2PKQ Oxidoreductase date Apr 18, 2007
title Crystal Structure Of The Photosynthetic A2b2-Glyceraldehyde- Phosphate Dehydrogenase, Complexed With Nadp
authors S.Fermani, G.Falini, A.Ripamonti
compound source
Molecule: Glyceraldehyde-3-Phosphate Dehydrogenase B
Chain: O, Q, T
Synonym: Nadp-Dependent Glyceraldehydephosphate Dehydrogena B;
Ec: 1.2.1.13
Organism_scientific: Spinacia Oleracea
Organism_common: Spinach
Organism_taxid: 3562
Other_details: Chloroplasts (Leaves)

Molecule: Glyceraldehyde-3-Phosphate Dehydrogenase A
Chain: P, R, S
Synonym: Nadp-Dependent Glyceraldehydephosphate Dehydrogena A;
Ec: 1.2.1.13

Organism_scientific: Spinacia Oleracea
Organism_common: Spinach
Organism_taxid: 3562
Other_details: Chloroplasts (Leaves)
symmetry Space Group: C 1 2 1
R_factor 0.261 R_Free 0.292
crystal
cell
length a length b length c angle alpha angle beta angle gamma
186.147 215.687 81.469 90.00 102.52 90.00
method X-Ray Diffractionresolution 3.60 Å
ligand NDP, SO4 enzyme Oxidoreductase E.C.1.2.1.13 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
S, Q, O, T, R, P


Primary referenceMolecular mechanism of thioredoxin regulation in photosynthetic A2B2-glyceraldehyde-3-phosphate dehydrogenase., Fermani S, Sparla F, Falini G, Martelli PL, Casadio R, Pupillo P, Ripamonti A, Trost P, Proc Natl Acad Sci U S A. 2007 Jun 26;104(26):11109-14. Epub 2007 Jun 15. PMID:17573533
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (321 Kb) [Save to disk]
  • Biological Unit Coordinates (2pkq.pdb1.gz) 210 Kb
  • Biological Unit Coordinates (2pkq.pdb2.gz) 211 Kb
  • LPC: Ligand-Protein Contacts for 2PKQ
  • CSU: Contacts of Structural Units for 2PKQ
  • Likely Quarternary Molecular Structure file(s) for 2PKQ
  • Structure Factors (451 Kb)
  • Retrieve 2PKQ in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2PKQ from S2C, [Save to disk]
  • Re-refined 2pkq structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2PKQ 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 2PKQ
  • 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 2PKQ, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2pkq_T] [2pkq] [2pkq_P] [2pkq_S] [2pkq_R] [2pkq_O] [2pkq_Q]
  • SWISS-PROT database: [P19866] [P12860]
  • Domain organization of [G3PA_SPIOL] [G3PB_SPIOL] by SWISSPFAM
  • Domain found in 2PKQ: [Gp_dh_N ] by SMART
  • Other resources with information on 2PKQ
  • Community annotation for 2PKQ 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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