PDBsum entry 4b9m

Transferase/DNA

PDB id: 4b9m

Contents

Protein chain

580 a.a.

DNA/RNA

Ligands

SO4 ×6

Metals

_MG

Waters ×200

PDB id:

4b9m

Name:

Transferase/DNA

Title:

Structure of the high fidelity DNA polymerase i with an oxidative formamidopyrimidine-da DNA lesion -thymine basepair in the post- insertion site.

Structure:

DNA polymerase i. Chain: a. Engineered: yes. 5'-d( Gp Cp Cp Tp Gp Ap Cp Tp Cp Tp Tp)-3'. Chain: b. Engineered: yes. 5'-d( Dc Da Da Fax Ap Gp Ap Gp Tp Cp Ap Gp Gp Cp Tp)-3'. Chain: c. Engineered: yes

Source:

Geobacillus stearothermophilus. Organism_taxid: 1422. Expressed in: escherichia coli. Expression_system_taxid: 511693. Other_details: german collection of microorganisms dsm no. 22. Synthetic: yes. Organism_taxid: 1422

Resolution:

2.05Å R-factor: 0.188 R-free: 0.221

Authors:

T.H.Gehrke,U.Lischke,S.Arnold,S.Schneider,T.Carell

Key ref:

T.H.Gehrke et al. (2013). Unexpected non-Hoogsteen-based mutagenicity mechanism of FaPy-DNA lesions. Nat Chem Biol, 9, 455-461. PubMed id: 23685671 DOI: 10.1038/nchembio.1254

Date:

05-Sep-12 Release date: 17-Apr-13

Protein chain

E1C9K5  (E1C9K5_GEOSE) -  DNA polymerase I from Geobacillus stearothermophilus

Seq: 580 a.a.

Struc: 580 a.a.

DNA/RNA chains

G-C-C-T-G-A-C-T-C-T-T 11 bases

FAX-A-G-A-G-T-C-A-G-G-C-T 12 bases

Enzyme reactions

• Enzyme class: E.C.2.7.7.7 - DNA-directed Dna polymerase.
• Reaction: DNA(n) + a 2'-deoxyribonucleoside 5'-triphosphate = DNA(n+1) + diphosphate

Molecule diagrams generated from .mol files obtained from the KEGG ftp site

Added reference

DOI no: 10.1038/nchembio.1254

Nat Chem Biol 9:455-461 (2013)

PubMed id: 23685671

Unexpected non-Hoogsteen-based mutagenicity mechanism of FaPy-DNA lesions.

T.H.Gehrke, U.Lischke, K.L.Gasteiger, S.Schneider, S.Arnold, H.C.Müller, D.S.Stephenson, H.Zipse, T.Carell.

ABSTRACT

No abstract given.