6HC1 image
Deposition Date 2018-08-13
Release Date 2019-08-28
Last Version Date 2024-11-20
Entry Detail
PDB ID:
6HC1
Title:
Bdellovibrio bacteriovorus DgcB FHA in complex with phosphorylated N-terminal peptide
Biological Source:
Source Organism:
Host Organism:
Method Details:
Experimental Method:
Resolution:
1.49 Å
R-Value Free:
0.17
R-Value Work:
0.14
R-Value Observed:
0.14
Space Group:
P 65 2 2
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:GGDEF domain protein
Gene (Uniprot):Bd0742
Chain IDs:A, B
Chain Length:103
Number of Molecules:2
Biological Source:Bdellovibrio bacteriovorus HD100
Polymer Type:polypeptide(L)
Molecule:DgcB N-terminus, phosphorylated
Chain IDs:C
Chain Length:12
Number of Molecules:1
Biological Source:Bdellovibrio bacteriovorus HD100
Primary Citation
Structural basis for activation of a diguanylate cyclase required for bacterial predation in Bdellovibrio.
Nat Commun 10 4086 4086 (2019)
PMID: 31501441 DOI: 10.1038/s41467-019-12051-6

Abstact

The bacterial second messenger cyclic-di-GMP is a widespread, prominent effector of lifestyle change. An example of this occurs in the predatory bacterium Bdellovibrio bacteriovorus, which cycles between free-living and intraperiplasmic phases after entering (and killing) another bacterium. The initiation of prey invasion is governed by DgcB (GGDEF enzyme) that produces cyclic-di-GMP in response to an unknown stimulus. Here, we report the structure of DgcB, and demonstrate that the GGDEF and sensory forkhead-associated (FHA) domains form an asymmetric dimer. Our structures indicate that the FHA domain is a consensus phosphopeptide sensor, and that the ligand for activation is surprisingly derived from the N-terminal region of DgcB itself. We confirm this hypothesis by determining the structure of a FHA:phosphopeptide complex, from which we design a constitutively-active mutant (confirmed via enzyme assays). Our results provide an understanding of the stimulus driving DgcB-mediated prey invasion and detail a unique mechanism of GGDEF enzyme regulation.

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Primary Citation of related structures