› 5kdx

X-ray diffraction
2.4Å resolution

IMPa metallopeptidase in complex with T-antigen

Released:
DOI: 10.2210/pdb5kdx/pdb
PDB 5kdx coloured by chain and viewed from the front.
PDB 5kdx coloured by chain and viewed from the side.
PDB 5kdx coloured by chain and viewed from the top.
Source organism: Pseudomonas aeruginosa PAO1
Primary publication:
Recognition of protein-linked glycans as a determinant of peptidase activity.
Noach I, Ficko-Blean E, Pluvinage B, Stuart C, Jenkins ML, Brochu D, Buenbrazo N, Wakarchuk W, Burke JE, Gilbert M, Boraston AB
Proc. Natl. Acad. Sci. U.S.A. (2017)
PMID: 28096352

Function and Biology Details

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

Structure analysis Details

Assembly composition:
monomeric (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecules (2 distinct):
Immunomodulating metalloprotease Chains: A, B
Molecule details ›
Chains: A, B
Length: 885 amino acids
Theoretical weight: 96.38 KDa
Source organism: Pseudomonas aeruginosa PAO1
Expression system: Escherichia coli 'BL21-Gold(DE3)pLysS AG'
UniProt:
  • Canonical: Q9I5W4 (Residues: 42-923; Coverage: 100%)
Gene names: PA0572, impA
Sequence domains:

Ligands and Environments

Carbohydrate polymer : NEW Components: A2G, GAL
Ligand A2G 2 x A2G
Ligand GAL 2 x GAL
4 bound ligands:
Ligand PO4 5 x PO4
Ligand ZN 2 x ZN
Ligand EDO 26 x EDO
Ligand SER 2 x SER
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: CLSI BEAMLINE 08B1-1
Spacegroup: P21
Unit cell:
a: 99.41Å b: 133.1Å c: 103.78Å
α: 90° β: 103.12° γ: 90°
R-values:
R R work R free
0.204 0.201 0.254
Expression system: Escherichia coli 'BL21-Gold(DE3)pLysS AG'

Quick links

Citations

2 review citations

Natural and Synthetic Sialylated Glycan Microarrays and Their Applications.
McQuillan et al. (2019)
1 more