SMTL ID : 4k9g.1

1.55 A Crystal Structure of Macrophage Migration Inhibitory Factor bound to ISO-66 and a related compound

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.55 Å

Oligo State

homo-trimer

Ligands

3 x 1Q2: (4R,6Z)-6-(3-fluoro-4-hydroxyphenyl)-4-hydroxy-6-iminohexan-2-one(Non-covalent)

1Q2.1: 13 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 B: Y.95, N.97 Ligands: 1Q1.2 12 PLIP interactions: 9 interactions with chain A, 3 interactions with chain B Hydrophobic interactions: A:Y.36, A:Y.36, A:I.64, A:V.106, A:F.113, A:F.113 Hydrogen bonds: A:P.1, A:K.32, A:I.64, B:N.97, B:N.97 pi-Stacking: B:Y.95 1Q2.7: 11 residues within 4Å: Chain B: P.1, M.2, K.32, H.62, S.63, I.64, M.101, V.106, F.113 Chain C: Y.95, N.97 9 PLIP interactions: 3 interactions with chain C, 6 interactions with chain B Hydrogen bonds: C:N.97, C:N.97, B:S.63, B:I.64 pi-Stacking: C:Y.95 Hydrophobic interactions: B:I.64, B:V.106, B:F.113, B:F.113 1Q2.10: 13 residues within 4Å: Chain A: 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, F.113 12 PLIP interactions: 9 interactions with chain C, 3 interactions with chain A Hydrophobic interactions: C:Y.36, C:Y.36, C:I.64, C:V.106, C:F.113, C:F.113 Hydrogen bonds: C:K.32, C:S.63, C:I.64, A:N.97, A:N.97 pi-Stacking: A:Y.95

1 x 1Q1: 1-[(5S)-3-(3-fluoro-4-hydroxyphenyl)-4,5-dihydro-1,2-oxazol-5-yl]propan-2-one(Non-covalent)

1Q1.2: 13 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 B: Y.95, N.97 Ligands: 1Q2.1 10 PLIP interactions: 9 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:Y.36, A:Y.36, A:I.64, A:I.64, A:V.106, A:F.113, A:F.113 Hydrogen bonds: A:P.1, A:K.32 pi-Stacking: B:Y.95

6 x CL: CHLORIDE ION(Non-functional Binders)

CL.3: 3 residues within 4Å: Chain A: M.101, N.102, N.105 Ligand excluded by PLIP CL.4: 4 residues within 4Å: Chain A: G.68, G.69, A.70, Q.71 Ligand excluded by PLIP CL.5: 2 residues within 4Å: Chain A: P.15, D.16 Ligand excluded by PLIP CL.8: 3 residues within 4Å: Chain B: M.101, N.102, N.105 Ligand excluded by PLIP CL.9: 4 residues within 4Å: Chain B: G.68, G.69, A.70, Q.71 Ligand excluded by PLIP CL.11: 3 residues within 4Å: Chain C: M.101, N.102, N.105 Ligand excluded by PLIP

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

SO4.6: 1 residues within 4Å: Chain A: R.73 4 PLIP interactions: 2 interactions with chain A, 2 interactions with chain C Water bridges: A:R.73, C:S.111, C:S.111 Salt bridges: A:R.73

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ioannou, K. et al., ISO-66, a novel inhibitor of macrophage migration, shows efficacy in melanoma and colon cancer models. INT J ONCOL. (2014)

Release Date

2014-09-24

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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