SMTL ID : 4plu.1

Crystal structure of Macrophage Migration Inhibitory Factor in complex with benzaldehyde

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.63 Å

Oligo State

homo-trimer

Ligands

3 x HBX: benzaldehyde(Covalent)

HBX.1: 8 residues within 4Å: Chain A: P.1, M.2, H.62, S.63, I.64, V.106 Chain C: Y.95, N.97 4 PLIP interactions: 3 interactions with chain A, 1 interactions with chain C Hydrophobic interactions: A:H.62, A:I.64, A:V.106 pi-Stacking: C:Y.95 HBX.4: 9 residues within 4Å: Chain A: Y.95, N.97 Chain B: P.1, M.2, Y.36, H.62, S.63, I.64, V.106 3 PLIP interactions: 2 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:V.106 Water bridges: B:I.64 pi-Stacking: A:Y.95 HBX.6: 9 residues within 4Å: Chain B: Y.95, N.97 Chain C: P.1, M.2, Y.36, H.62, S.63, I.64, V.106 5 PLIP interactions: 4 interactions with chain C, 1 interactions with chain B Hydrophobic interactions: C:H.62, C:I.64, C:V.106, C:V.106 pi-Stacking: B:Y.95

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

SO4.2: 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 SO4.7: 4 residues within 4Å: Chain C: G.68, G.69, A.70, Q.71 5 PLIP interactions: 5 interactions with chain C Hydrogen bonds: C:G.68, C:G.69, C:A.70, C:Q.71, C:Q.71

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

IPA.3: 2 residues within 4Å: Chain A: A.70, R.73 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:A.70 Hydrogen bonds: A:R.73, A:R.73 IPA.5: 2 residues within 4Å: Chain B: A.70, R.73 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:A.70 Hydrogen bonds: B:R.73, B:R.73

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Pantouris, G. et al., An Analysis of MIF Structural Features that Control Functional Activation of CD74. Chem.Biol. (2015)

Release Date

2015-09-30

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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