SMTL ID : 5j48.2 (1 other biounit)

PKG I's Carboyl Terminal Cyclic Nucleotide Binding Domain (CNB-B) in a complex with 8-pCPT-cGMP

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.49 Å

Oligo State

monomer

Ligands

4 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.1: 3 residues within 4Å: Chain A: K.31, H.122, L.123 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.31, A:H.122 EDO.2: 8 residues within 4Å: Chain A: K.7, E.10, Y.11, F.14, E.38, S.61, T.111, L.113 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.61 Water bridges: A:K.7, A:E.38 EDO.3: 7 residues within 4Å: Chain A: G.4, K.7, H.8, Y.11, A.33, D.34, L.36 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:A.33 EDO.4: 6 residues within 4Å: Chain A: T.20, L.83, G.86, D.87, W.88 Ligands: 6FW.5 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:W.88, A:W.88 Water bridges: A:T.20, A:T.20, A:D.87, A:D.87

1 x 6FW: 2-amino-8-[(4-chlorophenyl)sulfanyl]-9-[(2S,4aR,6R,7R,7aS)-2,7-dihydroxy-2-oxotetrahydro-2H,4H-2lambda~5~-furo[3,2-d][1,3,2]dioxaphosphinin-6-yl]-3,9-dihydro-6H-purin-6-one(Non-covalent)

6FW.5: 18 residues within 4Å: Chain A: I.48, V.67, R.69, L.80, R.81, L.83, W.88, F.89, G.90, E.91, K.92, A.93, R.100, T.101, A.102, V.104 Ligands: EDO.4, CA.6 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:W.88 Hydrogen bonds: A:R.81, A:R.81, A:G.90, A:E.91, A:E.91, A:K.92, A:A.93, A:T.101, A:T.101, A:T.101, A:T.101, A:T.101 Salt bridges: A:R.100

1 x CA: CALCIUM ION(Non-covalent)

CA.6: 2 residues within 4Å: Chain A: R.69 Ligands: 6FW.5 No protein-ligand interaction detected (PLIP)

1 x NA: SODIUM ION(Non-functional Binders)

NA.7: 5 residues within 4Å: Chain A: K.92, A.93, Q.95, G.96, E.97 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.97

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Campbell, J.C. et al., Structural Basis of Analog Specificity in PKG I and II. ACS Chem. Biol. (2017)

Release Date

2017-04-12

Peptides

cGMP-dependent protein kinase 1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

cGMP-dependent protein kinase 1

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