› 5mdr

X-ray diffraction
1.9Å resolution

Crystal structure of in vitro folded Chitoporin VhChip from Vibrio harveyi in complex with chitohexaose

Released:
DOI: 10.2210/pdb5mdr/pdb
Model geometry
Fit model/data
PDB entry 5mdr coloured by chain, front view.
PDB entry 5mdr coloured by chain, side view.
PDB entry 5mdr coloured by chain, top view.
Source organism: Vibrio harveyi
Primary publication:
Structural basis for chitin acquisition by marine Vibrio species.
Aunkham A, Zahn M, Kesireddy A, Pothula KR, Schulte A, Baslé A, Kleinekathöfer U, Suginta W, van den Berg B
OpenAccess logo Nat Commun 9 220 (2018)
PMID: 29335469

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
homo trimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-125785 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecules (2 distinct):
Porin domain-containing protein Chains: A, B, C, D, E, F
Molecule details ›
Chains: A, B, C, D, E, F
Length: 352 amino acids
Theoretical weight: 39.19 KDa
Source organism: Vibrio harveyi
Expression system: Escherichia coli
UniProt:
  • Canonical: L0RVU0 (Residues: 26-375; Coverage: 100%)
Gene name: chiP
Sequence domains: Gram-negative porin

Ligands and Environments

Carbohydrate polymer : NEW Components: NAG
Carbohydrate polymer
2 bound ligands:
Ligand C8E 15 x C8E
Ligand NA 18 x NA
1 modified residue:
Ligand MSE 60 x MSE

Experiments and Validation Details

wwPDB Validation report is not available for this entry.
X-ray source: DIAMOND BEAMLINE I02
Spacegroup: P21
Unit cell:
a: 146.552Å b: 121.941Å c: 147.155Å
α: 90° β: 117.92° γ: 90°
R-values:
R R work R free
0.172 0.172 0.184
Expression system: Escherichia coli

Quick links

Citations

3 review citations

Role of the lipid bilayer in outer membrane protein folding in Gram-negative bacteria.
Horne et al. (2020)
2 more

5 mentions without citation

Structural basis for chitin acquisition by marine Vibrio species.
Aunkham et al. (2018)
4 more

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