5N98

Crystal Structure of Drosophila DHX36 helicase in complex with TAGGGTTTT


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.756 Å
  • R-Value Free: 0.236 
  • R-Value Work: 0.175 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

Molecular Mechanistic Insights into Drosophila DHX36-Mediated G-Quadruplex Unfolding: A Structure-Based Model.

Chen, W.F.Rety, S.Guo, H.L.Dai, Y.X.Wu, W.Q.Liu, N.N.Auguin, D.Liu, Q.W.Hou, X.M.Dou, S.X.Xi, X.G.

(2018) Structure 26: 403-415.e4

  • DOI: 10.1016/j.str.2018.01.008
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Helicase DHX36 plays essential roles in cell development and differentiation at least partially by resolving G-quadruplex (G4) structures. Here we report crystal structures of the Drosophila homolog of DHX36 (DmDHX36) in complex with RNA and a series ...

    Helicase DHX36 plays essential roles in cell development and differentiation at least partially by resolving G-quadruplex (G4) structures. Here we report crystal structures of the Drosophila homolog of DHX36 (DmDHX36) in complex with RNA and a series of DNAs. By combining structural, small-angle X-ray scattering, molecular dynamics simulation, and single-molecule fluorescence studies, we revealed that positively charged amino acids in RecA2 and OB-like domains constitute an elaborate structural pocket at the nucleic acid entrance, in which negatively charged G4 DNA is tightly bound and partially destabilized. The G4 DNA is then completely unfolded through the 3'-5' translocation activity of the helicase. Furthermore, crystal structures and DNA binding assays show that G-rich DNA is preferentially recognized and in the presence of ATP, specifically bound by DmDHX36, which may cooperatively enhance the G-rich DNA translocation and G4 unfolding. On the basis of these results, a conceptual G4 DNA-resolving mechanism is proposed.


    Organizational Affiliation

    College of Life Sciences, Northwest A&F University, Yangling, Shaanxi 712100, China.




Macromolecules

Find similar proteins by: Sequence  |  Structure


Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
CG9323, isoform A
A, B
944Drosophila melanogasterMutation(s): 0 
Gene Names: Rhau (38E.15, cg9323, Dmel\CG9323, DmRHAU)
EC: 3.6.1.3
Find proteins for Q8SWT2 (Drosophila melanogaster)
Go to UniProtKB:  Q8SWT2
Entity ID: 2
MoleculeChainsLengthOrganism
DNA (5'-D(P*TP*AP*GP*GP*GP*TP*TP*TP*T)-3')C,D9Homo sapiens
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
PO4
Query on PO4

Download SDF File 
Download CCD File 
B
PHOSPHATE ION
O4 P
NBIIXXVUZAFLBC-UHFFFAOYSA-K
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.756 Å
  • R-Value Free: 0.236 
  • R-Value Work: 0.175 
  • Space Group: C 1 2 1
Unit Cell:
Length (Å)Angle (°)
a = 303.408α = 90.00
b = 51.615β = 114.43
c = 164.965γ = 90.00
Software Package:
Software NamePurpose
XDSdata reduction
PHENIXrefinement
Aimlessdata scaling
PHASERphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2018-03-14
    Type: Initial release