SMTL ID : 4qx5.1

Neutron diffraction reveals hydrogen bonds critical for cGMP-selective activation: Insights for PKG agonist design

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.32 Å

Oligo State

monomer

Ligands

1 x CMP: ADENOSINE-3',5'-CYCLIC-MONOPHOSPHATE(Non-covalent)

CMP.1: 14 residues within 4Å: Chain A: I.48, V.67, L.80, R.81, F.89, G.90, E.91, K.92, A.93, R.100, T.101, A.102, V.104, Y.135 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:R.69, A:G.90, A:E.91, A:K.92, A:A.93, A:T.101 Salt bridges: A:R.100

18 x IOD: IODIDE ION(Non-functional Binders)

IOD.2: 4 residues within 4Å: Chain A: R.117, D.118, K.121 Ligands: IOD.3 Ligand excluded by PLIP IOD.3: 3 residues within 4Å: Chain A: D.55 Ligands: IOD.2, IOD.11 Ligand excluded by PLIP IOD.4: 4 residues within 4Å: Chain A: E.10, Y.11, F.14 Ligands: IOD.6 Ligand excluded by PLIP IOD.5: 3 residues within 4Å: Chain A: Q.95, G.125, S.131 Ligand excluded by PLIP IOD.6: 4 residues within 4Å: Chain A: E.10, Y.11, S.61 Ligands: IOD.4 Ligand excluded by PLIP IOD.7: 1 residues within 4Å: Chain A: K.31 Ligand excluded by PLIP IOD.8: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP IOD.9: 1 residues within 4Å: Chain A: L.123 Ligand excluded by PLIP IOD.10: 1 residues within 4Å: Chain A: I.47 Ligand excluded by PLIP IOD.11: 4 residues within 4Å: Chain A: D.116, R.117, D.118 Ligands: IOD.3 Ligand excluded by PLIP IOD.12: 4 residues within 4Å: Chain A: T.39, H.40, Y.41 Ligands: IOD.15 Ligand excluded by PLIP IOD.13: 2 residues within 4Å: Chain A: K.62, T.111 Ligand excluded by PLIP IOD.14: 1 residues within 4Å: Chain A: G.51 Ligand excluded by PLIP IOD.15: 3 residues within 4Å: Chain A: Y.41, E.45 Ligands: IOD.12 Ligand excluded by PLIP IOD.16: 1 residues within 4Å: Chain A: G.96 Ligand excluded by PLIP IOD.17: 2 residues within 4Å: Chain A: E.38, H.40 Ligand excluded by PLIP IOD.18: 1 residues within 4Å: Chain A: T.101 Ligand excluded by PLIP IOD.19: 2 residues within 4Å: Chain A: D.87, W.88 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Huang, G.Y. et al., Neutron Diffraction Reveals Hydrogen Bonds Critical for cGMP-Selective Activation: Insights for cGMP-Dependent Protein Kinase Agonist Design. Biochemistry (2014)

Release Date

2014-11-12

Peptides

cGMP-dependent protein kinase 1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

cGMP-dependent protein kinase 1

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