4E10

Protelomerase tela Y201A covalently complexed with substrate DNA


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.51 Å
  • R-Value Free: 0.270 
  • R-Value Work: 0.183 
  • R-Value Observed: 0.188 

wwPDB Validation 3D Report Full Report



Literature

An enzyme-catalyzed multistep DNA refolding mechanism in hairpin telomere formation.

Shi, K.Huang, W.M.Aihara, H.

(2013) PLoS Biol 11: e1001472-e1001472

  • DOI: 10.1371/journal.pbio.1001472
  • Primary Citation of Related Structures:  
    4E0Y, 4E0Z, 4E10, 4E0P, 4E0G, 4E0J, 4DWP

  • PubMed Abstract: 
  • Hairpin telomeres of bacterial linear chromosomes are generated by a DNA cutting-rejoining enzyme protelomerase. Protelomerase resolves a concatenated dimer of chromosomes as the last step of chromosome replication, converting a palindromic DNA seque ...

    Hairpin telomeres of bacterial linear chromosomes are generated by a DNA cutting-rejoining enzyme protelomerase. Protelomerase resolves a concatenated dimer of chromosomes as the last step of chromosome replication, converting a palindromic DNA sequence at the junctions between chromosomes into covalently closed hairpins. The mechanism by which protelomerase transforms a duplex DNA substrate into the hairpin telomeres remains largely unknown. We report here a series of crystal structures of the protelomerase TelA bound to DNA that represent distinct stages along the reaction pathway. The structures suggest that TelA converts a linear duplex substrate into hairpin turns via a transient strand-refolding intermediate that involves DNA-base flipping and wobble base-pairs. The extremely compact di-nucleotide hairpin structure of the product is fully stabilized by TelA prior to strand ligation, which drives the reaction to completion. The enzyme-catalyzed, multistep strand refolding is a novel mechanism in DNA rearrangement reactions.


    Organizational Affiliation

    Department of Biochemistry, Molecular Biology and Biophysics, University of Minnesota, Minneapolis, Minnesota, United States of America.



Macromolecules

Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
ProtelomeraseA462Agrobacterium fabrum str. C58Mutation(s): 1 
Gene Names: telAAtu2523
Find proteins for Q7CWV1 (Agrobacterium fabrum (strain C58 / ATCC 33970))
Explore Q7CWV1 
Go to UniProtKB:  Q7CWV1
Protein Feature View
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  • Reference Sequence
  • Find similar nucleic acids by:  Sequence   |   Structure
  • Entity ID: 2
    MoleculeChainsLengthOrganismImage
    DNA (5'-D(*CP*AP*TP*AP*AP*(BRU)P*AP*AP*CP*AP*AP*(BRU)P*AP*T)-3')C13N/A
    • Find similar nucleic acids by:  Sequence   |   Structure
    • Entity ID: 3
      MoleculeChainsLengthOrganismImage
      DNA (5'-D(*CP*AP*TP*GP*AP*TP*AP*(BRU)P*(BRU)P*GP*(BRU)P*(BRU)P*AP*(BRU)P*(BRU)P*AP*(BRU)P*G)-3')D18N/A
      Small Molecules
      Ligands 1 Unique
      IDChainsName / Formula / InChI Key2D Diagram3D Interactions
      DT
      Query on DT

      Download CCD File 
      A
      THYMIDINE-5'-MONOPHOSPHATE
      C10 H15 N2 O8 P
      GYOZYWVXFNDGLU-XLPZGREQSA-N
       Ligand Interaction
      Modified Residues  1 Unique
      IDChainsTypeFormula2D DiagramParent
      PTR
      Query on PTR
      AL-PEPTIDE LINKINGC9 H12 N O6 PTYR
      Experimental Data & Validation

      Experimental Data

      • Method: X-RAY DIFFRACTION
      • Resolution: 2.51 Å
      • R-Value Free: 0.270 
      • R-Value Work: 0.183 
      • R-Value Observed: 0.188 
      • Space Group: C 1 2 1
      Unit Cell:
      Length ( Å )Angle ( ˚ )
      a = 116.34α = 90
      b = 119.66β = 111.3
      c = 56.63γ = 90
      Software Package:
      Software NamePurpose
      ADSCdata collection
      PHASERphasing
      PHENIXrefinement
      HKL-2000data reduction
      HKL-2000data scaling

      Structure Validation

      View Full Validation Report



      Entry History 

      Deposition Data

      • Deposited Date: 2012-03-05 
      • Released Date: 2013-02-13 
      • Deposition Author(s): Shi, K., Aihara, H.

      Revision History 

      • Version 1.0: 2013-02-13
        Type: Initial release