2Q50 Oxidoreductase date May 31, 2007
title Ensemble Refinement Of The Protein Crystal Structure Of A Glyoxylatehydroxypyruvate Reductase From Homo Sapiens
authors E.J.Levin, D.A.Kondrashov, G.E.Wesenberg, G.N.Phillips Jr., Cent Eukaryotic Structural Genomics (Cesg)
compound source
Molecule: Glyoxylate Reductasehydroxypyruvate Reductase
Chain: A, B, C, D
Ec: 1.1.1.79
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Grhpr, Glxr, Mstp035
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl834 P(Rare2)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pvp16
symmetry Space Group: P 1 21 1
R_factor 0.200 R_Free 0.286
crystal
cell
length a length b length c angle alpha angle beta angle gamma
75.996 66.436 148.774 90.00 98.59 90.00
method X-Ray Diffraction, 8 Modelsresolution 2.45 Å
ligand MSE enzyme Oxidoreductase E.C.1.1.1.79 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, D, C, B


Primary referenceEnsemble refinement of protein crystal structures: validation and application., Levin EJ, Kondrashov DA, Wesenberg GE, Phillips GN Jr, Structure. 2007 Sep;15(9):1040-52. PMID:17850744
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (1605 Kb) [Save to disk]
  • Biological Unit Coordinates (2q50.pdb1.gz) 105 Kb
  • Biological Unit Coordinates (2q50.pdb2.gz) 103 Kb
  • LPC: Ligand-Protein Contacts for 2Q50
  • CSU: Contacts of Structural Units for 2Q50
  • Likely Quarternary Molecular Structure file(s) for 2Q50
  • Structure Factors (1430 Kb)
  • Retrieve 2Q50 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2Q50 from S2C, [Save to disk]
  • View 2Q50 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 2Q50
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 2Q50, from MSDmotif at EBI
  • Fold representative 2q50 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2q50_A] [2q50_D] [2q50] [2q50_B] [2q50_C]
  • SWISS-PROT database: [Q9UBQ7]
  • Domain organization of [GRHPR_HUMAN] by SWISSPFAM
  • Alignments of the sequence of 2Q50 with the sequences similar proteins can be viewed for 2Q50's classification [GRHPR_HUMAN] at ProtoMap. Click on "Neighbors List", then on the "See Alignments" button below the list.
  • A sequence distance tree ("phylogenetic tree") can be viewed for 1ACL's classification [GRHPR_HUMAN] at ProtoMap. Click on the Cluster number.
  • Other resources with information on 2Q50
  • Community annotation for 2Q50 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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