1C7Y Recombination Dna date Apr 03, 2000
title E.Coli Ruva-Holliday Junction Complex
authors M.Ariyoshi, T.Nishino, H.Iwasaki, H.Shinagawa, K.Morikawa
compound source
Molecule: Holliday Junction Dna Helicase Ruva
Chain: A
Engineered: Yes
Organism_scientific: Escherichia Coli
Organism_taxid: 562
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet

Molecule: Dna (5'- D(Pdapdapdgpdtpdtpdgpdgpdgpdapdtpdtpdgpdt)- 3');
Chain: B
Engineered: Yes

Synthetic: Yes

Molecule: Dna (5'- D(Pdcpdtpdgpdtpdgpdtpdgpdtpdapdapdgpdc)-3');
Chain: C
Engineered: Yes

Synthetic: Yes

Molecule: Dna (5'- D(Pdgpdcpdtpdtpdapdcpdapdcpdapdcpdapdgpda)- 3');
Chain: D
Engineered: Yes

Synthetic: Yes

Molecule: Dna (5'- D(Pdgpdgpdtpdtpdapdgpdgpdgpdtpdgpdapda)-3');
Chain: E
Engineered: Yes

Synthetic: Yes

Molecule: Dna (5'- D(Pdtpdtpdcpdapdcpdcpdcpdtpdapdapdcpdcpda)- 3');
Chain: F
Engineered: Yes

Synthetic: Yes

Molecule: Dna (5'- D(Pdgpdapdcpdapdcpdapdcpdapdtpdtpdcpdg)-3');
Chain: G
Engineered: Yes

Synthetic: Yes

Molecule: Dna (5'- D(Pdcpdgpdapdapdtpdgpdtpdgpdtpdgpdtpdcpdt)- 3');
Chain: H
Engineered: Yes

Synthetic: Yes

Molecule: Dna (5'- D(Pdcpdapdapdtpdcpdcpdcpdapdapdcpdtpdt)-3');
Chain: I
Engineered: Yes

Synthetic: Yes
symmetry Space Group: I 4 3 2
R_factor 0.249 R_Free 0.279
crystal
cell
length a length b length c angle alpha angle beta angle gamma
158.650 158.650 158.650 90.00 90.00 90.00
method X-Ray Diffractionresolution 3.10 Å
Gene
Ontology
ChainFunctionProcessComponent
A
  • DNA helicase activity
  • four-way junction helicase a...


  • Primary referenceCrystal structure of the holliday junction DNA in complex with a single RuvA tetramer., Ariyoshi M, Nishino T, Iwasaki H, Shinagawa H, Morikawa K, Proc Natl Acad Sci U S A 2000 Jul 18;97(15):8257-62. PMID:10890893
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (70 Kb) [Save to disk]
  • Biological Unit Coordinates (1c7y.pdb1.gz) 258 Kb
  • CSU: Contacts of Structural Units for 1C7Y
  • Likely Quarternary Molecular Structure file(s) for 1C7Y
  • Structure Factors (62 Kb)
  • Retrieve 1C7Y in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1C7Y from S2C, [Save to disk]
  • Re-refined 1c7y structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1C7Y 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 1C7Y
  • 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 1C7Y, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1c7ya3, region A:1-64 [Jmol] [rasmolscript] [script source]
        - Domain d1c7ya1, region A:155-203 [Jmol] [rasmolscript] [script source]
        - Domain d1c7ya2, region A:65-150 [Jmol] [rasmolscript] [script source]
  • Fold representative 1c7y from FSSP and Dali (Families of Structurally Similar Proteins)
  • Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH
  • Summaries and structural analyses of PDB data files from PDBSum
  • Identification of Protein Pockets & Cavities at CASTp
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1c7y] [1c7y_G] [1c7y_D] [1c7y_B] [1c7y_F] [1c7y_I] [1c7y_E] [1c7y_H] [1c7y_A] [1c7y_C]
  • SWISS-PROT database: [P0A809]
  • Domain organization of [RUVA_ECOLI] by SWISSPFAM
  • Domain found in 1C7Y: [HhH1 ] by SMART
  • Other resources with information on 1C7Y
  • Community annotation for 1C7Y 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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