› 5ir2

X-ray diffraction
2.08Å resolution

Crystal structure of novel cellulases from microbes associated with the gut ecosystem

Released:
DOI: 10.2210/pdb5ir2/pdb
PDB entry 5ir2 coloured by chain, front view.
PDB entry 5ir2 coloured by chain, side view.
PDB entry 5ir2 coloured by chain, top view.
Source organism: Parabacteroides johnsonii DSM 18315
Entry authors: Chang C, Mack J, Jedrzejczak R, Joachimiak A, Midwest Center for Structural Genomics (MCSG)

Function and Biology Details

Reactions catalysed: 
Oxaloacetate = pyruvate + CO(2)
2-hydroxy-4-oxobutane-1,2,4-tricarboxylate = oxaloacetate + pyruvate
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
homo hexamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-110451 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Demethylmenaquinone methyltransferase Chain: A
Molecule details ›
Chain: A
Length: 222 amino acids
Theoretical weight: 25.74 KDa
Source organism: Parabacteroides johnsonii DSM 18315
Expression system: Escherichia coli 'BL21-Gold(DE3)pLysS AG'
UniProt:
  • Canonical: B7BGD3 (Residues: 6-227; Coverage: 90%)
Gene name: PRABACTJOHN_04122
Sequence domains: Aldolase/RraA
Structure domains: Ribonuclease E inhibitor RraA/RraA-like

Ligands and Environments

3 bound ligands:
Ligand NHE 1 x NHE
Ligand SRT 1 x SRT
Ligand EDO 2 x EDO
1 modified residue:
Ligand MSE 7 x MSE

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 19-ID
Spacegroup: P6322
Unit cell:
a: 100.24Å b: 100.24Å c: 129.698Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.144 0.142 0.187
Expression system: Escherichia coli 'BL21-Gold(DE3)pLysS AG'

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