4E1J

Crystal structure of glycerol kinase in complex with glycerol from Sinorhizobium meliloti 1021


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.33 Å
  • R-Value Free: 0.290 
  • R-Value Work: 0.230 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Crystal structure of glycerol kinase in complex with glycerol from Sinorhizobium meliloti 1021

Agarwal, R.Almo, S.C.Swaminathan, S.

To be published.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Glycerol kinase
A, B, C, D
520Rhizobium meliloti (strain 1021)Mutation(s): 0 
Gene Names: glpK
EC: 2.7.1.30
Find proteins for O86033 (Rhizobium meliloti (strain 1021))
Go to UniProtKB:  O86033
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
NA
Query on NA

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Download CCD File 
A, C
SODIUM ION
Na
FKNQFGJONOIPTF-UHFFFAOYSA-N
 Ligand Interaction
CL
Query on CL

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Download CCD File 
C
CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
 Ligand Interaction
GOL
Query on GOL

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Download CCD File 
A, B, C
GLYCEROL
GLYCERIN; PROPANE-1,2,3-TRIOL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
 Ligand Interaction
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
MSE
Query on MSE
A, B, C, D
L-PEPTIDE LINKINGC5 H11 N O2 SeMET
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.33 Å
  • R-Value Free: 0.290 
  • R-Value Work: 0.230 
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 93.220α = 90.00
b = 101.975β = 90.03
c = 107.548γ = 90.00
Software Package:
Software NamePurpose
PHENIXmodel building
CBASSdata collection
AutoSolphasing
REFMACrefinement
CCP4model building
PHENIXphasing
Cootmodel building
HKL-2000data scaling
CCP4phasing
HKL-2000data reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Revision History 

  • Version 1.0: 2012-03-21
    Type: Initial release
  • Version 1.1: 2017-11-15
    Type: Refinement description