SMTL ID : 2w41.1

Crystal structure of Plasmodium falciparum glycerol kinase with ADP

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.41 Å

Oligo State

homo-dimer

Ligands

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

ADP.1: 11 residues within 4Å: Chain A: G.273, T.274, G.319, V.322, P.334, A.337, S.338, G.419, G.420, M.421, N.424 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:G.273, A:T.274, A:T.274, A:S.338, A:G.420 Water bridges: A:G.275, A:S.323, A:S.338 ADP.12: 12 residues within 4Å: Chain B: G.273, T.274, G.319, S.320, V.322, P.334, A.337, S.338, G.419, G.420, M.421, N.424 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:G.273, B:T.274, B:S.338, B:G.420 Water bridges: B:G.275

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

EDO.2: 10 residues within 4Å: Chain A: I.315, T.317, A.318, P.354, A.355, F.356, S.357, G.358, Y.360 Chain B: F.377 Ligand excluded by PLIP EDO.3: 6 residues within 4Å: Chain A: Q.88, R.89, E.90, W.109, D.252 Ligands: EDO.7 Ligand excluded by PLIP EDO.4: 3 residues within 4Å: Chain A: D.129, K.133, K.207 Ligand excluded by PLIP EDO.5: 7 residues within 4Å: Chain A: I.68, K.72, V.78, I.79, I.80, D.240, I.244 Ligand excluded by PLIP EDO.6: 7 residues within 4Å: Chain A: V.188, L.202, I.223, K.224, S.225, K.300, D.303 Ligand excluded by PLIP EDO.7: 5 residues within 4Å: Chain A: E.90, W.109, Y.141 Ligands: EDO.3, EDO.8 Ligand excluded by PLIP EDO.8: 2 residues within 4Å: Chain A: Y.141 Ligands: EDO.7 Ligand excluded by PLIP EDO.9: 3 residues within 4Å: Chain A: Q.203, W.204, I.223 Ligand excluded by PLIP EDO.10: 2 residues within 4Å: Chain A: D.485, K.487 Ligand excluded by PLIP EDO.11: 3 residues within 4Å: Chain A: S.16, T.17, D.252 Ligand excluded by PLIP EDO.13: 3 residues within 4Å: Chain B: S.16, T.17, Q.18 Ligand excluded by PLIP EDO.14: 10 residues within 4Å: Chain A: F.377 Chain B: I.315, T.317, A.318, P.354, A.355, F.356, S.357, G.358, Y.360 Ligand excluded by PLIP EDO.15: 7 residues within 4Å: Chain B: I.68, K.72, V.78, I.79, I.80, D.240, I.244 Ligand excluded by PLIP EDO.16: 6 residues within 4Å: Chain B: Y.299, K.300, F.301, D.305, K.306, K.308 Ligand excluded by PLIP EDO.17: 4 residues within 4Å: Chain B: G.349, Y.373, A.499, R.502 Ligand excluded by PLIP EDO.18: 6 residues within 4Å: Chain B: E.90, W.109, Y.141, I.294 Ligands: EDO.19, EDO.23 Ligand excluded by PLIP EDO.19: 6 residues within 4Å: Chain B: Q.88, R.89, E.90, W.109, D.252 Ligands: EDO.18 Ligand excluded by PLIP EDO.20: 5 residues within 4Å: Chain B: D.264, E.265, G.283, E.284, K.308 Ligand excluded by PLIP EDO.21: 6 residues within 4Å: Chain B: F.394, N.397, E.398, T.493, W.496, N.497 Ligand excluded by PLIP EDO.22: 5 residues within 4Å: Chain B: L.202, Q.203, W.204, E.222, I.223 Ligand excluded by PLIP EDO.23: 3 residues within 4Å: Chain B: Y.141, S.314 Ligands: EDO.18 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Schnick, C. et al., Structure and Non-Essential Function of Glycerol Kinase in Plasmodium Falciparum Blood Stages. Mol.Microbiol. (2009)

Release Date

2008-12-02

Peptides

GLYCEROL KINASE, PUTATIVE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

GLYCEROL KINASE, PUTATIVE