SMTL ID : 8em8.1

Co-crystal structure of the cGMP-dependent protein kinase PKG from Plasmodium falciparum in complex with RY-1-165

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.54 Å

Oligo State

monomer

Ligands

1 x UNK- UNK- UNK- UNK: unidentified peptide fragment(Non-covalent)

UNK-UNK-UNK-UNK.1: 7 residues within 4Å: Chain A: H.128, K.666, E.668, V.697, G.698, T.699, P.700 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:T.699 Hydrogen bonds: A:E.668, A:G.698, A:G.698

1 x WLK: [(3R)-3-{[(4M)-4-(4-cyclopropyl-2-phenyl-1H-imidazol-1-yl)pyrimidin-2-yl]amino}pyrrolidin-1-yl](1,3-thiazol-2-yl)methanone(Non-covalent)

WLK.2: 16 residues within 4Å: Chain A: I.547, V.555, L.557, R.566, A.568, K.570, I.602, T.618, E.619, L.620, V.621, T.622, G.623, G.624, L.671, I.681 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:V.555, A:V.555, A:K.570, A:T.618 Hydrogen bonds: A:V.621, A:V.621, A:G.624

4 x UNX: UNKNOWN ATOM OR ION(Non-functional Binders)

UNX.3: 2 residues within 4Å: Chain A: Y.224, D.227 No protein-ligand interaction detected (PLIP) UNX.4: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) UNX.5: 2 residues within 4Å: Chain A: R.590, F.614 No protein-ligand interaction detected (PLIP) UNX.6: 3 residues within 4Å: Chain A: L.514, Q.515, I.517 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Gilleran, J.A. et al., Structure-Activity Relationship of a Pyrrole Based Series of PfPKG Inhibitors as Anti-Malarials. J.Med.Chem. (2024)

Release Date

2022-11-02

Peptides

cGMP-dependent protein kinase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

cGMP-dependent protein kinase

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