› 4flj

X-ray diffraction
1.74Å resolution

Human MetAP1 with bengamide analog Y08, in Mn form

Released:
DOI: 10.2210/pdb4flj/pdb
PDB entry 4flj coloured by chain, front view.
PDB entry 4flj coloured by chain, side view.
PDB entry 4flj coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Structural analysis of bengamide derivatives as inhibitors of methionine aminopeptidases.
Xu W, Lu JP, Ye QZ
J Med Chem 55 8021-7 (2012)
PMID: 22913487

Function and Biology Details

Reaction catalysed: 
Release of N-terminal amino acids, preferentially methionine, from peptides and arylamides.
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-156814 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Methionine aminopeptidase 1 Chain: A
Molecule details ›
Chain: A
Length: 326 amino acids
Theoretical weight: 36.84 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P53582 (Residues: 81-386; Coverage: 79%)
Gene names: KIAA0094, METAP1
Sequence domains: Metallopeptidase family M24
Structure domains: Creatinase/methionine aminopeptidase superfamily

Ligands and Environments

3 bound ligands:
Ligand MN 2 x MN
Ligand Y08 1 x Y08
Ligand NA 1 x NA
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 19-BM
Spacegroup: P21
Unit cell:
a: 47.992Å b: 77.355Å c: 48.479Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.2 0.198 0.232
Expression system: Escherichia coli

Quick links

Citations

6 review citations

Marine-derived angiogenesis inhibitors for cancer therapy.
Wang et al. (2013)
5 more

1 mention without citation

Structural analysis of bengamide derivatives as inhibitors of methionine aminopeptidases.
Xu et al. (2012)