SMTL ID : 9bnr.1

4-(2-isothiocyanatoethyl)benzenesulfonamide complexed with Macrophage Migration Inhibitory Factor

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.53 Å

Oligo State

homo-trimer

Ligands

3 x 01: N-[2-(4-sulfamoylphenyl)ethyl]methanethioamide

01.1: 10 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 7 PLIP interactions: 6 interactions with chain A, 1 interactions with chain C Hydrophobic interactions: A:I.64, A:F.113 Hydrogen bonds: A:K.32, A:Y.36, C:Y.95 pi-Stacking: A:Y.36, A:F.113 01.7: 10 residues within 4Å: Chain A: Y.95 Chain B: P.1, M.2, K.32, Y.36, H.62, S.63, I.64, V.106, F.113 9 PLIP interactions: 1 interactions with chain A, 8 interactions with chain B Hydrogen bonds: A:Y.95, B:K.32, B:Y.36 Hydrophobic interactions: B:Y.36, B:Y.36, B:I.64, B:F.113, B:F.113 Water bridges: B:I.64 01.12: 11 residues within 4Å: Chain B: Y.95 Chain C: P.1, M.2, K.32, P.33, Y.36, H.62, S.63, I.64, V.106, F.113 7 PLIP interactions: 6 interactions with chain C, 1 interactions with chain B Hydrophobic interactions: C:K.32, C:Y.36, C:I.64, C:F.113, C:F.113 Hydrogen bonds: C:Y.36, B:Y.95

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

SO4.2: 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 SO4.3: 6 residues within 4Å: Chain A: V.42, Q.45 Chain B: V.42, Q.45 Chain C: V.42, Q.45 3 PLIP interactions: 1 interactions with chain C, 1 interactions with chain A, 1 interactions with chain B Hydrogen bonds: C:Q.45, A:Q.45, B:Q.45 SO4.4: 2 residues within 4Å: Chain A: P.15, D.16 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.16 SO4.5: 5 residues within 4Å: Chain A: D.16, G.17, F.18, L.19, S.20 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:D.16, A:G.17, A:G.17, A:L.19, A:S.20, A:S.20 SO4.6: 2 residues within 4Å: Chain A: A.70, R.73 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.73 SO4.8: 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 SO4.9: 6 residues within 4Å: Chain A: H.62, Y.99 Chain B: H.62, Y.99 Chain C: H.62, Y.99 5 PLIP interactions: 1 interactions with chain B, 2 interactions with chain C, 2 interactions with chain A Hydrogen bonds: B:Y.99, C:H.62, C:Y.99, A:Y.99 Salt bridges: A:H.62 SO4.10: 4 residues within 4Å: Chain B: G.65, K.66, I.67, Q.71 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:K.66, B:I.67, B:Q.71 SO4.11: 2 residues within 4Å: Chain B: A.70, R.73 3 PLIP interactions: 3 interactions with chain B Water bridges: B:A.70, B:K.77 Salt bridges: B:R.73

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Tyndall, J. et al., Covalent isothiocyanate inhibitors of macrophage migration inhibitory factor as potential colorectal cancer treatments. Chemmedchem (2024)

Release Date

2024-07-24

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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