2DWN Hydrolase Dna date Aug 15, 2006
title Crystal Structure Of The Pria Protein Complexed With Oligonu
authors K.Sasaki, T.Ose, T.Tanaka, H.Masai, K.Maenaka, D.Kohda
compound source
Molecule: Primosomal Protein N'
Chain: A, B, C, D
Fragment: Residues 1-105
Synonym: Atp-Dependent Helicase Pria,Replication Factor Y
Ec: 3.6.4.-
Engineered: Yes
Organism_scientific: Escherichia Coli (Strain K12)
Organism_taxid: 83333
Strain: K12
Gene: Pria, B3935, Jw3906
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet15b

Molecule: Dna (5'-D(Ag)-3')
Chain: E, F
Engineered: Yes

Synthetic: Yes
Organism_scientific: Synthetic Construct
Organism_taxid: 32630
symmetry Space Group: H 3 2
R_factor 0.281 R_Free 0.333
crystal
cell
length a length b length c angle alpha angle beta angle gamma
112.250 112.250 260.830 90.00 90.00 120.00
method X-Ray Diffractionresolution 3.35 Å
ligand DGP enzyme Hydrolase E.C.3.6.4 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, D, C, B


Primary referenceStructural basis of the 3'-end recognition of a leading strand in stalled replication forks by PriA., Sasaki K, Ose T, Okamoto N, Maenaka K, Tanaka T, Masai H, Saito M, Shirai T, Kohda D, EMBO J. 2007 May 16;26(10):2584-93. doi: 10.1038/sj.emboj.7601697. Epub 2007 Apr , 26. PMID:17464287
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (67 Kb) [Save to disk]
  • Biological Unit Coordinates (2dwn.pdb1.gz) 32 Kb
  • Biological Unit Coordinates (2dwn.pdb2.gz) 32 Kb
  • Biological Unit Coordinates (2dwn.pdb3.gz) 63 Kb
  • Biological Unit Coordinates (2dwn.pdb4.gz) 62 Kb
  • LPC: Ligand-Protein Contacts for 2DWN
  • CSU: Contacts of Structural Units for 2DWN
  • Likely Quarternary Molecular Structure file(s) for 2DWN
  • Structure Factors (81 Kb)
  • Retrieve 2DWN in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2DWN from S2C, [Save to disk]
  • Re-refined 2dwn structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2DWN 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 2DWN
  • 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 2DWN, from MSDmotif at EBI
  • Fold representative 2dwn from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2dwn_A] [2dwn_E] [2dwn_B] [2dwn] [2dwn_D] [2dwn_C] [2dwn_F]
  • SWISS-PROT database: [P17888]
  • Domain organization of [PRIA_ECOLI] by SWISSPFAM
  • Other resources with information on 2DWN
  • Community annotation for 2DWN 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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