SMTL ID : 4p01.1

Crystal Structure Analysis of Macrophage Migration Inhibitory Factor in complex with N-[(4-cyanophenyl)methyl]methanethioamide

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.07 Å

Oligo State

homo-trimer

Ligands

2 x 1ZW: N-[(4-cyanophenyl)methyl]methanethioamide(Covalent)

1ZW.1: 8 residues within 4Å: Chain A: P.1, M.2, K.32, Y.36, H.62, I.64, F.113 Chain C: Y.95 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:Y.36, A:I.64, A:I.64 Hydrogen bonds: A:Y.36 pi-Stacking: A:F.113 1ZW.3: 10 residues within 4Å: Chain A: Y.95 Chain B: P.1, M.2, K.32, Y.36, H.62, S.63, I.64, F.113 Ligands: CL.5 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:Y.36, B:I.64, B:I.64 Hydrogen bonds: B:Y.36 pi-Stacking: B:F.113

2 x IPA: ISOPROPYL ALCOHOL(Non-functional Binders)

IPA.2: 4 residues within 4Å: Chain A: G.68, G.69, A.70, Q.71 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:Q.71 Hydrogen bonds: A:G.69, A:A.70 IPA.7: 4 residues within 4Å: Chain C: G.68, G.69, A.70, Q.71 3 PLIP interactions: 3 interactions with chain C Hydrophobic interactions: C:A.70, C:Q.71 Hydrogen bonds: C:Q.71

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 4 residues within 4Å: Chain B: W.108, T.112, F.113, A.114 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:A.114 Water bridges: B:T.112

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

CL.5: 5 residues within 4Å: Chain B: P.1, K.32, S.63, I.64 Ligands: 1ZW.3 Ligand excluded by PLIP CL.6: 7 residues within 4Å: Chain B: A.48, F.49, G.50, G.51 Chain C: T.23, I.37, V.39 Ligand excluded by PLIP CL.8: 6 residues within 4Å: Chain A: T.23, I.37 Chain C: A.48, F.49, G.50, G.51 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Pantouris, G. et al., An Analysis of MIF Structural Features that Control Functional Activation of CD74. Chem.Biol. (2015)

Release Date

2014-03-19

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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