› 2irp

X-ray diffraction
2.4Å resolution

Crystal structure of the l-fuculose-1-phosphate aldolase (aq_1979) from aquifex aeolicus VF5

Released:
DOI: 10.2210/pdb2irp/pdb
PDB entry 2irp coloured by chain, front view.
PDB entry 2irp coloured by chain, side view.
PDB entry 2irp coloured by chain, top view.
Source organism: Aquifex aeolicus VF5
Entry authors: Jeyakanthan J, Gayathri D, Yogavel M, Velmurugan D, Baba S, Ebihara A, Kuramitsu S, Shinkai A, Shiro Y, Yokoyama S, RIKEN Structural Genomics/Proteomics Initiative (RSGI)

Function and Biology Details

Reaction catalysed: 
S-methyl-5-thio-D-ribulose 1-phosphate = 5-(methylthio)-2,3-dioxopentyl phosphate + H(2)O
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assemblies composition:
homo tetramer
monomeric (preferred)
homo octamer
Assembly name:
PDBe Complex ID:
PDB-CPX-130554 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Methylthioribulose-1-phosphate dehydratase Chains: A, B
Molecule details ›
Chains: A, B
Length: 208 amino acids
Theoretical weight: 23.68 KDa
Source organism: Aquifex aeolicus VF5
Expression system: Escherichia coli
UniProt:
  • Canonical: O67788 (Residues: 1-208; Coverage: 100%)
Gene names: aq_1979, mtnB
Sequence domains: Class II Aldolase and Adducin N-terminal domain
Structure domains: Class II aldolase/adducin N-terminal domain

Ligands and Environments

2 bound ligands:
Ligand CL 2 x CL
Ligand BME 2 x BME
1 modified residue:
Ligand MSE 4 x MSE

Experiments and Validation Details

Entry percentile scores
X-ray source: SPRING-8 BEAMLINE BL26B2
Spacegroup: I4
Unit cell:
a: 102.5Å b: 102.5Å c: 116.045Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.2 0.2 0.252
Expression system: Escherichia coli

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