8HJA

The crystal structure of syn_CdgR-(c-di-GMP) from Synechocystis sp. PCC 6803

Summary for 8HJA

• Entry DOI: 10.2210/pdb8hja/pdb
• Descriptor: c-di-GMP receptor, 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) (3 entities in total)
• Functional Keywords: c-di-gmp receptor, cyanobacteria, cell size, signaling protein
• Biological source: Synechocystis sp. PCC 6803
• Total number of polymer chains: 2
• Total formula weight: 42633.45

Authors

Zeng, X.,Peng, Y.J. (deposition date: 2022-11-22, release date: 2023-03-29, Last modification date: 2024-10-16)

Primary citation

Zeng, X.,Huang, M.,Sun, Q.X.,Peng, Y.J.,Xu, X.,Tang, Y.B.,Zhang, J.Y.,Yang, Y.,Zhang, C.C.
A c-di-GMP binding effector controls cell size in a cyanobacterium.
Proc.Natl.Acad.Sci.USA, 120:e2221874120-e2221874120, 2023

PubMed Abstract: Cyclic-di-GMP (c-di-GMP) is a ubiquitous bacterial signaling molecule. It is also a critical player in the regulation of cell size and cell behaviors such as cell aggregation and phototaxis in cyanobacteria, which constitute an important group of prokaryotes for their roles in the ecology and evolution of the Earth. However, c-di-GMP receptors have never been revealed in cyanobacteria. Here, we report the identification of a c-di-GMP receptor, CdgR, from the filamentous cyanobacterium PCC 7120. Crystal structural analysis and genetic studies demonstrate that CdgR binds c-di-GMP at the dimer interface and this binding is required for the control of cell size in a c-di-GMP-dependent manner. Different functions of CdgR, in ligand binding and signal transmission, could be separated genetically, allowing us to dissect its molecular signaling functions. The presence of the apo-form of CdgR triggers cell size reduction, consistent with the similar effects observed with a decrease of c-di-GMP levels in cells. Furthermore, we found that CdgR exerts its function by interacting with a global transcription factor DevH, and this interaction was inhibited by c-di-GMP. The lethal effect triggered by conditional depletion of DevH or by the production of several point-mutant proteins of CdgR in cells indicates that this signaling pathway plays critical functions in . Our studies revealed a mechanism of c-di-GMP signaling in the control of cell size, an important and complex trait for bacteria. CdgR is highly conserved in cyanobacteria, which will greatly expand our understanding of the roles of c-di-GMP signaling in these organisms.

PubMed: 36947515
DOI: 10.1073/pnas.2221874120

Experimental method

X-RAY DIFFRACTION (2.38 Å)