SMTL ID : 3smb.1

Phenethylisothiocyanate Covalently Bound to Macrophage Migration Inhibitory Factor (MIF)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.60 Å

Oligo State

homo-trimer

Ligands

3 x LE2: N-(2-phenylethyl)thioformamide(Covalent)

LE2.1: 11 residues within 4Å: Chain A: P.1, M.2, K.32, Y.36, H.62, S.63, I.64, V.106, F.113 Chain C: Y.95, N.97 6 PLIP interactions: 5 interactions with chain A, 1 interactions with chain C Hydrophobic interactions: A:H.62, A:I.64, A:V.106, A:F.113 Hydrogen bonds: A:P.1 pi-Stacking: C:Y.95 LE2.7: 11 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, V.106, F.113 6 PLIP interactions: 5 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:H.62, B:I.64, B:V.106, B:F.113 Hydrogen bonds: B:P.1 pi-Stacking: A:Y.95 LE2.11: 10 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, 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 Hydrogen bonds: C:P.1 pi-Stacking: B:Y.95

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

CL.2: 3 residues within 4Å: Chain A: M.101, N.102, N.105 Ligand excluded by PLIP CL.3: 2 residues within 4Å: Chain A: A.70, R.73 Ligand excluded by PLIP CL.4: 1 residues within 4Å: Chain A: A.114 Ligand excluded by PLIP CL.5: 4 residues within 4Å: Chain A: G.68, G.69, A.70, Q.71 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.12: 3 residues within 4Å: Chain C: M.101, N.102, N.105 Ligand excluded by PLIP CL.13: 2 residues within 4Å: Chain C: A.70, R.73 Ligand excluded by PLIP CL.14: 4 residues within 4Å: Chain C: G.68, G.69, A.70, Q.71 Ligand excluded by PLIP

3 x NA: SODIUM ION(Non-functional Binders)

NA.6: 1 residues within 4Å: Chain A: D.100 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.100 NA.10: 1 residues within 4Å: Chain B: D.100 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:D.100, B:D.100 NA.15: 1 residues within 4Å: Chain C: D.100 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:D.100, C:D.100

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Crichlow, G.V. et al., Structural interactions dictate the kinetics of macrophage migration inhibitory factor inhibition by different cancer-preventive isothiocyanates. Biochemistry (2012)

Release Date

2012-10-03

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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