SMTL ID : 4qtd.1

Structure of human JNK1 in complex with SCH772984 and the AMPPNP-hydrolysed triphosphate revealing the second type-I binding mode

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

monomer

Ligands

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

EDO.1: 5 residues within 4Å: Chain A: Q.121, E.218, H.222, K.223, I.224 Ligand excluded by PLIP EDO.2: 5 residues within 4Å: Chain A: C.221, L.225, Q.241, L.275, F.276 Ligand excluded by PLIP EDO.3: 6 residues within 4Å: Chain A: P.245, C.246, F.249, V.304, I.305, D.306 Ligand excluded by PLIP EDO.4: 3 residues within 4Å: Chain A: D.314, E.315, Q.318 Ligand excluded by PLIP EDO.5: 2 residues within 4Å: Chain A: G.202, Y.203 Ligand excluded by PLIP EDO.6: 6 residues within 4Å: Chain A: C.80, V.81, N.82, H.142, P.334, P.336 Ligand excluded by PLIP EDO.7: 3 residues within 4Å: Chain A: H.83, K.84, S.329 Ligand excluded by PLIP EDO.8: 5 residues within 4Å: Chain A: E.123, L.124, D.125, P.282 Ligands: EDO.9 Ligand excluded by PLIP EDO.9: 7 residues within 4Å: Chain A: E.123, L.124, V.279, L.280, F.281, P.282 Ligands: EDO.8 Ligand excluded by PLIP EDO.10: 3 residues within 4Å: Chain A: Y.270, K.274, L.275 Ligand excluded by PLIP EDO.11: 4 residues within 4Å: Chain A: S.293, Q.294, D.297, P.320 Ligand excluded by PLIP EDO.12: 6 residues within 4Å: Chain A: N.29, K.31, A.43, A.44, Y.45, N.52 Ligand excluded by PLIP EDO.13: 2 residues within 4Å: Chain A: R.51, N.52 Ligand excluded by PLIP EDO.14: 4 residues within 4Å: Chain A: L.89, L.90, N.91, V.92 Ligand excluded by PLIP EDO.15: 6 residues within 4Å: Chain A: H.126, E.127, S.130, H.287, K.291, Y.321 Ligand excluded by PLIP EDO.16: 2 residues within 4Å: Chain A: V.324, W.325 Ligand excluded by PLIP EDO.17: 2 residues within 4Å: Chain A: D.327, E.330 Ligand excluded by PLIP EDO.18: 4 residues within 4Å: Chain A: E.127, R.128, Y.131, C.164 Ligand excluded by PLIP EDO.19: 4 residues within 4Å: Chain A: K.204, N.206, A.307 Ligands: EPE.23 Ligand excluded by PLIP EDO.20: 5 residues within 4Å: Chain A: L.242, A.268, G.269, Y.270, S.271 Ligand excluded by PLIP EDO.21: 2 residues within 4Å: Chain A: L.253, Q.254 Ligand excluded by PLIP EDO.22: 4 residues within 4Å: Chain A: E.273, P.277, D.278, R.296 Ligand excluded by PLIP

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

EPE.23: 7 residues within 4Å: Chain A: K.204, E.205, N.206, R.310, S.312, E.315 Ligands: EDO.19 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:N.206 Water bridges: A:E.205, A:V.313 Salt bridges: A:E.315, A:E.315

1 x 38Z: (3R)-1-(2-oxo-2-{4-[4-(pyrimidin-2-yl)phenyl]piperazin-1-yl}ethyl)-N-[3-(pyridin-4-yl)-2H-indazol-5-yl]pyrrolidine-3-carboxamide(Non-covalent)

38Z.24: 20 residues within 4Å: Chain A: I.33, S.35, V.41, A.54, M.109, E.110, L.111, M.112, D.113, A.114, N.115, C.117, Q.118, Q.121, S.156, N.157, V.159, L.169 Ligands: ANP.25, MG.26 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:I.33, A:V.41, A:A.54, A:L.111, A:Q.121, A:V.159, A:L.169 Hydrogen bonds: A:M.112, A:S.156 Water bridges: A:Q.121

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

ANP.25: 11 residues within 4Å: Chain A: G.36, A.37, Q.38, K.154, S.156, N.157, Y.186, V.187, T.189 Ligands: 38Z.24, MG.26 11 PLIP interactions: 11 interactions with chain A Hydrogen bonds: A:A.37, A:Q.38, A:S.156, A:S.156, A:N.157, A:T.189, A:T.189 Water bridges: A:S.35, A:Q.38, A:G.39, A:R.70

1 x MG: MAGNESIUM ION(Non-covalent)

MG.26: 4 residues within 4Å: Chain A: S.156, N.157 Ligands: 38Z.24, ANP.25 1 PLIP interactions: 1 Ligand-Ligand interactions Metal complexes: 38Z.24

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chaikuad, A. et al., A unique inhibitor binding site in ERK1/2 is associated with slow binding kinetics. Nat.Chem.Biol. (2014)

Release Date

2014-07-23

Peptides

Mitogen-activated protein kinase 8: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Mitogen-activated protein kinase 8