Biological Assembly 1  

Global Symmetry: Cyclic - C2  (3D View)
Global Stoichiometry: Homo 2-mer - A2 

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

Macromolecule Content

• Total Structure Weight: 51.19 kDa 
• Atom Count: 3,491 
• Modelled Residue Count: 423 
• Deposited Residue Count: 453 
• Unique protein chains: 1

 4RNH

PaMorA tandem diguanylate cyclase - phosphodiesterase, c-di-GMP complex

• PDB DOI:  https://doi.org/10.2210/pdb4RNH/pdb

• Classification: Transferase, Hydrolase
• Organism(s): Pseudomonas aeruginosa PAO1
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2014-10-24 Released: 2014-11-19 
• Deposition Author(s): Phippen, C.W., Tews, I.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.45 Å
• R-Value Free: 0.243 
• R-Value Work: 0.184 
• R-Value Observed: 0.187 

Literature

Formation and dimerization of the phosphodiesterase active site of the Pseudomonas aeruginosa MorA, a bi-functional c-di-GMP regulator.

Phippen, C.W., Mikolajek, H., Schlaefli, H.G., Keevil, C.W., Webb, J.S., Tews, I.

(2014) FEBS Lett 588: 4631-4636

• PubMed: 25447517 
• DOI: https://doi.org/10.1016/j.febslet.2014.11.002
• Primary Citation of Related Structures:  
  4RNF, 4RNH, 4RNI, 4RNJ


• PubMed Abstract: 
  

Diguanylate cyclases (DGC) and phosphodiesterases (PDE), respectively synthesise and hydrolyse the secondary messenger cyclic dimeric GMP (c-di-GMP), and both activities are often found in a single protein. Intracellular c-di-GMP levels in turn regulate bacterial motility, virulence and biofilm formation. We report the first structure of a tandem DGC-PDE fragment, in which the catalytic domains are shown to be active. Two phosphodiesterase states are distinguished by active site formation. The structures, in the presence or absence of c-di-GMP, suggest that dimerisation and binding pocket formation are linked, with dimerisation being required for catalytic activity. An understanding of PDE activation is important, as biofilm dispersal via c-di-GMP hydrolysis has therapeutic effects on chronic infections.

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Organizational Affiliation: 

Centre for Biological Sciences and Institute for Life Sciences, Life Sciences Building B85, The University of Southampton, University Rd, Southampton, Hampshire, SO17 1BJ, United Kingdom. Electronic address: [e-mail].

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Motility regulator	A	453	Pseudomonas aeruginosa PAO1	Mutation(s): 0  Gene Names: morA, PA4601 EC: 2.7.7.65 (PDB Primary Data), 3.1.4.52 (PDB Primary Data)
UniProt
Find proteins for Q9HVI8 (Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1)) Explore Q9HVI8  Go to UniProtKB:  Q9HVI8

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
C2E	D [auth A]	9,9'-[(2R,3R,3aS,5S,7aR,9R,10R,10aS,12S,14aR)-3,5,10,12-tetrahydroxy-5,12-dioxidooctahydro-2H,7H-difuro[3,2-d:3',2'-j][1,3,7,9,2,8]tetraoxadiphosphacyclododecine-2,9-diyl]bis(2-amino-1,9-dihydro-6H-purin-6-one) C20 H24 N10 O14 P2 PKFDLKSEZWEFGL-MHARETSRSA-N
MG	B [auth A], C [auth A]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.45 Å
• R-Value Free: 0.243 
• R-Value Work: 0.184 
• R-Value Observed: 0.187 
• Space Group: P 3₁ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 81.3	α = 90
b = 81.3	β = 90
c = 128.1	γ = 120

Software Package:

Software Name	Purpose
xia2	data reduction
REFMAC	refinement
PDB_EXTRACT	data extraction
XDS	data scaling
XDS	data reduction
xia2	data scaling
MOLREP	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2014-11-19 
Deposition Author(s): Phippen, C.W., Tews, I.

Revision History  

• Version 1.0: 2014-11-19
  Type: Initial release
  
• Version 1.1: 2015-02-25
  Changes: Structure summary
• Version 1.2: 2015-04-22
  Changes: Database references