Difference between revisions of "YcdA"
(→Extended information on the protein) |
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| Line 37: | Line 37: | ||
= This gene is a member of the following [[regulons]] = | = This gene is a member of the following [[regulons]] = | ||
{{SubtiWiki regulon|[[Abh regulon]]}}, | {{SubtiWiki regulon|[[Abh regulon]]}}, | ||
| − | {{SubtiWiki regulon|[[AbrB regulon]]}} | + | {{SubtiWiki regulon|[[AbrB regulon]]}}, |
| + | {{SubtiWiki regulon|[[DegU regulon]]}} | ||
=The gene= | =The gene= | ||
| Line 46: | Line 47: | ||
===Phenotypes of a mutant === | ===Phenotypes of a mutant === | ||
| + | * reduced swarming motility {{PubMed|22496484}} | ||
=== Database entries === | === Database entries === | ||
| Line 78: | Line 80: | ||
* '''[[SubtInteract|Interactions]]:''' | * '''[[SubtInteract|Interactions]]:''' | ||
| + | ** [[SwrA]]-[[DegU]] (N-terminal domain) {{PubMed|22496484}} | ||
| − | * '''[[Localization]]:''' membrane associated [http://www.ncbi.nlm.nih.gov/pubmed/18763711 PubMed] | + | * '''[[Localization]]:''' |
| + | ** lipoprotein {{PubMed|22496484}} | ||
| + | ** membrane associated [http://www.ncbi.nlm.nih.gov/pubmed/18763711 PubMed] | ||
=== Database entries === | === Database entries === | ||
| Line 95: | Line 100: | ||
=Expression and regulation= | =Expression and regulation= | ||
| − | * '''Operon:''' ''ycdA'' | + | * '''Operon:''' ''ycdA'' {{PubMed|22496484}} |
* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=ycdA_299438_300502_-1 ycdA] {{PubMed|22383849}} | * '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=ycdA_299438_300502_-1 ycdA] {{PubMed|22383849}} | ||
| Line 105: | Line 110: | ||
* '''Regulatory mechanism:''' | * '''Regulatory mechanism:''' | ||
** [[Abh]] and [[AbrB]]: synergistic transcription repression {{PubMed|20817675}} | ** [[Abh]] and [[AbrB]]: synergistic transcription repression {{PubMed|20817675}} | ||
| + | ** [[DegU]]-P: transcription activation {{PubMed|22496484}} | ||
| + | ** [[SwrA]]: modulation of [[DegU]]-P activity at the ''ycdA'' promoter {{PubMed|22496484}} | ||
* '''Additional information:''' | * '''Additional information:''' | ||
| Line 129: | Line 136: | ||
=References= | =References= | ||
'''Additional publications:''' {{PubMed|20817675}} | '''Additional publications:''' {{PubMed|20817675}} | ||
| − | <pubmed>18763711, 20525796 </pubmed> | + | <pubmed>18763711, 20525796 22496484</pubmed> |
[[Category:Protein-coding genes]] | [[Category:Protein-coding genes]] | ||
Revision as of 14:37, 13 April 2012
- Description: lipoprotein, required for swarming motility
| Gene name | ycdA |
| Synonyms | |
| Essential | no |
| Product | lipoprotein |
| Function | swarming motility |
| MW, pI | 39 kDa, 4.706 |
| Gene length, protein length | 1062 bp, 354 aa |
| Immediate neighbours | yccK, ycdB |
| Get the DNA and protein sequences (Barbe et al., 2009) | |
Genetic context 
This image was kindly provided by SubtiList
| |
Contents
Categories containing this gene/protein
membrane proteins, motility and chemotaxis
This gene is a member of the following regulons
Abh regulon, AbrB regulon, DegU regulon
The gene
Basic information
- Locus tag: BSU02780
Phenotypes of a mutant
- reduced swarming motility PubMed
Database entries
- DBTBS entry: [1]
- SubtiList entry: [2]
Additional information
The protein
Basic information/ Evolution
- Catalyzed reaction/ biological activity:
- Protein family:
- Paralogous protein(s):
Extended information on the protein
- Kinetic information:
- Domains:
- Modification:
- Cofactor(s):
- Effectors of protein activity:
Database entries
- Structure:
- UniProt: O34538
- KEGG entry: [3]
- E.C. number:
Additional information
Expression and regulation
- Operon: ycdA PubMed
- Sigma factor:
- Regulation:
- Regulatory mechanism:
- Additional information:
- The mRNA has a long 5' leader region. This may indicate RNA-based regulation PubMed
Biological materials
- Mutant:
- Expression vector:
- lacZ fusion:
- GFP fusion:
- two-hybrid system:
- Antibody:
Labs working on this gene/protein
Your additional remarks
References
Additional publications: PubMed
Mitsuo Ogura, Kensuke Tsukahara
SwrA regulates assembly of Bacillus subtilis DegU via its interaction with N-terminal domain of DegU.
J Biochem: 2012, 151(6);643-55
[PubMed:22496484]
[WorldCat.org]
[DOI]
(I p)
Irnov Irnov, Cynthia M Sharma, Jörg Vogel, Wade C Winkler
Identification of regulatory RNAs in Bacillus subtilis.
Nucleic Acids Res: 2010, 38(19);6637-51
[PubMed:20525796]
[WorldCat.org]
[DOI]
(I p)
Hannes Hahne, Susanne Wolff, Michael Hecker, Dörte Becher
From complementarity to comprehensiveness--targeting the membrane proteome of growing Bacillus subtilis by divergent approaches.
Proteomics: 2008, 8(19);4123-36
[PubMed:18763711]
[WorldCat.org]
[DOI]
(I p)
