5MJD image
Deposition Date 2016-11-30
Release Date 2017-12-20
Last Version Date 2024-01-17
Entry Detail
PDB ID:
5MJD
Title:
metNgb under oxygen at 80 bar
Biological Source:
Source Organism:
Mus musculus (Taxon ID: 10090)
Method Details:
Experimental Method:
Resolution:
1.70 Å
R-Value Free:
0.24
R-Value Work:
0.17
R-Value Observed:
0.18
Space Group:
H 3 2
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:Neuroglobin
Gene (Uniprot):Ngb
Mutations:S-C
Chain IDs:A
Chain Length:148
Number of Molecules:1
Biological Source:Mus musculus
Primary Citation
Ligand pathways in neuroglobin revealed by low-temperature photodissociation and docking experiments.
Iucrj 6 832 842 (2019)
PMID: 31576217 DOI: 10.1107/S2052252519008157

Abstact

A combined biophysical approach was applied to map gas-docking sites within murine neuroglobin (Ngb), revealing snapshots of events that might govern activity and dynamics in this unique hexacoordinate globin, which is most likely to be involved in gas-sensing in the central nervous system and for which a precise mechanism of action remains to be elucidated. The application of UV-visible microspectroscopy in crystallo, solution X-ray absorption near-edge spectroscopy and X-ray diffraction experiments at 15-40 K provided the structural characterization of an Ngb photolytic intermediate by cryo-trapping and allowed direct observation of the relocation of carbon monoxide within the distal heme pocket after photodissociation. Moreover, X-ray diffraction at 100 K under a high pressure of dioxygen, a physiological ligand of Ngb, unravelled the existence of a storage site for O2 in Ngb which coincides with Xe-III, a previously described docking site for xenon or krypton. Notably, no other secondary sites were observed under our experimental conditions.

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