Brand  (β version)

PDB ID: 3M8R

Hetero Atom Contents

  The number of atoms exceeds 100,000.
  So, it can not be displayed here.

Select unit:

Select hetatm:   

close
information
centroid:
interaction residue:

Select chain:   Sequence  

Data format:   

Color scheme of protein:

Ligands
Code Name Style Show Link
15P Polyethylene glycol (N=34) PoSSuM
ACT Acetate ion PoSSuM
GOL Glycerol PoSSuM
HXZ 4'-ethylthymidine 5'-(tetrahydrogen triphosphate) PoSSuM
MG Magnesium ion PoSSuM
Non-standard Residues
Code Name Show
DOC 2',3'-dideoxycytidine-5'-monophosphate
Glycosylation
Code Name Emphasize
Modification
Code Name Show

Structure summary

Code : 3M8R   PDBj   RCSB PDB   PDBe
Header : Transferase/DNA
Title : Crystal structure of the large fragment of DNA polymerase I from Thermus aquaticus in a closed ternary complex with trapped 4'-ethylated dTTP
Release Data : 2010-07-07
Compound :
mol_id molecule chains synonym
1 DNA polymerase I, thermostable A Taq polymerase 1
ec: 2.7.7.7
fragment: Klenow Fragment
mol_id molecule chains
2 DNA (5'-D(*GP*AP*CP*CP*AP*CP*GP*GP*CP*GP*CP*(DOC))-3') B
mol_id molecule chains
3 DNA (5'-D(*AP*AP*AP*AP*GP*GP*CP*GP*CP*CP*GP*TP*GP*GP*TP*C)-3') C
Source :
mol_id organism_scientific expression_system
1 Thermus aquaticus  (taxid:271) Escherichia coli  (taxid:562)
gene: polA, pol1
expression_system_strain: BL21 DE3
expression_system_vector_type: plasmid
expression_system_plasmid: pET-21b
mol_id organism_scientific
2
synthetic: yes
mol_id organism_scientific
3
synthetic: yes
Authors : Diederichs, K., Marx, A., Betz, K.
Keywords : DNA, DNA polymerase, DNA replication, nucleotides, modified nucleotide, artificial nucleotide, nucleotide probes, DNA-binding, DNA-directed DNA polymerase, Nucleotidyltransferase, Transferase, Transferase-DNA complex
Exp. method : X-RAY DIFFRACTION ( 2.000 Å )
Citation :

Structures of DNA polymerases caught processing size-augmented nucleotide probes.

Betz, K.,Streckenbach, F.,Schnur, A.  et al.
(2010)  Angew.Chem.Int.Ed.Engl.  49 : 5181 - 5184

PubMed: 20572212
DOI: 10.1002/anie.200905724

Reaction

Chain : A
UniProt : P19821 (DPO1_THEAQ)
Reaction: EC: Evidence:
Physiological Direction:
a 2'-deoxyribonucleoside 5'-triphosphate + DNA(n) = diphosphate + DNA(n+1) 2.7.7.7 -
-