SMTL ID : 3l5r.1

Crystal structure of macrophage migration inhibitory factor (MIF) with phenylchromenone inhibitor at 1.94A resolution

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.94 Å

Oligo State

homo-trimer

Ligands

1 x 47X: 3-(3,4-dihydroxyphenyl)-7-hydroxy-4H-chromen-4-one(Non-covalent)

47X.1: 12 residues within 4Å: Chain A: P.1, M.2, K.32, Y.36, H.62, S.63, I.64, M.101, V.106, F.113 Chain C: Y.95, N.97 13 PLIP interactions: 10 interactions with chain A, 3 interactions with chain C Hydrophobic interactions: A:K.32, A:Y.36, A:H.62, A:I.64, A:I.64, A:V.106, A:F.113 Hydrogen bonds: A:P.1, A:I.64, C:N.97 pi-Cation interactions: A:K.32 pi-Stacking: C:Y.95, C:Y.95

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

SO4.2: 3 residues within 4Å: Chain B: E.116, H.117, H.118 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:H.118, B:H.118 Salt bridges: B:H.117, B:H.118 SO4.3: 1 residues within 4Å: Chain B: R.11 1 PLIP interactions: 1 interactions with chain B Salt bridges: B:R.11 SO4.4: 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.68, B:A.70, B:Q.71, B:Q.71 SO4.6: 3 residues within 4Å: Chain B: A.70, R.73 Chain C: H.118 3 PLIP interactions: 2 interactions with chain B, 1 interactions with chain C Water bridges: B:A.70 Salt bridges: B:R.73, C:H.118 SO4.8: 4 residues within 4Å: Chain C: G.68, G.69, A.70, Q.71 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:A.70, C:Q.71, C:Q.71

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 8 residues within 4Å: Chain A: Y.95, N.97 Chain B: P.1, M.2, H.62, S.63, I.64, V.106 7 PLIP interactions: 4 interactions with chain B, 3 interactions with chain A Hydrogen bonds: B:P.1, B:I.64, A:Y.95, A:N.97, A:N.97 Water bridges: B:P.1, B:S.63 GOL.7: 8 residues within 4Å: Chain B: Y.95, N.97 Chain C: P.1, M.2, H.62, S.63, I.64, V.106 5 PLIP interactions: 3 interactions with chain B, 2 interactions with chain C Hydrogen bonds: B:Y.95, B:N.97, B:N.97, C:P.1, C:I.64

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

McLean, L.R. et al., Fragment screening of inhibitors for MIF tautomerase reveals a cryptic surface binding site. Bioorg.Med.Chem.Lett. (2010)

Release Date

2010-03-09

Peptides

Macrophage migration inhibitory factor: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

Macrophage migration inhibitory factor

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