2Z4R Dna Binding Protein date Jun 25, 2007
title Crystal Structure Of Domain III From The Thermotoga Maritima Replication Initiation Protein Dnaa
authors N.Fujikawa, S.Ozaki, W.Kagawa, S.Y.Park, T.Katayama, H.Kurumizak S.Yokoyama, Riken Structural Genomicsproteomics Initiative
compound source
Molecule: Chromosomal Replication Initiator Protein Dnaa
Chain: A, B, C
Engineered: Yes
 Organism_scientific: Thermotoga Maritima
Organism_taxid: 2336
Gene: Dnaa
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Mc1061
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pbad18
symmetry Space Group: C 1 2 1
R_factor 0.231 R_Free 0.264
crystal
cell
length a length b length c angle alpha angle beta angle gamma
133.335 221.787 55.601 90.00 106.13 90.00
method X-Ray Diffractionresolution 3.05 Å
ligand ADP, MG enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, C, B


Primary referenceA common mechanism for the ATP-DnaA-dependent formation of open complexes at the replication origin., Ozaki S, Kawakami H, Nakamura K, Fujikawa N, Kagawa W, Park SY, Yokoyama S, Kurumizaka H, Katayama T, J Biol Chem. 2008 Jan 23;. PMID:18216012
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (127 Kb) [Save to disk]
  • Biological Unit Coordinates (2z4r.pdb1.gz) 41 Kb
  • Biological Unit Coordinates (2z4r.pdb2.gz) 42 Kb
  • Biological Unit Coordinates (2z4r.pdb3.gz) 42 Kb
  • LPC: Ligand-Protein Contacts for 2Z4R
  • CSU: Contacts of Structural Units for 2Z4R
  • Likely Quarternary Molecular Structure file(s) for 2Z4R
  • Structure Factors (243 Kb)
  • Retrieve 2Z4R in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2Z4R from S2C, [Save to disk]
  • Re-refined 2z4r structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 2Z4R 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 2Z4R
  • 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 2Z4R, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2z4r_A] [2z4r_B] [2z4r] [2z4r_C]
  • SWISS-PROT database: [P46798]
  • Domain organization of [DNAA_THEMA] by SWISSPFAM
  • Domains found in 2Z4R: [AAA] [Bac_DnaA_C ] by SMART
    • Other resources with information on 2Z4R
  • Community annotation for 2Z4R 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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