ygaP:Gene Product(s): Difference between revisions

From EcoliWiki
Jump to navigation Jump to search
← Older editNewer edit →
touch the Product_localization_table table.
Update TableEdit tables.
Line 35: Line 35:
*  
*  
****************************************************************************************** -->{{Product_nomenclature_help}}
****************************************************************************************** -->{{Product_nomenclature_help}}
{|border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  
{| id="U46aab5a5d072c" class=" tableEdit Product_nomenclature_table"


|-
|-
!align=left {{table heading style}} |Standard name
!align=left |Standard name
||
||
YgaP  
YgaP  
|-
|-
!align=left {{table heading style}} |Synonyms
!align=left |Synonyms
||
||
predicted inner membrane protein with hydrolase activity<ref name='LIB:Riley_2006'/>, B2668<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, YgaP<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>  
predicted inner membrane protein with hydrolase activity<ref name='LIB:Riley_2006'/>, B2668<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, YgaP<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>  
|-
|-
!align=left {{table heading style}} |Product description
!align=left |Product description
||
||
predicted inner membrane protein with hydrolase activity<ref name='LIB:EcoCyc10.6'/><ref name='LIB:EcoCyc11.1'/>
predicted inner membrane protein with hydrolase activity<ref name='LIB:EcoCyc10.6'/><ref name='LIB:EcoCyc11.1'/>
Line 52: Line 52:
Function unknown, rhodanese activity in vitro; tributyltin-inducible via YgaU<ref name='LIB:EcoGene'/>
Function unknown, rhodanese activity in vitro; tributyltin-inducible via YgaU<ref name='LIB:EcoGene'/>
|-
|-
!align=left {{table heading style}} |EC number (for enzymes)
!align=left |EC number (for enzymes)
||
||




|-class='sortbottom'
|- class="tableEdit_footer"
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.25634.U46aab5a5d072c&page=25634&pagename={{FULLPAGENAMEE}}&type=1&template=Product_nomenclature_table edit table] ||
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.25634.U46aab5a5d072c&page=25634&pagename={{FULLPAGENAMEE}}&type=1&template=Product_nomenclature_table edit table]</span> ||
|}
|}
<!--box uid=421aa90e079fa326b6494f812ad13e79.25634.U46aab5a5d072c-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.25634.U46aab5a5d072c-->
Line 75: Line 75:
*  
*  
****************************************************************************************** -->{{Product_GO_help}}
****************************************************************************************** -->{{Product_GO_help}}
{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"   
{|   id="I46aab5a6dc6c0" class=" tableEdit GO_table_product dataTable"   
|- {{table_heading_style}}
|-
!|Qualifier!!GO ID!!GO term name!!Reference(s)!!Evidence Code!!with/from!!Aspect!!Notes!!Status
!|Qualifier!!GO ID!!GO term name!!Reference(s)!!Evidence Code!!with/from!!Aspect!!Notes!!Status
|-  
|-  
Line 136: Line 136:
complete  
complete  


|-class='sortbottom'
|- class="tableEdit_footer"
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.25634.I46aab5a6dc6c0&page=25634&pagename={{FULLPAGENAMEE}}&type=&template=GO_table_product edit table] || || || || || || || ||
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.25634.I46aab5a6dc6c0&page=25634&pagename={{FULLPAGENAMEE}}&type=&template=GO_table_product edit table]</span> || || || || || || || ||
|}
|}
<!--box uid=421aa90e079fa326b6494f812ad13e79.25634.I46aab5a6dc6c0-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.25634.I46aab5a6dc6c0-->
Line 149: Line 149:
*  
*  
****************************************************************************************** -->{{Product_interactions_help}}
****************************************************************************************** -->{{Product_interactions_help}}
{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"   
{|   id="A46aab5a76d461" class=" tableEdit Product_interactions_table"   
|- {{table heading style}}
|-
!|Partner Type!!Partner!!Notes!!References!!Evidence
!|Partner Type!!Partner!!Notes!!References!!Evidence
|-  
|-  
Line 197: Line 197:
Experiment(s):EBI-1143617<br />  
Experiment(s):EBI-1143617<br />  


|-class='sortbottom'
|- class="tableEdit_footer"
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.25634.A46aab5a76d461&page=25634&pagename={{FULLPAGENAMEE}}&type=&template=Product_interactions_table edit table] || || || ||
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.25634.A46aab5a76d461&page=25634&pagename={{FULLPAGENAMEE}}&type=&template=Product_interactions_table edit table]</span> || || || ||
|}
|}
<!--box uid=421aa90e079fa326b6494f812ad13e79.25634.A46aab5a76d461-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.25634.A46aab5a76d461-->
Line 214: Line 214:
*  
*  
****************************************************************************************** -->{{Product_localization_help}}
****************************************************************************************** -->{{Product_localization_help}}
{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"   
{|   id="Z46a84d2392ae6" class=" tableEdit Product_localization_table"   
|- {{table heading style}}
|-
!|Compartment!!Description!!Evidence!!Source!!Notes
!|Compartment!!Description!!Evidence!!Source!!Notes
|-  
|-  
Line 229: Line 229:
   
   


|-class='sortbottom'
|- class="tableEdit_footer"
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.25634.Z46a84d2392ae6&page=25634&pagename={{FULLPAGENAMEE}}&type=&template=Product_localization_table edit table] || || || ||
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.25634.Z46a84d2392ae6&page=25634&pagename={{FULLPAGENAMEE}}&type=&template=Product_localization_table edit table]</span> || || || ||
|}
|}
<!--box uid=421aa90e079fa326b6494f812ad13e79.25634.Z46a84d2392ae6-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.25634.Z46a84d2392ae6-->
Line 250: Line 250:
*  
*  
****************************************************************************************** -->{{Product_physical_properties_help}}
****************************************************************************************** -->{{Product_physical_properties_help}}
{|border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  
{| id="G46aab5a9561d2" class=" tableEdit Product_phys_prop_table"


|-
|-
!align=left {{table heading style}} |Sequence
!align=left |Sequence
||
||
[http://biocyc.org/ECOLI/sequence-aa?object=G7398-MONOMER at EcoCyc]  
[http://biocyc.org/ECOLI/sequence-aa?object=G7398-MONOMER at EcoCyc]  
Line 260: Line 260:
AGGLILIGVV LGYTVNSGFF LLSGFVGAGL LFAGISGFCG MARLLDKMPW NQRA</pre>  
AGGLILIGVV LGYTVNSGFF LLSGFVGAGL LFAGISGFCG MARLLDKMPW NQRA</pre>  
|-
|-
!align=left {{table heading style}} |Length
!align=left |Length
||
||
174
174
|-
|-
!align=left {{table heading style}} |Mol. Wt
!align=left |Mol. Wt
||
||
18.639 kDa
18.639 kDa
|-
|-
!align=left {{table heading style}} |pI
!align=left |pI
||
||
6.9 (calculated)
6.9 (calculated)
|-
|-
!align=left {{table heading style}} |Extinction coefficient
!align=left |Extinction coefficient
||
||
13,980 - 14,230 (calc based on 2 Y, 2 W, and 2 C residues)
13,980 - 14,230 (calc based on 2 Y, 2 W, and 2 C residues)


|-class='sortbottom'
|- class="tableEdit_footer"
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.25634.G46aab5a9561d2&page=25634&pagename={{FULLPAGENAMEE}}&type=1&template=Product_phys_prop_table edit table] ||
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.25634.G46aab5a9561d2&page=25634&pagename={{FULLPAGENAMEE}}&type=1&template=Product_phys_prop_table edit table]</span> ||
|}
|}
<!--box uid=421aa90e079fa326b6494f812ad13e79.25634.G46aab5a9561d2-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.25634.G46aab5a9561d2-->
Line 294: Line 294:
*  
*  
****************************************************************************************** -->{{Product_domains_motifs_help}}
****************************************************************************************** -->{{Product_domains_motifs_help}}
{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"   
{|   id="G46aab5a9c5382" class=" tableEdit Product_motif_table"   
|- {{table heading style}}
|-
!|Type!!Residues!!Description!!Notes
!|Type!!Residues!!Description!!Notes


|-class='sortbottom'
|- class="tableEdit_footer"
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.25634.G46aab5a9c5382&page=25634&pagename={{FULLPAGENAMEE}}&type=&template=Product_motif_table edit table] || || ||
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.25634.G46aab5a9c5382&page=25634&pagename={{FULLPAGENAMEE}}&type=&template=Product_motif_table edit table]</span> || || ||
|}
|}
<!--box uid=421aa90e079fa326b6494f812ad13e79.25634.G46aab5a9c5382-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.25634.G46aab5a9c5382-->
Line 322: Line 322:
*  
*  
****************************************************************************************** -->{{Product_structure_help}}
****************************************************************************************** -->{{Product_structure_help}}
{|border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  
{| id="I46a84d253612e" class=" tableEdit Product_structure_table"


|-
|-
!align=left {{table heading style}} |Structures
!align=left |Structures
||
||
<beststructure>
<beststructure>
Line 332: Line 332:
</beststructure>
</beststructure>
|-
|-
!align=left {{table heading style}} |Models
!align=left |Models
||
||
View models at:
View models at:
Line 341: Line 341:
* [http://spock.genes.nig.ac.jp/~genome/search.html Genomes TO Protein] (GTOP)
* [http://spock.genes.nig.ac.jp/~genome/search.html Genomes TO Protein] (GTOP)


|-class='sortbottom'
|- class="tableEdit_footer"
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.25634.I46a84d253612e&page=25634&pagename={{FULLPAGENAMEE}}&type=1&template=Product_structure_table edit table] ||
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.25634.I46a84d253612e&page=25634&pagename={{FULLPAGENAMEE}}&type=1&template=Product_structure_table edit table]</span> ||
|}
|}
<!--box uid=421aa90e079fa326b6494f812ad13e79.25634.I46a84d253612e-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.25634.I46a84d253612e-->
Line 380: Line 380:
*  
*  
****************************************************************************************** -->{{Product_resources_help}}
****************************************************************************************** -->{{Product_resources_help}}
{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"   
{|   id="N46aab5aa8e983" class=" tableEdit Product_resource_table"   
|- {{table_heading_style}}
|-
!|Resource type!!Source!!Notes/Reference
!|Resource type!!Source!!Notes/Reference


|-class='sortbottom'
|- class="tableEdit_footer"
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.25634.N46aab5aa8e983&page=25634&pagename={{FULLPAGENAMEE}}&type=&template=Product_resource_table edit table] || ||
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.25634.N46aab5aa8e983&page=25634&pagename={{FULLPAGENAMEE}}&type=&template=Product_resource_table edit table]</span> || ||
|}
|}
<!--box uid=421aa90e079fa326b6494f812ad13e79.25634.N46aab5aa8e983-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.25634.N46aab5aa8e983-->
Line 402: Line 402:
*  
*  
****************************************************************************************** -->{{Gene_accessions_help}}
****************************************************************************************** -->{{Gene_accessions_help}}
{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"   
{|   id="X46aab5aaecf0a" class=" tableEdit Gene_accessions_table"   
|- {{table_heading_style}}
|-
!|Database!!Accession!!Notes
!|Database!!Accession!!Notes
|-  
|-  
Line 427: Line 427:
   
   


|-class='sortbottom'
|- class="tableEdit_footer"
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.25634.X46aab5aaecf0a&page=25634&pagename={{FULLPAGENAMEE}}&type=0&template=Gene_accessions_table edit table] || ||
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.25634.X46aab5aaecf0a&page=25634&pagename={{FULLPAGENAMEE}}&type=0&template=Gene_accessions_table edit table]</span> || ||
|}
|}
<!--box uid=421aa90e079fa326b6494f812ad13e79.25634.X46aab5aaecf0a-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.25634.X46aab5aaecf0a-->
Line 445: Line 445:
*  
*  
****************************************************************************************** -->
****************************************************************************************** -->
{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"   
{|   id="N46a84d27e4deb" class=" tableEdit Links_table"   
|- {{table_heading_style}}
|-
!|Name!!URL!!Comments
!|Name!!URL!!Comments


|-class='sortbottom'
|- class="tableEdit_footer"
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.25634.N46a84d27e4deb&page=25634&pagename={{FULLPAGENAMEE}}&type=0&template=Links_table edit table] || ||
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.25634.N46a84d27e4deb&page=25634&pagename={{FULLPAGENAMEE}}&type=0&template=Links_table edit table]</span> || ||
|}
|}
<!--box uid=421aa90e079fa326b6494f812ad13e79.25634.N46a84d27e4deb-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.25634.N46a84d27e4deb-->

Revision as of 02:12, 10 January 2010

{{#css:Suppresslinks.css}}<css>h1 .editsection { display:none;} h2 .editsection { display:none;}</css>

Quickview   Gene   Gene Product(s)   Expression   Evolution   On One Page    
Nomenclature Function Interactions Localization Sequence Domains Structure Resources Accessions Links References Suggestions

Nomenclature

See Help:Product_nomenclature for help entering or editing information in this section of EcoliWiki.

Standard name

YgaP

Synonyms

predicted inner membrane protein with hydrolase activity[1], B2668[2][1], YgaP[2][1]

Product description

predicted inner membrane protein with hydrolase activity[2][3]

Function unknown, rhodanese activity in vitro; tributyltin-inducible via YgaU[4]

EC number (for enzymes)


edit table


Notes

Function

[back to top]


Gene Ontology
See Help:Gene_ontology for help entering or editing GO terms and GO annotations in EcoliWiki.

Qualifier GO ID GO term name Reference(s) Evidence Code with/from Aspect Notes Status
GO:0016021

integral to membrane

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0812

C

Seeded from EcoCyc [5]

complete

GO:0016020

membrane

GO_REF:0000004
GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0397
SP_KW:KW-0472

C

Seeded from EcoCyc 12.5 [6]

complete

GO:0005886

plasma membrane

GO_REF:0000004
GO_REF:0000004
GO_REF:0000023

IEA: Inferred from Electronic Annotation

SP_KW:KW-0997
SP_KW:KW-1003
SP_SL:SL-0037

C

Seeded from EcoCyc [5]

complete

edit table

Interactions See Help:Product_interactions for help entering or editing information about gene product interactions in this section of EcoliWiki.

Partner Type Partner Notes References Evidence

Protein

rpsI

PMID:16606699[7]

Experiment(s):EBI-1143617

Protein

groL

PMID:16606699[7]

Experiment(s):EBI-1143617

Protein

yaaI

PMID:16606699[7]

Experiment(s):EBI-1143617

Protein

rplB

PMID:16606699[7]

Experiment(s):EBI-1143617
edit table


Notes

Localization

See Help:Product_localization for how to add or edit information in this section of EcoliWiki.

Compartment Description Evidence Source Notes

plasma membrane

C-terminus localized in the cytoplasm with 2 predicted transmembrane domains

Daley et al. (2005) [8]


edit table


Notes

Structure and Physical Properties

[back to top]


Physical Properties See Help:Product_physical_properties for help entering or editing information about the physical properties of this gene product.

Sequence

at EcoCyc 

MALTTISPHD AQELIARGAK LIDIRDADEY LREHIPEADL APLSVLEQSG LPAKLRHEQI
IFHCQAGKRT SNNADKLAAI AAPAEIFLLE DGIDGWKKAG LPVAVNKSQP LPLMRQVQIA
AGGLILIGVV LGYTVNSGFF LLSGFVGAGL LFAGISGFCG MARLLDKMPW NQRA
Length

174

Mol. Wt

18.639 kDa

pI

6.9 (calculated)

Extinction coefficient

13,980 - 14,230 (calc based on 2 Y, 2 W, and 2 C residues)

edit table


Domains/Motifs/Modification Sites

See Help:Product_domains_motifs for help entering or editing information in this section of EcoliWiki.

Type Residues Description Notes
edit table

<motif_map/>

tmhmm.php?gene=ygaP&show=pic&.jpg
Click the image to view raw output from TMHMM.

Structure
See Help:Product_structure for help entering or editing information in this section of EcoliWiki.

Structures

<beststructure> gene=ygaP taxon=562,83333 </beststructure>

Models

View models at:

edit table

Structure figures

Notes

Gene Product Resources

[back to top]


See Help:Product_resources for help with entering or editing information in this section of EcoliWiki.

Resource type Source Notes/Reference
edit table


Notes

Accessions in Other Databases

[back to top]


See Help:Gene_accessions for help with entering information into the Gene Accessions table.

Database Accession Notes

EcoCyc (EcoliWiki Page)

EcoCyc:G7398-MONOMER

UniProt (EcoliWiki Page)

UniProt:P55734

RefSeq (EcoliWiki Page)

RefSeq:NP_417154


edit table


Notes

Links

[back to top]




References

[back to top]


See Help:References for how to manage references in EcoliWiki.

  1. ↑ 1.0 1.1 1.2 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
  2. ↑ 2.0 2.1 2.2 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  3. ↑ EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  4. ↑ EcoGene: Rudd, KE (2000) EcoGene: a genome sequence database for Escherichia coli K-12. Nucleic Acids Res 28:60-4.
  5. ↑ 5.0 5.1 EcoCyc (release 13.0; 2009) Keseler, IM et al. (2009) Nucleic Acids Res. 37(Database issue):D464-70
  6. ↑ EcoCyc (release 12.5; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  7. ↑ 7.0 7.1 7.2 7.3 Arifuzzaman, M et al. (2006) Large-scale identification of protein-protein interaction of Escherichia coli K-12. Genome Res. 16 686-91 PubMed
  8. ↑ Daley, DO et al. (2005) Global topology analysis of the Escherichia coli inner membrane proteome. Science 308 1321-3 PubMed

Categories

[back to top]


Retrieved from "https://ecoliwiki.org/colipedia/index.php?title=ygaP:Gene_Product(s)&oldid=1022668"