6S3N

Crystal structure of helicase Pif1 from Thermus oshimai in complex with ssDNA (dT)18 and ADP-VO4


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.53 Å
  • R-Value Free: 0.255 
  • R-Value Work: 0.198 
  • R-Value Observed: 0.201 

wwPDB Validation   3D Report Full Report



Literature

Unraveling the structural and mechanistic basis of SF1B helicase dimerization: inhibitory regulation of Thermus oshimau Pif1 activity

Dai, Y.X.Chen, W.F.Teng, F.Y.Liu, N.N.Hou, X.M.Dou, S.X.Rety, S.Xi, X.G.

To be published.

Macromolecules

Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
PIF1 helicaseAB444Thermus oshimaiMutation(s): 0 
Gene Names: Theos_1468
Find proteins for K7RJ88 (Thermus oshimai JL-2)
Explore K7RJ88 
Go to UniProtKB:  K7RJ88
Protein Feature View
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  • Reference Sequence
  • Find similar nucleic acids by:  Sequence   |   Structure
  • Entity ID: 2
    MoleculeChainsLengthOrganismImage
    DNA (5'-D(P*TP*TP*TP*TP*TP*T)-3')C18Thermus oshimai
    • Find similar nucleic acids by:  Sequence   |   Structure
    • Entity ID: 3
      MoleculeChainsLengthOrganismImage
      DNA (5'-D(P*TP*TP*TP*TP*TP*T)-3')D18Thermus oshimai
      Small Molecules
      Ligands 3 Unique
      IDChainsName / Formula / InChI Key2D Diagram3D Interactions
      ADP
      Query on ADP

      Download Ideal Coordinates CCD File 
      A, B
      ADENOSINE-5'-DIPHOSPHATE
      C10 H15 N5 O10 P2
      XTWYTFMLZFPYCI-KQYNXXCUSA-N
       Ligand Interaction
      VO4
      Query on VO4

      Download Ideal Coordinates CCD File 
      A, B
      VANADATE ION
      O4 V
      LSGOVYNHVSXFFJ-UHFFFAOYSA-N
       Ligand Interaction
      MG
      Query on MG

      Download Ideal Coordinates CCD File 
      A, B
      MAGNESIUM ION
      Mg
      JLVVSXFLKOJNIY-UHFFFAOYSA-N
       Ligand Interaction
      Experimental Data & Validation

      Experimental Data

      • Method: X-RAY DIFFRACTION
      • Resolution: 2.53 Å
      • R-Value Free: 0.255 
      • R-Value Work: 0.198 
      • R-Value Observed: 0.201 
      • Space Group: C 2 2 21
      Unit Cell:
      Length ( Å )Angle ( ˚ )
      a = 88.093α = 90
      b = 102.955β = 90
      c = 249.697γ = 90
      Software Package:
      Software NamePurpose
      PHENIXrefinement
      XDSdata reduction
      Aimlessdata scaling
      PHASERphasing

      Structure Validation

      View Full Validation Report



      Entry History & Funding Information

      Deposition Data


      Funding OrganizationLocationGrant Number
      National Natural Science Foundation of ChinaChina31370798,11304252,11574252,31301632

      Revision History 

      • Version 1.0: 2021-01-13
        Type: Initial release