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

Crystal structure of the cGMP-dependent protein kinase PKG from Plasmodium falciparum - Apo form

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.45 Å

Oligo State

homo-dimer

Ligands

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

EDO.1: 3 residues within 4Å: Chain A: N.321, T.374, K.376 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.321 Water bridges: A:N.321 EDO.2: 6 residues within 4Å: Chain A: S.175, V.176, D.178, M.179, L.281, R.355 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:S.175, A:D.178, A:M.179 Water bridges: A:Q.278, A:R.355 EDO.7: 3 residues within 4Å: Chain B: N.321, T.374, K.376 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:N.321 Water bridges: B:N.321 EDO.8: 6 residues within 4Å: Chain B: S.175, V.176, D.178, M.179, L.281, R.355 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:S.175, B:D.178, B:M.179 Water bridges: B:Q.278, B:R.355

4 x SO4: SULFATE ION(Non-functional Binders)

SO4.3: 6 residues within 4Å: Chain A: E.450, G.452, S.453, R.454, Y.456, R.492 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:E.450, A:E.450, A:S.453, A:R.454 Salt bridges: A:R.454, A:R.492 SO4.4: 5 residues within 4Å: Chain A: L.514, I.517, Q.518, G.519, L.522 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:L.514 SO4.9: 6 residues within 4Å: Chain B: E.450, G.452, S.453, R.454, Y.456, R.492 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:E.450, B:S.453, B:R.454, B:Y.456 Salt bridges: B:R.454, B:R.492 SO4.10: 5 residues within 4Å: Chain B: L.514, I.517, Q.518, G.519, L.522 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:L.514

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 6 residues within 4Å: Chain A: V.204, Y.209, G.210, D.211, V.212, R.250 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:D.211, A:D.211, A:D.211, A:Y.214, A:R.250 Water bridges: A:K.205 GOL.6: 2 residues within 4Å: Chain A: Y.224, D.227 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:D.227, A:D.227, A:D.227 Water bridges: A:D.227, A:T.253 GOL.11: 6 residues within 4Å: Chain B: V.204, Y.209, G.210, D.211, V.212, R.250 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:D.211, B:D.211, B:R.250 Water bridges: B:K.205 GOL.12: 2 residues within 4Å: Chain B: Y.224, D.227 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:D.227, B:D.227 Water bridges: B:D.227, B:T.253

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

El Bakkouri, M. et al., Structures of the cGMP-dependent protein kinase in malaria parasites reveal a unique structural relay mechanism for activation. Proc.Natl.Acad.Sci.USA (2019)

Release Date

2015-11-04

Peptides

CGMP-dependent protein kinase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

CGMP-dependent protein kinase

Related Entries With Identical Sequence