SMTL ID : 8pkx.1 (1 other biounit)

Kelch domain of KEAP1 in complex with a ortho-dimethylbenzene linked cyclic peptide 11 (ortho-WRCNPETaEC).

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.79 Å

Oligo State

monomer

Ligands

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

CL.1: 1 residues within 4Å: Chain A: R.46 Ligand excluded by PLIP CL.2: 5 residues within 4Å: Chain A: A.58, G.59, G.297, V.298 Ligands: NA.11 Ligand excluded by PLIP

4 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.3: 5 residues within 4Å: Chain A: Y.33, R.46, T.290, S.291, R.293 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Y.33, A:R.46, A:T.290, A:S.291, A:R.293 EDO.4: 1 residues within 4Å: Chain A: R.151 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.151 Water bridges: A:N.130 EDO.6: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) EDO.7: 2 residues within 4Å: Chain A: L.223, R.245 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.245, A:R.245

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 2 residues within 4Å: Chain A: N.224, R.245 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.224, A:R.245 GOL.8: 5 residues within 4Å: Chain A: A.99, P.100, M.101, S.102, W.142 2 PLIP interactions: 2 interactions with chain A Water bridges: A:S.102, A:S.102

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

NA.9: 4 residues within 4Å: Chain A: S.200, G.201, Y.217, S.247 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.200, A:S.247 Water bridges: A:R.107 NA.10: 6 residues within 4Å: Chain A: Q.29, S.30, P.53, N.73, N.74, S.75 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.30, A:N.74 Water bridges: A:N.73 NA.11: 3 residues within 4Å: Chain A: G.59, V.110 Ligands: CL.2 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:G.59, A:V.110

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Fonseca Lopez, F. et al., Computational Prediction of Cyclic Peptide Structural Ensembles and Application to the Design of Keap1 Binders. J.Chem.Inf.Model. (2023)

Release Date

2023-11-15

Peptides

Kelch-like ECH-associated protein 1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Kelch-like ECH-associated protein 1

Related Entries With Identical Sequence