Structure of PDB 2vsf Chain A Binding Site BS01

Receptor Information
>2vsf Chain A (length=588) Species: 2303 (Thermoplasma acidophilum) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
YGVALESPTGSGKTIMALKSALQYSSERKLKVLYLVRTNSQEEQVIKELR
SLSSTMKIRAIPMQGRVNMCILYRMVDDLHEINAESLAKFCNMKKREVMA
GNEAACPYFNFKIRSDETKRFLFDELPTAEEFYDYGERNNVCPYESMKAA
LPDADIVIAPYAYFLNRSVAEKFLSHWGVSRNQIVIILDEAHNLPDIGRS
IGSFRISVESLNRADREAQAYGDPELSQKIHVSDLIEMIRSALQSMVSER
CGKGDVRIRFQEFMEYMRIMNKRSEREIRSLLNYLYLFGEYVENEKEKVG
KVPFSYCSSVASRIIAFSDQDEEKYAAILSPEDGGYMQAACLDPSGILEV
LKESKTIHMSGTLDPFDFYSDITGFEIPFKKIGEIFPPENRYIAYYDGVS
SKYDTLDEKELDRMATVIEDIILKVKKNTIVYFPSYSLMDRVENRVSFEH
MKEYRGIDQKELYSMLKKFRRDHGTIFAVSGGRLSEGNELEMIILAGLPF
PRPDAINRSLFDYYERKYGKGWEYSVVYPTAIKIRQEIGRLIRSAEDTGA
CVILDKRAGQFRKFIPDMKKTSDPASDIYNFFISAQAR
Ligand information
Ligand IDSF4
InChIInChI=1S/4Fe.4S
InChIKeyLJBDFODJNLIPKO-UHFFFAOYSA-N
SMILES
SoftwareSMILES
OpenEye OEToolkits 2.0.7[S]12[Fe]3[S]4[Fe]1[S]5[Fe]2[S]3[Fe]45
CACTVS 3.385S1[Fe]S[Fe]1.S2[Fe]S[Fe]2
FormulaFe4 S4
NameIRON/SULFUR CLUSTER
ChEMBL
DrugBank
ZINC
PDB chain2vsf Chain A Residue 1616 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

[Spin on] [Spin off] [Reset]
[High quality] [Low quality]
[White background] [Black background]
[Spin on] [Spin off] [Reset]
[High quality] [Low quality]
[White background] [Black background]
PDB2vsf Crystal Structure of the Fes Cluster-Containing Nucleotide Excision Repair Helicase Xpd.
Resolution2.9 Å
Binding residue
(original residue number in PDB)		R88 C92 L94 C113 C128 F131 C164
Binding residue
(residue number reindexed from 1)		R66 C70 L72 C91 C106 F109 C142
Annotation score1
Enzymatic activity
Enzyme Commision number 3.6.4.12: DNA helicase.
Gene Ontology
Molecular Function
GO:0003676 nucleic acid binding
GO:0003677 DNA binding
GO:0003678 DNA helicase activity
GO:0004386 helicase activity
GO:0005524 ATP binding
GO:0016787 hydrolase activity
GO:0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides
GO:0016853 isomerase activity
GO:0016887 ATP hydrolysis activity
GO:0046872 metal ion binding
GO:0051539 4 iron, 4 sulfur cluster binding
Biological Process
GO:0006139 nucleobase-containing compound metabolic process
GO:0006281 DNA repair
GO:0032508 DNA duplex unwinding

View graph for
Molecular Function
View graph for
Biological Process
External links
PDB RCSB:2vsf, PDBe:2vsf, PDBj:2vsf
PDBsum2vsf
PubMed18578568
UniProtQ9HM14|XPD_THEAC ATP-dependent DNA helicase XPD (Gene Name=Ta0057)

[Back to BioLiP]