SMTL ID : 6c0u.1

Crystal structure of cAMP-dependent protein kinase Calpha subunit bound with N46

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.65 Å

Oligo State

monomer

Ligands

1 x EE4: N-[(3R,4R)-4-{[4-(2-fluoro-3-methoxy-6-propoxybenzene-1-carbonyl)benzene-1-carbonyl]amino}pyrrolidin-3-yl]-1H-indazole-5-carboxamide(Non-covalent)

EE4.1: 26 residues within 4Å: Chain A: L.53, G.54, T.55, G.56, S.57, F.58, G.59, R.60, V.61, A.74, L.78, T.92, E.95, M.124, E.125, Y.126, V.127, E.131, E.174, N.175, L.177, T.187, G.190, F.331 Ligands: DMS.2, DMS.3 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:L.177, A:L.177 Hydrogen bonds: A:S.57, A:F.58, A:G.59, A:V.61, A:E.125, A:V.127, A:T.187 pi-Stacking: A:F.58 pi-Cation interactions: A:K.76

3 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)

DMS.2: 6 residues within 4Å: Chain A: T.55, K.172, N.175, D.188 Ligands: EE4.1, DMS.3 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:D.188 DMS.3: 6 residues within 4Å: Chain A: D.170, K.172, D.188, F.191 Ligands: EE4.1, DMS.2 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.172 Salt bridges: A:D.170, A:D.188 DMS.4: 6 residues within 4Å: Chain A: F.133, E.174, T.205, Y.208, E.234, P.240 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:T.205 Salt bridges: A:E.174, A:E.234

1 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.5: 7 residues within 4Å: Chain A: E.159, H.162, K.221, W.225, G.286, G.291, V.292 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:W.225, A:W.225, A:V.292 Salt bridges: A:H.162, A:K.221

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Qin, L. et al., Structural basis for selective inhibition of human PKG I alpha by the balanol-like compound N46. J. Biol. Chem. (2018)

Release Date

2018-05-30

Peptides

cAMP-dependent protein kinase catalytic subunit alpha: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

cAMP-dependent protein kinase catalytic subunit alpha