› 5xej

X-ray diffraction
2.5Å resolution

Crystal Structure of Macrophage Migration Inhibitory Factor bound to MTX

Released:
DOI: 10.2210/pdb5xej/pdb
PDB entry 5xej coloured by chain, front view.
PDB entry 5xej coloured by chain, side view.
PDB entry 5xej coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Structure of macrophage migration inhibitory factor in complex with methotrexate.
Fukushima K, Furuya M, Kamimura T, Takimoto-Kamimura M
Acta Crystallogr D Struct Biol 77 293-299 (2021)
PMID: 33645533

Function and Biology Details

Reactions catalysed: 
Keto-phenylpyruvate = enol-phenylpyruvate
L-dopachrome = 5,6-dihydroxyindole-2-carboxylate
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
homo trimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-146863 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Macrophage migration inhibitory factor Chains: A, B, C
Molecule details ›
Chains: A, B, C
Length: 114 amino acids
Theoretical weight: 12.36 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P14174 (Residues: 2-115; Coverage: 99%)
Gene names: GLIF, MIF, MMIF
Sequence domains: Macrophage migration inhibitory factor (MIF)
Structure domains: Macrophage Migration Inhibitory Factor

Ligands and Environments

2 bound ligands:
Ligand SO4 4 x SO4
Ligand 6UV 1 x 6UV
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SPRING-8 BEAMLINE BL32B2
Spacegroup: P3121
Unit cell:
a: 95.758Å b: 95.758Å c: 104.154Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.183 0.18 0.227
Expression system: Escherichia coli

Quick links

Citations

1 mention without citation

Ellagic Acid, Kaempferol, and Quercetin from Acacia nilotica: Promising Combined Drug With Multiple Mechanisms of Action.
Al-Nour et al. (2019)