SMTL ID : 2g9z.1

Thiamin pyrophosphokinase from Candida albicans

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.96 Å

Oligo State

homo-dimer

Ligands

6 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 6 residues within 4Å: Chain A: D.91, D.126, D.128, D.155 Ligands: MG.2, VNP.6 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.91, A:D.126, A:D.128, A:D.155, H2O.5 MG.2: 6 residues within 4Å: Chain A: D.126, D.128 Chain B: R.316 Ligands: MG.1, PO4.5, VNP.6 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:D.126, A:D.128 MG.3: 6 residues within 4Å: Chain A: D.126, Y.153, N.154, D.155, K.158 Ligands: VNP.6 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:D.155 MG.7: 6 residues within 4Å: Chain B: D.91, D.126, D.128, D.155 Ligands: MG.8, VNP.12 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.91, B:D.126, B:D.128, B:D.155, H2O.13 MG.8: 6 residues within 4Å: Chain A: R.316 Chain B: D.126, D.128 Ligands: MG.7, PO4.11, VNP.12 2 PLIP interactions: 2 interactions with chain B Metal complexes: B:D.126, B:D.128 MG.9: 6 residues within 4Å: Chain B: D.126, Y.153, N.154, D.155, K.158 Ligands: VNP.12 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:D.155

2 x CL: CHLORIDE ION(Non-functional Binders)

CL.4: 3 residues within 4Å: Chain A: N.262, R.263, E.320 Ligand excluded by PLIP CL.10: 3 residues within 4Å: Chain B: N.262, R.263, E.320 Ligand excluded by PLIP

2 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.5: 9 residues within 4Å: Chain A: D.126, D.128, S.149, S.150, Q.151 Chain B: Y.298, R.316 Ligands: MG.2, VNP.6 6 PLIP interactions: 2 interactions with chain A, 4 interactions with chain B Hydrogen bonds: A:S.150, A:Q.151, B:Y.298 Water bridges: B:Y.298, B:R.316 Salt bridges: B:R.316 PO4.11: 9 residues within 4Å: Chain A: Y.298, R.316 Chain B: D.126, D.128, S.149, S.150, Q.151 Ligands: MG.8, VNP.12 5 PLIP interactions: 2 interactions with chain A, 3 interactions with chain B Water bridges: A:R.316 Salt bridges: A:R.316 Hydrogen bonds: B:D.126, B:D.126, B:D.126

2 x VNP: 3-[(4-AMINO-2-METHYLPYRIMIDIN-5-YL)METHYL]-5-(2-{[HYDROXY(PHOSPHONOAMINO)PHOSPHORYL]OXY}ETHYL)-4-METHYL-1,3-THIAZOL-3-I UM(Non-covalent)

VNP.6: 21 residues within 4Å: Chain A: D.126, D.128, Q.151, Y.152, Y.153, N.154, D.155, R.216 Chain B: V.24, Y.298, M.300, W.303, S.312, S.313, S.314, N.315, R.316 Ligands: MG.1, MG.2, MG.3, PO4.5 15 PLIP interactions: 6 interactions with chain A, 9 interactions with chain B Hydrogen bonds: A:Q.151, A:D.155, A:R.216, A:R.216, B:S.314, B:S.314, B:R.316, B:R.316 Water bridges: A:D.128, A:F.156, B:S.313 Hydrophobic interactions: B:V.24, B:Y.298, B:Y.298, B:W.303 VNP.12: 21 residues within 4Å: Chain A: V.24, Y.298, M.300, W.303, S.312, S.313, S.314, N.315, R.316 Chain B: D.126, D.128, Q.151, Y.152, Y.153, N.154, D.155, R.216 Ligands: MG.7, MG.8, MG.9, PO4.11 15 PLIP interactions: 9 interactions with chain A, 6 interactions with chain B Hydrophobic interactions: A:V.24, A:Y.298, A:Y.298, A:W.303 Hydrogen bonds: A:S.314, A:S.314, A:R.316, A:R.316, B:Q.151, B:D.155, B:R.216, B:R.216 Water bridges: A:S.313, B:D.91, B:F.156

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Santini, S. et al., Structural characterization of CA1462, the Candida albicans thiamine pyrophosphokinase. Bmc Struct.Biol. (2008)

Release Date

2006-04-04

Peptides

thiamine pyrophosphokinase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

thiamine pyrophosphokinase