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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
PFTYSIEATRNLATTERCIQDIRNAPVRNRSTQFQLAQQNMLAYTFGEVIPGFASAGINGMDYRDVIGRPVENAVTEGTH
FFRDDFRVDSNAKAKVAGDIFEIVSSAVMWNCAARWNSLMVGEGWRSQPRYSRPTLSPSPRRQVAVLNLPRSFDWVSLLV
PESQEVIEEFRAGLRKDGLGLPTSTPDLAVVVLPEEFQNDEMWREEIAGLTRPNQILLSGAYQRLQGRVQPGEISLAVAF
KRSLRSDRLYQPLYEANVMQLLLEGKLGAPKVEFEVHTLAPEGTNAFVTYEAASLYGLARSAVHRAIRELYVPPTAADLA
RRFFAFLNERMELVNG

The query sequence (length=336) 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 3dpg:A 338 338 1.0000 0.9941 0.9941 0.0 4c3g:A, 4c3g:B, 3dpg:B, 3dvo:A, 3dvo:B, 3dvo:C, 3dvo:D, 3dw9:A, 3dw9:B, 3mq6:A, 3mq6:B, 3mq6:C, 3mq6:D, 3mq6:E, 3mq6:F, 3mq6:G, 3mq6:H, 3mqy:A, 3mqy:B, 3n78:A, 3n78:B, 3n7b:A, 3n7b:B, 6obj:A, 6obj:B, 7s8d:A, 7s8d:B, 7ss5:A, 7ss5:B
2 3v1z:A 290 180 0.1250 0.1448 0.2333 4.40e-06 3v1z:B, 3v20:A, 3v20:B, 3v21:A, 3v21:B, 3v21:C, 3v21:D, 3v21:E, 3v21:F, 3v21:G, 3v21:H
3 8a22:Bm 113 52 0.0536 0.1593 0.3462 1.4 8apn:Bm, 8apo:Bm
4 4m28:A 483 67 0.0506 0.0352 0.2537 1.5 4m2a:A, 4m2b:A, 5nzg:A, 5nzi:A, 5nzj:A, 5nzk:A, 5nzl:A, 5nzm:A, 2oeg:A
5 4obo:A 275 60 0.0506 0.0618 0.2833 2.0 4obq:A, 4u41:A, 4u42:B
6 8uu9:V 93 53 0.0685 0.2473 0.4340 3.2 8a57:W, 8a5i:W, 8a63:W, 7nhn:W, 8uu4:V, 8uu5:V, 8uu6:V, 8uu7:V, 8uu8:V, 8uua:V
7 7fap:A 1236 24 0.0298 0.0081 0.4167 6.4
8 6n13:B 322 17 0.0208 0.0217 0.4118 8.7 2jmo:A
9 5c1z:A 384 17 0.0208 0.0182 0.4118 8.8 4bm9:A, 5c1z:B, 5c23:A, 5c23:B, 5c9v:A, 6glc:A, 6hue:A, 6hue:B, 4i1f:A, 4i1h:A, 8ik6:C, 8ikm:A, 8ikt:A, 8ikv:C, 8ikv:A, 8jwv:A, 5n2w:A, 5n38:A, 8wzn:A, 8wzo:A
10 8ik6:A 250 17 0.0208 0.0280 0.4118 8.9
11 6bdo:D 395 88 0.0655 0.0557 0.2500 9.5 6bdo:B, 6bdo:A, 6bdo:C, 5kmp:A, 5kmp:B, 5kmq:A, 5kmq:B, 5kmq:C, 5kmq:D, 5kmr:B, 5kmr:A, 5kmr:C, 5kmr:D, 5kms:A, 5kms:B, 5kms:C, 5kms:D, 4nwz:A, 4nwz:B, 4nwz:C, 4nwz:D, 5wed:B, 5wed:A, 5wed:C, 5wed:D
12 8fpi:A 1357 48 0.0417 0.0103 0.2917 9.8
13 8sny:A 1388 48 0.0417 0.0101 0.2917 9.8 8fu3:A, 8snx: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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