2XE6 Transferase date May 11, 2010
title The Complete Reaction Cycle Of Human Phosphoglycerate Kinase: The Open Binary Complex With 3pg
authors M.J.Cliff, N.J.Baxter, G.M.Blackburn, A.Merli, M.Vas, J.P.Waltho, M.W.Bowler
compound source
Molecule: Phosphoglycerate Kinase 1
Chain: A
Synonym: Primer Recognition Protein 2, Prp 2, Cell Migration-Inducing Gene 10 Protein;
Ec: 2.7.2.3
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 511693
Expression_system_strain: Bl21
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet22a
symmetry Space Group: P 21 21 2
R_factor 0.20571 R_Free 0.25250
crystal
cell
length a length b length c angle alpha angle beta angle gamma
61.570 73.010 93.640 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.74 Å
ligand 3PG enzyme Transferase E.C.2.7.2.3 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceA Spring-loaded Release Mechanism Regulates Domain Movement and Catalysis in Phosphoglycerate Kinase., Zerrad L, Merli A, Schroder GF, Varga A, Graczer E, Pernot P, Round A, Vas M, Bowler MW, J Biol Chem. 2011 Apr 22;286(16):14040-8. Epub 2011 Feb 24. PMID:21349853
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (139 Kb) [Save to disk]
  • Biological Unit Coordinates (2xe6.pdb1.gz) 134 Kb
  • LPC: Ligand-Protein Contacts for 2XE6
  • CSU: Contacts of Structural Units for 2XE6
  • Structure Factors (2321 Kb)
  • Retrieve 2XE6 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2XE6 from S2C, [Save to disk]
  • Re-refined 2xe6 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2XE6 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 2XE6
  • 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 2XE6, from MSDmotif at EBI
  • Fold representative 2xe6 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2xe6_A] [2xe6]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Alignments of the sequence of 2XE6 with the sequences similar proteins can be viewed for 2XE6's classification 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 at ProtoMap. Click on the Cluster number.
  • Other resources with information on 2XE6
  • Community annotation for 2XE6 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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