6K3H image
Deposition Date 2019-05-18
Release Date 2019-07-03
Last Version Date 2023-11-22
Entry Detail
PDB ID:
6K3H
Keywords:
Title:
Crystallographic Analysis of Nucleoside Diphosphate Kinase (NDK) from Aspergillus Flavus
Biological Source:
Method Details:
Experimental Method:
Resolution:
2.18 Å
R-Value Free:
0.28
R-Value Work:
0.23
R-Value Observed:
0.23
Space Group:
C 1 2 1
Macromolecular Entities
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Nucleoside diphosphate kinase
Gene (Uniprot):F9C07_2283722
Chain IDs:A, B, C, D, E, F, G, H, I, J, K, L, M, N, O (auth: Q), P (auth: R), Q (auth: U), R (auth: V), S (auth: W), T (auth: X), U (auth: O), V (auth: P), W (auth: S), X (auth: T)
Chain Length:155
Number of Molecules:24
Biological Source:Aspergillus flavus (strain ATCC 200026 / FGSC A1120 / NRRL 3357 / JCM 12722 / SRRC 167)
Ligand Molecules
Primary Citation
Molecular and structural basis of nucleoside diphosphate kinase-mediated regulation of spore and sclerotia development in the fungusAspergillus flavus.
J.Biol.Chem. 294 12415 12431 (2019)
PMID: 31243100 DOI: 10.1074/jbc.RA119.007505

Abstact

The fundamental biological function of nucleoside diphosphate kinase (NDK) is to catalyze the reversible exchange of the γ-phosphate between nucleoside triphosphate (NTP) and nucleoside diphosphate (NDP). This kinase also has functions that extend beyond its canonically defined enzymatic role as a phosphotransferase. However, the role of NDK in filamentous fungi, especially in Aspergillus flavus (A. flavus), is not yet known. Here we report that A. flavus has two NDK-encoding gene copies as assessed by qPCR. Using gene-knockout and complementation experiments, we found that AfNDK regulates spore and sclerotia development and is involved in plant virulence as assessed in corn and peanut seed-based assays. An antifungal test with the inhibitor azidothymidine suppressed AfNDK activity in vitro and prevented spore production and sclerotia formation in A. flavus, confirming AfNDK's regulatory functions. Crystallographic analysis of AfNDK, coupled with site-directed mutagenesis experiments, revealed three residues (Arg-104, His-117, and Asp-120) as key sites that contribute to spore and sclerotia development. These results not only enrich our knowledge of the regulatory role of this important protein in A. flavus, but also provide insights into the prevention of A. flavus infection in plants and seeds, as well as into the structural features relevant for future antifungal drug development.

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Primary Citation of related structures