SMTL ID : 5hvs.1

Crystal Structure of Macrophage Migration Inhibitory Factor (MIF) with a Biaryltriazole Inhibitor (3i-305)

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.75 Å

Oligo State

homo-trimer

Ligands

6 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 SO4.2: 2 residues within 4Å: Chain A: A.70, R.73 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.73 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.69, B:A.70, B:Q.71, B:Q.71 SO4.5: 2 residues within 4Å: Chain B: A.70, R.73 1 PLIP interactions: 1 interactions with chain B Salt bridges: B:R.73 SO4.7: 5 residues within 4Å: Chain B: D.16, G.17, F.18, L.19, S.20 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:G.17, B:F.18, B:L.19, B:S.20 SO4.9: 2 residues within 4Å: Chain C: A.70, R.73 1 PLIP interactions: 1 interactions with chain C Salt bridges: C:R.73

3 x 65V: 3-({2-[1-(3-fluoro-4-hydroxyphenyl)-1H-1,2,3-triazol-4-yl]quinolin-5-yl}oxy)benzoic acid(Non-covalent)

65V.3: 14 residues within 4Å: Chain A: P.1, M.2, K.32, P.33, Q.35, Y.36, H.62, S.63, I.64, M.101, V.106, F.113 Chain C: Y.95, N.97 12 PLIP interactions: 3 interactions with chain C, 9 interactions with chain A Hydrogen bonds: C:N.97, C:N.97, A:I.64 pi-Stacking: C:Y.95 Hydrophobic interactions: A:M.2, A:K.32, A:Y.36, A:Y.36, A:I.64, A:V.106, A:V.106, A:F.113 65V.6: 14 residues within 4Å: Chain A: Y.95, N.97 Chain B: P.1, M.2, K.32, P.33, Y.36, H.62, S.63, I.64, M.101, V.106, F.113 Ligands: GOL.8 13 PLIP interactions: 10 interactions with chain B, 3 interactions with chain A Hydrophobic interactions: B:M.2, B:K.32, B:Y.36, B:Y.36, B:I.64, B:V.106, B:V.106, B:F.113 Hydrogen bonds: B:P.1, B:I.64, A:N.97, A:N.97 pi-Stacking: A:Y.95 65V.10: 14 residues within 4Å: Chain B: Y.95, N.97 Chain C: P.1, M.2, K.32, P.33, Y.36, H.62, S.63, I.64, M.101, V.106, W.108, F.113 14 PLIP interactions: 3 interactions with chain B, 11 interactions with chain C Hydrogen bonds: B:N.97, B:N.97, C:I.64 pi-Stacking: B:Y.95 Hydrophobic interactions: C:M.2, C:K.32, C:P.33, C:Y.36, C:Y.36, C:I.64, C:V.106, C:V.106, C:W.108, C:F.113

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.8: 3 residues within 4Å: Chain B: I.64, F.113 Ligands: 65V.6 No protein-ligand interaction detected (PLIP) GOL.11: 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:G.69, C:A.70, C:Q.71

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Cisneros, J.A. et al., A Fluorescence Polarization Assay for Binding to Macrophage Migration Inhibitory Factor and Crystal Structures for Complexes of Two Potent Inhibitors. J.Am.Chem.Soc. (2016)

Release Date

2016-06-29

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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