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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
IERPEDFLKDKENAIQWEKKEAERVEKNLDTLEKEALELYKKDSEQISNYSQTRQYFYDYQIESNPREKEYKNLRNAISK
NKIDKPINVYYFESPEKFAFNKEIRTENQNEISLEKFNELKETIQDKLFKQDGFKDVSLYEPGNGDEKPTPLLIHLKLPK
NTGMLPYINSNDVKTLIEQDYSIKIDKIVRIVIEGKQYIKAEASIVNSLDFKDDVSKGDLWGKENYSDWSNKLTPNELAD
VNDYMRGGYTAINNYLISNGPLNNPNPELDSKVNNIENALKLTPIPSNLIVYRRSGPQEFGLTLTSPEYDFNKIENIDAF
KEKWEGKVITYPNFISTSIGSVNMSAFAKRKIILRINIPKDSPGAYLSAIPGYAGEYEVLLNHGSKFKINKVDSYKDGTV
TKLILDATLIN

The query sequence (length=411) 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 4h03:A 414 411 1.0000 0.9928 1.0000 0.0 3buz:A, 1giq:A, 1giq:B, 1gir:A, 4h0t:A, 4h0v:A, 4h0x:A, 4h0y:A
2 6x6x:A 417 410 0.8564 0.8441 0.8585 0.0 2wn6:A, 2wn7:A, 6x6r:A, 6x6r:B, 6x6v:A, 6x6v:B, 6x6v:C, 6x6v:D, 6x6x:B
3 5wtz:A 420 416 0.4477 0.4381 0.4423 1.46e-112 5h04:A, 5wu0:A
4 1qs2:A 401 349 0.2774 0.2843 0.3266 2.79e-46
5 1qs2:A 401 198 0.1071 0.1097 0.2222 0.002
6 4fxq:A 445 210 0.1533 0.1416 0.3000 1.91e-18 4fk7:A, 4fxq:B
7 4fxq:A 445 146 0.1046 0.0966 0.2945 0.034 4fk7:A, 4fxq:B
8 5dzq:O 184 169 0.1265 0.2826 0.3077 4.11e-16 5dzq:A
9 5dzq:O 184 185 0.1168 0.2609 0.2595 3.21e-04 5dzq:A
10 5bwm:B 205 187 0.1314 0.2634 0.2888 2.42e-11 4xsh:B
11 5bwm:B 205 212 0.1241 0.2488 0.2406 0.022 4xsh:B
12 1gzf:B 211 202 0.1290 0.2512 0.2624 1.67e-10 2a9k:B, 2c8a:A, 2c8a:B, 2c8a:C, 2c8a:D, 2c8c:A, 2c8c:D, 2c8c:B, 2c8c:C, 2c8f:E, 2c8h:A, 2c8h:B, 1gzf:A, 1gzf:C, 1gzf:D, 1uzi:A, 1uzi:B
13 1ojz:A 212 193 0.1046 0.2028 0.2228 0.005
14 4xzj:A 222 197 0.1144 0.2117 0.2386 0.010 4xzk:A, 4yc0:A
15 1vrg:A 515 238 0.1387 0.1107 0.2395 0.060 1vrg:B, 1vrg:C, 1vrg:D, 1vrg:E, 1vrg:F
16 1j70:A 512 58 0.0389 0.0312 0.2759 3.0 1g8f:A, 1g8g:A, 1g8g:B, 1g8h:A, 1g8h:B, 1j70:B, 1j70:C, 1jec:A, 1jed:A, 1jed:B, 1jee:A, 1jee:B, 1r6x:A
17 3zp5:A 92 68 0.0462 0.2065 0.2794 5.3
18 1xim:A 392 103 0.0608 0.0638 0.2427 6.7 1xim:B, 1xim:C, 1xim:D, 1xin:A, 1xin:B, 1xin:C, 1xin:D, 2xim:A, 2xim:B, 2xim:C, 2xim:D, 2xin:A, 2xin:B, 2xin:C, 2xin:D, 3xim:A, 3xim:B, 3xim:C, 3xim:D, 4xim:A, 4xim:B, 4xim:C, 4xim:D, 5xim:A, 5xim:B, 5xim:C, 5xim:D, 5xin:A, 5xin:B, 5xin:C, 5xin:D, 6xim:A, 6xim:B, 6xim:C, 6xim:D, 8xim:A, 8xim:B, 8xim:C, 8xim:D, 9xim:A, 9xim:B, 9xim:C, 9xim:D
19 7sgl:D 406 109 0.0560 0.0567 0.2110 9.0 7abs:A, 7af1:A, 7afs:A, 7afu:A, 7agi:A, 7apv:A, 6tt5:AAA, 6wnl:A, 6wnl:B, 6wo0: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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