SMTL ID : 7juy.1

Crystal Structure of KSR1:MEK1 in complex with AMP-PNP, and allosteric MEK inhibitor Cobimetinib

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.10 Å

Oligo State

hetero-1-1-mer

Ligands

2 x ANP: PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER(Non-covalent)

ANP.1: 20 residues within 4Å: Chain A: I.54, G.55, Q.56, G.57, R.58, V.62, A.72, R.74, V.105, T.121, S.122, F.123, C.124, D.168, K.170, K.172, N.173, F.175, D.185 Ligands: MG.2 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:R.58, A:T.121, A:S.122, A:C.124, A:K.170, A:K.172 Salt bridges: A:R.74 ANP.3: 20 residues within 4Å: Chain B: L.65, G.66, A.67, G.68, N.69, G.71, V.73, K.88, M.134, E.135, M.137, S.141, Q.144, K.183, S.185, N.186, L.188, D.199 Ligands: EUI.4, MG.5 12 PLIP interactions: 12 interactions with chain B Hydrogen bonds: B:G.68, B:K.88, B:E.135, B:M.137, B:S.141, B:S.141, B:D.181, B:K.183, B:S.185, B:S.185, B:N.186 Salt bridges: B:K.88

2 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 4 residues within 4Å: Chain A: D.168, N.173, D.185 Ligands: ANP.1 No protein-ligand interaction detected (PLIP) MG.5: 5 residues within 4Å: Chain B: S.185, N.186, C.198, D.199 Ligands: ANP.3 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:D.199

1 x EUI: [3,4-BIS(FLUORANYL)-2-[(2-FLUORANYL-4-IODANYL-PHENYL)AMINO]PHENYL]-[3-OXIDANYL-3-[(2S)-PIPERIDIN-2-YL]AZETIDIN-1-YL]METHANONE(Non-covalent)

EUI.4: 18 residues within 4Å: Chain B: N.69, K.88, L.109, V.118, I.132, M.134, D.181, K.183, N.186, D.199, F.200, G.201, V.202, S.203, L.206, I.207, A.211 Ligands: ANP.3 11 PLIP interactions: 11 interactions with chain B Hydrophobic interactions: B:N.69, B:L.109, B:F.200, B:L.206, B:I.207, B:A.211 Hydrogen bonds: B:K.88, B:K.183, B:N.186, B:D.199 Halogen bonds: B:V.118

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Khan, Z.M. et al., Structural basis for the action of the drug trametinib at KSR-bound MEK. Nature (2020)

Release Date

2020-10-07

Peptides

Kinase suppressor of Ras 1: A
Dual specificity mitogen-activated protein kinase kinase 1: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
C

Kinase suppressor of Ras 1

Dual specificity mitogen-activated protein kinase kinase 1

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