8PMR image
Deposition Date 2023-06-29
Release Date 2023-11-15
Last Version Date 2024-11-06
Entry Detail
PDB ID:
8PMR
Keywords:
Title:
NADase from Aspergillus fumigatus with mutated calcium binding motif (D219A/E220A)
Biological Source:
Source Organism:
Host Organism:
Method Details:
Experimental Method:
Resolution:
1.94 Å
R-Value Free:
0.21
R-Value Work:
0.18
R-Value Observed:
0.18
Space Group:
P 65
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:Conidial surface nicotinamide adenine dinucleotide glycohydrolase nadA
Gene (Uniprot):nadA
Mutations:D219A/E220A
Chain IDs:A, B, C, D
Chain Length:248
Number of Molecules:4
Biological Source:Aspergillus fumigatus Af293
Primary Citation
Novel Calcium-Binding Motif Stabilizes and Increases the Activity of Aspergillus fumigatus Ecto-NADase.
Biochemistry 62 3293 3302 (2023)
PMID: 37934975 DOI: 10.1021/acs.biochem.3c00360

Abstact

Nicotinamide adenine dinucleotide (NAD) is an essential molecule in all kingdoms of life, mediating energy metabolism and cellular signaling. Recently, a new class of highly active fungal surface NADases was discovered. The enzyme from the opportunistic human pathogen Aspergillus fumigatus was thoroughly characterized. It harbors a catalytic domain that resembles that of the tuberculosis necrotizing toxin from Mycobacterium tuberculosis, which efficiently cleaves NAD+ to nicotinamide and ADP-ribose, thereby depleting the dinucleotide pool. Of note, the A. fumigatus NADase has an additional Ca2+-binding motif at the C-terminus of the protein. Despite the presence of NADases in several fungal divisions, the Ca2+-binding motif is uniquely found in the Eurotiales order, which contains species that have immense health and economic impacts on humans. To identify the potential roles of the metal ion-binding site in catalysis or protein stability, we generated and characterized A. fumigatus NADase variants lacking the ability to bind calcium. X-ray crystallographic analyses revealed that the mutation causes a drastic and dynamic structural rearrangement of the homodimer, resulting in decreased thermal stability. Even though the calcium-binding site is at a long distance from the catalytic center, the structural reorganization upon the loss of calcium binding allosterically alters the active site, thereby negatively affecting NAD-glycohydrolase activity. Together, these findings reveal that this unique calcium-binding site affects the protein fold, stabilizing the dimeric structure, but also mediates long-range effects resulting in an increased catalytic rate.

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