agaW:Gene Product(s): Difference between revisions

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|{{Sub}}[[#Localization |Localization]]
|{{Sub}}[[#Localization |Localization]]
|{{Sub}}[[#Sequence|Sequence]]
|{{Sub}}[[#Sequence|Sequence]]
|{{Sub}}[[#Domains/Motifs/Modification Sites|Domains]]
|{{Sub}}[[#Structure|Structure]]
|{{Sub}}[[#Structure|Structure]]
|{{Sub}}[[#Gene Product Resources|Resources]]
|{{Sub}}[[#Gene Product Resources|Resources]]
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|-
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!{{table heading style}} |Standard name
!align=left {{table heading style}} |Standard name
|
||
AgaW product
AgaW  
|-
|-
!{{table heading style}} |Synonyms
!align=left {{table heading style}} |Synonyms
|
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B3134 product<ref name='LIB:EcoCyc10.6'/>, YhaZ product<ref name='LIB:EcoCyc10.6'/>, AgaW product<ref name='LIB:EcoCyc10.6'/>  
''B3134<ref name='LIB:EcoCyc10.6'/>, YhaZ<ref name='LIB:EcoCyc10.6'/>, AgaW<ref name='LIB:EcoCyc10.6'/> , ECK3122, JW3103, yhaZ, b3134''
|-
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!{{table heading style}} |Product description
!align=left {{table heading style}} |Product description
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PTS system N-acetylgalactosameine-specific IIC component 2<ref name='LIB:EcoCyc10.6'/><ref name='LIB:EcoCyc11.1'/>
PTS system N-acetylgalactosameine-specific IIC component 2<ref name='LIB:EcoCyc10.6'/><ref name='LIB:EcoCyc11.1'/>


|-
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!{{table heading style}} |EC number (for enzymes)
!align=left {{table heading style}} |EC number (for enzymes)
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*
 
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===Notes===
===Notes===
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{{BacktoTop}}
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<protect>
<protect>
<big>'''Gene Ontology'''</big>
<big>'''Gene Ontology'''</big><br /><!--box uid=421aa90e079fa326b6494f812ad13e79.26692.Q46aad39f09d0f-->
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****************************************************************************************** -->{{Product_GO_help}}
{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"   
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="Q46aad39f09d0f"  class=" tableEdit GO_table_product dataTable"   
|- {{table_heading_style}}
|- {{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!!Evidence Code!!with/from!!Aspect!!Notes!!Status
|-  
|-  
|
|


|
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[[Category:GO:0005351_!_sugar:hydrogen_symporter_activity]][http://gowiki.tamu.edu/wiki/index.php/Category:GO:0005351_!_sugar:hydrogen_symporter_activity GO:0005351]
GO:0005886
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|
sugar:hydrogen symporter activity
plasma membrane
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|
GO_REF:0000004
GOA:spkw<br />SP_KW:GO_REF:0000004
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IEA: Inferred from Electronic Annotation
IEA: Inferred from Electronic Annotation
|
|
SP_KW:KW-0762
SP_KW:KW-0997
|
C
|
Seeded from [[EcoCyc]] (v14.0)
|
complete
|-
|
 
|
GO:0005886
|
plasma membrane
|
GOA:spkw<br />SP_KW:GO_REF:0000004
|
IEA: Inferred from Electronic Annotation
|
SP_KW:KW-1003
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|
F
C
|
|
Seeded from EcoCyc 12.5 <ref name = 'LIB:EcoCyc12.5'/>
Seeded from [[EcoCyc]] (v14.0)
|
|
complete  
complete  
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|
|
[[Category:GO:0006810_!_transport]][http://gowiki.tamu.edu/wiki/index.php/Category:GO:0006810_!_transport GO:0006810]
GO:0006810
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|
transport
transport
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|
GO_REF:0000004
GOA:spkw<br />SP_KW:GO_REF:0000004
|
|
IEA: Inferred from Electronic Annotation
IEA: Inferred from Electronic Annotation
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P
P
|
|
Seeded from EcoCyc 12.5 <ref name = 'LIB:EcoCyc12.5'/>
Seeded from [[EcoCyc]] (v14.0)
|
|
complete  
complete  
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|
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[[Category:GO:0008643_!_carbohydrate_transport]][http://gowiki.tamu.edu/wiki/index.php/Category:GO:0008643_!_carbohydrate_transport GO:0008643]
GO:0008643
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|
carbohydrate transport
carbohydrate transport
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|
GO_REF:0000004
GOA:spkw<br />SP_KW:GO_REF:0000004
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IEA: Inferred from Electronic Annotation
IEA: Inferred from Electronic Annotation
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P
P
|
|
Seeded from EcoCyc 12.5 <ref name = 'LIB:EcoCyc12.5'/>
Seeded from [[EcoCyc]] (v14.0)
|
|
complete  
complete  
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|
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[[Category:GO:0009401_!_phosphoenolpyruvate-dependent_sugar_phosphotransferase_system]][http://gowiki.tamu.edu/wiki/index.php/Category:GO:0009401_!_phosphoenolpyruvate-dependent_sugar_phosphotransferase_system GO:0009401]
GO:0009401
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|
phosphoenolpyruvate-dependent sugar phosphotransferase system
phosphoenolpyruvate-dependent sugar phosphotransferase system
|
|
GO_REF:0000002
GOA:interpro<br />GO_REF:0000002
|
|
IEA: Inferred from Electronic Annotation
IEA: Inferred from Electronic Annotation
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P
P
|
|
Seeded from EcoCyc 12.5 <ref name = 'LIB:EcoCyc12.5'/>
Seeded from [[EcoCyc]] (v14.0)
|
|
complete  
complete  
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|
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[[Category:GO:0009401_!_phosphoenolpyruvate-dependent_sugar_phosphotransferase_system]][http://gowiki.tamu.edu/wiki/index.php/Category:GO:0009401_!_phosphoenolpyruvate-dependent_sugar_phosphotransferase_system GO:0009401]
GO:0009401
|
|
phosphoenolpyruvate-dependent sugar phosphotransferase system
phosphoenolpyruvate-dependent sugar phosphotransferase system
|
|
GO_REF:0000004
GOA:spkw<br />SP_KW:GO_REF:0000004
|
|
IEA: Inferred from Electronic Annotation
IEA: Inferred from Electronic Annotation
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P
P
|
|
Seeded from EcoCyc 12.5 <ref name = 'LIB:EcoCyc12.5'/>
Seeded from [[EcoCyc]] (v14.0)
|
|
complete  
complete  
|-  
|-  
|
|
 
|
GO:0016020
|
membrane
|
GOA:spkw<br />SP_KW:GO_REF:0000004
|
IEA: Inferred from Electronic Annotation
|
SP_KW:KW-0472
|
C
|
Seeded from [[EcoCyc]] (v14.0)
|
complete
|-
|
 
|
GO:0016021
|
integral to membrane
|
GOA:interpro<br />GO_REF:0000002
|
IEA: Inferred from Electronic Annotation
|
InterPro:IPR004700
|
C
|
Seeded from [[EcoCyc]] (v14.0)
|
complete
|-
|
 
|
|
[[Category:GO:0046349_!_amino_sugar_biosynthetic_process]][http://gowiki.tamu.edu/wiki/index.php/Category:GO:0046349_!_amino_sugar_biosynthetic_process GO:0046349]
GO:0016021
|
|
amino sugar biosynthetic process
integral to membrane
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|
GOA:spkw<br />SP_KW:GO_REF:0000004
|
|
IEA: Inferred from Electronic Annotation
|
|
SP_KW:KW-0812
|
|
P
C
|
|
Seeded from EcoCyc 11.1<ref name='LIB:EcoCyc11.1'/>.  
Seeded from [[EcoCyc]] (v14.0)
|
|
required fields missing 
complete
|-  
|-  
|
|


|
|
[[Category:GO:0016020_!_membrane]][http://gowiki.tamu.edu/wiki/index.php/Category:GO:0016020_!_membrane GO:0016020]
GO:0016021
|
|
membrane
integral to membrane
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|
GO_REF:0000004
GO_REF:0000023
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|
IEA: Inferred from Electronic Annotation
IEA: Inferred from Electronic Annotation
|
|
SP_KW:KW-0397
SP_SL:SL-9909
|
|
C
C
|
|
Seeded from EcoCyc 12.5 <ref name = 'LIB:EcoCyc12.5'/>
Seeded from [[EcoCyc]] (v14.0)
|
|
complete  
complete  


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<span id="Interactions"></span><big>'''Interactions'''</big>
<span id="Interactions"></span><big>'''Interactions'''</big>
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!Partner Type!!Partner!!Notes
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===Notes===
===Notes===
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!|Compartment!!Description!!Evidence!!Notes
!|Compartment!!Description!!Evidence!!Reference/Source!!Notes
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Daley et al. (2005) <ref name=PMID:15919996/>
Daley et al. (2005) <ref name=PMID:15919996/>
|
|
|
   
   


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{|   id="C46aad3a446cb3"  class=" tableEdit Product_phys_prop_table" 
 
|-
!align=left {{table heading style}} |Name
||
 
|-
|-
!{{table heading style}} |Sequence
!align=left {{table heading style}} |Sequence
|
||
[http://biocyc.org/ECOLI/sequence-aa?object= at EcoCyc]  
[http://biocyc.org/ECOLI/sequence-aa?object= at EcoCyc]  
<pre>MEISLLQAFA LGIIAFIAGL DMFNGLTHMH RPVVLGPLVG LVLGDLHTGI LTGGTLELVW
<pre>MEISLLQAFA LGIIAFIAGL DMFNGLTHMH RPVVLGPLVG LVLGDLHTGI LTGGTLELVW
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MSRCDLATNP RRI</pre>  
MSRCDLATNP RRI</pre>  
|-
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!{{table heading style}} |Mol. Wt
!align=left {{table heading style}} |Length
|
||
13.72 kDa (calc) <ref name='LIB:EcoCyc10.6'/>
133
|-
|-
!{{table heading style}} |pI
!align=left {{table heading style}} |Mol. Wt
|
||
13.721 kDa
|-
|-
!{{table heading style}} |Extinction coefficient
!align=left {{table heading style}} |pI
|
||
5500 - 5625 (calc based on 0 Y, 1 W, and 1 C residues)  
6.7 (calculated)
|-
|-
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!align=left {{table heading style}} |Extinction coefficient
||
5,500 - 5,625 (calc based on 0 Y, 1 W, and 1 C residues)
 
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<big>'''Domains/Motifs/Modification Sites'''</big>
 
<span id="Domains/Motifs/Modification Sites"><big>'''Domains/Motifs/Modification Sites'''</big></span>
<table>
<tr align="left" valign="top">
<td>
 
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!Type!!Residues!!Description!!Notes
!|Type!!Residues!!Description!!Notes!!References
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|
Domain
|
1..132
|
[http://pfam.janelia.org/family/PF03609 PF03609  PTS system sorbose-specific iic component]
|
 
|
PMID:19920124
 
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<span id="Structure"></span><big>'''Structure'''</big>
</td>
<td>
<!-- motifs column 2-->
<motif_map/>
{{TMHMM Picture|agaW}}
</td>
</tr>
</table>
 
<table><tr valign='top'><td>
<span id='Structure'></span><big>'''Structure'''</big><br />
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|- {{table heading style}}
 
!Structure Type!!Organism!!Accession!!Residues covered!!Notes
|-
|-class='sortbottom'
!align=left {{table heading style}} |Structures
|[{{SERVER}}{{SCRIPTPATH}}/index.php?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.26692.D46a86759c3d10&page=26692&pagename={{FULLPAGENAMEE}} edit table] || || || ||
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<beststructure>
gene=agaW
taxon=562,83333
</beststructure>
|-
!align=left {{table heading style}} |Models
||
View models at:
* [http://www.proteinmodelportal.org/query/uniprot/P42905 Protein Model Portal]
* [http://bioinf.cs.ucl.ac.uk/genome3d/read?uniprot_id=P42905 PSI-PRED (P42905)]
* [http://spock.genes.nig.ac.jp/~genome/cgi-bin/gkeytext.pl.cgi?A&QUERY1=P42905 Genomes TO Protein (P42905)] (GTOP)
 
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<!--Structure_notes--></protect>
</td><td></protect>
==== Structure figures ====
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
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===Notes===
===Notes===


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!Database!!Accession!!Notes
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[[ASAP]]
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ASAP:ABE-0010299
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-
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[http://www.ncbi.nlm.nih.gov/protein NCBI (Protein)] ([[NCBI (Protein)|EcoliWiki Page]])
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[http://www.ncbi.nlm.nih.gov/protein/ GeneID:947647]
|
Escherichia coli str. K-12 substr. MG1655
|-
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[http://www.pir.uniprot.org/ UniProt] ([[UniProt|EcoliWiki Page]])
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[http://www.uniprot.org/uniprot/P42905 UniProtKB/Swiss-Prot:P42905]
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Escherichia coli str. K-12 substr. MG1655
|-
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[[EcoCyc]]
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EcoCyc:G7633
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-  
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[http://uniprot.org/ UniProt] ([[UniProt|EcoliWiki Page]])
[[EcoGene]]
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[[uniprot:P42905|UniProt:P42905]] 
EcoGene:EG12765
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-
|-  
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[http://pfam.sanger.ac.uk/ PFAM] ([[PFAM|EcoliWiki Page]])  
[http://www.ncbi.nlm.nih.gov/gene NCBI (Gene)] ([[NCBI (Gene)|EcoliWiki Page]])
|
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[http://pfam.sanger.ac.uk/family?acc=PF03609 PFAM:PF03609]
[http://www.ncbi.nlm.nih.gov/gene?term=947647 GeneID:947647]
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Escherichia coli str. K-12 substr. MG1655
|-
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[http://www.ncbi.nlm.nih.gov/RefSeq/ RefSeq] ([[RefSeq|EcoliWiki Page]])
[[RegulonDB]]
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[http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?db=nucleotide&val=NP_417603 RefSeq:NP_417603] 
RegulonDB:ECK120004183
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-
|-  
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[http://BioCyc.org/ECOO157/ ECOO157CYC] ([[ECOO157CYC|EcoliWiki Page]])
[[EchoBASE]]
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[http://BioCyc.org/ECOO157/new-image?object=Z4486-MONOMER ECOO157CYC:Z4486-MONOMER] 
EchoBASE:EB2618
|
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
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<references/>
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__NOTOC__
__NOTOC__
</noinclude>
===Categories===
===Categories===
{{BacktoTop}}
{{BacktoTop}}
[[Category:Proteins]]
[[Category:Proteins]]
[[Category:GO:0046349_!_amino sugar biosynthetic process]]

Latest revision as of 21:00, 17 February 2015

{{#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

AgaW

Synonyms

B3134[1], YhaZ[1], AgaW[1] , ECK3122, JW3103, yhaZ, b3134

Product description

PTS system N-acetylgalactosameine-specific IIC component 2[1][2]

EC number (for enzymes)


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Notes

Function

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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 Evidence Code with/from Aspect Notes Status
GO:0005886

plasma membrane

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0997

C

Seeded from EcoCyc (v14.0)

complete

GO:0005886

plasma membrane

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-1003

C

Seeded from EcoCyc (v14.0)

complete

GO:0006810

transport

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0813

P

Seeded from EcoCyc (v14.0)

complete

GO:0008643

carbohydrate transport

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0762

P

Seeded from EcoCyc (v14.0)

complete

GO:0009401

phosphoenolpyruvate-dependent sugar phosphotransferase system

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR004700

P

Seeded from EcoCyc (v14.0)

complete

GO:0009401

phosphoenolpyruvate-dependent sugar phosphotransferase system

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0598

P

Seeded from EcoCyc (v14.0)

complete

GO:0016020

membrane

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0472

C

Seeded from EcoCyc (v14.0)

complete

GO:0016021

integral to membrane

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR004700

C

Seeded from EcoCyc (v14.0)

complete

GO:0016021

integral to membrane

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0812

C

Seeded from EcoCyc (v14.0)

complete

GO:0016021

integral to membrane

GO_REF:0000023

IEA: Inferred from Electronic Annotation

SP_SL:SL-9909

C

Seeded from EcoCyc (v14.0)

complete

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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
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Notes

Localization

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

Compartment Description Evidence Reference/Source Notes

plasma membrane

C-terminus localized in the cytoplasm with 3 predicted transmembrane domains

Daley et al. (2005) [3]


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Notes

Structure and Physical Properties

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

Name
Sequence

at EcoCyc 

MEISLLQAFA LGIIAFIAGL DMFNGLTHMH RPVVLGPLVG LVLGDLHTGI LTGGTLELVW
MGLAPLAGAQ PPNVIIGTIV GTAFAITTGV KPDVAVGVAV PFAVAVQMGI TFLFSVMSGV
MSRCDLATNP RRI
Length

133

Mol. Wt

13.721 kDa

pI

6.7 (calculated)

Extinction coefficient

5,500 - 5,625 (calc based on 0 Y, 1 W, and 1 C residues)

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Domains/Motifs/Modification Sites

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

Type Residues Description Notes References

Domain

1..132

PF03609 PTS system sorbose-specific iic component

PMID:19920124[4]

edit table

<motif_map/>

tmhmm.php?gene=agaW&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=agaW taxon=562,83333 </beststructure>

Models

View models at:

edit table

Structure figures

Notes

Gene Product Resources

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

Resource type Source Notes/Reference
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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

ASAP

ASAP:ABE-0010299

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:947647

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P42905

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:G7633

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG12765

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:947647

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120004183

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB2618

Escherichia coli str. K-12 substr. MG1655

edit table


Notes

Links

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References

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

  1. ↑ 1.0 1.1 1.2 1.3 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  2. ↑ EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  3. ↑ Daley, DO et al. (2005) Global topology analysis of the Escherichia coli inner membrane proteome. Science 308 1321-3 PubMed
  4. ↑ Finn, RD et al. (2010) The Pfam protein families database. Nucleic Acids Res. 38 D211-22 PubMed

Categories

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