3H3O Transferase date Apr 16, 2009
title Glycerol Kinase H232r With Ethylene Glycol
authors J.I.Yeh, R.D.Kettering
compound source
Molecule: Glycerol Kinase
Chain: O, X, B, C
Synonym: Atp:Glycerol 3-Phosphotransferase, Glycerokinase,
Ec: 2.7.1.30
Engineered: Yes
Mutation: Yes
Organism_scientific: Enterococcus Casseliflavus
Organism_common: Enterococcus Flavescens
Organism_taxid: 37734
Gene: Glpk
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Jm109(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Poxo4
symmetry Space Group: P 1 21 1
R_factor 0.181 R_Free 0.206
crystal
cell
length a length b length c angle alpha angle beta angle gamma
98.844 104.275 114.242 90.00 114.13 90.00
method X-Ray Diffractionresolution 2.30 Å
ligand EDO, PO4 enzyme Transferase E.C.2.7.1.30 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
O, X, C, B


Primary referenceStructural characterizations of glycerol kinase: unraveling phosphorylation-induced long-range activation., Yeh JI, Kettering R, Saxl R, Bourand A, Darbon E, Joly N, Briozzo P, Deutscher J, Biochemistry. 2009 Jan 20;48(2):346-56. PMID:19102629
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (316 Kb) [Save to disk]
  • Biological Unit Coordinates (3h3o.pdb1.gz) 158 Kb
  • Biological Unit Coordinates (3h3o.pdb2.gz) 157 Kb
  • Biological Unit Coordinates (3h3o.pdb3.gz) 311 Kb
  • LPC: Ligand-Protein Contacts for 3H3O
  • CSU: Contacts of Structural Units for 3H3O
  • Likely Quarternary Molecular Structure file(s) for 3H3O
  • Structure Factors (1069 Kb)
  • Retrieve 3H3O in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3H3O from S2C, [Save to disk]
  • Re-refined 3h3o structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3H3O in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
  • Visual 3D analysis of 3H3O
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Electron Density related parameters from EDS Electron Density Server, at Upsala
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 3H3O, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3h3o_C] [3h3o_O] [3h3o_X] [3h3o_B] [3h3o]
  • SWISS-PROT database: [O34153]
  • Domain organization of [GLPK_ENTCA] by SWISSPFAM
  • Other resources with information on 3H3O
  • Community annotation for 3H3O at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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