SMTL ID : 7e49.1

Crystal structure of MIF bound to compound10

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.57 Å

Oligo State

homo-trimer

Ligands

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

CL.1: 4 residues within 4Å: Chain A: G.68, G.69, A.70, Q.71 Ligand excluded by PLIP CL.2: 3 residues within 4Å: Chain A: M.101, N.102, N.105 Ligand excluded by PLIP CL.4: 3 residues within 4Å: Chain B: M.101, N.102, N.105 Ligand excluded by PLIP CL.5: 4 residues within 4Å: Chain B: P.1, S.63, I.64 Ligands: MYC.6 Ligand excluded by PLIP CL.7: 4 residues within 4Å: Chain C: P.1, K.32, S.63, I.64 Ligand excluded by PLIP CL.8: 4 residues within 4Å: Chain C: G.68, G.69, A.70, Q.71 Ligand excluded by PLIP CL.9: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP CL.10: 3 residues within 4Å: Chain C: M.101, N.102, N.105 Ligand excluded by PLIP

2 x MYC: 3,5,7-TRIHYDROXY-2-(3,4,5-TRIHYDROXYPHENYL)-4H-CHROMEN-4-ONE(Non-covalent)

MYC.3: 7 residues within 4Å: Chain A: P.1, K.32, Y.36, I.64, A.103, F.113 Chain C: Y.95 3 PLIP interactions: 3 interactions with chain A Water bridges: A:K.32, A:I.64 pi-Cation interactions: A:K.32 MYC.6: 9 residues within 4Å: Chain A: Y.95 Chain B: P.1, K.32, Y.36, I.64, A.103, W.108, F.113 Ligands: CL.5 5 PLIP interactions: 4 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:P.1, B:Y.36, A:Y.95 pi-Stacking: B:Y.36, B:Y.36

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yang, L. et al., Identification and Structure-Activity Relationships of Dietary Flavonoids as Human Macrophage Migration Inhibitory Factor (MIF) Inhibitors. J.Agric.Food Chem. (2021)

Release Date

2023-02-15

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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