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› 4n83

X-ray diffraction
2.65Å resolution

X-ray crystal structure of Streptococcus sanguinis dimanganese(II)-NrdF

Released:
DOI: 10.2210/pdb4n83/pdb
Model geometry
Fit model/data
PDB entry 4n83 coloured by chain, front view.
PDB entry 4n83 coloured by chain, side view.
PDB entry 4n83 coloured by chain, top view.
Source organism: Streptococcus sanguinis SK36
Primary publication:
Streptococcus sanguinis class Ib ribonucleotide reductase: high activity with both iron and manganese cofactors and structural insights.
Makhlynets O, Boal AK, Rhodes DV, Kitten T, Rosenzweig AC, Stubbe J
J Biol Chem 289 6259-72 (2014)
PMID: 24381172

Function and Biology Details

Reaction catalysed: 
a 2'-deoxyribonucleoside 5'-diphosphate + [thioredoxin]-disulfide + H2O =a ribonucleoside 5'-diphosphate + [thioredoxin]-dithiol.
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-106992 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Ribonucleoside-diphosphate reductase subunit beta Chains: A, B, C, D, E, F, G, H
Molecule details ›
Chains: A, B, C, D, E, F, G, H
Length: 319 amino acids
Theoretical weight: 36.84 KDa
Source organism: Streptococcus sanguinis SK36
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: A3CLZ4 (Residues: 1-319; Coverage: 100%)
Gene names: SSA_0768, nrdF
Sequence domains: Ribonucleotide reductase, small chain
Structure domains: Ribonucleotide Reductase, subunit A

Ligands and Environments

1 bound ligand:
Ligand MN 16 x MN
No modified residues

Experiments and Validation Details

wwPDB Validation report is not available for this entry.
X-ray source: APS BEAMLINE 21-ID-D
Spacegroup: P21
Unit cell:
a: 117.657Å b: 80.224Å c: 166.374Å
α: 90° β: 105.91° γ: 90°
R-values:
R R work R free
0.238 0.236 0.278
Expression system: Escherichia coli BL21(DE3)

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Citations

11 review citations

Manganese homeostasis and utilization in pathogenic bacteria.
Juttukonda et al. (2015)
10 more

3 mentions without citation

Streptococcus sanguinis class Ib ribonucleotide reductase: high activity with both iron and manganese cofactors and structural insights.
Makhlynets et al. (2014)
2 more