2Q2K

Structure of nucleic-acid binding protein


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.00 Å
  • R-Value Free: 0.297 
  • R-Value Work: 0.258 
  • R-Value Observed: 0.258 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Segrosome structure revealed by a complex of ParR with centromere DNA.

Schumacher, M.A.Glover, T.C.Brzoska, A.J.Jensen, S.O.Dunham, T.D.Skurray, R.A.Firth, N.

(2007) Nature 450: 1268-1271

  • DOI: 10.1038/nature06392
  • Primary Citation of Related Structures:  
    2Q2K

  • PubMed Abstract: 
  • The stable inheritance of genetic material depends on accurate DNA partition. Plasmids serve as tractable model systems to study DNA segregation because they require only a DNA centromere, a centromere-binding protein and a force-generating ATPase. The centromeres of partition (par) systems typically consist of a tandem arrangement of direct repeats ...

    The stable inheritance of genetic material depends on accurate DNA partition. Plasmids serve as tractable model systems to study DNA segregation because they require only a DNA centromere, a centromere-binding protein and a force-generating ATPase. The centromeres of partition (par) systems typically consist of a tandem arrangement of direct repeats. The best-characterized par system contains a centromere-binding protein called ParR and an ATPase called ParM. In the first step of segregation, multiple ParR proteins interact with the centromere repeats to form a large nucleoprotein complex of unknown structure called the segrosome, which binds ParM filaments. pSK41 ParR binds a centromere consisting of multiple 20-base-pair (bp) tandem repeats to mediate both transcription autoregulation and segregation. Here we report the structure of the pSK41 segrosome revealed in the crystal structure of a ParR-DNA complex. In the crystals, the 20-mer tandem repeats stack pseudo-continuously to generate the full-length centromere with the ribbon-helix-helix (RHH) fold of ParR binding successive DNA repeats as dimer-of-dimers. Remarkably, the dimer-of-dimers assemble in a continuous protein super-helical array, wrapping the DNA about its positive convex surface to form a large segrosome with an open, solenoid-shaped structure, suggesting a mechanism for ParM capture and subsequent plasmid segregation.


    Organizational Affiliation

    Department of Biochemistry and Molecular Biology, University of Texas, M.D. Anderson Cancer Center, Unit 1000, Houston, TX 77030, USA. maschuma@mdanderson.org



Macromolecules

Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
Hypothetical proteinB [auth A], C [auth B]70Staphylococcus aureusMutation(s): 0 
Gene Names: 
parRBN1321_460003ERS072840_02901FA040_14495GO677_08105HUNSC491_pPR9_p21RK64_13990SAMEA1469884_02755SAMEA1965205_02869SAMEA1966505_02838SAMEA1969349_02857SAMEA2076463_02962SAMEA2076464_02949SAMEA2076470_02950SAMEA2076472_02832SAMEA2076478_02920SAMEA2076481_02931SAMEA2076743_02934SAMEA2076745_02954SAMEA2076746_02859SAMEA2076747_02845SAMEA2076749_02866SAMEA2076751_02903SAMEA2076752_02877SAMEA2076755_02939SAMEA2076756_02835SAMEA2076758_02870SAMEA2076759_02878SAMEA2076761_02799SAMEA2076764_02958SAMEA2076765_02836SAMEA2077023_02856SAMEA2077025_02851SAMEA2077027_02824SAMEA2077029_02934SAMEA2077031_02931SAMEA2077035_02783SAMEA2077039_02851SAMEA2077040_02883SAMEA2077041_02871SAMEA2077044_02856SAMEA2077045_02869SAMEA2077046_02860SAMEA2077293_02929SAMEA2077294_02932SAMEA2077295_02929SAMEA2077297_02859SAMEA2077300_02845SAMEA2077301_02830SAMEA2077302_02849SAMEA2077303_02848SAMEA2077307_02847SAMEA2077832_02851SAMEA2078252_02928SAMEA2078256_02853SAMEA2078307_02846SAMEA2078308_02956SAMEA2078553_02915SAMEA2078558_02859SAMEA2078560_02840SAMEA2078569_02963SAMEA2078570_02812SAMEA2078824_02851SAMEA2078837_02858SAMEA2079048_02888SAMEA2079051_02832SAMEA2079503_02874SAMEA2080812_02875SAMEA2080898_02928SAMEA2080900_02828SAMEA2080904_02856SAMEA2080913_02939SAMEA2081043_02856SAMEA2081468_02934SAMEA2081474_02863SAMEA2081475_02838SAMEA2081476_02857SAMEA2081479_02828SAMEA2081480_02940SAMEA2081560_02877SAMEA2081561_02859SAMEA2081564_02810SAMEA2081567_02888SAMEA2081568_02878SAMEA2081569_02872SAMEA2081570_02835SAMEA2081571_02849SAMEA2081572_02845SAMEA2081573_02937SAMEA2081575_02943SAMEA2081577_02827SAMEA2081578_02922SAMEA2081579_02921SAMEA2081581_02925SAMEA2081582_02859SAMEA958838_02731SAMEA958848_02858SAMEA958870_01601SAMEA958906_02790SAP014A_022SAP015H_003SAP068A_003SAP069A_029SAP079A_024SAP080A_042SAP082A_021VRA0061

Find proteins for O87365 (Staphylococcus aureus)
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Protein Feature View
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  • Reference Sequence
  • Find similar nucleic acids by:  Sequence   |   Structure
  • Entity ID: 1
    MoleculeChainsLengthOrganismImage
    DNA (5'-D(*AP*GP*TP*AP*TP*AP*(5IU)P*AP*CP*(5IU)P*AP*GP*TP*AP*TP*AP*TP*AP*CP*T)-3')A [auth F]20N/A
    Small Molecules
    Ligands 1 Unique
    IDChainsName / Formula / InChI Key2D Diagram3D Interactions
    EPE
    Query on EPE

    Download Ideal Coordinates CCD File 
    D [auth A]4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID
    C8 H18 N2 O4 S
    JKMHFZQWWAIEOD-UHFFFAOYSA-N
     Ligand Interaction
    Experimental Data & Validation

    Experimental Data

    • Method: X-RAY DIFFRACTION
    • Resolution: 3.00 Å
    • R-Value Free: 0.297 
    • R-Value Work: 0.258 
    • R-Value Observed: 0.258 
    • Space Group: P 65 2 2
    Unit Cell:
    Length ( Å )Angle ( ˚ )
    a = 56.3α = 90
    b = 56.3β = 90
    c = 232.5γ = 120
    Software Package:
    Software NamePurpose
    CNSrefinement
    ADSCdata collection
    MOSFLMdata reduction
    SCALAdata scaling
    SOLVEphasing

    Structure Validation

    View Full Validation Report



    Entry History 

    Deposition Data

    Revision History  (Full details and data files)

    • Version 1.0: 2008-02-05
      Type: Initial release
    • Version 1.1: 2011-07-13
      Changes: Version format compliance