2WZD Transferase date Nov 27, 2009
title The Catalytically Active Fully Closed Conformation Of Human Phosphoglycerate Kinase K219a Mutant In Complex With Adp, 3pg And Aluminium Trifluoride
authors M.W.Bowler, M.J.Cliff, J.P.M.Marston, N.J.Baxter, A.M.H.Hownslow A.V.Varga, J.Szabo, M.Vas, G.M.Blackburn, J.P.Waltho
compound source
Molecule: Phosphoglycerate Kinase 1
Chain: A
Fragment: Residues 2-417
Synonym: Primer Recognition Protein 2, Prp 2, Cell Migration-Inducing Gene 10 Protein;
Ec: 2.7.2.3
Engineered: Yes
Mutation: Yes
Other_details: Complexed With Adp, 3pg And Aluminium Triflu
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 511693
Expression_system_strain: Bl21
symmetry Space Group: P 21 21 21
R_factor 0.16634 R_Free 0.20181
crystal
cell
length a length b length c angle alpha angle beta angle gamma
39.380 91.590 108.480 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.56 Å
ligand 3PG, ADP, AF3, CL, MG enzyme Transferase E.C.2.7.2.3 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceTransition State Analogue Structures of Human Phosphoglycerate Kinase Establish the Importance of Charge Balance in Catalysis., Cliff MJ, Bowler MW, Varga A, Marston JP, Szabo J, Hounslow AM, Baxter NJ, Blackburn GM, Vas M, Waltho JP, J Am Chem Soc. 2010 Apr 19. PMID:20397725
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (78 Kb) [Save to disk]
  • Biological Unit Coordinates (2wzd.pdb1.gz) 72 Kb
  • LPC: Ligand-Protein Contacts for 2WZD
  • CSU: Contacts of Structural Units for 2WZD
  • Structure Factors (2587 Kb)
  • Retrieve 2WZD in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2WZD from S2C, [Save to disk]
  • Re-refined 2wzd structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2WZD 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 2WZD
  • 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 2WZD, from MSDmotif at EBI
  • Fold representative 2wzd from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2wzd_A] [2wzd]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Alignments of the sequence of 2WZD with the sequences similar proteins can be viewed for 2WZD'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 2WZD
  • Community annotation for 2WZD 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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