EcoliWiki - User contributions [en]

nanM:Gene Product(s)

2008-07-25T08:45:30Z

GavinThomas: Table edited by GavinThomas via TableEdit

{{#css:Suppresslinks.css}}<css>{{:Suppresslinks.css}}</css>
<noinclude>{{TabsTop}}
{{Tab|Quickview|yjhT}}{{Tab|Gene|yjhT}}{{Tab On|Gene Product(s)|yjhT}}{{Tab|Expression|yjhT}}{{Tab|Evolution|yjhT}}{{Tab|On One Page|yjhT}}{{TabsBottom}}
{|
|-
|{{Sub}}[[#Nomenclature |Nomenclature]]
|{{Sub}}[[#Function |Function]]
|{{Sub}}[[#Interactions |Interactions]]
|{{Sub}}[[#Localization |Localization]]
|{{Sub}}[[#Sequence|Sequence]]
|{{Sub}}[[#Structure|Structure]]
|{{Sub}}[[#Gene Product Resources|Resources]]
|{{Sub}}[[#Accessions in Other Databases |Accessions]]
|{{Sub}}[[#Links |Links]]
|{{Sub}}[[#References| References]]
|{{Sub}}[[Talk:{{PAGENAMEE}}| Suggestions]]
|}
</noinclude>
==Nomenclature==


{|{{Prettytable}}
|-
!{{table heading style}} |Standard name
|
YjhT product
|-
!{{table heading style}} |Synonyms
|
conserved protein product<ref name='LIB:Riley_2006'/>, B4310 product<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, YjhT product<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>
|-
!{{table heading style}} |Product description
|
conserved protein<ref name='LIB:EcoCyc10.6'/><ref name='LIB:EcoCyc11.1'/>

|-
!{{table heading style}} |EC number (for enzymes)
|
*
|-
|colspan='2'|[{{SERVER}}{{SCRIPTPATH}}/index.php?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.29358.L46ab2c0b4bfb9&page=29358&pagename={{FULLPAGENAMEE}} edit table]
|}

{{Product_nomenclature_help}}
<protect></protect>
===Notes===

==Function==
{{BacktoTop}}
<protect>
<big>'''Gene Ontology'''</big>


{|class = 'sortable' {{Prettytable}} id='183670'
|- {{table_heading_style}}
!Qualifier!!GO ID!!GO term name!!Reference(s)!!Evidence Code!!with/from!!Aspect!!Notes!!Status
|-class='sortbottom'
|[{{SERVER}}{{SCRIPTPATH}}/index.php?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.29358.N46ab2c0c7529e&page=29358&pagename={{FULLPAGENAMEE}} edit table] || || || || || || || ||
|}

{{Product_GO_help}}

<big>'''Interactions'''</big>


{|class = 'sortable' {{Prettytable}} id='183671'
|- {{table heading style}}
!Partner Type!!Partner!!Notes
|-class='sortbottom'
|[{{SERVER}}{{SCRIPTPATH}}/index.php?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.29358.G46ab2c0d0cefb&page=29358&pagename={{FULLPAGENAMEE}} edit table] || ||
|}

{{Product_interactions_help}}
</protect>
===Notes===

==Localization==


{|class = 'sortable' border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"
|- {{table heading style}}
!|Compartment!!Description!!Evidence!!Notes
|-
|
Periplasm
|
Soluble periplasmic protein. Normal Sec-dependent signal peptide
|
<ref name='PMID:18063573'/>
|

|-class='sortbottom'
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.29358.N46ab2c0dcec17&page=29358&pagename={{FULLPAGENAMEE}}&type=&template=Product_localization_table edit table] || || ||
|}

{{Product_localization_help}}
<protect></protect>

===Notes===

==Structure and Physical Properties==
{{BacktoTop}}
<protect>
<big>'''Physical Properties'''</big>


{|{{Prettytable}}
|-
!{{table heading style}} |Sequence
|
[http://biocyc.org/ECOLI/sequence-aa?object=G7920-MONOMER at EcoCyc]
<pre>MTTLTVRVFT TAEIIYRKTV IALVCHLNCS RQETVTMNKT ITALAIMMAS FAANASVLPE
TPVPFKSGTG AIDNDTVYIG LGSAGTAWYK LDTQAKDKKW TALAAFPGGP RDQATSAFID
GNLYVFGGIG KNSEGLTQVF NDVHKYNPKT NSWVKLMSHA PMGMAGHVTF VHNGKAYVTG
GVNQNIFNGY FEDLNEAGKD STAIDKINAH YFDKKAEDYF FNKFLLSFDP STQQWSYAGE
SPWYGTAGAA VVNKGDKTWL INGEAKPGLR TDAVFELDFT GNNLKWNKLA PVSSPDGVAG
GFAGISNDSL IFAGGAGFKG SRENYQNGKN YAHEGLKKSY STDIHLWHNG KWDKSGELSQ
GRAYGVSLPW NNSLLIIGGE TAGGKAVTDS VLITVKDNKV TVQN</pre>
|-
!{{table heading style}} |Mol. Wt
|
39.57 kDa (calc) <ref name='LIB:EcoCyc10.6'/>
|-
!{{table heading style}} |pI
|

|-
!{{table heading style}} |Extinction coefficient
|
77350 - 77600 (calc based on 15 Y, 10 W, and 2 C residues)
|-
|colspan='2'|[{{SERVER}}{{SCRIPTPATH}}/index.php?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.29358.D46ab2c0f0794a&page=29358&pagename={{FULLPAGENAMEE}} edit table]
|}

{{Product_physical_properties_help}}

<big>'''Domains/Motifs/Modification Sites'''</big>


{|class = 'sortable' {{Prettytable}} id='183674'
|- {{table heading style}}
!Type!!Residues!!Description!!Notes
|-class='sortbottom'
|[{{SERVER}}{{SCRIPTPATH}}/index.php?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.29358.M46ab2c0f82a47&page=29358&pagename={{FULLPAGENAMEE}} edit table] || || ||
|}

{{Product_domains_motifs_help}}

<big>'''Structure'''</big>


{|class = 'sortable' {{Prettytable}} id='183675'
|- {{table heading style}}
!Structure Type!!Organism!!Accession!!Residues covered!!Notes
|-
|
X-ray
|
Escherichia coli K-12
|
2UVK
|

|
Dimeric Kelch domain beta-propeller structure.
|-class='sortbottom'
|[{{SERVER}}{{SCRIPTPATH}}/index.php?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.29358.E46ab2c0fed968&page=29358&pagename={{FULLPAGENAMEE}} edit table] || || || ||
|}

{{Product_structure_help}}
</protect>
===Notes===

==Gene Product Resources==
{{BacktoTop}}


{|class = 'sortable' {{Prettytable}} id='183676'
|- {{table_heading_style}}
!Resource type!!Source!!Notes/Reference
|-class='sortbottom'
|[{{SERVER}}{{SCRIPTPATH}}/index.php?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.29358.D46ab2c1064c4d&page=29358&pagename={{FULLPAGENAMEE}} edit table] || ||
|}

{{Product_resources_help}}
<protect></protect>
===Notes===

==Accessions in Other Databases==
{{BacktoTop}}


{|class = 'sortable' {{Prettytable}} id='183677'
|- {{table_heading_style}}
!Database!!Accession!!Notes
|-
|
[http://ecocyc.org EcoCyc] ([[EcoCyc|EcoliWiki Page]])
|
[http://biocyc.org/ECOLI/NEW-IMAGE?type=NIL&object=G7920-MONOMER EcoCyc:G7920-MONOMER]
|

|-
|
[http://uniprot.org/ UniProt] ([[UniProt|EcoliWiki Page]])
|
[http://www.expasy.ch/cgi-bin/sprot-search-ac?P39371 UniProt:P39371]
|

|-
|
[http://pfam.sanger.ac.uk/ PFAM] ([[PFAM|EcoliWiki Page]])
|
[http://pfam.sanger.ac.uk/family?acc=PF01344 PFAM:PF01344]
|

|-
|
[http://www.ncbi.nlm.nih.gov/RefSeq/ RefSeq] ([[RefSeq|EcoliWiki Page]])
|
[http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?db=nucleotide&val=NP_418730 RefSeq:NP_418730]
|

|-
|
[http://modbase.compbio.ucsf.edu ModBase] ([[ModBase|EcoliWiki Page]])
|
[http://salilab.org/modbase/searchbyid?databaseID=P39371 ModBase:P39371]
|

|-class='sortbottom'
|[{{SERVER}}{{SCRIPTPATH}}/index.php?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.29358.E46ab2c10cb640&page=29358&pagename={{FULLPAGENAMEE}} edit table] || ||
|}

{{Product_accessions_help}}
<protect></protect>
===Notes===

==Links==
{{BacktoTop}}


{|class = 'sortable' {{Prettytable}} id='183678'
|- {{table_heading_style}}
!Name!!URL!!Comments
|-class='sortbottom'
|[{{SERVER}}{{SCRIPTPATH}}/index.php?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.29358.F46ab2c1478695&page=29358&pagename={{FULLPAGENAMEE}} edit table] || ||
|}

{{Links_help}}

<noinclude>
==References==
{{BacktoTop}}
{{RefHelp}}
<references/>
__NOTOC__
</noinclude>
===Categories===
{{BacktoTop}}

nanM:Quickview

2008-07-25T08:44:21Z

GavinThomas: Table edited by GavinThomas via TableEdit

nanM:Quickview

2008-07-25T08:43:08Z

GavinThomas: Table edited by GavinThomas via TableEdit

nanM:Quickview

2008-07-25T08:40:26Z

GavinThomas: Table edited by GavinThomas via TableEdit

EchoBASE

2008-07-25T08:37:09Z

GavinThomas:

{{Pagetop}}
[[Category:Databases]]
[[Category:E. coli Databases]]

{|{{Prettytable}} width='30%' align = 'right'
|- align='center' bgcolor = '#ddddff'
| colspan = '2' | '''{{PAGENAME}}'''
|-
| width='30%' | Who:
| Raju Misra, Richard Horler, and Gavin Thomas
|-
| width='30%' | What:
| curated experimental and bioinformatic information about ''E. coli'' genes and gene products
|-
| Where:
| [http://www.ecoli-york.org {{PAGENAME}}] (www.ecoli-york.org)
|-
| Updates
|
|-
| Upcoming events
| ''link to event calendar, if applicable''
|-
| Web Services
|
|}
=About {{PAGENAME}}=
[http://ecoli-york.org {{PAGENAME}}] curates experimental and bioinformatic information about ''E. coli'' genes and their gene products. The aim of this database is to provide information that will lead to functional predictions for gene products of unknown function. ''Echo''BASE is part of the [http://www.uni-giessen.de/~gx1052/IECA/ieca.html International ''E. coli'' Alliance].

=Content=
As of July 11, 2006, there are 303 curated references in EchoBASE. The database contains descriptions of papers with information on the function of individual gene products, as well as the actual data from larger, post-genomic studies, which can be searched and manipulated. There are 106 curated experiments which are grouped by type: Biochemistry (10), Bioinformatics (11), Genetics (13), Microarray (6), Protein-Protein Interaction (3), Proteomics (15), Structure (46), and Transcript Level (2).

Other features of EchoBASE are Orphan Enzymes (>90 enzyme activities that have been measured in E. coli, but not mapped to a gene product or gene), EchoABC (a comprehensive list of ABC transporters with links to references and structures, if known), [http://www.york.ac.uk/res/thomas/echolocadv.cfm EchoLOCATION] (experimentally determined or predicted subcellular location of ''E. coli'' products), and EchoPDB (a list of all known structures for E. coli proteins with links to references and the PDB).

[[Category:E. coli protein localization]]

=Using {{PAGENAME}}=

==Browsing==
The curated experimental datasets can be browsed by experiment type.

==Searching==
EchoBASE can be searched by gene name. The results page for a gene name search contains the ECK no., synonyms, known or predicted function of the gene product, links to the DNA and protein sequences, position on the genome, a map with approx. 5 kb of flanking DNA, links to the gene in other databases, and a list of the experiments where the gene, its transcript, or product was detected with links to the data.

==Usage examples==

''Add links to additional pages describing success stories here.''

=Other sites with related content=

=Technology=

==Web Services/API==

=Discussion=

=References=
Thomas, G.H. (1999) Completing the ''E. coli'' proteome: a database of gene products characterised since completion of the genome sequence. Bioinformatics 15:860-861.

Misra, R.V. et al. (2005) EchoBASE: an integrated post-genomic database for ''Escherichia coli''. Nucleic Acids Res. 33(Database issue):D329-33

=External Links=
[http://ecoli-york.org {{PAGENAME}}]
==Discussion of {{PAGENAME}} on other websites==

nanM:Gene Product(s)

2007-12-11T15:45:50Z

GavinThomas: edited by GavinThomas via TableEdit

{{#css:Suppresslinks.css}}<css>{{:Suppresslinks.css}}</css>
<noinclude>{{TabsTop}}
{{Tab|Quickview|yjhT}}{{Tab|Gene|yjhT}}{{Tab On|Gene Product(s)|yjhT}}{{Tab|Expression|yjhT}}{{Tab|Evolution|yjhT}}{{Tab|On One Page|yjhT}}{{TabsBottom}}
{|
|-
|{{Sub}}[[#Nomenclature |Nomenclature]]
|{{Sub}}[[#Function |Function]]
|{{Sub}}[[#Interactions |Interactions]]
|{{Sub}}[[#Localization |Localization]]
|{{Sub}}[[#Sequence|Sequence]]
|{{Sub}}[[#Structure|Structure]]
|{{Sub}}[[#Gene Product Resources|Resources]]
|{{Sub}}[[#Accessions in Other Databases |Accessions]]
|{{Sub}}[[#Links |Links]]
|{{Sub}}[[#References| References]]
|{{Sub}}[[Talk:{{PAGENAMEE}}| Suggestions]]
|}
</noinclude>
==Nomenclature==


{|{{Prettytable}}
|-
!{{table heading style}} |Standard name
|
YjhT product
|-
!{{table heading style}} |Synonyms
|
conserved protein product<ref name='LIB:Riley_2006'/>, B4310 product<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, YjhT product<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>
|-
!{{table heading style}} |Product description
|
conserved protein<ref name='LIB:EcoCyc10.6'/><ref name='LIB:EcoCyc11.1'/>

|-
!{{table heading style}} |EC number (for enzymes)
|
*
|-
|colspan='2'|[{{SERVER}}/colipedia/index.php?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.29358.L46ab2c0b4bfb9&page=29358&pagename={{FULLPAGENAMEE}} edit table]
|}

{{Product_nomenclature_help}}
<protect></protect>
===Notes===

==Function==
{{BacktoTop}}
<protect>
<big>'''Gene Ontology'''</big>


{|class = 'sortable' {{Prettytable}} id='183670'
|- {{table_heading_style}}
!Qualifier!!GO ID!!GO term name!!Reference(s)!!Evidence Code!!with/from!!Aspect!!Notes!!Status
|-class='sortbottom'
|[{{SERVER}}/colipedia/index.php?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.29358.N46ab2c0c7529e&page=29358&pagename={{FULLPAGENAMEE}} edit table] || || || || || || || ||
|}

{{Product_GO_help}}

<big>'''Interactions'''</big>


{|class = 'sortable' {{Prettytable}} id='183671'
|- {{table heading style}}
!Partner Type!!Partner!!Notes
|-class='sortbottom'
|[{{SERVER}}/colipedia/index.php?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.29358.G46ab2c0d0cefb&page=29358&pagename={{FULLPAGENAMEE}} edit table] || ||
|}

{{Product_interactions_help}}
</protect>
===Notes===

==Localization==


{|class = 'sortable' {{Prettytable}} id='183672'
|- {{table heading style}}
!Compartment!!Description!!Evidence!!Notes
|-class='sortbottom'
|[{{SERVER}}/colipedia/index.php?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.29358.N46ab2c0dcec17&page=29358&pagename={{FULLPAGENAMEE}} edit table] || || ||
|}

{{Product_localization_help}}
<protect></protect>

===Notes===

==Structure and Physical Properties==
{{BacktoTop}}
<protect>
<big>'''Physical Properties'''</big>


{|{{Prettytable}}
|-
!{{table heading style}} |Sequence
|
[http://biocyc.org/ECOLI/sequence-aa?object=G7920-MONOMER at EcoCyc]
<pre>MTTLTVRVFT TAEIIYRKTV IALVCHLNCS RQETVTMNKT ITALAIMMAS FAANASVLPE
TPVPFKSGTG AIDNDTVYIG LGSAGTAWYK LDTQAKDKKW TALAAFPGGP RDQATSAFID
GNLYVFGGIG KNSEGLTQVF NDVHKYNPKT NSWVKLMSHA PMGMAGHVTF VHNGKAYVTG
GVNQNIFNGY FEDLNEAGKD STAIDKINAH YFDKKAEDYF FNKFLLSFDP STQQWSYAGE
SPWYGTAGAA VVNKGDKTWL INGEAKPGLR TDAVFELDFT GNNLKWNKLA PVSSPDGVAG
GFAGISNDSL IFAGGAGFKG SRENYQNGKN YAHEGLKKSY STDIHLWHNG KWDKSGELSQ
GRAYGVSLPW NNSLLIIGGE TAGGKAVTDS VLITVKDNKV TVQN</pre>
|-
!{{table heading style}} |Mol. Wt
|
39.57 kDa (calc) <ref name='LIB:EcoCyc10.6'/>
|-
!{{table heading style}} |pI
|

|-
!{{table heading style}} |Extinction coefficient
|
77350 - 77600 (calc based on 15 Y, 10 W, and 2 C residues)
|-
|colspan='2'|[{{SERVER}}/colipedia/index.php?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.29358.D46ab2c0f0794a&page=29358&pagename={{FULLPAGENAMEE}} edit table]
|}

{{Product_physical_properties_help}}

<big>'''Domains/Motifs/Modification Sites'''</big>


{|class = 'sortable' {{Prettytable}} id='183674'
|- {{table heading style}}
!Type!!Residues!!Description!!Notes
|-class='sortbottom'
|[{{SERVER}}/colipedia/index.php?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.29358.M46ab2c0f82a47&page=29358&pagename={{FULLPAGENAMEE}} edit table] || || ||
|}

{{Product_domains_motifs_help}}

<big>'''Structure'''</big>


{|class = 'sortable' {{Prettytable}} id='183675'
|- {{table heading style}}
!Structure Type!!Organism!!Accession!!Residues covered!!Notes
|-
|
X-ray
|
Escherichia coli K-12
|
2UVK
|

|
Dimeric Kelch domain beta-propeller structure.
|-class='sortbottom'
|[{{SERVER}}/colipedia/index.php?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.29358.E46ab2c0fed968&page=29358&pagename={{FULLPAGENAMEE}} edit table] || || || ||
|}

{{Product_structure_help}}
</protect>
===Notes===

==Gene Product Resources==
{{BacktoTop}}


{|class = 'sortable' {{Prettytable}} id='183676'
|- {{table_heading_style}}
!Resource type!!Source!!Notes/Reference
|-class='sortbottom'
|[{{SERVER}}/colipedia/index.php?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.29358.D46ab2c1064c4d&page=29358&pagename={{FULLPAGENAMEE}} edit table] || ||
|}

{{Product_resources_help}}
<protect></protect>
===Notes===

==Accessions in Other Databases==
{{BacktoTop}}


{|class = 'sortable' {{Prettytable}} id='183677'
|- {{table_heading_style}}
!Database!!Accession!!Notes
|-
|
[http://ecocyc.org EcoCyc] ([[EcoCyc|EcoliWiki Page]])
|
[http://biocyc.org/ECOLI/NEW-IMAGE?type=NIL&object=G7920-MONOMER EcoCyc:G7920-MONOMER]
|

|-
|
[http://uniprot.org/ UniProt] ([[UniProt|EcoliWiki Page]])
|
[http://www.expasy.ch/cgi-bin/sprot-search-ac?P39371 UniProt:P39371]
|

|-
|
[http://www.sanger.ac.uk/Software/Pfam/ PFAM] ([[PFAM|EcoliWiki Page]])
|
[http://www.sanger.ac.uk/cgi-bin/Pfam/getacc?PF01344 PFAM:PF01344]
|

|-
|
[http://www.ncbi.nlm.nih.gov/RefSeq/ RefSeq] ([[RefSeq|EcoliWiki Page]])
|
[http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?db=nucleotide&val=NP_418730 RefSeq:NP_418730]
|

|-
|
[http://modbase.compbio.ucsf.edu ModBase] ([[ModBase|EcoliWiki Page]])
|
[http://salilab.org/modbase/searchbyid?databaseID=P39371 ModBase:P39371]
|

|-class='sortbottom'
|[{{SERVER}}/colipedia/index.php?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.29358.E46ab2c10cb640&page=29358&pagename={{FULLPAGENAMEE}} edit table] || ||
|}

{{Product_accessions_help}}
<protect></protect>
===Notes===

==Links==
{{BacktoTop}}


{|class = 'sortable' {{Prettytable}} id='183678'
|- {{table_heading_style}}
!Name!!URL!!Comments
|-class='sortbottom'
|[{{SERVER}}/colipedia/index.php?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.29358.F46ab2c1478695&page=29358&pagename={{FULLPAGENAMEE}} edit table] || ||
|}

{{Links_help}}

<noinclude>
==References==
{{BacktoTop}}
{{RefHelp}}
<references/>
__NOTOC__
</noinclude>
===Categories===
{{BacktoTop}}

napA:Gene Product(s)

2007-12-11T15:34:52Z

GavinThomas: edited by GavinThomas via TableEdit

{{#css:Suppresslinks.css}}<css>{{:Suppresslinks.css}}</css>
<noinclude>{{TabsTop}}
{{Tab|Quickview|napA}}{{Tab|Gene|napA}}{{Tab On|Gene Product(s)|napA}}{{Tab|Expression|napA}}{{Tab|Evolution|napA}}{{Tab|On One Page|napA}}{{TabsBottom}}
{|
|-
|{{Sub}}[[#Nomenclature |Nomenclature]]
|{{Sub}}[[#Function |Function]]
|{{Sub}}[[#Interactions |Interactions]]
|{{Sub}}[[#Localization |Localization]]
|{{Sub}}[[#Sequence|Sequence]]
|{{Sub}}[[#Structure|Structure]]
|{{Sub}}[[#Gene Product Resources|Resources]]
|{{Sub}}[[#Accessions in Other Databases |Accessions]]
|{{Sub}}[[#Links |Links]]
|{{Sub}}[[#References| References]]
|{{Sub}}[[Talk:{{PAGENAMEE}}| Suggestions]]
|}
</noinclude>
==Nomenclature==


{|{{Prettytable}}
|-
!{{table heading style}} |Standard name
|
NapA product
|-
!{{table heading style}} |Synonyms
|
nitrate reductase, periplasmic, large subunit product<ref name='LIB:Riley_2006'/>, B2206 product<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, YojE product<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, YojC product<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, YojD product<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, NapA product<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>
|-
!{{table heading style}} |Product description
|
large subunit of periplasmic nitrate reductase, molybdoprotein<ref name='LIB:EcoCyc10.6'/><ref name='LIB:EcoCyc11.1'/>;

Component of ; [[:Category:Complex:molybdoprotein complex|molybdoprotein complex]]<ref name='LIB:EcoCyc10.6'/><ref name='LIB:EcoCyc11.1'/>; [[:Category:Complex:periplasmic nitrate reductase|periplasmic nitrate reductase]]<ref name='LIB:EcoCyc10.6'/><ref name='LIB:EcoCyc11.1'/>; [[:Category:Complex:periplasmic nitrate reductase|periplasmic nitrate reductase]]<ref name='LIB:EcoCyc11.1'/>

|-
!{{table heading style}} |EC number (for enzymes)
|
** [http://www.brenda.uni-koeln.de/php/result_flat.php4?ecno=1.7.99.4 1.7.99.4]<ref name='LIB:Riley_2006'/>
|-
|colspan='2'|[{{SERVER}}/colipedia/index.php?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.24580.S46aa9842f201c&page=24580&pagename={{FULLPAGENAMEE}} edit table]
|}

{{Product_nomenclature_help}}
<protect></protect>
===Notes===

==Function==
{{BacktoTop}}
<protect>
<big>'''Gene Ontology'''</big>


{|class = 'sortable' {{Prettytable}} id='167660'
|- {{table_heading_style}}
!Qualifier!!GO ID!!GO term name!!Reference(s)!!Evidence Code!!with/from!!Aspect!!Notes!!Status
|-
|

|
GO:0030288
|
outer membrane-bounded periplasmic space
|

|

|

|
C
|
Seeded from Riley et al 2006 <ref name='LIB:Riley_2006'/>.
|
required fields missing
|-
|

|
GO:0009061
|
anaerobic respiration
|

|

|

|
P
|
Seeded from EcoCyc 11.1<ref name='LIB:EcoCyc11.1'/>.
|
required fields missing
|-
|

|
GO:0009054
|
electron acceptor activity
|

|

|

|
F
|
Seeded from EcoCyc 11.1<ref name='LIB:EcoCyc11.1'/>.
|
required fields missing
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{{Product_GO_help}}

<big>'''Interactions'''</big>


{|class = 'sortable' {{Prettytable}} id='167661'
|- {{table heading style}}
!Partner Type!!Partner!!Notes
|-
|
Protein
|
Subunits of [[:Category:Complex:molybdoprotein complex|molybdoprotein complex]]
|
could be indirect
|-
|
Protein
|
Subunits of [[:Category:Complex:periplasmic nitrate reductase|periplasmic nitrate reductase]]
|
could be indirect
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{{Product_interactions_help}}
</protect>
===Notes===

==Localization==


{|class = 'sortable' {{Prettytable}} id='167662'
|- {{table heading style}}
!Compartment!!Description!!Evidence!!Notes
|-
|
Periplasm
|
This protein is exported via the Tat-system and has a long signal peptide with an usual cleavage site.
|
PubMedID:10234835
|

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{{Product_localization_help}}
<protect></protect>

===Notes===

==Structure and Physical Properties==
{{BacktoTop}}
<protect>
<big>'''Physical Properties'''</big>


{|{{Prettytable}}
|-
!{{table heading style}} |Sequence
|
[http://biocyc.org/ECOLI/sequence-aa?object=NAPA-MONOMER at EcoCyc]
<pre>MKLSRRSFMK ANAVAAAAAA AGLSVPGVAR AVVGQQEAIK WDKAPCRFCG TGCGVLVGTQ
QGRVVACQGD PDAPVNRGLN CIKGYFLPKI MYGKDRLTQP LLRMKNGKYD KEGEFTPITW
DQAFDVMEEK FKTALKEKGP ESIGMFGSGQ WTIWEGYAAS KLFKAGFRSN NIDPNARHCM
ASAVVGFMRT FGMDEPMGCY DDIEQADAFV LWGANMAEMH PILWSRITNR RLSNQNVTVA
VLSTYQHRSF ELADNGIIFT PQSDLVILNY IANYIIQNNA INQDFFSKHV NLRKGATDIG
YGLRPTHPLE KAAKNPGSDA SEPMSFEDYK AFVAEYTLEK TAEMTGVPKD QLEQLAQLYA
DPNKKVISYW TMGFNQHTRG VWANNLVYNL HLLTGKISQP GCGPFSLTGQ PSACGTAREV
GTFAHRLPAD MVVTNEKHRD ICEKKWNIPS GTIPAKIGLH AVAQDRALKD GKLNVYWTMC
TNNMQAGPNI NEERMPGWRD PRNFIIVSDP YPTVSALAAD LILPTAMWVE KEGAYGNAER
RTQFWRQQVQ APGEAKSDLW QLVQFSRRFK TEEVWPEDLL AKKPELRGKT LYEVLYATPE
VSKFPVSELA EDQLNDESRE LGFYLQKGLF EEYAWFGRGH GHDLAPFDDY HKARGLRWPV
VNGKETQWRY SEGNDPYVKA GEGYKFYGKP DGKAVIFALP FEPAAEAPDE EYDLWLSTGR
VLEHWHTGSM TRRVPELHRA FPEAVLFIHP LDAKARDLRR GDKVKVVSRR GEVISIVETR
GRNRPPQGLV YMPFFDAAQL VNKLTLDATD PLSKETDFKK CAVKLEKV</pre>
|-
!{{table heading style}} |Mol. Wt
|
93.04 kDa (calc) <ref name='LIB:EcoCyc10.6'/>
|-
!{{table heading style}} |pI
|

|-
!{{table heading style}} |Extinction coefficient
|
151720 - 153220 (calc based on 28 Y, 20 W, and 12 C residues)
|-
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{{Product_physical_properties_help}}

<big>'''Domains/Motifs/Modification Sites'''</big>


{|class = 'sortable' {{Prettytable}} id='167664'
|- {{table heading style}}
!Type!!Residues!!Description!!Notes
|-class='sortbottom'
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{{Product_domains_motifs_help}}

<big>'''Structure'''</big>


{|class = 'sortable' {{Prettytable}} id='113631'
|- {{table heading style}}
!Structure Type!!Organism!!Accession!!Residues covered!!Notes
|-class='sortbottom'
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{{Product_structure_help}}
</protect>
===Notes===

==Gene Product Resources==
{{BacktoTop}}


{|class = 'sortable' {{Prettytable}} id='167665'
|- {{table_heading_style}}
!Resource type!!Source!!Notes/Reference
|-class='sortbottom'
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|}

{{Product_resources_help}}
<protect></protect>
===Notes===

==Accessions in Other Databases==
{{BacktoTop}}


{|class = 'sortable' {{Prettytable}} id='167666'
|- {{table_heading_style}}
!Database!!Accession!!Notes
|-
|
[http://ecocyc.org EcoCyc] ([[EcoCyc|EcoliWiki Page]])
|
[http://biocyc.org/ECOLI/NEW-IMAGE?type=NIL&object=NAPA-MONOMER EcoCyc:NAPA-MONOMER]
|

|-
|
[http://uniprot.org/ UniProt] ([[UniProt|EcoliWiki Page]])
|
[http://www.expasy.ch/cgi-bin/sprot-search-ac?P33937 UniProt:P33937]
|

|-
|
[http://www.sanger.ac.uk/Software/Pfam/ PFAM] ([[PFAM|EcoliWiki Page]])
|
[http://www.sanger.ac.uk/cgi-bin/Pfam/getacc?PF04879 PFAM:PF04879]
|

|-
|
[http://www.ncbi.nlm.nih.gov/RefSeq/ RefSeq] ([[RefSeq|EcoliWiki Page]])
|
[http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?db=nucleotide&val=NP_416710 RefSeq:NP_416710]
|

|-
|
[http://modbase.compbio.ucsf.edu ModBase] ([[ModBase|EcoliWiki Page]])
|
[http://salilab.org/modbase/searchbyid?databaseID=P33937 ModBase:P33937]
|

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{{Product_accessions_help}}
<protect></protect>
===Notes===

==Links==
{{BacktoTop}}


{|class = 'sortable' {{Prettytable}} id='113632'
|- {{table_heading_style}}
!Name!!URL!!Comments
|-class='sortbottom'
|[{{SERVER}}/colipedia/index.php?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.24580.D46a82c3771559&page=24580&pagename={{FULLPAGENAMEE}} edit table] || ||
|}

{{Links_help}}

<noinclude>
==References==
{{BacktoTop}}
{{RefHelp}}
<references/>
__NOTOC__
</noinclude>
===Categories===
{{BacktoTop}}
[[Category:Proteins]]
[[Category:GO:0030288_!_outer membrane-bounded periplasmic space]][[Category:GO:0009061_!_anaerobic respiration]][[Category:GO:0009054_!_electron acceptor activity]][[Category:Complex:molybdoprotein complex]][[Category:Complex:periplasmic nitrate reductase]][[Category:Location:periplasm]]