› 2hxv

X-ray diffraction
1.8Å resolution

Crystal structure of a diaminohydroxyphosphoribosylaminopyrimidine deaminase/ 5-amino-6-(5-phosphoribosylamino)uracil reductase (tm1828) from thermotoga maritima at 1.80 A resolution

Released:
DOI: 10.2210/pdb2hxv/pdb
PDB 2hxv coloured by chain and viewed from the front.
PDB 2hxv coloured by chain and viewed from the side.
PDB 2hxv coloured by chain and viewed from the top.
Source organism: Thermotoga maritima
Entry author: Joint Center for Structural Genomics (JCSG)

Function and Biology Details

Reactions catalysed: 
2,5-diamino-6-hydroxy-4-(5-phosphoribosylamino)pyrimidine + H(2)O = 5-amino-6-(5-phosphoribosylamino)uracil + NH(3)
5-amino-6-(5-phospho-D-ribitylamino)uracil + NADP(+) = 5-amino-6-(5-phospho-D-ribosylamino)uracil + NADPH
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:
Structure domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Riboflavin biosynthesis protein RibD Chain: A
Molecule details ›
Chain: A
Length: 360 amino acids
Theoretical weight: 40.67 KDa
Source organism: Thermotoga maritima
Expression system: Escherichia coli
UniProt:
  • Canonical: Q9X2E8 (Residues: 1-348; Coverage: 100%)
Gene name: TM_1828
Sequence domains:
Structure domains:

Ligands and Environments


Cofactor: Ligand NDP 1 x NDP
3 bound ligands:
Ligand ZN 1 x ZN
Ligand CL 1 x CL
Ligand GOL 8 x GOL
1 modified residue:
Ligand MSE 6 x MSE

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRL BEAMLINE BL11-1
Spacegroup: I422
Unit cell:
a: 104.18Å b: 104.18Å c: 145.89Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.162 0.16 0.195
Expression system: Escherichia coli

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