SMTL ID : 6zn0.1

Crystal structure of cAMP-dependent protein kinase A (CHO PKA) in complex with isonicotinamidine

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.59 Å

Oligo State

monomer

Ligands

1 x MRD: (4R)-2-METHYLPENTANE-2,4-DIOL(Non-functional Binders)

MRD.1: 7 residues within 4Å: Chain A: V.18, F.21, L.22, F.103, L.155, E.158, Y.309 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:V.18, A:F.21, A:F.21, A:F.21, A:L.22, A:Y.309 Hydrogen bonds: A:L.155 Water bridges: A:K.295

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

DMS.2: 4 residues within 4Å: Chain A: L.92, N.93, R.96, E.352 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.96 Salt bridges: A:E.352 DMS.3: 5 residues within 4Å: Chain A: N.39, T.40, A.41, Q.42, H.45 No protein-ligand interaction detected (PLIP)

2 x NTN: ISONICOTINAMIDINE(Non-covalent)

NTN.4: 9 residues within 4Å: Chain A: V.60, A.73, M.123, E.124, Y.125, V.126, L.176, T.186, F.330 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:A.73, A:L.176 Hydrogen bonds: A:V.126, A:T.186 Water bridges: A:T.186, A:D.187 NTN.5: 4 residues within 4Å: Chain A: A.301, T.302, T.303, D.304 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:D.304 Water bridges: A:W.305

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Oebbeke, M. et al., Fragment Binding to Kinase Hinge: If Charge Distribution and Local pK a Shifts Mislead Popular Bioisosterism Concepts. Angew.Chem.Int.Ed.Engl. (2021)

Release Date

2020-12-09

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

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