2VYF Hydrolase date Jul 23, 2008
title Crystal Structure Of The Dnac
authors Y.H.Lo, K.L.Tsai, Y.J.Sun, C.D.Hsiao
compound source
Molecule: Replicative Dna Helicase
Chain: A, B
Synonym: Dnac
Ec: 3.6.1.-
Engineered: Yes
Organism_scientific: Geobacillus Kaustophilus Hta426
Organism_taxid: 235909
Expression_system: Escherichia Coli
Expression_system_taxid: 511693
Expression_system_strain: Bl21
Expression_system_vector: Pet21b
symmetry Space Group: P 63
R_factor 0.293 R_Free 0.324
crystal
cell
length a length b length c angle alpha angle beta angle gamma
176.968 176.968 108.824 90.00 90.00 120.00
method X-Ray Diffractionresolution 3.60 Å
ligand AU enzyme Hydrolase E.C.3.6.1 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, B
  • DNA helicase activity


  • Primary referenceThe crystal structure of a replicative hexameric helicase DnaC and its complex with single-stranded DNA., Lo YH, Tsai KL, Sun YJ, Chen WT, Huang CY, Hsiao CD, Nucleic Acids Res. 2008 Dec 15. PMID:19074952
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (116 Kb) [Save to disk]
  • Biological Unit Coordinates (2vyf.pdb1.gz) 325 Kb
  • LPC: Ligand-Protein Contacts for 2VYF
  • CSU: Contacts of Structural Units for 2VYF
  • Likely Quarternary Molecular Structure file(s) for 2VYF
  • Structure Factors (276 Kb)
  • Retrieve 2VYF in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2VYF from S2C, [Save to disk]
  • Re-refined 2vyf structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2VYF 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 2VYF
  • 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 2VYF, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2vyf_B] [2vyf] [2vyf_A]
  • SWISS-PROT database: [Q5KU75]
  • Domain organization of [Q5KU75_GEOKA] by SWISSPFAM
  • Domain found in 2VYF: [AAA ] by SMART
  • Other resources with information on 2VYF
  • Community annotation for 2VYF 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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