Difference between revisions of "DapI"
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|style="background:#ABCDEF;" align="center"|'''Function''' || biosynthesis of lysine and peptidoglycan | |style="background:#ABCDEF;" align="center"|'''Function''' || biosynthesis of lysine and peptidoglycan | ||
|- | |- | ||
− | |colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: <br/>[http://subtiwiki.uni-goettingen.de/ | + | |colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://subtiwiki.uni-goettingen.de/apps/expression/ ''Subti''Express]''': [http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU14190 dapI] |
+ | |- | ||
+ | |colspan="2" style="background:#FAF8CC;" align="center"| '''Interactions involving this protein in [http://subtiwiki.uni-goettingen.de/interact/ ''Subt''Interact]''': [http://subtiwiki.uni-goettingen.de/interact/index.php?protein=DapI DapI] | ||
+ | |- | ||
+ | |colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: <br/>[http://subtiwiki.uni-goettingen.de/subtipathways/search.php?enzyme=DapI DapI]''' | ||
|- | |- | ||
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 41 kDa, 5.102 | |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 41 kDa, 5.102 | ||
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|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ykuQ]]'', ''[[ykuS]]'' | |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ykuQ]]'', ''[[ykuS]]'' | ||
|- | |- | ||
− | | | + | |style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU14190 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU14190 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU14190 DNA_with_flanks] |
|- | |- | ||
|colspan="2" | '''Genetic context''' <br/> [[Image:ykuR_context.gif]] | |colspan="2" | '''Genetic context''' <br/> [[Image:ykuR_context.gif]] | ||
<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div> | <div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div> | ||
+ | |- | ||
+ | |colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=dapL_1489753_1490877_1 Expression at a glance]'''   {{PubMed|22383849}}<br/>[[Image:ykuR_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU14190]] | ||
|- | |- | ||
|} | |} | ||
__TOC__ | __TOC__ | ||
− | + | <br/><br/><br/><br/> | |
− | <br/><br/><br/><br/><br/><br/> | + | <br/><br/><br/><br/> |
+ | <br/><br/><br/><br/> | ||
+ | <br/><br/> | ||
= [[Categories]] containing this gene/protein = | = [[Categories]] containing this gene/protein = | ||
+ | {{SubtiWiki category|[[cell wall synthesis]]}}, | ||
+ | {{SubtiWiki category|[[biosynthesis of cell wall components]]}}, | ||
{{SubtiWiki category|[[biosynthesis/ acquisition of amino acids]]}}, | {{SubtiWiki category|[[biosynthesis/ acquisition of amino acids]]}}, | ||
{{SubtiWiki category|[[essential genes]]}} | {{SubtiWiki category|[[essential genes]]}} | ||
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===Phenotypes of a mutant === | ===Phenotypes of a mutant === | ||
− | + | * essential {{PubMed|24261876,12682299}} | |
− | essential | + | * depletion of DapI results in swelling and rounding up of cells prior to lysis {{PubMed|24261876}} |
=== Database entries === | === Database entries === | ||
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=== Additional information=== | === Additional information=== | ||
− | |||
− | |||
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=== Basic information/ Evolution === | === Basic information/ Evolution === | ||
− | * '''Catalyzed reaction/ biological activity:''' N-acetyl-LL-2,6- | + | * '''Catalyzed reaction/ biological activity:''' N-acetyl-LL-2,6-diaminopimelate + H<sub>2</sub>O --> acetate + LL-2,6-diaminopimelate {{PubMed|24261876}} |
* '''Protein family:''' peptidase M20A family (according to Swiss-Prot) | * '''Protein family:''' peptidase M20A family (according to Swiss-Prot) | ||
− | * '''Paralogous protein(s):''' | + | * '''Paralogous protein(s):''' [[SndA]], [[SndB]], [[SndC]] |
=== Extended information on the protein === | === Extended information on the protein === | ||
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* '''Kinetic information:''' | * '''Kinetic information:''' | ||
− | * '''Domains:''' | + | * '''[[Domains]]:''' |
* '''Modification:''' | * '''Modification:''' | ||
− | * ''' | + | * '''[[Cofactors]]:''' |
* '''Effectors of protein activity:''' | * '''Effectors of protein activity:''' | ||
− | * '''Interactions:''' | + | * '''[[SubtInteract|Interactions]]:''' |
+ | ** forms dimers {{PubMed|24261876}} | ||
+ | ** [[DapI]]-[[MreB]] {{PubMed|24261876}} | ||
− | * '''Localization:''' | + | * '''[[Localization]]:''' |
+ | ** forms uniformly distributed foci in the cytoplasm {{PubMed|24261876}} | ||
=== Database entries === | === Database entries === | ||
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* '''Operon:''' | * '''Operon:''' | ||
+ | |||
+ | * '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=dapL_1489753_1490877_1 dapI] {{PubMed|22383849}} | ||
* '''[[Sigma factor]]:''' | * '''[[Sigma factor]]:''' | ||
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* '''Regulatory mechanism:''' | * '''Regulatory mechanism:''' | ||
− | * '''Additional information:''' | + | * '''Additional information:''' |
− | + | ** number of protein molecules per cell (minimal medium with glucose and ammonium): 274 {{PubMed|24696501}} | |
+ | ** number of protein molecules per cell (complex medium with amino acids, without glucose): 637 {{PubMed|24696501}} | ||
=Biological materials = | =Biological materials = | ||
Line 131: | Line 145: | ||
=References= | =References= | ||
− | + | <pubmed>24261876 </pubmed> | |
[[Category:Protein-coding genes]] | [[Category:Protein-coding genes]] |
Latest revision as of 11:25, 17 April 2014
- Description: N-acetyl-diaminopimelate deacetylase
Gene name | ykuR |
Synonyms | dapL |
Essential | yes PubMed |
Product | N-acetyl-diaminopimelate deacetylase |
Function | biosynthesis of lysine and peptidoglycan |
Gene expression levels in SubtiExpress: dapI | |
Interactions involving this protein in SubtInteract: DapI | |
Metabolic function and regulation of this protein in SubtiPathways: DapI | |
MW, pI | 41 kDa, 5.102 |
Gene length, protein length | 1122 bp, 374 aa |
Immediate neighbours | ykuQ, ykuS |
Sequences | Protein DNA DNA_with_flanks |
Genetic context This image was kindly provided by SubtiList
| |
Expression at a glance PubMed |
Contents
Categories containing this gene/protein
cell wall synthesis, biosynthesis of cell wall components, biosynthesis/ acquisition of amino acids, essential genes
This gene is a member of the following regulons
The gene
Basic information
- Locus tag: BSU14190
Phenotypes of a mutant
- essential PubMed
- depletion of DapI results in swelling and rounding up of cells prior to lysis PubMed
Database entries
- DBTBS entry: no entry
- SubtiList entry: [1]
Additional information
The protein
Basic information/ Evolution
- Catalyzed reaction/ biological activity: N-acetyl-LL-2,6-diaminopimelate + H2O --> acetate + LL-2,6-diaminopimelate PubMed
- Protein family: peptidase M20A family (according to Swiss-Prot)
Extended information on the protein
- Kinetic information:
- Modification:
- Effectors of protein activity:
- Localization:
- forms uniformly distributed foci in the cytoplasm PubMed
Database entries
- Structure:
- UniProt: O34916
- KEGG entry: [2]
- E.C. number: 3.5.1.47
Additional information
Expression and regulation
- Operon:
- Regulation:
- Regulatory mechanism:
- Additional information:
Biological materials
- Mutant:
- Expression vector:
- lacZ fusion:
- GFP fusion:
- two-hybrid system:
- Antibody:
Labs working on this gene/protein
Your additional remarks
References
Anne-Stéphanie Rueff, Arnaud Chastanet, Julia Domínguez-Escobar, Zhizhong Yao, James Yates, Maria-Victoria Prejean, Olivier Delumeau, Philippe Noirot, Roland Wedlich-Söldner, Sergio R Filipe, Rut Carballido-López
An early cytoplasmic step of peptidoglycan synthesis is associated to MreB in Bacillus subtilis.
Mol Microbiol: 2014, 91(2);348-62
[PubMed:24261876]
[WorldCat.org]
[DOI]
(I p)