SMTL ID : 6ycw.1

Fragment KCL_K767 in complex with MAP kinase p38-alpha

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.34 Å

Oligo State

monomer

Ligands

1 x SB4: 4-(4-FLUOROPHENYL)-1-(4-PIPERIDINYL)-5-(2-AMINO-4-PYRIMIDINYL)-IMIDAZOLE(Non-covalent)

SB4.1: 15 residues within 4Å: Chain A: V.30, S.32, G.33, V.38, A.51, K.53, I.84, L.86, L.104, V.105, T.106, H.107, L.108, M.109, L.167 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:A.51, A:K.53, A:I.84, A:T.106 Hydrogen bonds: A:M.109, A:M.109 Water bridges: A:D.112, A:D.112

3 x CA: CALCIUM ION(Non-covalent)

CA.2: 2 residues within 4Å: Chain A: D.354, E.356 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:D.354, A:D.354, A:E.356 CA.3: 2 residues within 4Å: Chain A: D.313, E.359 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:D.313, A:E.359, H2O.3, H2O.3, H2O.4 CA.4: 1 residues within 4Å: Chain A: D.315 3 PLIP interactions: 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.315, H2O.1, H2O.2

1 x OL8: ~{N}-[3-[2,5-bis(oxidanylidene)pyrrol-1-yl]phenyl]furan-2-carboxamide(Non-covalent)

OL8.5: 9 residues within 4Å: Chain A: L.217, T.218, G.219, R.220, V.273, F.274, I.275, G.276, A.277 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:T.218, A:R.220, A:A.277 Hydrogen bonds: A:T.218

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Nichols, C. et al., Mining the PDB for Tractable Cases Where X-ray Crystallography Combined with Fragment Screens Can Be Used to Systematically Design Protein-Protein Inhibitors: Two Test Cases Illustrated by IL1 beta-IL1R and p38 alpha-TAB1 Complexes. J.Med.Chem. (2020)

Release Date

2020-04-08

Peptides

Mitogen-activated protein kinase 14: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Mitogen-activated protein kinase 14

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