SMTL ID : 6lrz.1

Crystal structure of Keap1 in complex with dimethyl fumarate (DMF)

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.54 Å

Oligo State

monomer

Ligands

3 x EOU: dimethyl (~{E})-but-2-enedioate(Non-covalent)

EOU.1: 5 residues within 4Å: Chain A: V.67, V.68, G.69, G.70, G.121 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:G.69, A:G.70 Water bridges: A:G.121, A:G.121, A:T.307 EOU.2: 7 residues within 4Å: Chain A: Y.32, S.61, N.80, Y.270, F.275 Ligands: ACT.3, EOU.4 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:Y.32, A:F.275 EOU.4: 6 residues within 4Å: Chain A: R.181, Y.223, Q.228, S.253, Y.270 Ligands: EOU.2 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:Y.223 Salt bridges: A:R.181

1 x ACT: ACETATE ION(Non-functional Binders)

ACT.3: 5 residues within 4Å: Chain A: R.78, N.80, N.112, R.113 Ligands: EOU.2 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.80, A:N.80, A:N.112 Salt bridges: A:R.78

1 x PG5: 1-METHOXY-2-[2-(2-METHOXY-ETHOXY]-ETHANE(Non-covalent)

PG5.5: 12 residues within 4Å: Chain A: G.65, C.66, V.116, G.117, V.163, A.164, V.210, C.211, I.257, T.258, V.304, A.305 4 PLIP interactions: 4 interactions with chain A Water bridges: A:G.65, A:V.118, A:V.163, A:V.306

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

SO4.6: 5 residues within 4Å: Chain A: I.133, H.134, H.135, S.136, S.137 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:S.136, A:S.136, A:S.137, A:S.137 Water bridges: A:R.157, A:R.157 Salt bridges: A:H.135 SO4.7: 2 residues within 4Å: Chain A: R.192, R.196 3 PLIP interactions: 3 interactions with chain A Water bridges: A:R.196 Salt bridges: A:R.192, A:R.196

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Unni, S. et al., Structural insights into the multiple binding modes of Dimethyl Fumarate (DMF) and its analogs to the Kelch domain of Keap1. Febs J. (2021)

Release Date

2020-08-05

Peptides

Keap1-DC: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Keap1-DC

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