ISDA

Entry Detail

PDB ID:

3MBY

Keywords:

Title:

Ternary complex of DNA Polymerase BETA with template base A and 8oxodGTP in the active site with a dideoxy terminated primer

Biological Source:

Source Organism:

Homo sapiens

Host Organism:

Escherichia coli

PDB Version:

Deposition Date:

2010-03-26

Release Date:

2010-06-09

Method Details:

Experimental Method:

X-RAY DIFFRACTION

Resolution:

2.00 Å

R-Value Free:

0.24

R-Value Work:

0.19

R-Value Observed:

0.19

Space Group:

P 1 21 1

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Macromolecular Entities

Protein Blast

Polymer Type:polypeptide(L)
Description:DNA polymerase beta
Chain IDs:A
Chain Length:335
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P06746 Pfam ID:PF14716, PF10391, PF14792, PF14791 EC:2.7.7.7

Modified Residue

Compound ID	Chain ID	Parent Comp ID	Details	2D Image
DOC	C	DC	2',3'-DIDEOXYCYTIDINE-5'-MONOPHOSPHATE

Ligand Molecules

8DG

Primary Citation

Mutagenic conformation of 8-oxo-7,8-dihydro-2'-dGTP in the confines of a DNA polymerase active site.

Batra, V.K, Beard, W.A, Hou, E.W, Pedersen, L.C, Prasad, R, Wilson, S.H.Show

Nat.Struct.Mol.Biol. 17 889 890 (2010)

PMID: 20526335 DOI: 10.1038/nsmb.1852

Abstact

The major product of oxidative base damage is 8-oxo-7,8-dihydro-2'-deoxyguanine (8odG). The coding potential of this lesion is modulated by its glycosidic torsion angle that controls whether its Watson-Crick or Hoogsteen edge is used for base pairing. The 2.0-A structure of DNA polymerase (pol) beta bound with 8odGTP opposite template adenine indicates that the modified nucleotide assumes the mutagenic syn conformation and that the nonmutagenic anti conformation would be incompatible with efficient DNA synthesis.

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Protein

Chemical

Disease

Primary Citation of related structures