1IXR Hydrolase date Jul 04, 2002
title Ruva-Ruvb Complex
authors K.Yamada, T.Miyata, D.Tsuchiya, T.Oyama, Y.Fujiwara, T.Ohnishi, H.Iwasaki, H.Shinagawa, M.Ariyoshi, K.Mayanagi, K.Morikawa
compound source
Molecule: Holliday Junction Dna Helicase Ruva
Chain: A, B
Engineered: Yes
Organism_scientific: Thermus Thermophilus
Organism_taxid: 274
Gene: Ruva
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Ptra127

Molecule: Ruvb
Chain: C
Fragment: Residues 1-312
Ec: 3.6.1.3
Engineered: Yes
Mutation: Yes

Organism_scientific: Thermus Thermophilus
Organism_taxid: 274
Gene: Ruvb
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet11a
symmetry Space Group: I 2 2 2
R_factor 0.268 R_Free 0.335
crystal
cell
length a length b length c angle alpha angle beta angle gamma
61.581 195.113 246.244 90.00 90.00 90.00
method X-Ray Diffractionresolution 3.30 Å
ligand ANP enzyme Hydrolase E.C.3.6.1.3 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, B
  • DNA helicase activity
  • four-way junction helicase a...


  • C
  • DNA helicase activity
  • four-way junction helicase a...


  • Primary referenceCrystal structure of the RuvA-RuvB complex: a structural basis for the Holliday junction migrating motor machinery., Yamada K, Miyata T, Tsuchiya D, Oyama T, Fujiwara Y, Ohnishi T, Iwasaki H, Shinagawa H, Ariyoshi M, Mayanagi K, Morikawa K, Mol Cell 2002 Sep;10(3):671-81. PMID:12408833
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (98 Kb) [Save to disk]
  • Biological Unit Coordinates (1ixr.pdb1.gz) 361 Kb
  • LPC: Ligand-Protein Contacts for 1IXR
  • CSU: Contacts of Structural Units for 1IXR
  • Likely Quarternary Molecular Structure file(s) for 1IXR
  • Structure Factors (210 Kb)
  • Retrieve 1IXR in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1IXR from S2C, [Save to disk]
  • Re-refined 1ixr structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1IXR 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 1IXR
  • 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 1IXR, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1ixra2, region A:1-62 [Jmol] [rasmolscript] [script source]
        - Domain d1ixra1, region A:63-135 [Jmol] [rasmolscript] [script source]
        - Domain d1ixrb3, region B:1-62 [Jmol] [rasmolscript] [script source]
        - Domain d1ixrb1, region B:139-191 [Jmol] [rasmolscript] [script source]
        - Domain d1ixrb2, region B:63-138 [Jmol] [rasmolscript] [script source]
        - Domain d1ixrc1, region C:243-312 [Jmol] [rasmolscript] [script source]
        - Domain d1ixrc2, region C:5-242 [Jmol] [rasmolscript] [script source]
  • Fold representative 1ixr from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1ixr] [1ixr_B] [1ixr_C] [1ixr_A]
  • SWISS-PROT database: [Q9F1Q3] [Q5SL87]
  • Domain organization of [RUVA_THET8] [RUVB_THET8] by SWISSPFAM
  • Domains found in 1IXR: [AAA] [HhH1 ] by SMART
  • Other resources with information on 1IXR
  • Community annotation for 1IXR 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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