SMTL ID : 5umk.1

Crystal structure of H62Y mutant of human macrophage migration inhibitory factor

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.73 Å

Oligo State

homo-trimer

Ligands

2 x SO4: SULFATE ION(Non-functional Binders)

SO4.1: 4 residues within 4Å: Chain A: G.68, G.69, A.70, Q.71 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:G.69, A:A.70, A:Q.71, A:Q.71 SO4.5: 4 residues within 4Å: Chain B: G.68, G.69, A.70, Q.71 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:G.69, B:A.70, B:Q.71, B:Q.71

4 x IPA: ISOPROPYL ALCOHOL(Non-functional Binders)

IPA.2: 3 residues within 4Å: Chain A: Q.35, Y.36, W.108 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:Y.36, A:W.108 IPA.3: 2 residues within 4Å: Chain A: G.65, K.66 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:K.66 Hydrogen bonds: A:K.66 Water bridges: A:I.67, A:I.67, A:D.100 IPA.6: 2 residues within 4Å: Chain B: G.65, K.66 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:K.66 Hydrogen bonds: B:K.66 Water bridges: B:I.67, B:I.67 IPA.8: 4 residues within 4Å: Chain C: G.68, G.69, A.70, Q.71 3 PLIP interactions: 3 interactions with chain C Hydrophobic interactions: C:A.70, C:Q.71 Hydrogen bonds: C:A.70

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 7 residues within 4Å: Chain A: P.1, M.2, Y.62, S.63, V.106 Chain C: Y.95, N.97 3 PLIP interactions: 1 interactions with chain A, 2 interactions with chain C Hydrogen bonds: A:I.64, C:N.97, C:N.97 GOL.7: 7 residues within 4Å: Chain A: Y.95, N.97 Chain B: P.1, M.2, Y.62, S.63, V.106 4 PLIP interactions: 2 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:P.1, B:Y.62, A:N.97, A:N.97

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Pantouris, G. et al., Regulation of MIF Enzymatic Activity by an Allosteric Site at the Central Solvent Channel. Cell Chem Biol (2020)

Release Date

2018-02-07

Peptides

Macrophage migration inhibitory factor: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

Macrophage migration inhibitory factor