Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors and generated by PISA (software)

Biological Assembly Evidence: light scattering

Biological Assembly 2  

 3D View: Structure | Electron Density | Ligand Interaction

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 2 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 94.85 kDa 
• Atom Count: 6509 
• Residue Count: 814 
• Unique protein chains: 1

6PWJ

Vibrio cholerae LapD S helix-GGDEF-EAL (apo)

• DOI: 10.2210/pdb6PWJ/pdb

• Classification: SIGNALING PROTEIN
• Organism(s): Vibrio cholerae O1 str. 2010EL-1786
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2019-07-23 Released: 2019-10-09 
• Deposition Author(s): Giglio, K.M., Cooley, R.B., Sondermann, H.
• Funding Organization(s): National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS), National Science Foundation (NSF, United States)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.70 Å
• R-Value Free: 0.243 
• R-Value Work: 0.199 
• R-Value Observed: 0.202 

Literature

A Conserved Regulatory Circuit Controls Large Adhesins in Vibrio cholerae.

Kitts, G., Giglio, K.M., Zamorano-Sanchez, D., Park, J.H., Townsley, L., Cooley, R.B., Wucher, B.R., Klose, K.E., Nadell, C.D., Yildiz, F.H., Sondermann, H.

(2019) mBio 10

• PubMed: 31796544 
• DOI: 10.1128/mBio.02822-19
• Primary Citation of Related Structures:  
  6PWJ, 6PWK


• PubMed Abstract: 
  

The dinucleotide second messenger c-di-GMP has emerged as a central regulator of reversible cell attachment during bacterial biofilm formation. A prominent cell adhesion mechanism first identified in pseudomonads combines two c-di-GMP-mediated processes: transcription of a large adhesin and its cell surface display via posttranslational proteolytic control. Here, we characterize an orthologous c-di-GMP effector system and show that it is operational in Vibrio cholerae , where it regulates two distinct classes of adhesins. Through structural analyses, we reveal a conserved autoinhibition mechanism of the c-di-GMP receptor that controls adhesin proteolysis and present a structure of a c-di-GMP-bound receptor module. We further establish functionality of the periplasmic protease controlled by the receptor against the two adhesins. Finally, transcription and functional assays identify physiological roles of both c-di-GMP-regulated adhesins in surface attachment and biofilm formation. Together, our studies highlight the conservation of a highly efficient signaling effector circuit for the control of cell surface adhesin expression and its versatility by revealing strain-specific variations. IMPORTANCE Vibrio cholerae , the causative agent of the diarrheal disease cholera, benefits from a sessile biofilm lifestyle that enhances survival outside the host but also contributes to host colonization and infectivity. The bacterial second messenger c-di-GMP has been identified as a central regulator of biofilm formation, including in V. cholerae ; however, our understanding of the pathways that contribute to this process is incomplete. Here, we define a conserved signaling system that controls the stability of large adhesion proteins at the cell surface of V. cholerae , which are important for cell attachment and biofilm formation. Insight into the regulatory circuit underlying biofilm formation may inform targeted strategies to interfere with a process that renders this bacterium remarkably adaptable to changing environments.

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Organizational Affiliation: 

Department of Molecular Medicine, College of Veterinary Medicine, Cornell University, Ithaca, New York, USA [e-mail] [e-mail].

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
GGDEF and EAL domain-containing protein	A, B	418	Vibrio cholerae O1 str. 2010EL-1786	Mutation(s): 0
Find proteins for A0A0H3AFX3 (Vibrio cholerae serotype O1 (strain ATCC 39541 / Classical Ogawa 395 / O395)) Explore A0A0H3AFX3  Go to UniProtKB:  A0A0H3AFX3

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
PGE	B	TRIETHYLENE GLYCOL C6 H14 O4 ZIBGPFATKBEMQZ-UHFFFAOYSA-N
MG	A, B	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.70 Å
• R-Value Free: 0.243 
• R-Value Work: 0.199 
• R-Value Observed: 0.202 
• Space Group: P 3₂ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 129.83	α = 90
b = 129.83	β = 90
c = 114.441	γ = 120

Software Package:

Software Name	Purpose
PHENIX	refinement
Aimless	data scaling
PDB_EXTRACT	data extraction
MOSFLM	data reduction
PHENIX	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Deposited Date: 2019-07-23 
• Released Date: 2019-10-09 
Deposition Author(s): Giglio, K.M., Cooley, R.B., Sondermann, H.

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Funding Organization	Location	Grant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	R01-GM123609
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	GM103485
National Science Foundation (NSF, United States)	United States	DMR-1332208

Revision History 

• Version 1.0: 2019-10-09
  Type: Initial release
  
• Version 1.1: 2019-11-27
  Changes: Author supporting evidence
• Version 1.2: 2020-04-22
  Changes: Database references