SMTL ID : 3l19.2 (3 other biounits)

Crystal structure of calcium binding domain of CpCDPK3, cgd5_820

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.14 Å

Oligo State

homo-dimer

Ligands

8 x CA: CALCIUM ION(Non-covalent)

CA.1: 5 residues within 4Å: Chain A: D.117, D.119, N.121, Y.123, E.128 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.117, A:D.119, A:Y.123, A:E.128, A:E.128 CA.2: 5 residues within 4Å: Chain A: D.73, N.75, D.77, Q.79, E.84 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.73, A:D.77, A:Q.79, A:E.84, H2O.1 CA.3: 5 residues within 4Å: Chain A: D.153, D.155, N.157, K.159, E.164 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.153, A:D.155, A:K.159, A:E.164, H2O.2 CA.4: 5 residues within 4Å: Chain A: D.187, N.189, D.191, D.193, E.198 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.187, A:D.191, A:D.193, A:E.198, H2O.1 CA.9: 5 residues within 4Å: Chain B: D.117, D.119, N.121, Y.123, E.128 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:D.117, B:D.119, B:Y.123, B:E.128, B:E.128 CA.10: 5 residues within 4Å: Chain B: D.73, N.75, D.77, Q.79, E.84 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.73, B:D.77, B:Q.79, B:E.84, H2O.4 CA.11: 5 residues within 4Å: Chain B: D.153, D.155, N.157, K.159, E.164 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.153, B:D.155, B:K.159, B:E.164, H2O.4 CA.12: 5 residues within 4Å: Chain B: D.187, N.189, D.191, D.193, E.198 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.187, B:D.191, B:D.193, B:E.198, H2O.4

2 x 1PE: PENTAETHYLENE GLYCOL(Non-functional Binders)

1PE.5: 6 residues within 4Å: Chain A: S.54, K.55, T.57, Q.59, Y.126, S.127 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.55, A:K.55 Water bridges: A:T.57 1PE.13: 6 residues within 4Å: Chain B: S.54, K.55, T.57, Q.59, Y.126, S.127 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:K.55, B:K.55

6 x GOL: GLYCEROL(Non-functional Binders)

GOL.6: 7 residues within 4Å: Chain A: E.64, L.65, A.133, M.134, D.135 Chain B: L.25, P.26 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.64, A:D.135 GOL.7: 2 residues within 4Å: Chain A: V.162, E.175 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.175 GOL.8: 2 residues within 4Å: Chain A: D.117, R.120 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.120, A:R.120 GOL.14: 7 residues within 4Å: Chain A: L.25, P.26 Chain B: E.64, L.65, A.133, M.134, D.135 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:D.135 GOL.15: 2 residues within 4Å: Chain B: V.162, E.175 No protein-ligand interaction detected (PLIP) GOL.16: 2 residues within 4Å: Chain B: D.117, R.120 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:R.120, B:R.120

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Qiu, W. et al., Crystal structure of calcium binding domain of CpCDPK3, cgd5_820. To be Published

Release Date

2009-12-22

Peptides

Calcium/calmodulin dependent protein kinase with a kinase domain and 4 calmodulin like EF hands: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
B

Calcium/calmodulin dependent protein kinase with a kinase domain and 4 calmodulin like EF hands

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