SMTL ID : 6b1c.1

Macrophage Migration Inhibitory Factor in complex with a Naphthyridinone Inhibitor (4a)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.16 Å

Oligo State

homo-trimer

Ligands

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

SO4.1: 4 residues within 4Å: Chain A: G.68, G.69, A.70, Q.71 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:G.68, A:G.69, A:A.70, A:Q.71, A:Q.71 SO4.4: 5 residues within 4Å: Chain C: D.16, G.17, F.18, L.19, S.20 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:G.17, C:L.19, C:S.20 SO4.5: 4 residues within 4Å: Chain C: G.68, G.69, A.70, Q.71 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:G.69, C:A.70, C:Q.71, C:Q.71 SO4.6: 2 residues within 4Å: Chain C: P.15, D.16 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:D.16

2 x C9J: 2-[1-(3-fluoro-4-hydroxyphenyl)-1H-1,2,3-triazol-4-yl]-7-methyl-1,7-naphthyridin-8(7H)-one(Non-covalent)

C9J.2: 13 residues within 4Å: Chain A: P.1, M.2, K.32, P.33, Y.36, H.62, S.63, I.64, M.101, V.106, F.113 Chain C: Y.95, N.97 10 PLIP interactions: 2 interactions with chain C, 8 interactions with chain A Hydrogen bonds: C:N.97, A:K.32, A:I.64 pi-Stacking: C:Y.95 Hydrophobic interactions: A:M.2, A:Y.36, A:Y.36, A:Y.36, A:I.64, A:F.113 C9J.3: 13 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 11 PLIP interactions: 9 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:M.2, B:Y.36, B:Y.36, B:I.64, B:V.106, B:F.113 Hydrogen bonds: B:P.1, B:K.32, B:I.64, A:N.97 pi-Stacking: A:Y.95

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Dawson, T.K. et al., Adding a Hydrogen Bond May Not Help: Naphthyridinone vs Quinoline Inhibitors of Macrophage Migration Inhibitory Factor. ACS Med Chem Lett (2017)

Release Date

2018-01-03

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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