› 4fbj

X-ray diffraction
1.6Å resolution

Structure of the Cif:Nedd8 complex - Photorhabdus luminescens Cycle Inhibiting Factor in complex with human Nedd8

Released:
DOI: 10.2210/pdb4fbj/pdb
PDB entry 4fbj coloured by chain, front view.
PDB entry 4fbj coloured by chain, side view.
PDB entry 4fbj coloured by chain, top view.
Source organisms:
Primary publication:
The molecular basis of Nedd8 deamidation by the bacterial effector protein Cif
Crow A, Hughes RK, Taieb F, Oswald E, Banfield MJ
Proc. Natl. Acad. Sci. U.S.A. (2012)

Function and Biology Details

Reaction catalysed: 
Protein L-glutamine + H(2)O = protein L-glutamate + NH(3)
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-172427 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Protein-glutamine deamidase Cif Chain: A
Molecule details ›
Chain: A
Length: 261 amino acids
Theoretical weight: 29.64 KDa
Source organism: Photorhabdus laumondii subsp. laumondii TTO1
Expression system: Escherichia coli
UniProt:
  • Canonical: Q7N439 (Residues: 53-313; Coverage: 83%)
Gene names: cif, plu2515
Sequence domains: Cycle inhibiting factor (CIF)
NEDD8 Chain: B
Molecule details ›
Chain: B
Length: 88 amino acids
Theoretical weight: 10.04 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: Q15843 (Residues: 1-81; Coverage: 100%)
Gene name: NEDD8
Sequence domains: Ubiquitin family
Structure domains: Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1

Ligands and Environments

1 bound ligand:
Ligand CL 1 x CL
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: DIAMOND BEAMLINE I02
Spacegroup: P21
Unit cell:
a: 40.73Å b: 56.09Å c: 67.55Å
α: 90° β: 104.13° γ: 90°
R-values:
R R work R free
0.168 0.165 0.236
Expression system: Escherichia coli

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