› 7biz

X-ray diffraction
1.53Å resolution

Structure of a B12 binding lipoprotein from Bacteroides thetaiotaomicron

Released:
DOI: 10.2210/pdb7biz/pdb
PDB entry 7biz coloured by chain, front view.
PDB entry 7biz coloured by chain, side view.
PDB entry 7biz coloured by chain, top view.
Source organism: Bacteroides thetaiotaomicron
Primary publication:
Gut Commensal Bacteroidetes Encode a Novel Class of Vitamin B12-Binding Proteins.
Putnam EE, Abellon-Ruiz J, Killinger BJ, Rosnow JJ, Wexler AG, Folta-Stogniew E, Wright AT, van den Berg B, Goodman AL
mBio 13 e0284521 (2022)
PMID: 35227073

Function and Biology Details

Biochemical function:
  • not assigned
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domain:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-183712 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Bacteroidetes PKD-like domain-containing protein Chains: A, B
Molecule details ›
Chains: A, B
Length: 501 amino acids
Theoretical weight: 56.15 KDa
Source organism: Bacteroides thetaiotaomicron
Expression system: Escherichia coli
UniProt:
  • Canonical: Q8A6C8 (Residues: 103-593; Coverage: 83%)
Gene name: BT_1956
Sequence domains: PKD-like domain

Ligands and Environments

5 bound ligands:
Ligand CNC 2 x CNC
Ligand CA 4 x CA
Ligand 15P 3 x 15P
Ligand NA 2 x NA
Ligand MES 1 x MES
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: DIAMOND BEAMLINE I24
Spacegroup: P3121
Unit cell:
a: 128.052Å b: 128.052Å c: 135.051Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.166 0.165 0.192
Expression system: Escherichia coli

Quick links

Citations

1 review citation

Activity-based protein profiling in microbes and the gut microbiome.
Han et al. (2023)
4 other articles

1 mention without citation

Gut Commensal Bacteroidetes Encode a Novel Class of Vitamin B12-Binding Proteins.
Putnam et al. (2022)