SMTL ID : 7w5o.2 (1 other biounit)

Crystal structure of ERK2 with an allosteric inhibitor

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.35 Å

Oligo State

monomer

Ligands

3 x MLA: MALONIC ACID(Non-covalent)

MLA.1: 4 residues within 4Å: Chain A: E.68, H.69, Q.70, T.71 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:H.69 Hydrogen bonds: A:H.69, A:Q.70 Salt bridges: A:K.348 MLA.3: 7 residues within 4Å: Chain A: Y.44, K.62, R.75, E.79, D.175, F.176, G.177 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Y.44, A:Y.44, A:Y.44 Salt bridges: A:K.62, A:R.75 MLA.4: 6 residues within 4Å: Chain A: F.191, E.194, V.196, R.202, I.206, M.207 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:I.206 Hydrogen bonds: A:F.191, A:F.191, A:V.196 Water bridges: A:F.191 Salt bridges: A:R.202, A:R.202

1 x TAR: D(-)-TARTARIC ACID(Non-covalent)

TAR.2: 7 residues within 4Å: Chain A: V.47, A.60, Q.113, D.114, L.115, M.116, L.164 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:D.114, A:M.116 Water bridges: A:K.122, A:K.122 Salt bridges: A:K.62, A:K.122

1 x EPE: 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID(Non-functional Binders)

EPE.5: 8 residues within 4Å: Chain A: A.43, Y.72, R.75, L.192, T.193, E.194, Y.195 Ligands: 6GI.6 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Y.72, A:R.75

1 x 6GI: 13-[4-({Imidazo[1,2-a]pyridin-2-yl}methoxy)phenyl]-4,8-dioxa-12,14,16,18-tetraazatetracyclo[9.7.0.0^{3,9}.0^{12,17}]octadeca-1(11),2,9,15,17-pentaen-15-amine(Non-covalent)

6GI.6: 19 residues within 4Å: Chain A: T.71, Q.74, R.75, R.78, R.156, L.178, R.180, H.188, T.189, T.193, E.194, Y.195, Y.213, F.339, E.342, L.343, D.344, D.345 Ligands: EPE.5 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:T.189, A:T.193, A:E.194, A:E.342, A:D.344 Hydrogen bonds: A:R.75, A:R.180, A:R.180 Water bridges: A:R.156 Salt bridges: A:D.345

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yoshida, M. et al., Identification of a novel target site for ATP-independent ERK2 inhibitors. Biochem.Biophys.Res.Commun. (2022)

Release Date

2022-02-23

Peptides

Mitogen-activated protein kinase 1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Mitogen-activated protein kinase 1

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