rffG:Gene Product(s): Difference between revisions

From EcoliWiki
Jump to navigation Jump to search
← Older edit
Data loaded by TableEdit_Loader.
touch table
 
(29 intermediate revisions by 2 users not shown)
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="O46ab03c8a13cb" class=" tableEdit Product_nomenclature_table"


|-
|-
Line 44: Line 44:
!align=left {{table heading style}} |Synonyms
!align=left {{table heading style}} |Synonyms
||
||
dTDP-glucose 4,6-dehydratase<ref name='LIB:Riley_2006'/>, B3788<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, Rff<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, NfrC<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, RffG<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>  
''dTDP-glucose 4,6-dehydratase<ref name='LIB:Riley_2006'/>, B3788<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, Rff<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, NfrC<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, RffG<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/> , ECK3780, JW5598, rff, b3788''
|-
|-
!align=left {{table heading style}} |Product description
!align=left {{table heading style}} |Product description
Line 56: Line 56:
* [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.2.1.46 4.2.1.46]<ref name='LIB:Riley_2006'/>
* [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.2.1.46 4.2.1.46]<ref name='LIB:Riley_2006'/>


|-class='sortbottom'
|- class="tableEdit_footer"
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.28179.O46ab03c8a13cb&page=28179&pagename={{FULLPAGENAMEE}}&type=1&template=Product_nomenclature_table edit table] ||
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.28179.O46ab03c8a13cb&page=28179&pagename={{FULLPAGENAMEE}}&type=1&template=Product_nomenclature_table edit table]</span> ||
|}
|}
<!--box uid=421aa90e079fa326b6494f812ad13e79.28179.O46ab03c8a13cb-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.28179.O46ab03c8a13cb-->
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;"   
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="X46ab03c9c1a4a"  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
|-  
|-  
|
|


|
|
GO:0050662
GO:0005737
|
coenzyme binding
|
GO_REF:0000002
|
IEA: Inferred from Electronic Annotation
|
|
InterPro:IPR001509
cytoplasm
|
F
|
Seeded from EcoCyc <ref name = 'LIB:EcoCyc13.0'/>
|
complete
|-
|
|


|
GO:0016829
|
lyase activity
|
GO_REF:0000004
|
IEA: Inferred from Electronic Annotation
|
SP_KW:KW-0456
|
F
|
Seeded from EcoCyc <ref name = 'LIB:EcoCyc13.0'/>
|
complete
|-
|
|


|
GO:0044237
|
cellular metabolic process
|
GO_REF:0000002
|
IEA: Inferred from Electronic Annotation
|
InterPro:IPR001509
|
P
|
Seeded from EcoCyc <ref name = 'LIB:EcoCyc13.0'/>
|
complete
|-
|
|


|
|
GO:0009225
C
|
|
nucleotide-sugar metabolic process
Seeded from Riley et  al 2006 <ref name='LIB:Riley_2006'/>.
|
GO_REF:0000002
|
IEA: Inferred from Electronic Annotation
|
InterPro:IPR005888
|
P
|
|
Seeded from EcoCyc <ref name = 'LIB:EcoCyc13.0'/>
Missing: evidence, reference
|
complete
|-  
|-  
|
|


|
|
GO:0009103
GO:0003824
|
|
lipopolysaccharide biosynthetic process
catalytic activity
|
|
GO_REF:0000004
GOA:interpro<br />GO_REF:0000002
|
|
IEA: Inferred from Electronic Annotation
IEA: Inferred from Electronic Annotation
|
|
SP_KW:KW-0448
InterPro:IPR001509
|
P
|
Seeded from EcoCyc <ref name = 'LIB:EcoCyc13.0'/>
|
complete
|-
|
 
|
GO:0008460
|
dTDP-glucose 4,6-dehydratase activity
|
GO_REF:0000002<br />GO_REF:0000003
|
IEA: Inferred from Electronic Annotation
|
InterPro:IPR005888<br />EC:4.2.1.46
|
|
F
F
|
|
Seeded from EcoCyc <ref name = 'LIB:EcoCyc13.0'/>
Seeded from [[EcoCyc]] (v14.0)
|
|
complete  
complete  
Line 200: Line 124:
catalytic activity
catalytic activity
|
|
GO_REF:0000002
GOA:interpro<br />GO_REF:0000002
|
|
IEA: Inferred from Electronic Annotation
IEA: Inferred from Electronic Annotation
|
|
InterPro:IPR001509
InterPro:IPR016040
|
|
F
F
|
|
Seeded from EcoCyc 12.5 <ref name = 'LIB:EcoCyc12.5'/>
Seeded from [[EcoCyc]] (v14.0)
|
|
complete  
complete  
|-
|
|
GO:0005737
|
cytoplasm
|
|
|
|
C
|
Seeded from Riley et  al 2006 <ref name='LIB:Riley_2006'/>.
|
required fields missing 
|-  
|-  
|
|
Line 238: Line 143:
binding
binding
|
|
GO_REF:0000002
GOA:interpro<br />GO_REF:0000002
|
|
IEA: Inferred from Electronic Annotation
IEA: Inferred from Electronic Annotation
Line 246: Line 151:
F
F
|
|
Seeded from EcoCyc <ref name = 'LIB:EcoCyc13.0'/>
Seeded from [[EcoCyc]] (v14.0)
|
|
complete  
complete  
Line 257: Line 162:
metabolic process
metabolic process
|
|
GO_REF:0000002
GOA:interpro<br />GO_REF:0000002
|
|
IEA: Inferred from Electronic Annotation
IEA: Inferred from Electronic Annotation
Line 265: Line 170:
P
P
|
|
Seeded from EcoCyc <ref name = 'LIB:EcoCyc13.0'/>
Seeded from [[EcoCyc]] (v14.0)
|
|
complete  
complete  
Line 272: Line 177:


|
|
GO:0003824
GO:0008460
|
|
catalytic activity
dTDP-glucose 4,6-dehydratase activity
|
|
GO_REF:0000002<br />GO_REF:0000002
GOA:interpro<br />GO_REF:0000002
|
|
IEA: Inferred from Electronic Annotation
IEA: Inferred from Electronic Annotation
|
|
InterPro:IPR001509<br />InterPro:IPR016040
InterPro:IPR005888
|
F
|
Seeded from EcoCyc
|
complete
|-
|
 
|
GO:0005488
|
binding
|
GO_REF:0000002
|
IEA: Inferred from Electronic Annotation
|
InterPro:IPR016040
|
|
F
F
|
|
Seeded from EcoCyc
Seeded from [[EcoCyc]] (v14.0)
|
complete
|-
|
 
|
GO:0008152
|
metabolic process
|
GO_REF:0000002
|
IEA: Inferred from Electronic Annotation
|
InterPro:IPR016040
|
P
|
Seeded from EcoCyc
|
|
complete  
complete  
Line 333: Line 200:
dTDP-glucose 4,6-dehydratase activity
dTDP-glucose 4,6-dehydratase activity
|
|
GO_REF:0000002<br />GO_REF:0000003
GOA:spec<br />GO_REF:0000003
|
|
IEA: Inferred from Electronic Annotation
IEA: Inferred from Electronic Annotation
|
|
InterPro:IPR005888<br />EC:4.2.1.46
EC:4.2.1.46
|
|
F
F
|
|
Seeded from EcoCyc
Seeded from [[EcoCyc]] (v14.0)
|
|
complete  
complete  
Line 352: Line 219:
lipopolysaccharide biosynthetic process
lipopolysaccharide biosynthetic process
|
|
GO_REF:0000004
GOA:spkw<br />SP_KW:GO_REF:0000004
|
|
IEA: Inferred from Electronic Annotation
IEA: Inferred from Electronic Annotation
Line 360: Line 227:
P
P
|
|
Seeded from EcoCyc
Seeded from [[EcoCyc]] (v14.0)
|
|
complete  
complete  
Line 371: Line 238:
nucleotide-sugar metabolic process
nucleotide-sugar metabolic process
|
|
GO_REF:0000002
GOA:interpro<br />GO_REF:0000002
|
|
IEA: Inferred from Electronic Annotation
IEA: Inferred from Electronic Annotation
Line 379: Line 246:
P
P
|
|
Seeded from EcoCyc
Seeded from [[EcoCyc]] (v14.0)
|
|
complete  
complete  
|-  
|-  
|
|
 
|
|
GO:0009243
GO:0016829
|
|
O antigen biosynthetic process
lyase activity
|
|
GOA:spkw<br />SP_KW:GO_REF:0000004
|
|
IEA: Inferred from Electronic Annotation
|
|
SP_KW:KW-0456
|
|
P
F
|
|
Seeded from EcoCyc 11.1<ref name='LIB:EcoCyc11.1'/>.  
Seeded from [[EcoCyc]] (v14.0)
|
|
required fields missing 
complete
|-  
|-  
|
|
 
|
|
GO:0009246
GO:0044237
|
|
enterobacterial common antigen biosynthetic process  
cellular metabolic process
|
|
GOA:interpro<br />GO_REF:0000002
|
|
IEA: Inferred from Electronic Annotation
|
|
InterPro:IPR001509
|
|
P  
P
|
|
Seeded from EcoCyc 11.1<ref name='LIB:EcoCyc11.1'/>.  
Seeded from [[EcoCyc]] (v14.0)
|
|
required fields missing 
complete
|-
|
|
GO:0009435
|
NAD biosynthetic process
|
|
|
|
P
|
Seeded from EcoCyc 11.1<ref name='LIB:EcoCyc11.1'/>.
|
required fields missing 
|-  
|-  
|
|


|
|
GO:0016829
GO:0050662
|
|
lyase activity
coenzyme binding
|
|
GO_REF:0000004
GOA:interpro<br />GO_REF:0000002
|
|
IEA: Inferred from Electronic Annotation
IEA: Inferred from Electronic Annotation
|
|
SP_KW:KW-0456
InterPro:IPR001509
|
|
F
F
|
|
Seeded from EcoCyc
Seeded from [[EcoCyc]] (v14.0)
|
|
complete  
complete  


|-class='sortbottom'
|- class="tableEdit_footer"
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.28179.X46ab03c9c1a4a&page=28179&pagename={{FULLPAGENAMEE}}&type=&template=GO_table_product edit table] || || || || || || || ||
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.28179.X46ab03c9c1a4a&page=28179&pagename={{FULLPAGENAMEE}}&type=&template=GO_table_product edit table]</span> || || || || || || || ||
|}
|}
<!--box uid=421aa90e079fa326b6494f812ad13e79.28179.X46ab03c9c1a4a-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.28179.X46ab03c9c1a4a-->
Line 472: Line 320:
*  
*  
****************************************************************************************** -->{{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;"   
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="H46ab03e85d8fd"  class=" tableEdit Product_interactions_table dataTable"   
|- {{table heading style}}
|- {{table heading style}}
!|Partner Type!!Partner!!Notes!!References!!Evidence
!|Partner Type!!Partner!!Notes!!References!!Evidence


|-class='sortbottom'
|- class="tableEdit_footer"
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.28179.H46ab03e85d8fd&page=28179&pagename={{FULLPAGENAMEE}}&type=&template=Product_interactions_table edit table] || || || ||
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.28179.H46ab03e85d8fd&page=28179&pagename={{FULLPAGENAMEE}}&type=&template=Product_interactions_table edit table]</span> || || || ||
|}
|}
<!--box uid=421aa90e079fa326b6494f812ad13e79.28179.H46ab03e85d8fd-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.28179.H46ab03e85d8fd-->
Line 493: Line 341:
*  
*  
****************************************************************************************** -->{{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;"   
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="J46a88e507b180"  class=" tableEdit Product_localization_table"   
|- {{table heading style}}
|- {{table heading style}}
!|Compartment!!Description!!Evidence!!Notes
!|Compartment!!Description!!Evidence!!Reference/Source!!Notes


|-class='sortbottom'
|- class="tableEdit_footer"
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.28179.J46a88e507b180&page=28179&pagename={{FULLPAGENAMEE}}&type=&template=Product_localization_table edit table] || || ||
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.28179.J46a88e507b180&page=28179&pagename={{FULLPAGENAMEE}}&type=&template=Product_localization_table edit table]</span> || || || ||
|}
|}
<!--box uid=421aa90e079fa326b6494f812ad13e79.28179.J46a88e507b180-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.28179.J46a88e507b180-->
Line 518: Line 366:
*  
*  
****************************************************************************************** -->{{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="N46ab03ea5c0fc" class=" tableEdit Product_phys_prop_table"
 
|-
!align=left {{table heading style}} |Name
||


|-
|-
Line 537: Line 389:
!align=left {{table heading style}} |Mol. Wt
!align=left {{table heading style}} |Mol. Wt
||
||
39.75 kDa (calc) <ref name='LIB:EcoCyc10.6'/>
39.754 kDa
|-
|-
!align=left {{table heading style}} |pI
!align=left {{table heading style}} |pI
||
||
5.9 (calculated)
|-
|-
!align=left {{table heading style}} |Extinction coefficient
!align=left {{table heading style}} |Extinction coefficient
||
||
65320 - 65945 (calc based on 18 Y, 7 W, and 5 C residues)  
65,320 - 65,945 (calc based on 18 Y, 7 W, and 5 C residues)


|-class='sortbottom'
|- class="tableEdit_footer"
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.28179.N46ab03ea5c0fc&page=28179&pagename={{FULLPAGENAMEE}}&type=1&template=Product_phys_prop_table edit table] ||
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.28179.N46ab03ea5c0fc&page=28179&pagename={{FULLPAGENAMEE}}&type=1&template=Product_phys_prop_table edit table]</span> ||
|}
|}
<!--box uid=421aa90e079fa326b6494f812ad13e79.28179.N46ab03ea5c0fc-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.28179.N46ab03ea5c0fc-->
Line 562: Line 414:
*  
*  
****************************************************************************************** -->{{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;"   
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="B46ab03ead3e09"  class=" tableEdit Product_motif_table dataTable"   
|- {{table heading style}}
|- {{table heading style}}
!|Type!!Residues!!Description!!Notes
!|Type!!Residues!!Description!!Notes!!References
|-
|
Domain
|
4..252
|
[http://pfam.janelia.org/family/PF01370 PF01370  NAD dependent epimerase/dehydratase family]
|


|-class='sortbottom'
|
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.28179.B46ab03ead3e09&page=28179&pagename={{FULLPAGENAMEE}}&type=&template=Product_motif_table edit table] || || ||
PMID:19920124
 
|- class="tableEdit_footer"
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.28179.B46ab03ead3e09&page=28179&pagename={{FULLPAGENAMEE}}&type=&template=Product_motif_table edit table]</span> || || || ||
|}
|}
<!--box uid=421aa90e079fa326b6494f812ad13e79.28179.B46ab03ead3e09--></td>
<!--box uid=421aa90e079fa326b6494f812ad13e79.28179.B46ab03ead3e09--></td>
Line 578: Line 441:
</table>
</table>


<span id="Structure"></span><big>'''Structure'''</big>
<table><tr valign='top'><td>
<span id='Structure'></span><big>'''Structure'''</big><br />
<!--box uid=421aa90e079fa326b6494f812ad13e79.28179.B46a88e5220d0c-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.28179.B46a88e5220d0c-->
<!--
<!--
Line 586: Line 450:
*  
*  
****************************************************************************************** -->{{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="B46a88e5220d0c" class=" tableEdit Product_structure_table"


|-
|-
!align=left {{table heading style}} |Structures
!align=left {{table heading style}} |Structures
||
||
<beststructure>rffG
<beststructure>
562</beststructure>
gene=rffG
 
taxon=562,83333
</beststructure>
|-
|-
!align=left {{table heading style}} |Models
!align=left {{table heading style}} |Models
||
||
View models at:
View models at:
* [http://dragon.bio.purdue.edu/ecolpredict2/localsearch/cgi-bin/search3.cgi?q=rffG&sub=keywordSearc EcoliPredict]
* [http://www.proteinmodelportal.org/query/uniprot/P27830 Protein Model Portal]
* [http://modbase.compbio.ucsf.edu/modbase-cgi/model_search.cgi?searchmode=default&displaymode=moddetail&searchproperties=ALL&searchvalue=rffG&organism=562&organismtext= ModBase]
* [http://bioinf.cs.ucl.ac.uk/genome3d/read?uniprot_id=P27830 PSI-PRED (P27830)]
* [http://bioinf.cs.ucl.ac.uk/psipred/ PSI-PRED]
* [http://spock.genes.nig.ac.jp/~genome/cgi-bin/gkeytext.pl.cgi?A&QUERY1=P27830 Genomes TO Protein (P27830)] (GTOP)
* [http://www.ebi.ac.uk/msd-srv/pqs/ Protein Quaternary Structure] (PQS)
* [http://spock.genes.nig.ac.jp/~genome/search.html Genomes TO Protein] (GTOP)


|-class='sortbottom'
|- class="tableEdit_footer"
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.28179.B46a88e5220d0c&page=28179&pagename={{FULLPAGENAMEE}}&type=1&template=Product_structure_table edit table] ||
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.28179.B46a88e5220d0c&page=28179&pagename={{FULLPAGENAMEE}}&type=1&template=Product_structure_table edit table]</span> ||
|}
|}
<!--box uid=421aa90e079fa326b6494f812ad13e79.28179.B46a88e5220d0c-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.28179.B46a88e5220d0c-->


<!--Structure_notes--></protect>
</td><td></protect>
==== Structure figures ====
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
<protect><!--          ***** PLEASE DO NOT EDIT BELOW THIS LINE *****        -->
</td><tr><table><!--Structure_notes--></protect>
===Notes===
===Notes===


Line 623: Line 506:
*  
*  
****************************************************************************************** -->{{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;"   
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="L46ab03ebae382"  class=" tableEdit Product_resource_table"   
|- {{table_heading_style}}
|- {{table_heading_style}}
!|Resource type!!Source!!Notes/Reference
!|Resource type!!Source!!Notes/Reference


|-class='sortbottom'
|- class="tableEdit_footer"
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.28179.L46ab03ebae382&page=28179&pagename={{FULLPAGENAMEE}}&type=&template=Product_resource_table edit table] || ||
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.28179.L46ab03ebae382&page=28179&pagename={{FULLPAGENAMEE}}&type=&template=Product_resource_table edit table]</span> || ||
|}
|}
<!--box uid=421aa90e079fa326b6494f812ad13e79.28179.L46ab03ebae382-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.28179.L46ab03ebae382-->
Line 645: Line 528:
*  
*  
****************************************************************************************** -->{{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;"   
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="Q46ab03ec1f0cc"  class=" tableEdit Gene_accessions_table"   
|- {{table_heading_style}}
|- {{table_heading_style}}
!|Database!!Accession!!Notes
!|Database!!Accession!!Notes
|-  
|-  
|
|
[http://ecocyc.org EcoCyc] ([[EcoCyc|EcoliWiki Page]])  
[http://www.ncbi.nlm.nih.gov/protein NCBI (Protein)] ([[NCBI (Protein)|EcoliWiki Page]])
|
[http://www.ncbi.nlm.nih.gov/protein/49176411 GI:49176411]
|
Escherichia coli str. K-12 substr. MG1655
|-
|
[http://www.ncbi.nlm.nih.gov/protein NCBI (Protein)] ([[NCBI (Protein)|EcoliWiki Page]])
|
[http://www.ncbi.nlm.nih.gov/protein/YP_026255.1 GeneID:948300]
|
Escherichia coli str. K-12 substr. MG1655
|-
|
[[ASAP]]
|
ASAP:ABE-0012376
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-
|
[http://www.pir.uniprot.org/ UniProt] ([[UniProt|EcoliWiki Page]])
|
[http://www.uniprot.org/uniprot/P27830 UniProtKB/Swiss-Prot:P27830]
|
Escherichia coli str. K-12 substr. MG1655
|-
|
[[EcoCyc]]
|
|
[http://biocyc.org/ECOLI/NEW-IMAGE?type=NIL&object=DTDPGLUCDEHYDRAT2-MONOMER EcoCyc:DTDPGLUCDEHYDRAT2-MONOMER]
EcoCyc:EG11453
|
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-  
|-  
|
|
[http://uniprot.org/ UniProt] ([[UniProt|EcoliWiki Page]])
[[EcoGene]]
|
|
[[uniprot:P27830|UniProt:P27830]]
EcoGene:EG11453
|
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-  
|-  
|
|
[http://pfam.sanger.ac.uk/ PFAM] ([[PFAM|EcoliWiki Page]])  
[http://www.ncbi.nlm.nih.gov/gene NCBI (Gene)] ([[NCBI (Gene)|EcoliWiki Page]])
|
|
[http://pfam.sanger.ac.uk/family?acc=PF01370 PFAM:PF01370]
[http://www.ncbi.nlm.nih.gov/gene?term=948300 GeneID:948300]
|
|
Escherichia coli str. K-12 substr. MG1655
|-  
|-  
|
|
[http://www.ncbi.nlm.nih.gov/RefSeq/ RefSeq] ([[RefSeq|EcoliWiki Page]])
[[RegulonDB]]
|
|
[http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?db=nucleotide&val=YP_026255 RefSeq:YP_026255]
RegulonDB:ECK120001416
|
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-  
|-  
|
|
[http://modbase.compbio.ucsf.edu ModBase] ([[ModBase|EcoliWiki Page]])
[[EchoBASE]]
|
|
[http://salilab.org/modbase/searchbyid?databaseID=P27830 ModBase:P27830]
EchoBASE:EB1422
|
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]


|-class='sortbottom'
|- class="tableEdit_footer"
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.28179.Q46ab03ec1f0cc&page=28179&pagename={{FULLPAGENAMEE}}&type=0&template=Gene_accessions_table edit table] || ||
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.28179.Q46ab03ec1f0cc&page=28179&pagename={{FULLPAGENAMEE}}&type=0&template=Gene_accessions_table edit table]</span> || ||
|}
|}
<!--box uid=421aa90e079fa326b6494f812ad13e79.28179.Q46ab03ec1f0cc-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.28179.Q46ab03ec1f0cc-->
Line 702: Line 613:
*  
*  
****************************************************************************************** -->
****************************************************************************************** -->
{|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="K46a88e55ceb6a"  class=" tableEdit Links_table"   
|- {{table_heading_style}}
|- {{table_heading_style}}
!|Name!!URL!!Comments
!|Name!!URL!!Comments


|-class='sortbottom'
|- class="tableEdit_footer"
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.28179.K46a88e55ceb6a&page=28179&pagename={{FULLPAGENAMEE}}&type=0&template=Links_table edit table] || ||
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.28179.K46a88e55ceb6a&page=28179&pagename={{FULLPAGENAMEE}}&type=0&template=Links_table edit table]</span> || ||
|}
|}
<!--box uid=421aa90e079fa326b6494f812ad13e79.28179.K46a88e55ceb6a-->
<!--box uid=421aa90e079fa326b6494f812ad13e79.28179.K46a88e55ceb6a-->
Line 717: Line 628:
==References==
==References==
{{BacktoTop}}
{{BacktoTop}}
 
{{RefHelp}}
<references/>
<references />
__NOTOC__
__NOTOC__
</noinclude>
===Categories===
===Categories===
{{BacktoTop}}
{{BacktoTop}}
[[Category:Proteins]]
[[Category:Proteins]]
[[Category:GO:0005737_!_cytoplasm]][[Category:GO:0009243_!_O antigen biosynthetic process]][[Category:GO:0009246_!_enterobacterial common antigen biosynthetic process]][[Category:GO:0009435_!_NAD biosynthetic process]][[Category:GO:0042280_!_cell surface antigen activity, host-interacting]]

Latest revision as of 21:08, 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

RffG

Synonyms

dTDP-glucose 4,6-dehydratase[1], B3788[2][1], Rff[2][1], NfrC[2][1], RffG[2][1] , ECK3780, JW5598, rff, b3788

Product description

dTDP-glucose 4,6-dehydratase 2[2][3]

dTDP-glucose dehydratase; needed for ECA (enterobacterial common antigen) synthesis[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 Evidence Code with/from Aspect Notes Status
GO:0005737

cytoplasm

C

Seeded from Riley et al 2006 [1].

Missing: evidence, reference

GO:0003824

catalytic activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR001509

F

Seeded from EcoCyc (v14.0)

complete

GO:0003824

catalytic activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR016040

F

Seeded from EcoCyc (v14.0)

complete

GO:0005488

binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR016040

F

Seeded from EcoCyc (v14.0)

complete

GO:0008152

metabolic process

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR016040

P

Seeded from EcoCyc (v14.0)

complete

GO:0008460

dTDP-glucose 4,6-dehydratase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR005888

F

Seeded from EcoCyc (v14.0)

complete

GO:0008460

dTDP-glucose 4,6-dehydratase activity

GOA:spec
GO_REF:0000003

IEA: Inferred from Electronic Annotation

EC:4.2.1.46

F

Seeded from EcoCyc (v14.0)

complete

GO:0009103

lipopolysaccharide biosynthetic process

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0448

P

Seeded from EcoCyc (v14.0)

complete

GO:0009225

nucleotide-sugar metabolic process

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR005888

P

Seeded from EcoCyc (v14.0)

complete

GO:0016829

lyase activity

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0456

F

Seeded from EcoCyc (v14.0)

complete

GO:0044237

cellular metabolic process

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR001509

P

Seeded from EcoCyc (v14.0)

complete

GO:0050662

coenzyme binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR001509

F

Seeded from EcoCyc (v14.0)

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
edit table


Notes

Localization

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

Compartment Description Evidence Reference/Source Notes
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.

Name
Sequence

at EcoCyc 

MRKILITGGA GFIGSALVRY IINETSDAVV VVDKLTYAGN LMSLAPVAQS ERFAFEKVDI
CDRAELARVF TEHQPDCVMH LAAESHVDRS IDGPAAFIET NIVGTYTLLE AARAYWNALT
EDKKSAFRFH HISTDEVYGD LHSTDDFFTE TTPYAPSSPY SASKASSDHL VRAWLRTYGL
PTLITNCSNN YGPYHFPEKL IPLMILNALA GKSLPVYGNG QQIRDWLYVE DHARALYCVA
TTGKVGETYN IGGHNERKNL DVVETICELL EELAPNKPHG VAHYRDLITF VADRPGHDLR
YAIDASKIAR ELGWLPQETF ESGMRKTVQW YLANESWWKQ VQDGSYQGER LGLKG
Length

355

Mol. Wt

39.754 kDa

pI

5.9 (calculated)

Extinction coefficient

65,320 - 65,945 (calc based on 18 Y, 7 W, and 5 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 References

Domain

4..252

PF01370 NAD dependent epimerase/dehydratase family

PMID:19920124[5]

edit table

<motif_map/>

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

Structures

<beststructure> gene=rffG 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

NCBI (Protein) (EcoliWiki Page)

GI:49176411

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:948300

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0012376

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P27830

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG11453

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG11453

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:948300

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120001416

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB1422

Escherichia coli str. K-12 substr. MG1655

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 1.3 1.4 1.5 1.6 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
  2. ↑ 2.0 2.1 2.2 2.3 2.4 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. ↑ Finn, RD et al. (2010) The Pfam protein families database. Nucleic Acids Res. 38 D211-22 PubMed

Categories

[back to top]


Retrieved from "https://ecoliwiki.org/colipedia/index.php?title=rffG:Gene_Product(s)&oldid=1495558"