SMTL ID : 6g54.1

Crystal structure of ERK2 covalently bound to SM1-71

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.05 Å

Oligo State

monomer

Ligands

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

SO4.1: 4 residues within 4Å: Chain A: R.192, R.195, H.233, Y.234 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:Y.234 Water bridges: A:R.192, A:R.192, A:R.195 Salt bridges: A:R.192, A:R.195 SO4.2: 3 residues within 4Å: Chain A: R.16, S.30, Y.31 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Y.31 Salt bridges: A:R.16

1 x 6H3: N-{2-[(5-chloro-2-{[4-(4-methylpiperazin-1-yl)phenyl]amino}pyrimidin-4-yl)amino]phenyl}propanamide(Covalent)

6H3.3: 17 residues within 4Å: Chain A: I.32, G.33, E.34, G.35, V.40, A.53, Q.106, D.107, L.108, M.109, E.110, K.115, S.154, L.157, C.167, D.168 Ligands: EDO.4 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:V.40, A:V.40, A:L.157 Hydrogen bonds: A:M.109, A:M.109 Water bridges: A:A.36 Halogen bonds: A:Q.106

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

EDO.4: 2 residues within 4Å: Chain A: K.115 Ligands: 6H3.3 No protein-ligand interaction detected (PLIP) EDO.5: 4 residues within 4Å: Chain A: K.293, I.303, Q.307, H.311 1 PLIP interactions: 1 interactions with chain A Water bridges: A:Q.307 EDO.6: 5 residues within 4Å: Chain A: R.68, R.71, L.171, R.173, V.189 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:Q.67, A:R.68, A:R.68, A:R.71, A:R.71, A:R.173, A:R.173 Water bridges: A:R.149 EDO.7: 4 residues within 4Å: Chain A: E.61, H.62, Q.63, K.341 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.63 Water bridges: A:T.64 EDO.8: 6 residues within 4Å: Chain A: R.92, A.93, Q.98, M.99, K.100, D.101 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:A.93, A:K.100, A:D.101 EDO.9: 5 residues within 4Å: Chain A: Y.114, K.152, S.154 Ligands: EDO.10, EDO.16 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.152 EDO.10: 5 residues within 4Å: Chain A: K.152, V.189, T.191 Ligands: EDO.9, EDO.16 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:V.189 Water bridges: A:K.152, A:R.192 EDO.11: 3 residues within 4Å: Chain A: Y.140, A.326, E.327 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Y.140, A:E.327 EDO.12: 4 residues within 4Å: Chain A: L.116, N.159, T.160, C.162 No protein-ligand interaction detected (PLIP) EDO.13: 2 residues within 4Å: Chain A: S.123, N.124 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.124 Water bridges: A:D.125 EDO.14: 4 residues within 4Å: Chain A: K.286, D.289, H.311, P.312 No protein-ligand interaction detected (PLIP) EDO.15: 3 residues within 4Å: Chain A: S.143, E.306, I.325 2 PLIP interactions: 2 interactions with chain A Water bridges: A:K.139, A:E.306 EDO.16: 4 residues within 4Å: Chain A: A.36, K.152 Ligands: EDO.9, EDO.10 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:K.152 Water bridges: A:D.150, A:K.152, A:T.191

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

CL.17: 3 residues within 4Å: Chain A: H.233, Y.234, L.235 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Rao, S. et al., Leveraging Compound Promiscuity to Identify Targetable Cysteines within the Kinome. Cell Chem Biol (2019)

Release Date

2019-02-27

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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