gudB

gudB
168

glutamate dehydrogenase, trigger enzyme, the gene is cryptic in B. subtilis 168 due to a duplication of 9 bp

locus
BSU_22960
Molecular weight
47.05 kDa
pI
5.58
Protein length
Gene length
function
glutamate utilization, control of [protein|87BCAE725B02860156D50E1783F6DB68510C811E|gltC] activity
product
glutamate dehydrogenase, trigger enzyme
essential
no
ec
1.4.1.2
synonyms
gudB, ypcA

Genomic Context

Categories containing this gene/protein

List of homologs in different organisms, belongs to COG0334 (Galperin et al., 2021)

This gene is a member of the following regulons

Gene
Coordinates
2,402,067 → 2,403,350
Phenotypes of a mutant
the gene is cryptic. If [gene|C36C8C9EEDCAD392D9BEC9728A1E0CBFF2F4E790|gudB] is activated (gudB1 mutation), the bacteria are able to utilize glutamate as the only carbon source [pubmed|18326565]
a [gene|56CBEBCFEF5CFB4A0175498338C7AF2F45EAA3E3|rocG] [gene|C36C8C9EEDCAD392D9BEC9728A1E0CBFF2F4E790|gudB] mutant is sensitive to ß-lactam antibiotics such as cefuroxime and to fosfomycin due to the downregulation of the [wiki|SigW regulon] [Pubmed|22178969]
transcription profile of a [gene|56CBEBCFEF5CFB4A0175498338C7AF2F45EAA3E3|rocG] [gene|C36C8C9EEDCAD392D9BEC9728A1E0CBFF2F4E790|gudB] mutant strain: [http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE34383&submit.x=22&submit.y=9 GEO] [Pubmed|22178969]
decryptification of [gene|C36C8C9EEDCAD392D9BEC9728A1E0CBFF2F4E790|gudB] facilitates the adaptation a strain lacking c-di-AMP to growth on medium containing glutamate [pubmed|33481774]
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The protein
Catalyzed reaction/ biological activity
H2O + L-glutamate + NAD+ --> 2-oxoglutarate + H+ + NADH + NH4+ (according to UniProt)
Protein family
Glu/Leu/Phe/Val dehydrogenases family (with [protein|A52E50104B18D0A8518218C52D9CC36FDDB29AAF|bcd] and [protein|56CBEBCFEF5CFB4A0175498338C7AF2F45EAA3E3|rocG], according to UniProt)
[wiki|Cofactors]
NAD+/NADH + H+
Structure
[PDB|3K8Z] (enzymatically active GudB1) [Pubmed|20630473]
[PDB|7MFT] (the [protein|C36C8C9EEDCAD392D9BEC9728A1E0CBFF2F4E790|gudB]6-([protein|44DF1B7E476AD58B3CCC39300FFE0132D0D32AD0|gltA]-[protein|AA07CC52B2DD48ACC9D3375E9D531CB1ACBE485A|gltB])6 complex) [pubmed|34931064]
[AF|P50735]
Modification
phosphorylated on Arg-56, Arg-83, and Arg-421 and/or Arg-423 [Pubmed|22517742]
Effectors of protein activity
[protein|C36C8C9EEDCAD392D9BEC9728A1E0CBFF2F4E790|gudB] activity is inhibited by binding of [protein|44DF1B7E476AD58B3CCC39300FFE0132D0D32AD0|gltA]-[protein|AA07CC52B2DD48ACC9D3375E9D531CB1ACBE485A|gltB] at low glutamate concentrations to prevent a futile cycle of glutamate synthesis and degradation [pubmed|34931064]
Paralogous protein(s)
[protein|56CBEBCFEF5CFB4A0175498338C7AF2F45EAA3E3|rocG]
Expression and Regulation
Operons
genes
[gene|C36C8C9EEDCAD392D9BEC9728A1E0CBFF2F4E790|gudB]
description
[Pubmed|22178973]
regulation
constitutively expressed [Pubmed|22178973]
expression is reduced in motile cells as compared to non-motile cells [pubmed|33782055]
sigma factors
[protein|360F48D576DE950DF79C1A2677B7A35A8D8CC30C|sigA]: sigma factor, [PubMed|9829940], in [regulon|protein:360F48D576DE950DF79C1A2677B7A35A8D8CC30C|sigA regulon]
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[gene|C36C8C9EEDCAD392D9BEC9728A1E0CBFF2F4E790|gudB]

2024-01-23 21:08:51

Jstuelk

84

5EEC94A9C51B3592FE21BEA463CEB41CA19692D1

7F4947850BF574FD99A2544E8D38ADE261B2EAEB

Biological materials
Mutant with active GudB
GP2834 ([gene|C36C8C9EEDCAD392D9BEC9728A1E0CBFF2F4E790|gudB]+), available in [wiki|Jörg Stülke]'s lab
Mutant
GP691 (Δ[gene|C36C8C9EEDCAD392D9BEC9728A1E0CBFF2F4E790|gudB]::cat), available in [wiki|Jörg Stülke]'s lab
GP1160 (Δ[gene|C36C8C9EEDCAD392D9BEC9728A1E0CBFF2F4E790|gudB]::''aphA3''), available in [wiki|Jörg Stülke]'s lab [pubmed|22178973]
GP1161 (Δ[gene|C36C8C9EEDCAD392D9BEC9728A1E0CBFF2F4E790|gudB]::''aphA3'' Δ[gene|56CBEBCFEF5CFB4A0175498338C7AF2F45EAA3E3|rocG]::''Tn10 spc''), available in [wiki|Jörg Stülke]'s lab [pubmed|22178973]
MGNA-A397 (ypcA::erm), available at the [https://shigen.nig.ac.jp/bsub/resource/strainGeneDisrupted/detail/397 NBRP B. subtilis, Japan]
BKE22960 (Δ[gene|C36C8C9EEDCAD392D9BEC9728A1E0CBFF2F4E790|gudB]::erm  trpC2) available at [http://bgsc.org/getdetail.php?bgscid=BKE22960 BGSC],  [Pubmed|28189581], upstream reverse: _UP1_CATTTGAGTTAACCTCCTAG,  downstream forward: _UP4_TAAGTTGATGATTTGCATAA
BKK22960 (Δ[gene|C36C8C9EEDCAD392D9BEC9728A1E0CBFF2F4E790|gudB]::kan  trpC2) available at [http://bgsc.org/getdetail.php?bgscid=BKK22960 BGSC],  [Pubmed|28189581], upstream reverse: _UP1_CATTTGAGTTAACCTCCTAG,  downstream forward: _UP4_TAAGTTGATGATTTGCATAA
Expression vectors
for purification of GudB from ''E. coli'' carrying an N-terminal Strep-tag: pGP863 (in [wiki|pGP172]) available in [wiki|Jörg Stülke]'s lab
for purification of GudB1 from ''E. coli'' carrying an N-terminal Strep-tag: pGP864 (in [wiki|pGP172]) available in [wiki|Jörg Stülke]'s lab
for ectopic expression of ''gudB'' with its native promoter: pGP900 (in [protein|search|pAC5]), available in [wiki|Jörg Stülke]'s lab
wild type ''gudB'', expression in ''B. subtilis'', in [wiki|pBQ200]: pGP1712, available in [wiki|Jörg Stülke]'s lab
pBP179 (N-terminal Strep-tag ''gudB+'', purification from ''B. subtilis'', for [wiki|SPINE], in [wiki|pGP380]), available in [wiki|Fabian Commichau]'s lab
two-hybrid system
B. pertussis adenylate cyclase-based bacterial two hybrid system ([wiki|BACTH]), available in [wiki| Fabian Commichau]'s lab
FLAG-tag construct
GP1194 (''gudB'', ''spc'', based on [wiki|pGP1331]), GP1195 (''gudB1'', ''spc'', based on [wiki|pGP1331]),  available in [wiki|Jörg Stülke]'s lab
lacZ fusion
pGP651 (in [wiki|pAC5]), available in [wiki|Jörg Stülke]'s lab [pubmed|22178973]
Antibody
antibody against [protein|56CBEBCFEF5CFB4A0175498338C7AF2F45EAA3E3|rocG] recognizes GudB, available in [wiki|Jörg Stülke]'s lab
labs
[wiki|Linc Sonenshein], Tufts University, Boston, MA, USA [http://www.tufts.edu/sackler/microbiology/faculty/sonenshein/index.html Homepage]
[wiki|Fabian Commichau], Senftenberg, Germany [http://www.uni-goettingen.de/de/413008.html homepage]
References
Reviews
19698086,8299344,7705101,19895831,22625175,28615289,34931063,35132259
Original Publications
18603778,9829940,17183217,18723616,18326565,20630473,17981983,21219666,22178973,22517742,23338837,22178969,23785476,24263382,24473333,25610436,25711804,28468957,28516784,30936490,31649652,33481774,33782055,34931064,36815589

C36C8C9EEDCAD392D9BEC9728A1E0CBFF2F4E790

Page visits: 6824

Time of last update: 2024-03-28 13:11:25

Author of last update: Jstuelk