PDBsum entry 9emh

Transferase

PDB id: 9emh

Contents

Protein chain

756 a.a.

DNA/RNA

Ligands

IMD ×4

GOL

Metals

_MG ×2

Waters ×37

PDB id:

9emh

Name:

Transferase

Title:

Kod-h4 DNA polymerase mutant in a binary complex with dna:dna containing two hna nucleotides

Structure:

DNA polymerase. Chain: a. Engineered: yes. DNA (5'-d( Gp Ap Cp Cp Ap Cp Gp Gp Cp Cp Ap Cp A)-3'). Chain: p. Engineered: yes. DNA (5'-d( Ap Ap Cp (6Ht)p (6Hg) p Tp Gp Gp Cp Cp Gp Tp Gp Gp Tp C)-3'). Chain: t.

Source:

Thermococcus kodakarensis kod1. Organism_taxid: 69014. Expressed in: escherichia coli. Expression_system_taxid: 562. Synthetic: yes. Synthetic construct. Organism_taxid: 32630. Organism_taxid: 32630

Resolution:

2.70Å R-factor: 0.227 R-free: 0.257

Authors:

C.Gutfreund,K.Betz

Key ref:

C.Gutfreund and k.betz Crystallographic insights into a mutant archaeal b-Fa polymerase processing hna. To be published, .

Date:

08-Mar-24 Release date: 24-Sep-25

Protein chain

D0VWU9  (D0VWU9_THEKO) -  DNA polymerase from Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1)

Seq: 774 a.a.

Struc: 756 a.a.*

* PDB and UniProt seqs differ at 20 residue positions (black crosses)

DNA/RNA chains

G-A-C-C-A-C-G-G-C-C-A-C-A 13 bases

A-A-C-6HT-6HG-T-G-G-C-C-G-T-G-G-T-C 16 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