3WFX image
Deposition Date 2013-07-24
Release Date 2014-08-06
Last Version Date 2023-11-08
Entry Detail
PDB ID:
3WFX
Title:
Crystal Structure of the Imidazole-Bound Form of the HGbRL's Globin Domain
Biological Source:
Source Organism:
Host Organism:
Method Details:
Experimental Method:
Resolution:
1.94 Å
R-Value Free:
0.23
R-Value Work:
0.18
R-Value Observed:
0.18
Space Group:
C 1 2 1
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:Hemoglobin-like flavoprotein fused to Roadblock/LC7 domain
Gene (Uniprot):hmp
Chain IDs:A, B
Chain Length:138
Number of Molecules:2
Biological Source:Methylacidiphilum infernorum
Primary Citation
Open and Lys-His Hexacoordinated Closed Structures of a Globin with Swapped Proximal and Distal Sites.
Sci Rep 5 11407 11407 (2015)
PMID: 26094577 DOI: 10.1038/srep11407

Abstact

Globins are haem-binding proteins with a conserved fold made up of α-helices and can possess diverse properties. A putative globin-coupled sensor from Methylacidiphilum infernorum, HGbRL, contains an N-terminal globin domain whose open and closed structures reveal an untypical dimeric architecture. Helices E and F fuse into an elongated helix, resulting in a novel site-swapped globin fold made up of helices A-E, hence the distal site, from one subunit and helices F-H, the proximal site, from another. The open structure possesses a large cavity binding an imidazole molecule, while the closed structure forms a unique Lys-His hexacoordinated species, with the first turn of helix E unravelling to allow Lys52(E10) to bind to the haem. Ligand binding induces reorganization of loop CE, which is stabilized in the closed form, and helix E, triggering a large conformational movement in the open form. These provide a mechanical insight into how a signal may be relayed between the globin domain and the C-terminal domain of HGbRL, a Roadblock/LC7 domain. Comparison with HGbI, a closely related globin, further underlines the high degree of structural versatility that the globin fold is capable of, enabling it to perform a diversity of functions.

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Primary Citation of related structures