› 4q6o

X-ray diffraction
1.41Å resolution

Structural analysis of the mDAP-bound form of Helicobacter pylori Csd4, a D,L-carboxypeptidase

Released:
DOI: 10.2210/pdb4q6o/pdb
Model geometry
Fit model/data
PDB entry 4q6o coloured by chain, front view.
PDB entry 4q6o coloured by chain, side view.
PDB entry 4q6o coloured by chain, top view.
Source organism: Helicobacter pylori 26695
Primary publication:
Structural basis for the recognition of muramyltripeptide by Helicobacter pylori Csd4, a D,L-carboxypeptidase controlling the helical cell shape.
Kim HS, Kim J, Im HN, An DR, Lee M, Hesek D, Mobashery S, Kim JY, Cho K, Yoon HJ, Han BW, Lee BI, Suh SW
OpenAccess logo Acta Crystallogr D Biol Crystallogr 70 2800-12 (2014)
PMID: 25372672

Function and Biology Details

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

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-127778 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Conserved hypothetical secreted protein Chain: A
Molecule details ›
Chain: A
Length: 437 amino acids
Theoretical weight: 49.91 KDa
Source organism: Helicobacter pylori 26695
Expression system: Escherichia coli
UniProt:
  • Canonical: O25708 (Residues: 22-438; Coverage: 95%)
Gene name: HP_1075
Sequence domains:

Ligands and Environments

3 bound ligands:
Ligand CA 3 x CA
Ligand API 1 x API
Ligand GOL 4 x GOL
No modified residues

Experiments and Validation Details

wwPDB Validation report is not available for this entry.
X-ray source: PAL/PLS BEAMLINE 7A (6B, 6C1)
Spacegroup: P212121
Unit cell:
a: 52.931Å b: 66.668Å c: 143.997Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.191 0.189 0.212
Expression system: Escherichia coli

Quick links

Citations

4 review citations

Determinants of Bacterial Morphology: From Fundamentals to Possibilities for Antimicrobial Targeting.
van Teeseling et al. (2017)
3 more

1 mention without citation

Structural basis for the recognition of muramyltripeptide by Helicobacter pylori Csd4, a D,L-carboxypeptidase controlling the helical cell shape.
Kim et al. (2014)

PDB-REDO

The sliders below show the change in model quality between original PDB entry and the PDB-REDO entry

Model Geometry
 
 
Data not available
DNA/RNA Geometry
 
 
Data not available
Fit model/data
 
 
Data not available
PDB-REDO