6OJZ

PilT4 from Geobacter metallireducens bound to ADP with partial occupancy: C3ocococ conformation


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.03 Å
  • R-Value Free: 0.232 
  • R-Value Work: 0.195 
  • R-Value Observed: 0.196 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Multiple conformations facilitate PilT function in the type IV pilus.

McCallum, M.Benlekbir, S.Nguyen, S.Tammam, S.Rubinstein, J.L.Burrows, L.L.Howell, P.L.

(2019) Nat Commun 10: 5198-5198

  • DOI: 10.1038/s41467-019-13070-z
  • Primary Citation of Related Structures:  
    6OJZ, 6OJY, 6OK2, 6OJX, 6OLL, 6OLK, 6OLM, 6OLJ, 6OKV

  • PubMed Abstract: 
  • Type IV pilus-like systems are protein complexes that polymerize pilin fibres. They are critical for virulence in many bacterial pathogens. Pilin polymerization and depolymerization are powered by motor ATPases of the PilT/VirB11-like family. This fa ...

    Type IV pilus-like systems are protein complexes that polymerize pilin fibres. They are critical for virulence in many bacterial pathogens. Pilin polymerization and depolymerization are powered by motor ATPases of the PilT/VirB11-like family. This family is thought to operate with C 2 symmetry; however, most of these ATPases crystallize with either C 3 or C 6 symmetric conformations. The relevance of these conformations is unclear. Here, we determine the X-ray structures of PilT in four unique conformations and use these structures to classify the conformation of available PilT/VirB11-like family member structures. Single particle electron cryomicroscopy (cryoEM) structures of PilT reveal condition-dependent preferences for C 2, C 3 , and C 6 conformations. The physiologic importance of these conformations is validated by coevolution analysis and functional studies of point mutants, identifying a rare gain-of-function mutation that favours the C 2 conformation. With these data, we propose a comprehensive model of PilT function with broad implications for PilT/VirB11-like family members.


    Organizational Affiliation

    Program in Molecular Structure & Function, Peter Gilgan Centre for Research and Learning, The Hospital for Sick Children, Toronto, ON, M5G 0A4, Canada. howell@sickkids.ca.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Twitching motility pilus retraction ATPaseABCDEF385Geobacter metallireducens GS-15Mutation(s): 0 
Gene Names: pilT-4Gmet_1394
Find proteins for Q39VU6 (Geobacter metallireducens (strain GS-15 / ATCC 53774 / DSM 7210))
Explore Q39VU6 
Go to UniProtKB:  Q39VU6
Protein Feature View
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  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ADP
Query on ADP

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

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.03 Å
  • R-Value Free: 0.232 
  • R-Value Work: 0.195 
  • R-Value Observed: 0.196 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 112.335α = 90
b = 121.134β = 90
c = 187.112γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata reduction
XDSdata scaling
PHASERphasing

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Canadian Institutes of Health Research (CIHR)Canada--

Revision History 

  • Version 1.0: 2019-11-20
    Type: Initial release
  • Version 1.1: 2019-11-27
    Changes: Database references
  • Version 1.2: 2020-01-08
    Changes: Author supporting evidence