ymdB

ymdB
168

phosphodiesterase, controls bistable gene expression, required for nanotube formation

Locus
BSU_16970
Molecular weight
29.14 kDa
Isoelectric point
6.5
Protein length
Gene length
Function
control of bistable gene expression
Product
phosphodiesterase
Essential
no
Synonyms
ymdB

Genomic Context

Categories containing this gene/protein

List of homologs in different organisms, belongs to COG1692 (Galperin et al., 2021)

This gene is a member of the following regulons

Gene
Coordinates
1,768,941  1,769,735
Phenotypes of a mutant
strong overexpression of ''hag'' PubMed
selective pressure for the inactivation of the sinR gene to allow biofilm formation PubMed
the phenotypes of the ymdB mutant can be suppressed by overexpression of ''slrR'' PubMed
inactivation of ''ymdB restores beta-lactam resistance in a sigM'' mutant PubMed
increased expression of genes encoding small acid-soluble proteins PubMed
increased intracellular levels of cyclic AMP PubMed
abberant colony development, reduced colony size PubMed
reduced formation of nanotubes PubMed
inactivation of ''ymdB'' reduces sporulation efficiency to 11.4% that of wild type cells PubMed
The protein
Catalyzed reaction/ biological activity
phosphodiesterase activity toward 2',3'-cAMP PubMed
nucleoside 2',3'-cyclic phosphate + H2O --> nucleoside 3'-phosphate + H+ (according to UniProt)
Structure
Expression and Regulation
Operons
Genes
Description
Regulation
constitutive
Additional information
the transcription terminator between ''rny and ymdB'' is strong and NusA-independent Reference
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rnyymdB

2024-11-19 16:55:30

ghost

115

accb38d25050d34785a253e96766189dff0b632b

72F7B633B228E9BCE59B918A835E5A1613D2F9D4

Biological materials
Mutant
MGNA-B070 (ymdB::erm), available at the NBRP B. subtilis, Japan
GP583 (ymdB::spc), available in Jörg Stülke's lab PubMed
GP922 (ymdB::cat), available in Jörg Stülke's lab PubMed
GP921 (ymdB::spc) NCIB3610 derivative, available in Jörg Stülke's lab PubMed
GP969 (''ymdB''(E39Q)-cat) inactive enzyme, available in Jörg Stülke's lab PubMed
GP1558 (ymdB::aphA3; cassette w/o terminator), available in Jörg Stülke's lab
GP1573 (ymdB::aphA3), available in Jörg Stülke's lab
GP1848 (ymdB-spoVS::spc cassette), available in Jörg Stülke's lab
BKE16970 (ymdB::erm  trpC2) available at BGSCPubMed, upstream reverse: _UP1_CATTTTGTAAATCCTTTCTT,  downstream forward: _UP4_TAGTTGAACATATGGTTATT
BKK16970 (ymdB::kan  trpC2) available at BGSCPubMed, upstream reverse: _UP1_CATTTTGTAAATCCTTTCTT,  downstream forward: _UP4_TAGTTGAACATATGGTTATT
Expression vectors
for expression/ purification from B. subtilis, in pBQ200: pGP1039, available in Jörg Stülke's lab
for expression/ purification from B. subtilis with N-terminal Strep-tag, for SPINE, in pGP380: pGP1041, available in Jörg Stülke's lab
for expression/ purification from B. subtilis with C-terminal Strep-tag, for SPINE, in pGP382: pGP1919, available in Jörg Stülke's lab
for expression/ purification from E. coli with N-terminal His-tag, in pWH844: pGP1040, available in Jörg Stülke's lab
for expression/ purification from E. coli with N-terminal Strep-tag, in pGP172: pGP1917, available in Jörg Stülke's lab PubMed
GP970 (''ymdB-Strep (cat)), purification from B. subtilis'', for SPINE, available in Jörg Stülke's lab
Two-hybrid system
B. pertussis adenylate cyclase-based bacterial two hybrid system (BACTH), available in Jörg Stülke's lab
FLAG-tag construct
GP1018 (spc, based on pGP1331), available in Jörg Stülke's lab
Labs working on this gene/protein
Jörg Stülke, University of Göttingen, Germany Homepage
References
Reviews
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Original Publications
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Functional and structural analysis of orthologs in other organisms
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154862E3FFA7CEBA5725BAD08E09D0E1C6B7F946

Page visits: 8496

Time of last update: 2024-12-04 18:10:05

Author of last update: Jstuelk