› 2i52

X-ray diffraction
2.08Å resolution

Crystal structure of protein PTO0218 from Picrophilus torridus, Pfam DUF372

Released:
DOI: 10.2210/pdb2i52/pdb
PDB entry 2i52 coloured by chain, front view.
PDB entry 2i52 coloured by chain, side view.
PDB entry 2i52 coloured by chain, top view.
Source organism: Picrophilus oshimae DSM 9789
Entry authors: Ramagopal UA, Gilmore J, Toro R, Bain KT, McKenzie C, Reyes C, Sauder JM, Burley SK, Almo SC, New York SGX Research Center for Structural Genomics (NYSGXRC)

Function and Biology Details

Reaction catalysed: 
7,8-dihydroneopterin = 6-hydroxymethyl-7,8-dihydropterin + glycolaldehyde
Biochemical function:
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domains:
Structure domain:

Structure analysis Details

Assemblies composition:
homo tetramer (preferred)
homo dodecamer
Assembly name:
PDBe Complex ID:
PDB-CPX-179840 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Dihydroneopterin aldolase Chains: A, B, C, D, E, F
Molecule details ›
Chains: A, B, C, D, E, F
Length: 121 amino acids
Theoretical weight: 13.77 KDa
Source organism: Picrophilus oshimae DSM 9789
Expression system: Escherichia coli
UniProt:
  • Canonical: Q6L2J9 (Residues: 2-120; Coverage: 99%)
Gene names: PTO0218, mptD
Sequence domains: Dihydroneopterin aldolase
Structure domains: 7,8-dihydroneopterin aldolase (MptD)

Ligands and Environments

3 bound ligands:
Ligand CA 12 x CA
Ligand CL 1 x CL
Ligand GOL 4 x GOL
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: NSLS BEAMLINE X4A
Spacegroup: C2221
Unit cell:
a: 90.764Å b: 143.485Å c: 129.799Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.179 0.176 0.225
Expression system: Escherichia coli

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