SMTL ID : 3smc.1

Macrophage Migration Inhibitory Factor (MIF) with Covalently Bound L-sulforaphane

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

homo-trimer

Ligands

3 x LE3: N-{4-[(R)-methylsulfinyl]butyl}thioformamide(Covalent)

LE3.1: 7 residues within 4Å: Chain A: P.1, M.2, K.32, Y.36, I.64, F.113 Chain C: Y.95 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:I.64, A:F.113, A:F.113 Hydrogen bonds: A:Y.36 Water bridges: A:K.32 pi-Cation interactions: A:Y.36 LE3.8: 8 residues within 4Å: Chain A: Y.95 Chain B: P.1, M.2, Y.36, H.62, S.63, I.64, F.113 7 PLIP interactions: 7 interactions with chain B Hydrophobic interactions: B:Y.36, B:I.64, B:F.113, B:F.113 Hydrogen bonds: B:Y.36 Water bridges: B:I.64 pi-Cation interactions: B:Y.36 LE3.12: 6 residues within 4Å: Chain B: Y.95 Chain C: P.1, M.2, Y.36, I.64, F.113 5 PLIP interactions: 5 interactions with chain C Hydrophobic interactions: C:I.64, C:F.113, C:F.113, C:F.113 Hydrogen bonds: C:Y.36

7 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: 3 residues within 4Å: Chain A: S.20, Q.24 Chain C: G.51 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.9: 3 residues within 4Å: Chain B: M.101, N.102, N.105 Ligand excluded by PLIP CL.10: 4 residues within 4Å: Chain B: G.68, G.69, A.70, Q.71 Ligand excluded by PLIP CL.13: 3 residues within 4Å: Chain C: M.101, N.102, N.105 Ligand excluded by PLIP CL.14: 4 residues within 4Å: Chain C: G.68, G.69, A.70, Q.71 Ligand excluded by PLIP

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

NA.5: 1 residues within 4Å: Chain A: D.100 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.100, A:D.100 NA.6: 0 residues within 4Å: (No contacts) 5 PLIP interactions: 2 interactions with chain C, 2 interactions with chain A, 1 interactions with chain B Water bridges: C:Q.45, C:Q.45, A:Q.45, A:Q.45, B:Q.45 NA.11: 1 residues within 4Å: Chain B: D.100 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: 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

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

SO4.7: 2 residues within 4Å: Chain A: P.15, D.16 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.16 Water bridges: A:D.16

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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