Structure of PDB 3gli Chain B

Receptor sequence

>3gliB (length=359) Species: 83333 (Escherichia coli K-12)

VLARKWRPQTFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSI
ARLLAKGLNCETGITATPCGVCDNCREIEQGRFVDLIEIDAASRTKVEDT
RDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLL
ATTDPQKLPVTILSRCLQFHLKALDVEQIRHQLEHILNEEHIAHEPRALQ
LLARAAEGSLRDALSLTDQAIASGDGQVSTQAVSAMLGTLDDDQALSLVE
AMVEANGERVMALINEAAARGIEWEALLVEMLGLLHRIAMVQLSPAALGN
DMAAIELRMRELARTIPPTDIQLYYQTLLIGRKELPYAPDRRMGVEMTLL
RALAFHPRM

3D structure

• PDB: 3gli The mechanism of ATP-dependent primer-template recognition by a clamp loader complex.
• Chain: B
• 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	B	K100 V101 S132 H134	K96 V97 S128 H130	PDBbind-CN: Kd=0.38uM
BS02	peptide	B	L327 Y328 T331 R355 L357 A358 F359 H360 P361 R362	L323 Y324 T327 R351 L353 A354 F355 H356 P357 R358
BS03	ADP	B	A7 W10 R11 P12 V19 G48 V49 G50 K51 T52 S53 L214 R215	A3 W6 R7 P8 V15 G44 V45 G46 K47 T48 S49 L210 R211
BS04	BEF	B	R47 G48 K51 E127 R215	R43 G44 K47 E123 R211
BS05	MG	B	T52 D126	T48 D122
BS06	ZN	B	C73 C76 C79	C69 C72 C75

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)