4NHF

Crystal structure of the soluble domain of TrwG Type IV secretion machinery from Bartonella grahamii


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2 Å
  • R-Value Free: 0.240 
  • R-Value Work: 0.195 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Structural Insight into How Bacteria Prevent Interference between Multiple Divergent Type IV Secretion Systems.

Gillespie, J.J.Phan, I.Q.Scheib, H.Subramanian, S.Edwards, T.E.Lehman, S.S.Piitulainen, H.Rahman, M.S.Rennoll-Bankert, K.E.Staker, B.L.Taira, S.Stacy, R.Myler, P.J.Azad, A.F.Pulliainen, A.T.

(2015) MBio 6: e01867-e01815

  • DOI: 10.1128/mBio.01867-15
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Prokaryotes use type IV secretion systems (T4SSs) to translocate substrates (e.g., nucleoprotein, DNA, and protein) and/or elaborate surface structures (i.e., pili or adhesins). Bacterial genomes may encode multiple T4SSs, e.g., there are three funct ...

    Prokaryotes use type IV secretion systems (T4SSs) to translocate substrates (e.g., nucleoprotein, DNA, and protein) and/or elaborate surface structures (i.e., pili or adhesins). Bacterial genomes may encode multiple T4SSs, e.g., there are three functionally divergent T4SSs in some Bartonella species (vir, vbh, and trw). In a unique case, most rickettsial species encode a T4SS (rvh) enriched with gene duplication. Within single genomes, the evolutionary and functional implications of cross-system interchangeability of analogous T4SS protein components remains poorly understood. To lend insight into cross-system interchangeability, we analyzed the VirB8 family of T4SS channel proteins. Crystal structures of three VirB8 and two TrwG Bartonella proteins revealed highly conserved C-terminal periplasmic domain folds and dimerization interfaces, despite tremendous sequence divergence. This implies remarkable structural constraints for VirB8 components in the assembly of a functional T4SS. VirB8/TrwG heterodimers, determined via bacterial two-hybrid assays and molecular modeling, indicate that differential expression of trw and vir systems is the likely barrier to VirB8-TrwG interchangeability. We also determined the crystal structure of Rickettsia typhi RvhB8-II and modeled its coexpressed divergent paralog RvhB8-I. Remarkably, while RvhB8-I dimerizes and is structurally similar to other VirB8 proteins, the RvhB8-II dimer interface deviates substantially from other VirB8 structures, potentially preventing RvhB8-I/RvhB8-II heterodimerization. For the rvh T4SS, the evolution of divergent VirB8 paralogs implies a functional diversification that is unknown in other T4SSs. Collectively, our data identify two different constraints (spatiotemporal for Bartonella trw and vir T4SSs and structural for rvh T4SSs) that mediate the functionality of multiple divergent T4SSs within a single bacterium.


    Organizational Affiliation

    Department of Microbiology and Immunology, University of Maryland School of Medicine, Baltimore, Maryland, USA.,Department of Biosciences, University of Helsinki, Helsinki, Finland Institute of Biomedicine, University of Turku, Turku, Finland JGillespie@som.umaryland.edu arto.pulliainen@utu.fi.,Department of Biosciences, University of Helsinki, Helsinki, Finland.,Department of Microbiology and Immunology, University of Maryland School of Medicine, Baltimore, Maryland, USA JGillespie@som.umaryland.edu arto.pulliainen@utu.fi.,Seattle Structural Genomics Center for Infectious Disease, Seattle, Washington, USA The Center for Infectious Disease Research (formerly Seattle Biomedical Research Institute), Seattle, Washington, USA.,Venom Evolution Lab, School of Biological Sciences, University of Queensland, St. Lucia, Queensland, Australia.,Seattle Structural Genomics Center for Infectious Disease, Seattle, Washington, USA Beryllium Discovery Corp., Bainbridge Island, Washington, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
TrwG protein
A, B, C, D, E, F
180Bartonella grahamii (strain as4aup)Mutation(s): 0 
Gene Names: trwG
Find proteins for C6AAT5 (Bartonella grahamii (strain as4aup))
Go to UniProtKB:  C6AAT5
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
CA
Query on CA

Download SDF File 
Download CCD File 
B, C, E, F
CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

Unit Cell:
Length (Å)Angle (°)
a = 62.950α = 90.00
b = 87.650β = 90.00
c = 191.830γ = 90.00
Software Package:
Software NamePurpose
XSCALEdata scaling
PDB_EXTRACTdata extraction
PHASERphasing
XDSdata reduction
REFMACrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2014-03-05
    Type: Initial release
  • Version 1.1: 2015-12-16
    Type: Database references
  • Version 1.2: 2016-03-23
    Type: Database references