6BBM

Mechanisms of Opening and Closing of the Bacterial Replicative Helicase: The DnaB Helicase and Lambda P Helicase Loader Complex


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.10 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.4 of the entry. See complete history


Literature

Mechanisms of opening and closing of the bacterial replicative helicase.

Chase, J.Catalano, A.Noble, A.J.Eng, E.T.Olinares, P.D.Molloy, K.Pakotiprapha, D.Samuels, M.Chait, B.des Georges, A.Jeruzalmi, D.

(2018) Elife 7

  • DOI: 10.7554/eLife.41140
  • Primary Citation of Related Structures:  
    6BBM

  • PubMed Abstract: 
  • Assembly of bacterial ring-shaped hexameric replicative helicases on single-stranded (ss) DNA requires specialized loading factors. However, mechanisms implemented by these factors during opening and closing of the helicase, which enable and restrict ...

    Assembly of bacterial ring-shaped hexameric replicative helicases on single-stranded (ss) DNA requires specialized loading factors. However, mechanisms implemented by these factors during opening and closing of the helicase, which enable and restrict access to an internal chamber, are not known. Here, we investigate these mechanisms in the Escherichia coli DnaB helicase•bacteriophage λ helicase loader (λP) complex. We show that five copies of λP bind at DnaB subunit interfaces and reconfigure the helicase into an open spiral conformation that is intermediate to previously observed closed ring and closed spiral forms; reconfiguration also produces openings large enough to admit ssDNA into the inner chamber. The helicase is also observed in a restrained inactive configuration that poises it to close on activating signal, and transition to the translocation state. Our findings provide insights into helicase opening, delivery to the origin and ssDNA entry, and closing in preparation for translocation.


    Organizational Affiliation

    PhD Program in Biology, The Graduate Center of the City University of New York, New York, United States.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Replicative DNA helicaseABCDEF471Escherichia coli O111:NMMutation(s): 0 
Gene Names: DQW49_15020
EC: 3.6.4.12
Find proteins for P0ACB0 (Escherichia coli (strain K12))
Explore P0ACB0 
Go to UniProtKB:  P0ACB0
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
Replication protein PVWXYZ233Escherichia virus LambdaMutation(s): 0 
Gene Names: P
Find proteins for P03689 (Escherichia phage lambda)
Explore P03689 
Go to UniProtKB:  P03689
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ADP
Query on ADP

Download CCD File 
A, C, E, W
ADENOSINE-5'-DIPHOSPHATE
C10 H15 N5 O10 P2
XTWYTFMLZFPYCI-KQYNXXCUSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.10 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesR01 GM084162
National Science Foundation (NSF, United States)United StatesMCB 1818255
National Institutes of Health/National Institute on Minority Health and Health Disparities (NIH/NIMHD)United States5G12MD007603-30
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesP41 GM109824
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesP41 GM103314
Other governmentUnited StatesPA200A150068
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesF32GM128303
Other privateUnited StatesSF349247 (Simons Foundation)
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesGM103310
Other privateUnited StatesF00316 (Agouron Institute)
National Institutes of Health/Office of the DirectorUnited StatesOD019994
Other privateUnited StatesSM-2015-289297 (Silicon Mechanics/Research Cluster Grant program)

Revision History 

  • Version 1.0: 2019-03-06
    Type: Initial release
  • Version 1.1: 2019-03-13
    Changes: Data collection
  • Version 1.2: 2019-08-14
    Changes: Data collection, Data processing, Experimental preparation
  • Version 1.3: 2019-11-27
    Changes: Author supporting evidence
  • Version 1.4: 2019-12-18
    Changes: Other