PDBsum entry 3s9h

Transferase/DNA

PDB id: 3s9h

Contents

Protein chain

903 a.a.

DNA/RNA

Ligands

DUP

Metals

_CA ×7

Waters ×1155

PDB id:

3s9h

Name:

Transferase/DNA

Title:

Rb69 DNA polymerase triple mutant(l561a/s565g/y567a) ternary complex with dupnpp and a dideoxy-terminated primer in the presence of ca2+

Structure:

5'-d( Tp Cp Ap Ap Gp Tp Ap Ap Gp Cp Ap Gp Tp Cp Cp Gp Cp G) -3'. Chain: t. Engineered: yes. Other_details: template DNA strand. 5'-d( Gp Cp Gp Gp Ap Cp Tp Gp Cp Tp Tp Ap (Doc))-3'. Chain: p. Engineered: yes. Other_details: primer DNA strand.

Source:

Synthetic: yes. Enterobacteria phage rb69. Organism_taxid: 12353. Gene: 43, gp43. Expressed in: escherichia coli. Expression_system_taxid: 469008.

Resolution:

1.95Å R-factor: 0.173 R-free: 0.213

Authors:

M.Wang,J.Wang,W.H.Konigsberg

Key ref:

S.Xia et al. (2011). Structural insights into complete metal ion coordination from ternary complexes of B family RB69 DNA polymerase. Biochemistry, 50, 9114-9124. PubMed id: 21923197

Date:

01-Jun-11 Release date: 12-Oct-11

Protein chain

Q38087  (DPOL_BPR69) -  DNA-directed DNA polymerase from Escherichia phage RB69

Seq: 903 a.a.

Struc: 903 a.a.*

* PDB and UniProt seqs differ at 5 residue positions (black crosses)

DNA/RNA chains

T-C-A-A-G-T-A-A-G-C-A-G-T-C-C-G-C-G 18 bases

G-C-G-G-A-C-T-G-C-T-T-A-DOC 13 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

Biochemistry 50:9114-9124 (2011)

PubMed id: 21923197

Structural insights into complete metal ion coordination from ternary complexes of B family RB69 DNA polymerase.

S.Xia, M.Wang, G.Blaha, W.H.Konigsberg, J.Wang.

ABSTRACT

No abstract given.