SMTL ID : 3djh.1

Macrophage Migration Inhibitory Factor (MIF) at 1.25 A Resolution

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.25 Å

Oligo State

homo-trimer

Ligands

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

SO4.1: 4 residues within 4Å: Chain A: G.68, G.69, A.70, Q.71 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:G.69, A:A.70, A:Q.71, A:Q.71 SO4.2: 2 residues within 4Å: Chain A: G.65, K.66 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:K.66 Water bridges: A:K.66, A:K.66, A:K.66, A:K.66, A:I.67, A:I.67, A:Q.71, A:Q.71 Salt bridges: A:K.66 SO4.3: 6 residues within 4Å: Chain A: S.60, H.62, Y.99 Chain B: H.62, Y.99 Chain C: Y.99 9 PLIP interactions: 4 interactions with chain B, 3 interactions with chain A, 2 interactions with chain C Hydrogen bonds: B:Y.99, A:S.60, A:S.60 Water bridges: B:S.60, B:S.60, C:Y.99 Salt bridges: B:H.62, A:H.62, C:H.62 SO4.7: 4 residues within 4Å: Chain B: G.68, G.69, A.70, Q.71 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:G.69, B:A.70, B:Q.71, B:Q.71 SO4.8: 2 residues within 4Å: Chain B: G.65, K.66 8 PLIP interactions: 8 interactions with chain B Hydrogen bonds: B:K.66 Water bridges: B:K.66, B:K.66, B:K.66, B:I.67, B:I.67, B:Q.71 Salt bridges: B:K.66 SO4.12: 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

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 8 residues within 4Å: Chain A: P.1, M.2, Y.36, H.62, S.63, I.64, F.113 Chain C: Y.95 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:P.1, A:I.64 GOL.9: 6 residues within 4Å: Chain A: Y.95 Chain B: P.1, M.2, S.63, I.64 Ligands: GOL.10 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:I.64 GOL.10: 4 residues within 4Å: Chain B: K.32, I.64, F.113 Ligands: GOL.9 5 PLIP interactions: 5 interactions with chain B Water bridges: B:K.32, B:K.32, B:K.32, B:K.32, B:I.64 GOL.13: 8 residues within 4Å: Chain B: N.97 Chain C: P.1, M.2, H.62, S.63, I.64, M.101, V.106 4 PLIP interactions: 2 interactions with chain C, 2 interactions with chain B Hydrogen bonds: C:P.1, C:I.64, B:N.97, B:N.97

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

IPA.5: 3 residues within 4Å: Chain A: K.32, I.64, F.113 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:I.64, A:F.113 Water bridges: A:K.32, A:K.32 IPA.6: 3 residues within 4Å: Chain A: Q.35, Y.36, W.108 4 PLIP interactions: 3 interactions with chain A, 1 interactions with chain C Hydrophobic interactions: A:Y.36, A:Y.36, A:W.108 Water bridges: C:D.92 IPA.11: 3 residues within 4Å: Chain B: Q.35, Y.36, W.108 5 PLIP interactions: 3 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:Y.36, B:W.108 Water bridges: B:Q.35, A:D.92, A:D.92

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Crichlow, G.V. et al., Structural and kinetic analyses of macrophage migration inhibitory factor active site interactions. Biochemistry (2009)

Release Date

2008-12-23

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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