SMTL ID : 6cb5.1

Macrophage Migration Inhibitory Factor in complex with a Pyrazole Inhibitor (8g)

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.78 Å

Oligo State

homo-trimer

Ligands

3 x EV7: 2-[(naphthalen-2-yl)oxy]-5-(1H-pyrazol-4-yl)benzoic acid(Non-covalent)

EV7.1: 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 12 PLIP interactions: 9 interactions with chain A, 3 interactions with chain C Hydrophobic interactions: A:I.64, A:V.106, A:F.113, A:F.113, C:Y.95 Hydrogen bonds: A:P.1, A:S.63, A:I.64, C:N.97 Salt bridges: A:K.32 pi-Stacking: A:F.113, C:Y.95 EV7.2: 12 residues within 4Å: Chain A: Y.95, N.97 Chain B: P.1, M.2, K.32, Y.36, H.62, S.63, I.64, M.101, V.106, F.113 10 PLIP interactions: 5 interactions with chain B, 5 interactions with chain A Hydrophobic interactions: B:I.64, B:I.64, B:F.113, A:Y.95, A:Y.95 Hydrogen bonds: B:I.64, A:N.97, A:N.97 Salt bridges: B:K.32 pi-Stacking: A:Y.95 EV7.4: 12 residues within 4Å: Chain B: Y.95, N.97 Chain C: P.1, M.2, K.32, Y.36, H.62, S.63, I.64, M.101, V.106, F.113 8 PLIP interactions: 5 interactions with chain C, 3 interactions with chain B Hydrophobic interactions: C:I.64, C:I.64, C:F.113, B:Y.95 Hydrogen bonds: C:P.1, C:I.64, B:N.97 pi-Stacking: B:Y.95

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

SO4.3: 6 residues within 4Å: Chain A: H.62, Y.99 Chain B: H.62, Y.99 Chain C: H.62, Y.99 4 PLIP interactions: 2 interactions with chain B, 2 interactions with chain C Hydrogen bonds: B:Y.99, C:Y.99 Salt bridges: B:H.62, C:H.62 SO4.5: 1 residues within 4Å: Chain C: R.86 1 PLIP interactions: 1 interactions with chain C Salt bridges: C:R.86

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Trivedi-Parmar, V. et al., Optimization of Pyrazoles as Phenol Surrogates to Yield Potent Inhibitors of Macrophage Migration Inhibitory Factor. ChemMedChem (2018)

Release Date

2018-04-04

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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