To see full content of that page you need the activeISee plugin.
Get the latest version from here.

Structure of IDP00743

2.7 Angstrom Crystal Structure of Glycerol Kinase (glpK) from Staphylococcus aureus in Complex with ADP and Glycerol

Edit deposit information
CSGID target
IDP00743 
PDB Id
3GE1 (NCBI MMDB
Authors
G.Minasov,J.Brunzelle,T.Skarina,O.Onopriyenko,S.N.Peterson,A.Savchenko,W.F.Anderson,Center For Structural Genomics Of Infectious Diseases (Csgid) 
Responsible person
George Minasov 
Responsible lab
Northwestern University 
Deposition Date
Feb 24, 2009 
Release Date
Mar 24, 2009 

Annotation

Description
Glycerol kinase (GlpK) is a phosphotransferase that is involved in lipolyses, the breakdown of fat stored in fat cells and release of free fatty acids into the bloodstream. GlpK catalyzes the transfer of a phosphate from ATP to glycerol in the presence of Mg2+, thus forming glycerol 3-phosphate and ADP. GlpK has three allosteric effectors with indipendent mechanism: fructose 1,6-bisphosphate (FBP); the phosphocarrier protein IIAGlc; and adenosinemonophosphate (AMP). The product of the reaction, glycerol 3-phospate, may then be converted to dihydroxyacetone phosphate (DHAP) by the enzyme glycerol-3-phosphate dehydrogenase. DHAP can then be rearranged into glyceraldehyde 3-phosphate(GA3P) by triose phosphate isomerase(TIM), and feed into glycolysis. Another important role of the glycerol 3-phosphate is involvement in the glycerol-3-phosphate shuttle, a mechanism used to rapidly regenerate NAD+ in brain and skeletal muscle cells of mammals. The glycerol is a central component of many lipids most well-known as triglycerides, and glycerophospholipids, or phospholipids, are a major component of all cell membranes. 
Functional assignment
Glycerol Kinase 

Ligands

Ligand code Name Ligand type
GOL biological
PO4 crystallization
CL crystallization
MSE modified residue
175 3,5-dihydro-5-methylidene-4h-imidazol-4-on

Structure information

Unit cell parameters

Space Group
P 1 21 1  
Unit Cell

a=63.41Å, b=193.65Å, c=91.84Å
α=90.00, β=106.01, γ=90.00 
Solvent content
48.74  
Matthews coefficient
2.4  

Refinement

Data for the highest resolution shell is in parentheses.
Resolution range
30.00-2.70Å (2.77-2.70Å)  
Rall(%)
19.4 
Rwork(%)
19.1 (32.1) 
Rfree(%)
25.3 (38.6) 
Num. observed reflections
56310 (3386) 
Num. Rfree reflections
2871 (193) 
Completeness(%)
96.8 (79.0) 

Model parameters

Num Atoms
15334  
Num Waters
274  
Num Hetatoms
795  
Model mean isotropic B factor
32.810Å2  
RMSD bond length
0.007Å  
RMSD bond angle
1.011°  
Filename uploaded
rcsb051743.pdb (uploaded on Mar 18, 2009 5:21 PM)  
Inserted
Mar 27, 2009