› 3ldu

X-ray diffraction
1.7Å resolution

The crystal structure of a possible methylase from Clostridium difficile 630.

Released:
DOI: 10.2210/pdb3ldu/pdb
PDB entry 3ldu coloured by chain, front view.
PDB entry 3ldu coloured by chain, side view.
PDB entry 3ldu coloured by chain, top view.
Source organism: Clostridioides difficile 630
Entry authors: Tan K, Wu R, Buck K, Joachimiak A, Midwest Center for Structural Genomics (MCSG)

Function and Biology Details

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

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-172704 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
THUMP domain-containing protein Chain: A
Molecule details ›
Chain: A
Length: 385 amino acids
Theoretical weight: 45.11 KDa
Source organism: Clostridioides difficile 630
Expression system: Escherichia coli
UniProt:
  • Canonical: Q186Y7 (Residues: 1-382; Coverage: 100%)
Gene name: CD630_17800
Sequence domains:
Structure domains:

Ligands and Environments

3 bound ligands:
Ligand GTP 1 x GTP
Ligand FMT 2 x FMT
Ligand GOL 9 x GOL
1 modified residue:
Ligand MSE 8 x MSE

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 19-ID
Spacegroup: P21
Unit cell:
a: 42.059Å b: 74.047Å c: 64.061Å
α: 90° β: 104.15° γ: 90°
R-values:
R R work R free
0.174 0.172 0.21
Expression system: Escherichia coli

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