SMTL ID : 7nry.1

Re-refinement of MAPKAP kinase-2/inhibitor complex 3fyj

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.80 Å

Oligo State

homo-trimer

Ligands

3 x B97: (10R)-10-methyl-3-(6-methylpyridin-3-yl)-9,10,11,12-tetrahydro-8H-[1,4]diazepino[5',6':4,5]thieno[3,2-f]quinolin-8-one(Non-covalent)

B97.1: 15 residues within 4Å: Chain A: L.26, L.28, G.29, V.34, A.47, K.49, M.94, E.95, C.96, L.97, D.98, E.146, N.147, T.162, D.163 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:L.26, A:A.47, A:L.97 Hydrogen bonds: A:L.97, A:D.163, A:D.163 B97.4: 15 residues within 4Å: Chain B: L.26, L.28, G.29, V.34, A.47, K.49, M.94, E.95, C.96, L.97, D.98, E.146, N.147, T.162, D.163 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:L.26, B:A.47, B:L.97 Hydrogen bonds: B:L.97, B:D.163, B:D.163 B97.7: 15 residues within 4Å: Chain C: L.26, L.28, G.29, V.34, A.47, K.49, M.94, E.95, C.96, L.97, D.98, E.146, N.147, T.162, D.163 6 PLIP interactions: 6 interactions with chain C Hydrophobic interactions: C:L.26, C:A.47, C:L.97 Hydrogen bonds: C:L.97, C:D.163, C:D.163

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

CL.2: 3 residues within 4Å: Chain A: K.49, H.64, F.164 Ligand excluded by PLIP CL.5: 3 residues within 4Å: Chain B: K.49, H.64, F.164 Ligand excluded by PLIP CL.8: 3 residues within 4Å: Chain C: K.49, H.64, F.164 Ligand excluded by PLIP

3 x MLA: MALONIC ACID(Non-covalent)

MLA.3: 1 residues within 4Å: Chain A: R.41 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:R.41, A:R.41 MLA.6: 1 residues within 4Å: Chain B: R.41 2 PLIP interactions: 2 interactions with chain B Salt bridges: B:R.41, B:R.41 MLA.9: 1 residues within 4Å: Chain C: R.41 2 PLIP interactions: 2 interactions with chain C Salt bridges: C:R.41, C:R.41

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Croll, T.I. et al., Adaptive Cartesian and torsional restraints for interactive model rebuilding. Acta Crystallogr D Struct Biol (2021)

Release Date

2022-02-09

Peptides

MAP kinase-activated protein kinase 2: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
X

B
X

C
X

MAP kinase-activated protein kinase 2

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