User:Nane Milene Sposito Almeida Pereira/Sandbox 1

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You may include any references to papers as in: the use of JSmol in Proteopedia ^[1] or to the article describing Jmol ^[2] to the rescue.

Function

Cyclic dimeric (3'–5') guanosine monophosphate (c-di-GMP) is a bacterial second messenger present in several biological aspects of several environmental and pathogenic bacteria. This second messenger is capable of regulating the cell cycle, biofilm formation, dispersal, motility, and virulence. The synthesis and degradation of c-diGMP are controlled by the activities of two classes of proteins: diguanylate cyclases (DGCs), with an active GGDEF domain, and specific phosphodiesterases (PDEs), with an EAL or HD-GYP domain. SiaD has DGC activity modulated by its binding partner through direct interaction with SiaC, forming the SiaC-SiaD complex ^[3].

Structural highlights

General Aspects

The SiaC-SiaD complex is formed by two SiaD molecules and the binding of four SiaC. The conformation of the complex is composed of two SiaD molecules (SiaD-A and SiaD-B) that form a parallel spiral through their helix rods, and their dimeric rods are stabilized by the binding of two pairs of SiaC molecules (SiaC-C/SiaC-D and SiaC-E/SiaC-F), each in a different location along the dimeric stem, which may be proximal or distal to the DGC domain of SiaD. Furthermore, a non-hydrolyzable GTP analog molecule, GpCpp, was observed to bind to the active site of SiaD-A.

The DGC domain of SiaD

The C-terminal GGDEF domain of SiaD is highly conserved. Two DGC domains in the complex are oriented anti-parallel, with their active sites facing each other. Each DGC domain consists of a core canonical fold of five antiparallel β-strands (β1–β5) around which five α-helices (α0–α4) and two short antiparallel β-strands are wrapped (β3ʹ and β3"), forming a highly conserved GTP substrate-binding site (GGDEF domain, A-site) and a c-di-GMP product binding/inhibitory site (I-site).

Disease

Relevance

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