› 4q4i

X-ray diffraction
2.31Å resolution

Crystal structure of E.coli aminopeptidase N in complex with amastatin

Released:
DOI: 10.2210/pdb4q4i/pdb
PDB entry 4q4i coloured by chain, front view.
PDB entry 4q4i coloured by chain, side view.
PDB entry 4q4i coloured by chain, top view.
Source organisms:
Primary publication:
Structural basis for the inhibition of M1 family aminopeptidases by the natural product actinonin: Crystal structure in complex with E. coli aminopeptidase N.
Ganji RJ, Reddi R, Gumpena R, Marapaka AK, Arya T, Sankoju P, Bhukya S, Addlagatta A
Protein Sci 24 823-31 (2015)
PMID: 25644575

Function and Biology Details

Reaction catalysed: 
Release of an N-terminal amino acid, Xaa-|-Yaa- from a peptide, amide or arylamide. Xaa is preferably Ala, but may be most amino acids including Pro (slow action). When a terminal hydrophobic residue is followed by a prolyl residue, the two may be released as an intact Xaa-Pro dipeptide.
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-138201 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Aminopeptidase N Chain: A
Molecule details ›
Chain: A
Length: 891 amino acids
Theoretical weight: 101.44 KDa
Source organism: Escherichia coli K-12
Expression system: Escherichia coli
UniProt:
  • Canonical: P04825 (Residues: 1-870; Coverage: 100%)
Gene names: JW0915, b0932, pepN
Sequence domains:
Structure domains:
Amastatin Chain: C
Molecule details ›
Chain: C
Length: 4 amino acids
Theoretical weight: 475 Da
Source organism: Streptomyces
Expression system: Not provided

Ligands and Environments

3 bound ligands:
Ligand ZN 1 x ZN
Ligand NA 3 x NA
Ligand GOL 5 x GOL
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ALS BEAMLINE 8.2.2
Spacegroup: P3121
Unit cell:
a: 119.386Å b: 119.386Å c: 170.129Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.142 0.14 0.179
Expression systems:
  • Escherichia coli
  • Not provided

Quick links

Citations

4 citation in other articles

Small molecule inhibition of apicomplexan FtsH1 disrupts plastid biogenesis in human pathogens.
Amberg-Johnson et al. (2017)
3 more

3 mentions without citation

Marine Invertebrates: A Promissory Still Unexplored Source of Inhibitors of Biomedically Relevant Metallo Aminopeptidases Belonging to the M1 and M17 Families.
Pascual Alonso et al. (2023)
2 more