› 4d4c

X-ray diffraction
1.3Å resolution

The catalytic domain, BcGH76, of Bacillus circulans Aman6 in complex with 1,6-ManDMJ

Released:
DOI: 10.2210/pdb4d4c/pdb
PDB entry 4d4c coloured by chain, front view.
PDB entry 4d4c coloured by chain, side view.
PDB entry 4d4c coloured by chain, top view.
Source organism: Niallia circulans
Primary publication:
Evidence for a boat conformation at the transition state of GH76 α-1,6-mannanases--key enzymes in bacterial and fungal mannoprotein metabolism.
Thompson AJ, Speciale G, Iglesias-Fernández J, Hakki Z, Belz T, Cartmell A, Spears RJ, Chandler E, Temple MJ, Stepper J, Gilbert HJ, Rovira C, Williams SJ, Davies GJ
Angew Chem Int Ed Engl 54 5378-82 (2015)
PMID: 25772148

Function and Biology Details

Reaction catalysed: 
Random hydrolysis of (1->6)-alpha-D-mannosidic linkages in unbranched (1->6)-mannans
Biochemical function:
  • not assigned
Biological process:
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-195578 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
CBM6 domain-containing protein Chains: A, B
Molecule details ›
Chains: A, B
Length: 362 amino acids
Theoretical weight: 40.93 KDa
Source organism: Niallia circulans
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q9Z4P9 (Residues: 35-375; Coverage: 58%)
Gene name: aman6
Sequence domains: Glycosyl hydrolase family 76
Structure domains: Glycosyltransferase

Ligands and Environments

3 bound ligands:
Ligand DMJ 2 x DMJ
Ligand MAN 2 x MAN
Ligand EDO 1 x EDO
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: DIAMOND BEAMLINE I04-1
Spacegroup: P212121
Unit cell:
a: 82.248Å b: 85.285Å c: 100.613Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.177 0.175 0.209
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

2 review citations

Carbohydrate structure: the rocky road to automation.
Agirre et al. (2017)
1 more