SMTL ID : 6v6z.2 (3 other biounits)

Crystal structure of N-[(4-methoxyphenyl)sulfonyl]-N-(4-{[(4-methoxyphenyl)sulfonyl]amino}naphthalen-1-yl)glycine bound to human Keap1 Kelch domain

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.60 Å

Oligo State

monomer

Ligands

18 x FMT: FORMIC ACID(Non-functional Binders)

FMT.1: 5 residues within 4Å: Chain A: V.92, H.113, I.116, H.118 Ligands: FMT.5 Ligand excluded by PLIP FMT.2: 4 residues within 4Å: Chain A: Y.172, P.173, E.174, R.175 Ligand excluded by PLIP FMT.3: 7 residues within 4Å: Chain A: R.96, I.142, G.143, F.159, R.164, S.189 Ligands: Q5Y.7 Ligand excluded by PLIP FMT.4: 1 residues within 4Å: Chain A: T.279 Ligand excluded by PLIP FMT.5: 3 residues within 4Å: Chain A: I.116, H.118 Ligands: FMT.1 Ligand excluded by PLIP FMT.6: 2 residues within 4Å: Chain A: T.226, F.227 Ligand excluded by PLIP FMT.8: 5 residues within 4Å: Chain A: R.61, N.68, T.69, D.70, H.113 Ligand excluded by PLIP FMT.9: 4 residues within 4Å: Chain A: Y.15, F.16, R.17, F.258 Ligand excluded by PLIP FMT.10: 5 residues within 4Å: Chain A: Q.18, S.19, L.20, S.21, Y.22 Ligand excluded by PLIP FMT.11: 4 residues within 4Å: Chain A: C.194, V.195, T.241, V.242 Ligand excluded by PLIP FMT.12: 3 residues within 4Å: Chain A: L.259, D.260, S.261 Ligand excluded by PLIP FMT.13: 6 residues within 4Å: Chain A: I.102, D.103, H.105, Y.107, R.123, R.151 Ligand excluded by PLIP FMT.14: 3 residues within 4Å: Chain A: N.119, P.136, R.140 Ligand excluded by PLIP FMT.15: 6 residues within 4Å: Chain A: L.238, G.239, I.240, V.287 Ligands: FMT.17, NA.21 Ligand excluded by PLIP FMT.16: 3 residues within 4Å: Chain A: P.136, M.137, L.138 Ligand excluded by PLIP FMT.17: 6 residues within 4Å: Chain A: A.47, I.97, G.98, V.144, G.145 Ligands: FMT.15 Ligand excluded by PLIP FMT.18: 4 residues within 4Å: Chain A: G.48, V.287, A.288 Ligands: NA.21 Ligand excluded by PLIP FMT.19: 3 residues within 4Å: Chain A: N.166, S.167, A.183 Ligand excluded by PLIP

1 x Q5Y: N-[(4-methoxyphenyl)sulfonyl]-N-(4-{[(4-methoxyphenyl)sulfonyl]amino}naphthalen-1-yl)glycine(Non-covalent)

Q5Y.7: 16 residues within 4Å: Chain A: Y.15, S.44, G.45, N.95, R.96, R.164, S.189, G.190, Y.206, S.236, A.237, Y.253, F.258, S.283, G.284 Ligands: FMT.3 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:Y.15, A:Y.15, A:R.96, A:Y.206, A:A.237, A:F.258 Hydrogen bonds: A:S.44, A:N.95, A:A.237 Water bridges: A:N.63 Salt bridges: A:R.96 pi-Stacking: A:Y.206 pi-Cation interactions: A:R.96

2 x NA: SODIUM ION(Non-functional Binders)

NA.20: 2 residues within 4Å: Chain A: V.146, V.193 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:V.193 Water bridges: A:V.146, A:V.193 NA.21: 4 residues within 4Å: Chain A: I.240, V.287 Ligands: FMT.15, FMT.18 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:I.240 Water bridges: A:V.287

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lazzara, P.R. et al., Synthesis and Evaluation of Noncovalent Naphthalene-Based KEAP1-NRF2 Inhibitors. Acs Med.Chem.Lett. (2020)

Release Date

2020-04-29

Peptides

Kelch-like ECH-associated protein 1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Kelch-like ECH-associated protein 1

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