2.8 1wa3:A, 1wa3:B, 1wa3:C, 1wa3:E, 1wa3:F
21 2a7r:A 338 128 0.1357 0.0888 0.2344 4.1 2a7r:B, 2a7r:C, 2bzn:A, 2bzn:B, 2bzn:C, 2bzn:D, 2bzn:E, 2bzn:F, 2bzn:G, 2bzn:H, 2c6q:A, 2c6q:B, 2c6q:D, 2c6q:C, 2c6q:E, 2c6q:F, 2c6q:H, 2c6q:G
22 9b4e:A 389 54 0.0724 0.0411 0.2963 4.1 9b4e:B, 9b4g:A, 9b4g:B
23 7mq8:LN 671 71 0.0995 0.0328 0.3099 4.2 7mq9:LN, 7mqa:LN
24 8k69:A 458 62 0.0769 0.0371 0.2742 4.3 8k66:A, 8k66:B, 8k69:B
25 3ajx:A 207 40 0.0724 0.0773 0.4000 4.5 3ajx:B, 3ajx:C, 3ajx:D
26 6gf7:A 105 66 0.0769 0.1619 0.2576 4.9 6gf7:B
27 5t8u:B 336 68 0.0860 0.0565 0.2794 5.7 5t8u:A
28 7v00:F 695 118 0.1267 0.0403 0.2373 7.8 7v01:F

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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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