SMTL ID : 6v6z.3 (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

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

FMT.1: 3 residues within 4Å: Chain A: R.7, H.243, Q.244 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: 6 residues within 4Å: Chain A: Y.154, Y.172, I.181, Y.218, V.220 Ligands: FMT.20 Ligand excluded by PLIP FMT.4: 3 residues within 4Å: Chain A: E.130, W.131, H.132 Ligand excluded by PLIP FMT.8: 4 residues within 4Å: Chain A: I.102, D.103, V.148 Ligands: FMT.15 Ligand excluded by PLIP FMT.9: 4 residues within 4Å: Chain A: Y.26, P.28, Y.248, V.275 Ligand excluded by PLIP FMT.10: 3 residues within 4Å: Chain A: F.16, S.280, G.281 Ligand excluded by PLIP FMT.11: 6 residues within 4Å: Chain A: V.193, I.240, V.287 Ligands: NA.5, FMT.12, FMT.17 Ligand excluded by PLIP FMT.12: 5 residues within 4Å: Chain A: I.240, T.241, V.287 Ligands: FMT.11, FMT.17 Ligand excluded by PLIP FMT.13: 2 residues within 4Å: Chain A: F.16, R.17 Ligand excluded by PLIP FMT.14: 4 residues within 4Å: Chain A: C.115, I.116, H.117, R.140 Ligand excluded by PLIP FMT.15: 4 residues within 4Å: Chain A: V.101, V.148 Ligands: FMT.8, FMT.16 Ligand excluded by PLIP FMT.16: 6 residues within 4Å: Chain A: V.146, A.147, V.148, V.195 Ligands: NA.5, FMT.15 Ligand excluded by PLIP FMT.17: 7 residues within 4Å: Chain A: G.48, V.99, V.287, A.288 Ligands: NA.5, FMT.11, FMT.12 Ligand excluded by PLIP FMT.18: 5 residues within 4Å: Chain A: G.143, V.144, G.190, A.191 Ligands: Q5Y.6 Ligand excluded by PLIP FMT.19: 6 residues within 4Å: Chain A: Y.107, R.123, V.134, Y.171, P.173, N.176 Ligand excluded by PLIP FMT.20: 5 residues within 4Å: Chain A: Y.172, R.179, M.180, I.181 Ligands: FMT.3 Ligand excluded by PLIP

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

NA.5: 5 residues within 4Å: Chain A: V.146, V.193 Ligands: FMT.11, FMT.16, FMT.17 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:V.146, A:V.146

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

Q5Y.6: 18 residues within 4Å: Chain A: Y.15, S.44, G.45, R.61, N.63, 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.18 16 PLIP interactions: 16 interactions with chain A Hydrophobic interactions: A:Y.15, A:Y.15, A:R.96, A:Y.206, A:A.237 Hydrogen bonds: A:S.44, A:N.63, A:N.95, A:R.96, A:A.237 Water bridges: A:R.164, A:S.189 Salt bridges: A:R.96 pi-Stacking: A:Y.206, A:F.258 pi-Cation interactions: A:R.96

1 x DTD: DITHIANE DIOL(Non-covalent)

DTD.7: 6 residues within 4Å: Chain A: Y.15, R.17, N.63, S.64, P.65, N.68 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Y.15

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
C

Kelch-like ECH-associated protein 1

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