Structure of PDB 3gli Chain D

Receptor sequence

>3gliD (length=362) Species: 83333 (Escherichia coli K-12)

SYQVLARKWRPQTFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGK
TSIARLLAKGLNCETGITATPCGVCDNCREIEQGRFVDLIEIDAASRTKV
EDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVK
FLLATTDPQKLPVTILSRCLQFHLKALDVEQIRHQLEHILNEEHIAHEPR
ALQLLARAAEGSLRDALSLTDQAIASGDGQVSTQAVSAMLGTLDDDQALS
LVEAMVEANGERVMALINEAAARGIEWEALLVEMLGLLHRIAMVQLSPAA
LGNDMAAIELRMRELARTIPPTDIQLYYQTLLIGRKELPYAPDRRMGVEM
TLLRALAFHPRM

3D structure

• PDB: 3gli The mechanism of ATP-dependent primer-template recognition by a clamp loader complex.
• Chain: D
• Resolution: 3.5 Å

Enzymatic activity

• Enzyme Commision number: 2.7.7.7: DNA-directed DNA polymerase.

Interaction with ligand

Site #	Ligand	Ligand chain	Binding residues on receptor (original residue number in PDB)	Binding residues on receptor (residue number reindexed from 1)	Binding affinity
BS01	dna	D	K100 V101 S132 H134	K99 V100 S131 H133	PDBbind-CN: Kd=0.38uM
BS02	peptide	D	T323 D324 L327 Q330 R362	T322 D323 L326 Q329 R361
BS03	ADP	D	A7 R11 P12 V18 V19 G48 V49 G50 K51 T52 S53 L214 R215 L218	A6 R10 P11 V17 V18 G47 V48 G49 K50 T51 S52 L213 R214 L217
BS04	BEF	D	R47 K51 E127 R215	R46 K50 E126 R214
BS05	MG	D	T52 D126	T51 D125
BS06	ZN	D	C64 C79	C63 C78

Gene Ontology

Molecular Function

• GO:0003677 DNA binding
• GO:0003887 DNA-directed DNA polymerase activity
• GO:0005524 ATP binding
• GO:0016887 ATP hydrolysis activity

Biological Process

• GO:0006260 DNA replication

Cellular Component

• GO:0009360 DNA polymerase III complex

External links

• PDB: RCSB:3gli, PDBe:3gli, PDBj:3gli
• PDBsum: 3gli
• PubMed: 19450514
• UniProt: P06710|DPO3X_ECOLI DNA polymerase III subunit tau (Gene Name=dnaX)