SMTL ID : 3mes.1

Crystal structure of choline kinase from Cryptosporidium parvum Iowa II, cgd3_2030

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.35 Å

Oligo State

homo-dimer

Ligands

2 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)

ADP.1: 18 residues within 4Å: Chain A: I.78, G.81, L.82, T.83, N.84, L.86, L.106, R.108, P.137, E.149, E.150, F.151, I.152, I.284, D.285 Ligands: MG.2, PT3.4, GOL.5 11 PLIP interactions: 11 interactions with chain A Hydrogen bonds: A:S.80, A:L.82, A:T.83, A:N.84, A:N.84, A:R.108, A:E.150, A:I.152, A:D.285 Salt bridges: A:R.108, A:R.108 ADP.7: 18 residues within 4Å: Chain B: I.78, G.81, L.82, T.83, N.84, L.86, L.106, R.108, P.137, E.149, E.150, F.151, I.152, N.272, I.284, D.285 Ligands: MG.8, PT3.10 11 PLIP interactions: 11 interactions with chain B Hydrogen bonds: B:L.82, B:T.83, B:N.84, B:N.84, B:E.149, B:E.150, B:I.152 Water bridges: B:T.83, B:T.83 Salt bridges: B:R.108, B:R.108

4 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 3 residues within 4Å: Chain A: D.285 Ligands: ADP.1, PT3.4 No protein-ligand interaction detected (PLIP) MG.6: 5 residues within 4Å: Chain A: Q.270, E.271, E.304, Y.307, Y.309 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:E.271, A:E.271, A:E.304, A:E.304, A:Y.307 MG.8: 3 residues within 4Å: Chain B: D.285 Ligands: ADP.7, PT3.10 No protein-ligand interaction detected (PLIP) MG.11: 4 residues within 4Å: Chain B: E.271, E.304, Y.307, Y.309 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:E.271, B:E.271, B:E.304, B:E.304, B:Y.307

2 x DME: DECAMETHONIUM ION(Non-covalent)

DME.3: 12 residues within 4Å: Chain A: S.80, D.268, Q.270, N.272, E.304, Y.309, W.371, W.374, F.389, Y.394 Ligands: PT3.4, GOL.5 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:W.374, A:F.389, A:F.389 Salt bridges: A:D.268, A:E.304 pi-Cation interactions: A:W.371 DME.9: 11 residues within 4Å: Chain B: S.80, D.268, Q.270, N.272, E.304, Y.309, W.371, W.374, F.389, Y.394 Ligands: PT3.10 7 PLIP interactions: 7 interactions with chain B Hydrophobic interactions: B:W.374, B:F.389, B:F.389 Salt bridges: B:D.268, B:E.304 pi-Cation interactions: B:W.371, B:W.371

2 x PT3: N-PROPYL-TARTRAMIC ACID(Non-covalent)

PT3.4: 10 residues within 4Å: Chain A: L.82, D.268, Q.270, N.272, D.285, Y.288 Ligands: ADP.1, MG.2, DME.3, GOL.5 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Q.270, A:D.285, A:Y.288, A:Y.288 Water bridges: A:T.83 PT3.10: 12 residues within 4Å: Chain B: L.82, D.268, Q.270, N.272, N.273, D.285, E.287, Y.309, W.374 Ligands: ADP.7, MG.8, DME.9 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:Y.309 Hydrogen bonds: B:N.273, B:D.285 Water bridges: B:S.80

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 7 residues within 4Å: Chain A: S.80, P.156, N.272, L.275 Ligands: ADP.1, DME.3, PT3.4 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.80, A:S.80, A:N.272

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Qiu, W. et al., Crystal structure of choline kinase from Cryptosporidium parvum Iowa II, cgd3_2030. TO BE PUBLISHED

Release Date

2010-04-07

Peptides

Choline kinase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Choline kinase