2ZGV Transferase date Jan 26, 2008
title Crystal Structure Of Human Phosphoglycerate Kinase Bound To D-Adp
authors S.T.Arold, C.Gondeau, C.Lionne, L.Chaloin
compound source
Molecule: Phosphoglycerate Kinase 1
Chain: A
Synonym: 3-Phosphoglycerate Kinase, Primer Recognition Protein 2, Prp 2, Cell Migration-Inducing Gene 10 Protein;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Gene: Pgk1
Expression_system: Escherichia Coli
Expression_system_strain: Bl21 (De3)Pdia17
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet28a
symmetry Space Group: P 1 21 1
R_factor 0.176 R_Free 0.258
length a length b length c angle alpha angle beta angle gamma
35.956 106.627 50.350 90.00 97.30 90.00
method X-Ray Diffractionresolution 2.00 Å
ligand ADP enzyme Transferase E.C. BRENDA

Primary referenceMolecular basis for the lack of enantioselectivity of human 3-phosphoglycerate kinase., Gondeau C, Chaloin L, Lallemand P, Roy B, Perigaud C, Barman T, Varga A, Vas M, Lionne C, Arold ST, Nucleic Acids Res. 2008 Jun;36(11):3620-9. Epub 2008 May 7. PMID:18463139
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (70 Kb) [Save to disk]
  • Biological Unit Coordinates (2zgv.pdb1.gz) 66 Kb
  • LPC: Ligand-Protein Contacts for 2ZGV
  • CSU: Contacts of Structural Units for 2ZGV
  • Likely Quarternary Molecular Structure file(s) for 2ZGV
  • Structure Factors (166 Kb)
  • Retrieve 2ZGV in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2ZGV from S2C, [Save to disk]
  • Re-refined 2zgv structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2ZGV 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 2ZGV
  • Cartoon representation from PDB Cartoon
  • 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
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 2ZGV, from MSDmotif at EBI
  • Fold representative 2zgv from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2zgv_A] [2zgv]
  • SWISS-PROT database: [P00558]
  • Domain organization of [PGK1_HUMAN] by SWISSPFAM
  • Other resources with information on 2ZGV
  • Community annotation for 2ZGV 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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