SMTL ID : 6gjd.1

Erk2 signalling protein

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.58 Å

Oligo State

monomer

Ligands

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

SO4.1: 5 residues within 4Å: Chain A: Y.195, R.199, R.202, H.240, Y.241 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Y.195, A:R.199 Water bridges: A:Y.241, A:Y.241 Salt bridges: A:R.202 SO4.5: 3 residues within 4Å: Chain A: N.35, Y.51, R.58 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.58 SO4.6: 4 residues within 4Å: Chain A: Y.121, K.159, S.161, T.198 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:S.161, A:S.161 Water bridges: A:K.159 Salt bridges: A:K.159 SO4.7: 3 residues within 4Å: Chain A: H.69, Q.70, K.348 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Q.70 Water bridges: A:T.71, A:K.348 Salt bridges: A:H.69, A:K.348 SO4.8: 5 residues within 4Å: Chain A: T.71, R.75, L.178, R.180, V.196 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:T.71 Water bridges: A:R.78, A:R.156, A:R.180 Salt bridges: A:R.75, A:R.180 SO4.9: 3 residues within 4Å: Chain A: A.290, D.291, S.292 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.292 Water bridges: A:D.291, A:D.291 SO4.10: 2 residues within 4Å: Chain A: R.199, K.239 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.199

2 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)

DMS.2: 6 residues within 4Å: Chain A: I.39, G.40, E.41, Y.44, V.47 Ligands: F0E.11 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Y.44 DMS.3: 4 residues within 4Å: Chain A: L.124, K.125, Q.127, N.232 No protein-ligand interaction detected (PLIP)

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 5 residues within 4Å: Chain A: V.29, G.30, P.31, R.32, I.98 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.32

1 x F0E: cyclooctyl ~{N}-[3-[[4-[5-[[(3~{R})-1-[2-oxidanylidene-2-[4-(4-pyrimidin-2-ylphenyl)piperazin-1-yl]ethyl]pyrrolidin-3-yl]carbonylamino]-1~{H}-indazol-3-yl]pyridin-2-yl]carbonylamino]propyl]carbamate(Non-covalent)

F0E.11: 28 residues within 4Å: Chain A: I.39, A.43, Y.44, S.49, R.58, A.60, K.62, I.64, P.66, Y.72, R.75, T.76, E.79, I.92, Q.113, D.114, L.115, M.116, E.117, T.118, D.119, K.122, L.164, T.167, C.174, D.175, G.177 Ligands: DMS.2 20 PLIP interactions: 20 interactions with chain A Hydrophobic interactions: A:Y.44, A:Y.44, A:R.58, A:A.60, A:I.64, A:Y.72, A:Y.72, A:Q.113, A:L.115, A:L.164 Hydrogen bonds: A:S.49, A:K.62, A:D.114, A:M.116, A:M.116, A:K.122 Water bridges: A:D.175 Salt bridges: A:E.79, A:D.175 pi-Stacking: A:Y.72

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lebraud, H. et al., Quantitation of ERK1/2 inhibitor cellular target occupancies with a reversible slow off-rate probe. Chem Sci (2018)

Release Date

2019-01-02

Peptides

Mitogen-activated protein kinase 1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Mitogen-activated protein kinase 1

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