nasD

nasD
168

assimilatory nitrite reductase (subunit)

Locus
BSU_03300
Molecular weight
88.24 kDa
Isoelectric point
4.95
Protein length
Gene length
Function
utilization of nitrite as nitrogen source
Product
assimilatory nitrite reductase (subunit)
Essential
no
E.C.
1.7.1.4
Synonyms
nasD, nasBC, nirB

Genomic Context

Categories containing this gene/protein

List of homologs in different organisms, belongs to COG1251 (Galperin et al., 2021)

This gene is a member of the following regulons

Gene
Coordinates
355,764 → 358,181
The protein
Catalyzed reaction/ biological activity
2 H2O + 3 NADP+ + NH4+ --> 5 H+ + 3 NADPH + nitrite (according to UniProt)
2 H2O + 3 NAD+ + NH4+ --> 5 H+ + 3 NADH + nitrite (according to UniProt)
Protein family
nitrite and sulfite reductase 4Fe-4S domain family (with CysI, according to UniProt)
Fe-S cluster  PubMed
FAD  PubMed
Structure
3KLJ (PDB) (from Clostridium acetobutylicum, corresponds to aa 5 ... 399, 32% identity) PubMed
Paralogous protein(s)
Expression and Regulation
Operons
Description
Regulation
''nasD'': expressed under anaerobic conditions (ResD) PubMed
Regulatory mechanism
ResD: activation, PubMed, in resD regulon
TnrA: activation, PubMed, in tnrA regulon
NsrR: repression, PubMed, in nsrR regulon
Fur: repression, PubMed, in fur regulon
Sigma factors
SigA: sigma factor, PubMed, in sigA regulon
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nasBnasF

2025-06-11 04:44:24

ghost

131

f7e39891ce616efe86a59a87e70448f347bb9239

B3FDABF6DE6A38B053CBE30BA36088850B35E312

Description
Regulation
''nasD'': expressed under anaerobic conditions (ResD) PubMed
Open in new tab

nasDnasF

2025-06-05 21:59:11

ghost

106

5ad87c79ecdfd1b1041c676834950d8393689a20

E10C8C0393696A6DF68E202566914889ADC48A5C

Biological materials
Mutant
1A973 ( nasD::phleo), PubMed, available at BGSC
BKE03300 (ΔnasD::erm  trpC2) available at BGSCPubMed, upstream reverse: _UP1_CATCAGATGATCCGCTCCTT,  downstream forward: _UP4_TAATGACAAAAACTATCATT
BKK03300 (ΔnasD::kan  trpC2) available at BGSCPubMed, upstream reverse: _UP1_CATCAGATGATCCGCTCCTT,  downstream forward: _UP4_TAATGACAAAAACTATCATT
References
Reviews
Luque-Almagro VM, Gates AJ, Moreno-Vivián C, Ferguson SJ, Richardson DJ, Roldán MD Bacterial nitrate assimilation: gene distribution and regulation. Biochemical Society transactions. 2011 Dec; 39(6):1838-43. doi:10.1042/BST20110688. PMID:22103536
Richardson DJ, Berks BC, Russell DA, Spiro S, Taylor CJ Functional, biochemical and genetic diversity of prokaryotic nitrate reductases. Cellular and molecular life sciences : CMLS. 2001 Feb; 58(2):165-78. . PMID:11289299
Original Publications
O'Reilly FJ, Graziadei A, Forbrig C, Bremenkamp R, Charles K, Lenz S, Elfmann C, Fischer L, Stülke J, Rappsilber JProtein complexes in cells by AI-assisted structural proteomics.Molecular systems biology. 2023 Feb 23; :e11544. PMID: 36815589
Jacob H, Geng H, Shetty D, Halow N, Kenney LJ, Nakano MMDistinct Interaction Mechanism of RNAP and ResD and Distal Subsites for Transcription Activation of Nitrite Reductase in Bacillus subtilisψ.Journal of bacteriology. 2021 Dec 13; :JB0043221. PMID: 34898263
Chumsakul O, Anantsri DP, Quirke T, Oshima T, Nakamura K, Ishikawa S, Nakano MM Genome-wide Identification of ResD, NsrR, and Fur Binding in Bacillus subtilis during Anaerobic Fermentative Growth by in vivo Footprinting. Journal of bacteriology. 2017 Apr 24; . pii:JB.00086-17. doi:10.1128/JB.00086-17. PMID:28439033
Mirouze N, Bidnenko E, Noirot P, Auger S Genome-wide mapping of TnrA-binding sites provides new insights into the TnrA regulon in Bacillus subtilis. MicrobiologyOpen. 2015 Jun; 4(3):423-35. doi:10.1002/mbo3.249. PMID:25755103
Henares B, Kommineni S, Chumsakul O, Ogasawara N, Ishikawa S, Nakano MM The ResD response regulator, through functional interaction with NsrR and fur, plays three distinct roles in Bacillus subtilis transcriptional control. Journal of bacteriology. 2014 Jan; 196(2):493-503. doi:10.1128/JB.01166-13. PMID:24214949
Kommineni S, Yukl E, Hayashi T, Delepine J, Geng H, Moënne-Loccoz P, Nakano MM Nitric oxide-sensitive and -insensitive interaction of Bacillus subtilis NsrR with a ResDE-controlled promoter. Molecular microbiology. 2010 Dec; 78(5):1280-93. doi:10.1111/j.1365-2958.2010.07407.x. PMID:21091510
Nishikawa K, Shomura Y, Kawasaki S, Niimura Y, Higuchi Y Crystal structure of NADH:rubredoxin oxidoreductase from Clostridium acetobutylicum: a key component of the dioxygen scavenging system in obligatory anaerobes. Proteins. 2010 Mar; 78(4):1066-70. doi:10.1002/prot.22650. PMID:20017214
Nakano MM, Geng H, Nakano S, Kobayashi K The nitric oxide-responsive regulator NsrR controls ResDE-dependent gene expression. Journal of bacteriology. 2006 Aug; 188(16):5878-87. . PMID:16885456
Yoshida K, Yamaguchi H, Kinehara M, Ohki YH, Nakaura Y, Fujita Y Identification of additional TnrA-regulated genes of Bacillus subtilis associated with a TnrA box. Molecular microbiology. 2003 Jul; 49(1):157-65. . PMID:12823818
Nakano MM, Zhu Y, Lacelle M, Zhang X, Hulett FM Interaction of ResD with regulatory regions of anaerobically induced genes in Bacillus subtilis. Molecular microbiology. 2000 Sep; 37(5):1198-207. . PMID:10972836
Nakano MM, Hoffmann T, Zhu Y, Jahn D Nitrogen and oxygen regulation of Bacillus subtilis nasDEF encoding NADH-dependent nitrite reductase by TnrA and ResDE. Journal of bacteriology. 1998 Oct; 180(20):5344-50. . PMID:9765565
Wray LV, Ferson AE, Rohrer K, Fisher SH TnrA, a transcription factor required for global nitrogen regulation in Bacillus subtilis. Proceedings of the National Academy of Sciences of the United States of America. 1996 Aug 20; 93(17):8841-5. . PMID:8799114
Ogawa K, Akagawa E, Yamane K, Sun ZW, LaCelle M, Zuber P, Nakano MM The nasB operon and nasA gene are required for nitrate/nitrite assimilation in Bacillus subtilis. Journal of bacteriology. 1995 Mar; 177(5):1409-13. . PMID:7868621

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Time of last update: 2025-06-11 16:41:07

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