2VXX Dna Binding Protein date Jul 14, 2008
title X-Ray Structure Of Dpsa From Thermosynechococcus Elongatus
authors S.Franceschini, A.Ilari
compound source
Molecule: Starvation Induced Dna Binding Protein
Chain: A, B, C, D
Engineered: Yes
Other_details: His-Tag At C-Terminal
Organism_scientific: Synechococcus Elongatus
Organism_taxid: 32046
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_plasmid: Pet22b
symmetry Space Group: I 2 3
R_factor 0.165 R_Free 0.216
crystal
cell
length a length b length c angle alpha angle beta angle gamma
174.504 174.504 174.504 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.40 Å
ligand FE, PEG, PG4, ZN enzyme
note 2VXX is a representative structure
Gene
Ontology
ChainFunctionProcessComponent
A, D, C, B


Primary referenceThermosynechococcus elongatus DpsA binds Zn(II) at a unique three histidine-containing ferroxidase center and utilizes O2 as iron oxidant with very high efficiency, unlike the typical Dps proteins., Alaleona F, Franceschini S, Ceci P, Ilari A, Chiancone E, FEBS J. 2010 Feb;277(4):903-17. Epub 2010 Jan 20. PMID:20088882
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (125 Kb) [Save to disk]
  • Biological Unit Coordinates (2vxx.pdb1.gz) 348 Kb
  • LPC: Ligand-Protein Contacts for 2VXX
  • CSU: Contacts of Structural Units for 2VXX
  • Structure Factors (572 Kb)
  • Retrieve 2VXX in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2VXX from S2C, [Save to disk]
  • Re-refined 2vxx structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2VXX 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 2VXX
  • 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 2VXX, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2vxx_A] [2vxx_B] [2vxx_D] [2vxx_C] [2vxx]
  • SWISS-PROT database: [Q8DL82]
  • Domain organization of [Q8DL82_THEEB] by SWISSPFAM
  • Other resources with information on 2VXX
  • Community annotation for 2VXX 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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