Structure of PDB 8var Chain E Binding Site BS02

Receptor Information
>8var Chain E (length=334) Species: 562 (Escherichia coli) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
MRWYPWLRPDFEKLVASYQAGRGHHALLIQALPGMGDDALIYALSRYLLC
QQPQGHKSCGHCRGCQLMQAGTHPDYYTLAPEKGKNTLGVDAVREVTEKL
NEHARLGGAKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATREPER
LLATLRSRCRLHYLAPPPEQYAVTWLSREVTMSQDALLAALRLSAGSPGA
ALALFQGDNWQARETLCQALAYSVPSGDWYSLLAALNHEQAPARLHWLAT
LLMDALKRHHGAAQVTNVDVPGLVAELANHLSPSRLQAILGDVCHIREQL
MSVTGINRELLITDLLLRIEHYLQPGVVLPVPHL
Ligand information
Ligand IDZN
InChIInChI=1S/Zn/q+2
InChIKeyPTFCDOFLOPIGGS-UHFFFAOYSA-N
SMILES
SoftwareSMILES
CACTVS 3.341[Zn++]
ACDLabs 10.04
OpenEye OEToolkits 1.5.0		[Zn+2]
FormulaZn
NameZINC ION
ChEMBLCHEMBL1236970
DrugBankDB14532
ZINC
PDB chain8var Chain E Residue 401 [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]
PDB8var Differences between bacteria and eukaryotes in clamp loader mechanism, a conserved process underlying DNA replication.
Resolution3.9 Å
Binding residue
(original residue number in PDB)		C50 C59 C65
Binding residue
(residue number reindexed from 1)		C50 C59 C65
Annotation score1
Enzymatic activity
Enzyme Commision number 2.7.7.7: DNA-directed DNA polymerase.
Gene Ontology
Molecular Function
GO:0003677 DNA binding
GO:0003689 DNA clamp loader activity
GO:0003887 DNA-directed DNA polymerase activity
GO:0005515 protein binding
GO:0008408 3'-5' exonuclease activity
Biological Process
GO:0006260 DNA replication
GO:0006261 DNA-templated DNA replication
GO:0071897 DNA biosynthetic process
Cellular Component
GO:0009360 DNA polymerase III complex
GO:0030894 replisome
GO:0043846 DNA polymerase III, clamp loader complex

View graph for
Molecular Function
View graph for
Biological Process
View graph for
Cellular Component
External links
PDB RCSB:8var, PDBe:8var, PDBj:8var
PDBsum8var
PubMed38490435
UniProtP28631|HOLB_ECOLI DNA polymerase III subunit delta' (Gene Name=holB)

[Back to BioLiP]