2PYG Isomerase date May 16, 2007
title Azotobacter Vinelandii Mannuronan C-5 Epimerase Alge4 A-Modu
authors H.J.Rozeboom, T.M.Bjerkan, K.H.Kalk, H.Ertesvag, S.Holtan, F.L.Aa S.Valla, B.W.Dijkstra
compound source
Molecule: Poly(Beta-D-Mannuronate) C5 Epimerase 4
Chain: A, B
Fragment: A-Module
Synonym: Mannuronan Epimerase 4
Ec: 5.1.3.-
Engineered: Yes
 Organism_scientific: Azotobacter Vinelandii
Gene: Alge4
Expression_system: Escherichia Coli
Expression_system_strain: Er2566
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Ptb26 Derivative Of Ptyb5 (Neb)
symmetry Space Group: P 21 21 2
R_factor 0.194 R_Free 0.235
crystal
cell
length a length b length c angle alpha angle beta angle gamma
173.953 121.346 44.715 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.10 Å
ligand CA, GOL enzyme Isomerase E.C.5.1.3 BRENDA
Primary referenceStructural and mutational characterization of the catalytic A-module of the mannuronan C-5-epimerase algE4 from Azotobacter vinelandii., Rozeboom HJ, Bjerkan TM, Kalk KH, Ertesvag H, Holtan S, Aachmann FL, Valla S, Dijkstra BW, J Biol Chem. 2008 Jun 23;. PMID:18574239
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (124 Kb) [Save to disk]
  • Biological Unit Coordinates (2pyg.pdb1.gz) 61 Kb
  • Biological Unit Coordinates (2pyg.pdb2.gz) 63 Kb
  • LPC: Ligand-Protein Contacts for 2PYG
  • CSU: Contacts of Structural Units for 2PYG
  • Likely Quarternary Molecular Structure file(s) for 2PYG
  • Structure Factors (479 Kb)
  • Retrieve 2PYG in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2PYG from S2C, [Save to disk]
  • Re-refined 2pyg structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 2PYG 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 2PYG
  • 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 2PYG, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2pyg] [2pyg_A] [2pyg_B]
  • SWISS-PROT database: [Q44493]
  • Domain organization of [ALGE4_AZOVI] by SWISSPFAM
  • Domains found in 2PYG: [CASH] [PbH1 ] by SMART
    • Other resources with information on 2PYG
  • Community annotation for 2PYG 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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