SMTL ID : 3k21.1

Crystal Structure of carboxy-terminus of PFC0420w.

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.15 Å

Oligo State

homo-dimer

Ligands

6 x CA: CALCIUM ION(Non-covalent)

CA.1: 5 residues within 4Å: Chain A: D.97, D.99, S.101, K.103, E.108 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.97, A:D.99, A:S.101, A:K.103, H2O.2 CA.2: 5 residues within 4Å: Chain A: D.132, D.134, D.136, E.138, E.143 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.132, A:D.134, A:D.136, A:E.138, H2O.2 CA.3: 5 residues within 4Å: Chain A: D.173, N.175, D.177, K.179, E.184 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.173, A:D.177, A:K.179, A:E.184, H2O.1 CA.8: 5 residues within 4Å: Chain B: D.97, D.99, S.101, K.103, E.108 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.97, B:D.99, B:S.101, B:K.103, H2O.11 CA.9: 5 residues within 4Å: Chain B: D.132, D.134, D.136, E.138, E.143 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.132, B:D.134, B:D.136, B:E.138, H2O.11 CA.10: 5 residues within 4Å: Chain B: D.173, N.175, D.177, K.179, E.184 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.173, B:D.177, B:K.179, B:E.184, H2O.10

4 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.4: 10 residues within 4Å: Chain A: K.71, D.94, Q.95, D.97, S.98, G.100 Chain B: D.97, S.98, G.100 Ligands: PEG.11 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.71, A:K.71, A:D.94 PEG.5: 8 residues within 4Å: Chain A: S.186, E.187, K.190, L.191 Chain B: K.174, E.187, K.190 Ligands: PEG.12 3 PLIP interactions: 1 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:S.186, B:K.174, B:K.190 PEG.11: 10 residues within 4Å: Chain A: D.97, S.98, G.100 Chain B: K.71, D.94, Q.95, D.97, S.98, G.100 Ligands: PEG.4 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:K.71, B:K.71 PEG.12: 8 residues within 4Å: Chain A: K.174, E.187, K.190 Chain B: S.186, E.187, K.190, L.191 Ligands: PEG.5 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:K.174, A:K.190, B:S.186

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.6: 4 residues within 4Å: Chain A: K.166, N.176, D.177, G.178 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:K.166, A:K.166, A:N.176 Water bridges: A:D.173, A:G.178 GOL.13: 4 residues within 4Å: Chain B: K.166, N.176, D.177, G.178 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:K.166, B:K.166, B:N.176 Water bridges: B:D.173, B:G.178

2 x ACT: ACETATE ION(Non-functional Binders)

ACT.7: 2 residues within 4Å: Chain A: Y.68, K.103 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:K.103 Water bridges: A:S.101, A:S.101 ACT.14: 2 residues within 4Å: Chain B: Y.68, K.103 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:K.103 Water bridges: B:S.101, B:S.101

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wernimont, A.K. et al., Structures of parasitic CDPK domains point to a common mechanism of activation. Proteins (2011)

Release Date

2010-01-26

Peptides

Calcium-dependent protein kinase 3: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Calcium-dependent protein kinase 3