6L84 image
Deposition Date 2019-11-04
Release Date 2020-07-08
Last Version Date 2023-11-22
Entry Detail
PDB ID:
6L84
Keywords:
DNA BINDING PROTEIN/DNA
Title:
Complex of DNA polymerase IV and D-DNA duplex
Biological Source:
Source Organism:
Saccharolobus solfataricus (strain ATCC 35092 / DSM 1617 / JCM 11322 / P2) (Taxon ID: 273057)
synthetic construct (Taxon ID: 32630)
Host Organism:
Escherichia coli
Method Details:
Experimental Method:
X-RAY DIFFRACTION
Resolution:
2.60 Å
R-Value Free:
0.22
R-Value Work:
0.18
R-Value Observed:
0.18
Space Group:
P 2 21 21
6L84 validation report
Macromolecular Entities
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:DNA polymerase IV
Gene (Uniprot):dbh
Chain IDs:A
Chain Length:360
Number of Molecules:1
Biological Source:Saccharolobus solfataricus (strain ATCC 35092 / DSM 1617 / JCM 11322 / P2)
UniProt ID:Q97W02 Pfam ID:PF00817, PF11798, PF11799 EC:2.7.7.7
Polymer Type:polydeoxyribonucleotide
Molecule:DNA (5'-D(*GP*GP*GP*GP*GP*AP*AP*GP*GP*AP*TP*TP*CP*C)-3')
Chain IDs:B (auth: P)
Chain Length:14
Number of Molecules:1
Biological Source:synthetic construct
Polymer Type:polydeoxyribonucleotide
Molecule:DNA (5'-D(P*CP*GP*GP*AP*AP*TP*CP*CP*TP*TP*CP*CP*CP*CP*C)-3')
Chain IDs:C (auth: T)
Chain Length:18
Number of Molecules:1
Biological Source:synthetic construct
Ligand Molecules
CA
Primary Citation
The crystal structure of a natural DNA polymerase complexed with mirror DNA.
Chem.Commun.(Camb.) 56 2186 2189 (2020)
PMID: 31971182 DOI: 10.1039/c9cc09351f

Abstact

The intrinsic l-DNA binding properties of a natural DNA polymerase was discovered. The binding affinity of Dpo4 polymerase for l-DNA was comparable to that for d-DNA. The crystal structure of Dpo4/l-DNA complex revealed a dimer formed by the little finger domain that provides a binding site for l-DNA.

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Protein

Chemical

Disease

Primary Citation of related structures
6L84