EcoliWiki - User contributions [en]

nusG:Quickview

2011-01-04T21:33:34Z

Rwashburn: /* Notes */

nusG:Quickview

2011-01-04T21:23:25Z

Rwashburn: /* Notes */

rho:Expression

2011-01-04T21:05:54Z

Rwashburn: /* Notes */

rho:Gene Product(s)

2011-01-04T20:46:41Z

Rwashburn: Table edited by Rwashburn via TableEdit

{{#css:Suppresslinks.css}}<css>{{:Suppresslinks.css}}</css>
<noinclude>{{TabsTop}}
{{Tab|Quickview|rho}}{{Tab|Gene|rho}}{{Tab On|Gene Product(s)|rho}}{{Tab|Expression|rho}}{{Tab|Evolution|rho}}{{Tab|On One Page|rho}}{{TabsBottom}}
{|
|-
|{{Sub}}[[#Nomenclature |Nomenclature]]
|{{Sub}}[[#Function |Function]]
|{{Sub}}[[#Interactions |Interactions]]
|{{Sub}}[[#Localization |Localization]]
|{{Sub}}[[#Sequence|Sequence]]
|{{Sub}}[[#Domains/Motifs/Modification Sites|Domains]]
|{{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==

{{Product_nomenclature_help}}
{| id="A46ab0358a9201" class=" tableEdit Product_nomenclature_table"

|-
!align=left {{table heading style}} |Standard name
||
Rho
|-
!align=left {{table heading style}} |Synonyms
||
transcription termination factor<ref name='LIB:Riley_2006'/>, B3783<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, RnsC<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, Tsu<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, Sun<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, NusD<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, Psu<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, SbaA<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, PsuA<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, NitA<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, Rho<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>
|-
!align=left {{table heading style}} |Product description
||
transcription termination factor Rho; polarity suppressor<ref name='LIB:EcoCyc10.6'/><ref name='LIB:EcoCyc11.1'/>;

Component of [[:Category:Complex:transcription termination factor Rho|transcription termination factor Rho]]<ref name='LIB:EcoCyc11.1'/>

Transcription termination factor Rho; bicyclomycin target<ref name='LIB:EcoGene'/>
|-
!align=left {{table heading style}} |EC number (for enzymes)
||

|- class="tableEdit_footer"
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.28167.A46ab0358a9201&page=28167&pagename={{FULLPAGENAMEE}}&type=1&template=Product_nomenclature_table edit table] ||
|}


<protect></protect>
===Notes===

==Function==
{{BacktoTop}}
<protect>
<big>'''Gene Ontology'''</big> 
{{Product_GO_help}}
{| id="Q46ab035aca7e9" class=" tableEdit GO_table_product dataTable"
|- {{table_heading_style}}
!|Qualifier!!GO ID!!GO term name!!Reference(s)!!Evidence Code!!with/from!!Aspect!!Notes!!Status
|-
|

|
GO:0000166
|
nucleotide binding
|
GOA:interpro GO_REF:0000002
|
IEA: Inferred from Electronic Annotation
|
InterPro:IPR003593
|
F
|
Seeded from [[EcoCyc]] (v14.0)
|
complete
|-
|

|
GO:0000166
|
nucleotide binding
|
GOA:spkw SP_KW:GO_REF:0000004
|
IEA: Inferred from Electronic Annotation
|
SP_KW:KW-0547
|
F
|
Seeded from [[EcoCyc]] (v14.0)
|
complete
|-
|

|
GO:0003676
|
nucleic acid binding
|
GOA:interpro GO_REF:0000002
|
IEA: Inferred from Electronic Annotation
|
InterPro:IPR011129
|
F
|
Seeded from [[EcoCyc]] (v14.0)
|
complete
|-
|

|
GO:0003715
|
transcription termination factor activity
|
GOA:interpro GO_REF:0000002
|
IEA: Inferred from Electronic Annotation
|
InterPro:IPR004665
|
F
|
Seeded from [[EcoCyc]] (v14.0)
|
complete
|-
|

|
GO:0003715
|
transcription termination factor activity
|
GOA:interpro GO_REF:0000002
|
IEA: Inferred from Electronic Annotation
|
InterPro:IPR011112
|
F
|
Seeded from [[EcoCyc]] (v14.0)
|
complete
|-
|

|
GO:0003715
|
transcription termination factor activity
|
GOA:interpro GO_REF:0000002
|
IEA: Inferred from Electronic Annotation
|
InterPro:IPR011113
|
F
|
Seeded from [[EcoCyc]] (v14.0)
|
complete
|-
|

|
GO:0003723
|
RNA binding
|
GOA:interpro GO_REF:0000002
|
IEA: Inferred from Electronic Annotation
|
InterPro:IPR011113
|
F
|
Seeded from [[EcoCyc]] (v14.0)
|
complete
|-
|

|
GO:0003723
|
RNA binding
|
GOA:spkw SP_KW:GO_REF:0000004
|
IEA: Inferred from Electronic Annotation
|
SP_KW:KW-0694
|
F
|
Seeded from [[EcoCyc]] (v14.0)
|
complete
|-
|

|
GO:0004386
|
helicase activity
|
GOA:spkw SP_KW:GO_REF:0000004
|
IEA: Inferred from Electronic Annotation
|
SP_KW:KW-0347
|
F
|
Seeded from [[EcoCyc]] (v14.0)
|
complete
|-
|

|
GO:0005524
|
ATP binding
|
GOA:interpro GO_REF:0000002
|
IEA: Inferred from Electronic Annotation
|
InterPro:IPR004665
|
F
|
Seeded from [[EcoCyc]] (v14.0)
|
complete
|-
|

|
GO:0005524
|
ATP binding
|
GOA:spkw SP_KW:GO_REF:0000004
|
IEA: Inferred from Electronic Annotation
|
SP_KW:KW-0067
|
F
|
Seeded from [[EcoCyc]] (v14.0)
|
complete
|-
|

|
GO:0006350
|
transcription
|
GOA:spkw SP_KW:GO_REF:0000004
|
IEA: Inferred from Electronic Annotation
|
SP_KW:KW-0804
|
P
|
Seeded from [[EcoCyc]] (v14.0)
|
complete
|-
|

|
GO:0006353
|
transcription termination
|
GOA:interpro GO_REF:0000002
|
IEA: Inferred from Electronic Annotation
|
InterPro:IPR004665
|
P
|
Seeded from [[EcoCyc]] (v14.0)
|
complete
|-
|

|
GO:0006353
|
transcription termination
|
GOA:interpro GO_REF:0000002
|
IEA: Inferred from Electronic Annotation
|
InterPro:IPR011112
|
P
|
Seeded from [[EcoCyc]] (v14.0)
|
complete
|-
|

|
GO:0006353
|
transcription termination
|
GOA:interpro GO_REF:0000002
|
IEA: Inferred from Electronic Annotation
|
InterPro:IPR011113
|
P
|
Seeded from [[EcoCyc]] (v14.0)
|
complete
|-
|

|
GO:0006353
|
transcription termination
|
GOA:spkw SP_KW:GO_REF:0000004
|
IEA: Inferred from Electronic Annotation
|
SP_KW:KW-0806
|
P
|
Seeded from [[EcoCyc]] (v14.0)
|
complete
|-
|

|
GO:0016787
|
hydrolase activity
|
GOA:spkw SP_KW:GO_REF:0000004
|
IEA: Inferred from Electronic Annotation
|
SP_KW:KW-0378
|
F
|
Seeded from [[EcoCyc]] (v14.0)
|
complete
|-
|

|
GO:0017111
|
nucleoside-triphosphatase activity
|
GOA:interpro GO_REF:0000002
|
IEA: Inferred from Electronic Annotation
|
InterPro:IPR003593
|
F
|
Seeded from [[EcoCyc]] (v14.0)
|
complete
|-
|

|
GO:0031555
|
transcriptional attenuation
|
PMID:2423505
|
IMP: Inferred from Mutant Phenotype
|

|
P
|
Seeded from [[EcoCyc]] (v14.0)
|
complete

|- class="tableEdit_footer"
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.28167.Q46ab035aca7e9&page=28167&pagename={{FULLPAGENAMEE}}&type=&template=GO_table_product edit table] || || || || || || || ||
|}


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

{{Product_interactions_help}}
{| id="X46ab0366f3cc2" class=" tableEdit Product_interactions_table dataTable"
|- {{table heading style}}
!|Partner Type!!Partner!!Notes!!References!!Evidence
|-
|
Protein
|
Subunits of [[:Category:Complex:transcription termination factor Rho|transcription termination factor Rho]]
|
could be indirect
|

|

|-
|
Protein
|
tufA 
|

|
PMID:15690043
|
Experiment(s):EBI-884347 
|-
|
Protein
|
gsp 
|

|
PMID:15690043
|
Experiment(s):EBI-891277 
|-
|
Protein
|
menF 
|

|
PMID:15690043
|
Experiment(s):EBI-891277 
|-
|
Protein
|
rplC 
|

|
PMID:15690043
|
Experiment(s):EBI-891277 
|-
|
Protein
|
rplL 
|

|
PMID:15690043
|
Experiment(s):EBI-891277 
|-
|
Protein
|
rpsB 
|

|
PMID:15690043
|
Experiment(s):EBI-891277 
|-
|
Protein
|
yhbY 
|

|
PMID:15690043
|
Experiment(s):EBI-891277 
|-
|
Protein
|
uspG 
|

|
PMID:16606699
|
Experiment(s):EBI-1146678 

|- class="tableEdit_footer"
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|}


</protect>
===Notes===

==Localization==

{{Product_localization_help}}
{| id="E46a88dea00e77" class=" tableEdit Product_localization_table"
|- {{table heading style}}
!|Compartment!!Description!!Evidence!!Source!!Notes

|- class="tableEdit_footer"
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.28167.E46a88dea00e77&page=28167&pagename={{FULLPAGENAMEE}}&type=&template=Product_localization_table edit table] || || || ||
|}


<protect></protect>

===Notes===

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

{{Product_physical_properties_help}}
{| id="I46ab036973cca" class=" tableEdit Product_phys_prop_table"

|-
!align=left {{table heading style}} |Sequence
||
[http://biocyc.org/ECOLI/sequence-aa?object=EG10845-MONOMER at EcoCyc]
<pre>MNLTELKNTP VSELITLGEN MGLENLARMR KQDIIFAILK QHAKSGEDIF GDGVLEILQD
GFGFLRSADS SYLAGPDDIY VSPSQIRRFN LRTGDTISGK IRPPKEGERY FALLKVNEVN
FDKPENARNK ILFENLTPLH ANSRLRMERG NGSTEDLTAR VLDLASPIGR GQRGLIVAPP
KAGKTMLLQN IAQSIAYNHP DCVLMVLLID ERPEEVTEMQ RLVKGEVVAS TFDEPASRHV
QVAEMVIEKA KRLVEHKKDV IILLDSITRL ARAYNTVVPA SGKVLTGGVD ANALHRPKRF
FGAARNVEEG GSLTIIATAL IDTGSKMDEV IYEEFKGTGN MELHLSRKIA EKRVFPAIDY
NRSGTRKEEL LTTQEELQKM WILRKIIHPM GEIDAMEFLI NKLAMTKTND DFFEMMKRS</pre>
|-
!align=left {{table heading style}} |Length
||
419
|-
!align=left {{table heading style}} |Mol. Wt
||
47.005 kDa
|-
!align=left {{table heading style}} |pI
||
7.2 (calculated)
|-
!align=left {{table heading style}} |Extinction coefficient
||
15,930 - 16,055 (calc based on 7 Y, 1 W, and 1 C residues)

|- class="tableEdit_footer"
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.28167.I46ab036973cca&page=28167&pagename={{FULLPAGENAMEE}}&type=1&template=Product_phys_prop_table edit table] ||
|}


<big>'''Domains/Motifs/Modification Sites'''</big><table>
<tr align="left" valign="top">
<td>
{{Product_domains_motifs_help}}
{| id="R46ab0369ea2fd" class=" tableEdit Product_motif_table dataTable"
|- {{table heading style}}
!|Type!!Residues!!Description!!Notes!!References
|-
|
Domain
|
157..365
|
[http://pfam.janelia.org/family/PF00006 PF00006 ATP synthase alpha/beta family, nucleotide-binding domain]
|

|
PMID:19920124
|-
|
Domain
|
49..126
|
[http://pfam.janelia.org/family/PF07497 PF07497 Rho termination factor, RNA-binding domain]
|

|
PMID:19920124
|-
|
Domain
|
5..47
|
[http://pfam.janelia.org/family/PF07498 PF07498 Rho termination factor, N-terminal domain]
|

|
PMID:19920124

|- class="tableEdit_footer"
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|}
</td>
<td>


<motif_map/>
</td>
</tr>
</table>

<table><tr valign='top'><td>
<big>'''Structure'''</big> 

{{Product_structure_help}}
{| id="P46ab036a58da6" class=" tableEdit Product_structure_table"

|-
!align=left {{table heading style}} |Structures
||
<beststructure>
gene=rho
taxon=562,83333
</beststructure>
|-
!align=left {{table heading style}} |Models
||
View models at:
* [http://dragon.bio.purdue.edu/ecolpredict2/localsearch/cgi-bin/search3.cgi?q=recA EcoliPredict]
* [http://modbase.compbio.ucsf.edu/modbase-cgi/model_search.cgi?searchmode=default&displaymode=moddetail&searchproperties=ALL&searchvalue=recA&organism=562&organismtext= ModBase]
* [http://bioinf.cs.ucl.ac.uk/psipred/ PSI-PRED]
* [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="tableEdit_footer"
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|}


</td><td></protect>
==== Structure figures ====

<protect>
</td><tr><table></protect>
===Notes===

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

{{Product_resources_help}}
{| id="T46ab036d62e3d" class=" tableEdit Product_resource_table"
|- {{table_heading_style}}
!|Resource type!!Source!!Notes/Reference

|- class="tableEdit_footer"
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.28167.T46ab036d62e3d&page=28167&pagename={{FULLPAGENAMEE}}&type=&template=Product_resource_table edit table] || ||
|}


<protect></protect>
===Notes===

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

{{Gene_accessions_help}}
{| id="F46ab036dc7256" class=" tableEdit Gene_accessions_table"
|- {{table_heading_style}}
!|Database!!Accession!!Notes
|-
|
[http://ecocyc.org EcoCyc] ([[EcoCyc|EcoliWiki Page]])
|
[http://biocyc.org/ECOLI/NEW-IMAGE?type=NIL&object=EG10845-MONOMER EcoCyc:EG10845-MONOMER]
|

|-
|
[http://swissmodel.expasy.org/repository/ SwissModel] ([[SwissModel|EcoliWiki Page]])
|
[http://swissmodel.expasy.org/repository/smr.php?job=2&sptr_ac=P0AG30 SwissModel:P0AG30]
|

|-
|
[http://uniprot.org/ UniProt] ([[UniProt|EcoliWiki Page]])
|
[[uniprot:P0AG30|UniProt:P0AG30]]
|

|-
|
[http://pfam.sanger.ac.uk/ PFAM] ([[PFAM|EcoliWiki Page]])
|
[http://pfam.janelia.org/protein/P0AG30 Pfam:P0AG30]
|

|-
|
[http://www.ncbi.nlm.nih.gov/RefSeq/ RefSeq] ([[RefSeq|EcoliWiki Page]])
|
[http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?db=nucleotide&val=NP_418230 RefSeq:NP_418230]
|

|- class="tableEdit_footer"
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.28167.F46ab036dc7256&page=28167&pagename={{FULLPAGENAMEE}}&type=0&template=Gene_accessions_table edit table] || ||
|}


<protect></protect>
===Notes===

==Links==
{{BacktoTop}}


{| id="B46a88df32dd8e" class=" tableEdit Links_table"
|- {{table_heading_style}}
!|Name!!URL!!Comments

|- class="tableEdit_footer"
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.28167.B46a88df32dd8e&page=28167&pagename={{FULLPAGENAMEE}}&type=0&template=Links_table edit table] || ||
|}


<noinclude>
==References==
{{BacktoTop}}
{{RefHelp}}
<references />
__NOTOC__
===Categories===
{{BacktoTop}}
[[Category:Proteins]]

rho:Gene Product(s)

2011-01-04T20:37:46Z

Rwashburn: Table edited by Rwashburn via TableEdit

{{#css:Suppresslinks.css}}<css>{{:Suppresslinks.css}}</css>
<noinclude>{{TabsTop}}
{{Tab|Quickview|rho}}{{Tab|Gene|rho}}{{Tab On|Gene Product(s)|rho}}{{Tab|Expression|rho}}{{Tab|Evolution|rho}}{{Tab|On One Page|rho}}{{TabsBottom}}
{|
|-
|{{Sub}}[[#Nomenclature |Nomenclature]]
|{{Sub}}[[#Function |Function]]
|{{Sub}}[[#Interactions |Interactions]]
|{{Sub}}[[#Localization |Localization]]
|{{Sub}}[[#Sequence|Sequence]]
|{{Sub}}[[#Domains/Motifs/Modification Sites|Domains]]
|{{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==

{{Product_nomenclature_help}}
{| id="A46ab0358a9201" class=" tableEdit Product_nomenclature_table"

|-
!align=left {{table heading style}} |Standard name
||
Rho
|-
!align=left {{table heading style}} |Synonyms
||
transcription termination factor<ref name='LIB:Riley_2006'/>, B3783<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, RnsC<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, Tsu<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, Sun<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, NusD<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, Psu<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, SbaA<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, PsuA<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, NitA<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, Rho<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>
|-
!align=left {{table heading style}} |Product description
||
transcription termination factor Rho; polarity suppressor<ref name='LIB:EcoCyc10.6'/><ref name='LIB:EcoCyc11.1'/>;

Component of [[:Category:Complex:transcription termination factor Rho|transcription termination factor Rho]]<ref name='LIB:EcoCyc11.1'/>

Transcription termination factor Rho; bicyclomycin target<ref name='LIB:EcoGene'/>
|-
!align=left {{table heading style}} |EC number (for enzymes)
||

|- class="tableEdit_footer"
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.28167.A46ab0358a9201&page=28167&pagename={{FULLPAGENAMEE}}&type=1&template=Product_nomenclature_table edit table] ||
|}


<protect></protect>
===Notes===

==Function==
{{BacktoTop}}
<protect>
<big>'''Gene Ontology'''</big> 
{{Product_GO_help}}
{| id="Q46ab035aca7e9" class=" tableEdit GO_table_product dataTable"
|- {{table_heading_style}}
!|Qualifier!!GO ID!!GO term name!!Reference(s)!!Evidence Code!!with/from!!Aspect!!Notes!!Status
|-
|

|
GO:0000166
|
nucleotide binding
|
GOA:interpro GO_REF:0000002
|
IEA: Inferred from Electronic Annotation
|
InterPro:IPR003593
|
F
|
Seeded from [[EcoCyc]] (v14.0)
|
complete
|-
|

|
GO:0000166
|
nucleotide binding
|
GOA:spkw SP_KW:GO_REF:0000004
|
IEA: Inferred from Electronic Annotation
|
SP_KW:KW-0547
|
F
|
Seeded from [[EcoCyc]] (v14.0)
|
complete
|-
|

|
GO:0003676
|
nucleic acid binding
|
GOA:interpro GO_REF:0000002
|
IEA: Inferred from Electronic Annotation
|
InterPro:IPR011129
|
F
|
Seeded from [[EcoCyc]] (v14.0)
|
complete
|-
|

|
GO:0003715
|
transcription termination factor activity
|
GOA:interpro GO_REF:0000002
|
IEA: Inferred from Electronic Annotation
|
InterPro:IPR004665
|
F
|
Seeded from [[EcoCyc]] (v14.0)
|
complete
|-
|

|
GO:0003715
|
transcription termination factor activity
|
GOA:interpro GO_REF:0000002
|
IEA: Inferred from Electronic Annotation
|
InterPro:IPR011112
|
F
|
Seeded from [[EcoCyc]] (v14.0)
|
complete
|-
|

|
GO:0003715
|
transcription termination factor activity
|
GOA:interpro GO_REF:0000002
|
IEA: Inferred from Electronic Annotation
|
InterPro:IPR011113
|
F
|
Seeded from [[EcoCyc]] (v14.0)
|
complete
|-
|

|
GO:0003723
|
RNA binding
|
GOA:interpro GO_REF:0000002
|
IEA: Inferred from Electronic Annotation
|
InterPro:IPR011113
|
F
|
Seeded from [[EcoCyc]] (v14.0)
|
complete
|-
|

|
GO:0003723
|
RNA binding
|
GOA:spkw SP_KW:GO_REF:0000004
|
IEA: Inferred from Electronic Annotation
|
SP_KW:KW-0694
|
F
|
Seeded from [[EcoCyc]] (v14.0)
|
complete
|-
|

|
GO:0004386
|
helicase activity
|
GOA:spkw SP_KW:GO_REF:0000004
|
IEA: Inferred from Electronic Annotation
|
SP_KW:KW-0347
|
F
|
Seeded from [[EcoCyc]] (v14.0)
|
complete
|-
|

|
GO:0005524
|
ATP binding
|
GOA:interpro GO_REF:0000002
|
IEA: Inferred from Electronic Annotation
|
InterPro:IPR004665
|
F
|
Seeded from [[EcoCyc]] (v14.0)
|
complete
|-
|

|
GO:0005524
|
ATP binding
|
GOA:spkw SP_KW:GO_REF:0000004
|
IEA: Inferred from Electronic Annotation
|
SP_KW:KW-0067
|
F
|
Seeded from [[EcoCyc]] (v14.0)
|
complete
|-
|

|
GO:0006350
|
transcription
|
GOA:spkw SP_KW:GO_REF:0000004
|
IEA: Inferred from Electronic Annotation
|
SP_KW:KW-0804
|
P
|
Seeded from [[EcoCyc]] (v14.0)
|
complete
|-
|

|
GO:0006353
|
transcription termination
|
GOA:interpro GO_REF:0000002
|
IEA: Inferred from Electronic Annotation
|
InterPro:IPR004665
|
P
|
Seeded from [[EcoCyc]] (v14.0)
|
complete
|-
|

|
GO:0006353
|
transcription termination
|
GOA:interpro GO_REF:0000002
|
IEA: Inferred from Electronic Annotation
|
InterPro:IPR011112
|
P
|
Seeded from [[EcoCyc]] (v14.0)
|
complete
|-
|

|
GO:0006353
|
transcription termination
|
GOA:interpro GO_REF:0000002
|
IEA: Inferred from Electronic Annotation
|
InterPro:IPR011113
|
P
|
Seeded from [[EcoCyc]] (v14.0)
|
complete
|-
|

|
GO:0006353
|
transcription termination
|
GOA:spkw SP_KW:GO_REF:0000004
|
IEA: Inferred from Electronic Annotation
|
SP_KW:KW-0806
|
P
|
Seeded from [[EcoCyc]] (v14.0)
|
complete
|-
|

|
GO:0015986
|
ATP synthesis coupled proton transport
|
GOA:interpro GO_REF:0000002
|
IEA: Inferred from Electronic Annotation
|
InterPro:IPR000194
|
P
|
Seeded from [[EcoCyc]] (v14.0)
|
complete
|-
|

|
GO:0016787
|
hydrolase activity
|
GOA:spkw SP_KW:GO_REF:0000004
|
IEA: Inferred from Electronic Annotation
|
SP_KW:KW-0378
|
F
|
Seeded from [[EcoCyc]] (v14.0)
|
complete
|-
|

|
GO:0016820
|
hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances
|
GOA:interpro GO_REF:0000002
|
IEA: Inferred from Electronic Annotation
|
InterPro:IPR000194
|
F
|
Seeded from [[EcoCyc]] (v14.0)
|
complete
|-
|

|
GO:0017111
|
nucleoside-triphosphatase activity
|
GOA:interpro GO_REF:0000002
|
IEA: Inferred from Electronic Annotation
|
InterPro:IPR003593
|
F
|
Seeded from [[EcoCyc]] (v14.0)
|
complete
|-
|

|
GO:0031555
|
transcriptional attenuation
|
PMID:2423505
|
IMP: Inferred from Mutant Phenotype
|

|
P
|
Seeded from [[EcoCyc]] (v14.0)
|
complete
|-
|

|
GO:0033178
|
proton-transporting two-sector ATPase complex, catalytic domain
|
GOA:interpro GO_REF:0000002
|
IEA: Inferred from Electronic Annotation
|
InterPro:IPR000194
|
C
|
Seeded from [[EcoCyc]] (v14.0)
|
complete

|- class="tableEdit_footer"
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.28167.Q46ab035aca7e9&page=28167&pagename={{FULLPAGENAMEE}}&type=&template=GO_table_product edit table] || || || || || || || ||
|}


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

{{Product_interactions_help}}
{| id="X46ab0366f3cc2" class=" tableEdit Product_interactions_table dataTable"
|- {{table heading style}}
!|Partner Type!!Partner!!Notes!!References!!Evidence
|-
|
Protein
|
Subunits of [[:Category:Complex:transcription termination factor Rho|transcription termination factor Rho]]
|
could be indirect
|

|

|-
|
Protein
|
tufA 
|

|
PMID:15690043
|
Experiment(s):EBI-884347 
|-
|
Protein
|
gsp 
|

|
PMID:15690043
|
Experiment(s):EBI-891277 
|-
|
Protein
|
menF 
|

|
PMID:15690043
|
Experiment(s):EBI-891277 
|-
|
Protein
|
rplC 
|

|
PMID:15690043
|
Experiment(s):EBI-891277 
|-
|
Protein
|
rplL 
|

|
PMID:15690043
|
Experiment(s):EBI-891277 
|-
|
Protein
|
rpsB 
|

|
PMID:15690043
|
Experiment(s):EBI-891277 
|-
|
Protein
|
yhbY 
|

|
PMID:15690043
|
Experiment(s):EBI-891277 
|-
|
Protein
|
uspG 
|

|
PMID:16606699
|
Experiment(s):EBI-1146678 

|- class="tableEdit_footer"
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.28167.X46ab0366f3cc2&page=28167&pagename={{FULLPAGENAMEE}}&type=&template=Product_interactions_table edit table] || || || ||
|}


</protect>
===Notes===

==Localization==

{{Product_localization_help}}
{| id="E46a88dea00e77" class=" tableEdit Product_localization_table"
|- {{table heading style}}
!|Compartment!!Description!!Evidence!!Source!!Notes

|- class="tableEdit_footer"
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.28167.E46a88dea00e77&page=28167&pagename={{FULLPAGENAMEE}}&type=&template=Product_localization_table edit table] || || || ||
|}


<protect></protect>

===Notes===

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

{{Product_physical_properties_help}}
{| id="I46ab036973cca" class=" tableEdit Product_phys_prop_table"

|-
!align=left {{table heading style}} |Sequence
||
[http://biocyc.org/ECOLI/sequence-aa?object=EG10845-MONOMER at EcoCyc]
<pre>MNLTELKNTP VSELITLGEN MGLENLARMR KQDIIFAILK QHAKSGEDIF GDGVLEILQD
GFGFLRSADS SYLAGPDDIY VSPSQIRRFN LRTGDTISGK IRPPKEGERY FALLKVNEVN
FDKPENARNK ILFENLTPLH ANSRLRMERG NGSTEDLTAR VLDLASPIGR GQRGLIVAPP
KAGKTMLLQN IAQSIAYNHP DCVLMVLLID ERPEEVTEMQ RLVKGEVVAS TFDEPASRHV
QVAEMVIEKA KRLVEHKKDV IILLDSITRL ARAYNTVVPA SGKVLTGGVD ANALHRPKRF
FGAARNVEEG GSLTIIATAL IDTGSKMDEV IYEEFKGTGN MELHLSRKIA EKRVFPAIDY
NRSGTRKEEL LTTQEELQKM WILRKIIHPM GEIDAMEFLI NKLAMTKTND DFFEMMKRS</pre>
|-
!align=left {{table heading style}} |Length
||
419
|-
!align=left {{table heading style}} |Mol. Wt
||
47.005 kDa
|-
!align=left {{table heading style}} |pI
||
7.2 (calculated)
|-
!align=left {{table heading style}} |Extinction coefficient
||
15,930 - 16,055 (calc based on 7 Y, 1 W, and 1 C residues)

|- class="tableEdit_footer"
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.28167.I46ab036973cca&page=28167&pagename={{FULLPAGENAMEE}}&type=1&template=Product_phys_prop_table edit table] ||
|}


<big>'''Domains/Motifs/Modification Sites'''</big><table>
<tr align="left" valign="top">
<td>
{{Product_domains_motifs_help}}
{| id="R46ab0369ea2fd" class=" tableEdit Product_motif_table dataTable"
|- {{table heading style}}
!|Type!!Residues!!Description!!Notes!!References
|-
|
Domain
|
157..365
|
[http://pfam.janelia.org/family/PF00006 PF00006 ATP synthase alpha/beta family, nucleotide-binding domain]
|

|
PMID:19920124
|-
|
Domain
|
49..126
|
[http://pfam.janelia.org/family/PF07497 PF07497 Rho termination factor, RNA-binding domain]
|

|
PMID:19920124
|-
|
Domain
|
5..47
|
[http://pfam.janelia.org/family/PF07498 PF07498 Rho termination factor, N-terminal domain]
|

|
PMID:19920124

|- class="tableEdit_footer"
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|}
</td>
<td>


<motif_map/>
</td>
</tr>
</table>

<table><tr valign='top'><td>
<big>'''Structure'''</big> 

{{Product_structure_help}}
{| id="P46ab036a58da6" class=" tableEdit Product_structure_table"

|-
!align=left {{table heading style}} |Structures
||
<beststructure>
gene=rho
taxon=562,83333
</beststructure>
|-
!align=left {{table heading style}} |Models
||
View models at:
* [http://dragon.bio.purdue.edu/ecolpredict2/localsearch/cgi-bin/search3.cgi?q=recA EcoliPredict]
* [http://modbase.compbio.ucsf.edu/modbase-cgi/model_search.cgi?searchmode=default&displaymode=moddetail&searchproperties=ALL&searchvalue=recA&organism=562&organismtext= ModBase]
* [http://bioinf.cs.ucl.ac.uk/psipred/ PSI-PRED]
* [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="tableEdit_footer"
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.28167.P46ab036a58da6&page=28167&pagename={{FULLPAGENAMEE}}&type=1&template=Product_structure_table edit table] ||
|}


</td><td></protect>
==== Structure figures ====

<protect>
</td><tr><table></protect>
===Notes===

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

{{Product_resources_help}}
{| id="T46ab036d62e3d" class=" tableEdit Product_resource_table"
|- {{table_heading_style}}
!|Resource type!!Source!!Notes/Reference

|- class="tableEdit_footer"
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.28167.T46ab036d62e3d&page=28167&pagename={{FULLPAGENAMEE}}&type=&template=Product_resource_table edit table] || ||
|}


<protect></protect>
===Notes===

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

{{Gene_accessions_help}}
{| id="F46ab036dc7256" class=" tableEdit Gene_accessions_table"
|- {{table_heading_style}}
!|Database!!Accession!!Notes
|-
|
[http://ecocyc.org EcoCyc] ([[EcoCyc|EcoliWiki Page]])
|
[http://biocyc.org/ECOLI/NEW-IMAGE?type=NIL&object=EG10845-MONOMER EcoCyc:EG10845-MONOMER]
|

|-
|
[http://swissmodel.expasy.org/repository/ SwissModel] ([[SwissModel|EcoliWiki Page]])
|
[http://swissmodel.expasy.org/repository/smr.php?job=2&sptr_ac=P0AG30 SwissModel:P0AG30]
|

|-
|
[http://uniprot.org/ UniProt] ([[UniProt|EcoliWiki Page]])
|
[[uniprot:P0AG30|UniProt:P0AG30]]
|

|-
|
[http://pfam.sanger.ac.uk/ PFAM] ([[PFAM|EcoliWiki Page]])
|
[http://pfam.janelia.org/protein/P0AG30 Pfam:P0AG30]
|

|-
|
[http://www.ncbi.nlm.nih.gov/RefSeq/ RefSeq] ([[RefSeq|EcoliWiki Page]])
|
[http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?db=nucleotide&val=NP_418230 RefSeq:NP_418230]
|

|- class="tableEdit_footer"
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|}


<protect></protect>
===Notes===

==Links==
{{BacktoTop}}


{| id="B46a88df32dd8e" class=" tableEdit Links_table"
|- {{table_heading_style}}
!|Name!!URL!!Comments

|- class="tableEdit_footer"
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.28167.B46a88df32dd8e&page=28167&pagename={{FULLPAGENAMEE}}&type=0&template=Links_table edit table] || ||
|}


<noinclude>
==References==
{{BacktoTop}}
{{RefHelp}}
<references />
__NOTOC__
===Categories===
{{BacktoTop}}
[[Category:Proteins]]

rho:Quickview

2011-01-04T17:12:52Z

Rwashburn: /* Notes */

PMID:8757797

2011-01-04T17:01:07Z

Rwashburn: Fill PMID: Page!

{{RightTOC}}
<protect>
 '''Washburn, RS and Stitt, BL''' (1996) In vitro characterization of transcription termination factor Rho from Escherichia coli rho(nusD) mutants.''J. Mol. Biol.'' '''260''':332-46

{|{{Prettytable}} align = 'center' width= '70%'
|-
|{{TableHeadingColor}} |'''Abstract''' || <protect>Escherichia coli nusD strains are bacteria that carry mutations in rho, the gene for transcription termination factor Rho, that block the growth of phages T4 and lambdar32. We have identified the rho mutation in six independent nusD strains, and although five of the strains have different mutations, with one exception the mutations are in the proposed RNA-binding domain of Rho. We overexpressed, purified, and characterized the five different mutant Rho proteins. All show substantial RNA-dependent ATPase activity with several homoribopolymers or the lambda cro message as cofactor. At the lambda tR1 Rho-dependent terminator in vitro, all mutant Rho proteins show decreased termination compared with wild-type, and all also terminate within cro at a new terminator, tRE, with endpoints 5' to tR1 at 170, 200, 245 and 260 nucleotides 3' from the transcription start. The mutant Rho proteins are proposed to interfere with bacteriophage T4 growth through indirect effects on host gene expression.</protect>
|-
|{{TableHeadingColor}} nowrap |'''Links''' ||
* [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=8757797 PubMed]
Online version:[http://dx.doi.org/10.1006/jmbi.1996.0404 10.1006/jmbi.1996.0404]
|}
</protect>
==Significance {{HelpIcon|Help:Literature}} ==
{{LitSignificance}}

== Useful Materials and Methods {{HelpIcon|Help:Literature}}==
{{LitMaterials}}

==Annotations {{HelpIcon|Help:Literature}}==
<protect>

{| id="B4d23525379dcb" class=" tableEdit GO_table_reference"
|- {{table heading style}}
!|Gene product!!Qualifier!!GO ID!!GO term name!!Evidence Code!!with/from!!Aspect!!Notes!!Status

|- class="tableEdit_footer"
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=63ce1649aab8b3180235b0af7618f667.176493.B4d23525379dcb&page=176493&pagename={{FULLPAGENAMEE}}&type=0&template=GO_table_reference edit table] || || || || || || || ||
|}
</protect>

==EcoliWiki Links {{HelpIcon|Help:Literature}} ==
{{LitLinks}}

==See also==

==References==
{{RefHelp}}
<references/>

PMID:8757797

2011-01-04T17:01:07Z

Rwashburn: New PMID: Page!

rho:Gene

2011-01-04T16:59:13Z

Rwashburn: Table edited by Rwashburn via TableEdit

{{#css:Suppresslinks.css}}<css>{{:Suppresslinks.css}}</css>
<noinclude>{{TabsTop}}
{{Tab|Quickview|rho}}{{Tab On|Gene|rho}}{{Tab|Gene Product(s)|rho}}{{Tab|Expression|rho}}{{Tab|Evolution|rho}}{{Tab|On One Page|rho}}{{TabsBottom}}
{|
|- style="background-color:white; border:solid 2px #CCFFFF; text-align:center; white-space: nowrap;"
|{{Sub}}[[#Nomenclature |Nomenclature]]
|{{Sub}}[[#Location(s) and DNA Sequence|Location(s) and DNA Sequence]]
|{{Sub}}[[#Sequence Features|Sequence Features]]
|{{Sub}}[[#Alleles and Phenotypes |Alleles and Phenotypes]]
|{{Sub}}[[#Genetic Resources |Genetic Resources]]
|{{Sub}}[[#Accessions in Other Databases |Accessions]]
|{{Sub}}[[#Links |Links]]
|{{Sub}}[[#References |References]]
|{{Sub}}[[Talk:{{PAGENAMEE}}| Suggestions]]
|}
</noinclude><protect>
==Nomenclature==
{{BacktoTop}}

{{Gene_nomenclature_help}}
{| id="B46a9fece78f75" class=" tableEdit Gene_nomenclature_table"

|-
!align=left {{table_heading_style}} |Standard name
||
''rho''
|-
!align=left {{table_heading_style}} |Mnemonic
||
Rho termination factor
|-
!align=left {{table_heading_style}} |Synonyms
||
''ECK3775, b3783, JW3756, nitA, nusD, psuA, rnsC, sun, tsu, psu, sbaA, suA''<ref name='LIB:Riley_2006'/>

|- class="tableEdit_footer"
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.18125.B46a9fece78f75&page=18125&pagename={{FULLPAGENAMEE}}&type=1&template=Gene_nomenclature_table edit table] ||
|}


</protect>
===Notes===

==Location(s) and DNA Sequence==
{{BacktoTop}}
<protect>

{{Gene_location_help}}
{| id="B46a9fecf07f4f" class=" tableEdit Gene_location_table"
|- {{table_heading_style}}
!|Strain!!Map location!!Genome coordinates!!Genome browsers!!Sequence links
|-
|
MG1655
|
85.45 minutes 
|
MG1655: 3964440..3965699 <gbrowseImage>
name=NC_000913:3964440..3965699
source=ecoli
preset=GeneLocation
</gbrowseImage>

|
*[http://biocyc.org/ECOLI/NEW-IMAGE?type=LOCUS-POSITION&chromosome=COLI-K12&object=EG10845 EcoCyc]
{{GBrowseLink|ecoli|NC_000913|3963440|3966699|GBrowse(MG1655)}}

|
{{GBrowseFastaLink|ecoli|NC_000913|3964440|3965699|FASTA Dump}}
*[http://biocyc.org/ECOLI/sequence?object=EG10845 EcoCyc Sequence Dump]
|-
|
[[REL606]]
|

|
NC_012967: 3928217..3929476 <gbrowseImage>
name=NC_012967:3928217..3929476
source=REL606
preset=GeneLocation
</gbrowseImage>

|
{{GBrowseLink|REL606|NC_012967|3928217|3929476|GBrowse (REL606)}}
|
{{GBrowseFastaLink|REL606|NC_012967|3928217|3929476|FASTA Dump}}
|-
|
[[BW2952]]
|

|
NC_012759: 3854109..3855368 <gbrowseImage>
name=NC_012759:3854109..3855368
source=BW2952
preset=GeneLocation
</gbrowseImage>

|
{{GBrowseLink|BW2952|012759|3854109|NC_3855368|GBrowse (BW2952)}}
|
{{GBrowseFastaLink|BW2952|012759|3854109|NC_3855368|FASTA Dump}}
|-
|
W3110
|
 
|
W3110: 3670264..3669005 <gbrowseImage>
name=AC_000091:3669005..3670264
source=ecoli_W3110
preset=GeneLocation
</gbrowseImage>

|
{{GBrowseLink|ecoli_W3110|AC_000091|3668005|3671264|GBrowse(W3110)}}
|
{{GBrowseFastaLink|ecoli_W3110|AC_000091|3669005|3670264|FASTA Dump}}
|-
|
[[DH10B]]
|

|
DH10B: 4063360..4064619 <gbrowseImage>
name=NC_010473:4063360..4064619
source=ecoli_DH10B
preset=GeneLocation
</gbrowseImage>

|
{{GBrowseLink|ecoli_DH10B|NC_010473|4060842|4067137|GBrowse(DH10B)}}
|
{{GBrowseFastaLink|ecoli_DH10B|NC_010473|4060842|4067137|FASTA Dump}}

|- class="tableEdit_footer"
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.18125.B46a9fecf07f4f&page=18125&pagename={{FULLPAGENAMEE}}&type=0&template=Gene_location_table edit table] || || || ||
|}


</protect>
===Notes===

==Sequence Features==
{{BacktoTop}}

{{Gene_sequence_features_help}}
{| id="U46a9fecfc05c3" class=" tableEdit Gene_sequence_features_table"
|- {{table_heading_style}}
!|Feature Type!!Strain!!Genomic Location!!Evidence!!Reference!!Notes
|-
|
Coding Start (SO:0000323)
|
[[MG1655]]
|
3964440
|
Edman degradation
|
PMID:6219230 PMID:9298646 PMID:9723924 
|

|- class="tableEdit_footer"
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.18125.U46a9fecfc05c3&page=18125&pagename={{FULLPAGENAMEE}}&type=0&template=Gene_sequence_features_table edit table] || || || || ||
|}


<protect></protect>
====Notes====

==Alleles and Phenotypes==
{{BacktoTop}}

{{Gene_alleles_help}}
{| {{Prettytable}} id="K46a9fed01665e" class=" tableEdit Gene_allele_table dataTable"
|- {{table_heading_style}}
!|Allele!!Nt change(s)!!AA change(s)!!Phenotype: Type!!Phenotype: Description!!Reference!!Availability!!Comments
|-
|
rhoF64L,A
|

|
F64L,A
|

|
Defective for RNA-binding
|

|

|
seeded from [http://www.uniprot.org/uniprot/P0AG30 UniProt:P0AG30]
|-
|
rhoK181Q
|

|
K181Q
|

|
Partial loss of ATPase, helicase and termination activity
|

|

|
seeded from [http://www.uniprot.org/uniprot/P0AG30 UniProt:P0AG30]
|-
|
rhoK184Q
|

|
K184Q
|

|
Improves ATPase and helicase activity but reduced termination activity
|

|

|
seeded from [http://www.uniprot.org/uniprot/P0AG30 UniProt:P0AG30]
|-
|
rhoF62L,A
|

|
F62L,A
|

|
Defective for RNA-binding
|

|

|
seeded from [http://www.uniprot.org/uniprot/P0AG30 UniProt:P0AG30]
|-
|
rhoD265N
|

|
D265N
|

|
Loss of ATPase activity, helicase and termination activity
|

|

|
seeded from [http://www.uniprot.org/uniprot/P0AG30 UniProt:P0AG30]
|-
|
''rho-15''(Ts)
|
IS1 insertion into C-terminus
|
changes seven amino acids, eliminates the last two (changes DFFEMMKRS to EVMTPTY)
|
Growth Phenotype
|
fails to grow at 42oC, grows slowly at 30oC, suppresses polarity
|
<ref name='PMID:132662'/><ref name='PMID: 7828920'/>
|

|
quickly loses temperature-sensitive phenotype due to accumulation of suppressor mutations <ref name='PMID: 3902796'/>
|-
|
''rho-4''(Am)
|

|

|

|

|

|
[[cgscmutation:5339|CGSC:5339]]
|
amber (UAG) mutation
|-
|
''rho-112''(Am)
|

|

|

|

|

|
[[cgscmutation:9184|CGSC:9184]]
|
amber (UAG) mutation
|-
|
''rho-702''(ts)
|

|

|
Growth Phenotype
|
temperature sensitive
|

|
[[cgscmutation:9191|CGSC:9191]]
|

|-
|
''rho-6''
|

|

|

|

|

|
[[cgscmutation:38239|CGSC:38239]]
|

|-
|
''rho026'' (aka ''rhoHDF026''
|

|

|
Other
|
Increased degradation of abnormal proteins, such as puromycyl polypeptides or canavanine-containing polypeptides.
|
PMID:377279
|

|

|-
|
''rho026'' (aka ''rhoHDF026'')
|

|
P103L, S153Y
|
Other
|
Unable to support growth of phage T4 and inhibits Lambda phage N activity.

Uninfected cells were temperature-sensitive for growth at 42°C in original isolate.

|
PMID:6999171
PMID:6225121
PMID:8757797
|

|
P103L change is responsible for interfering with T4 plating and Lambda N-mediated antitermination. S153Y was acquired as a suppressor of ts phenotype.

|- class="tableEdit_footer"
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.18125.K46a9fed01665e&page=18125&pagename={{FULLPAGENAMEE}}&type=&template=Gene_allele_table edit table] || || || || || || ||
|}


<protect></protect>
===Notes===
The Keio deletion appears to be the result of a gene duplication, wt ''rho'' is still present in the strain.<ref name='PMID:20029369'/>

==Genetic Resources==
{{BacktoTop}}

{{Gene_resources_help}}
{| id="Z46a9fed0cefc2" class=" tableEdit Gene_resource_table"
|- {{table_heading_style}}
!|Resource!!Resource Type!!Source!!Notes/Reference
|-
|
JW3756
|
Plasmid clone
|
[http://www.shigen.nig.ac.jp/ecoli/strain/askaCloneQueryAction.do?strainTypeId=9 Shigen]
|
PMID:16769691

Status:Clone OK

Primer 1:GCCAATCTTACCGAATTAAAGAA

Primer 2:CCTGAGCGTTTCATCATTTCGAA
|-
|
[[ilvD:Gene|ilvD500::Tn10]]
|
Linked marker
|
CAG18431 = [http://cgsc2.biology.yale.edu/Strain.php?ID=40338 CGSC7462]<ref name='LIB:cgsc'/>
|
est. P1 cotransduction: 67% <ref name='LIB:Nichols_linked_Tn'/> 
Synonyms:ilv500::Tn10
|-
|
metEo-3079::Tn10
|
Linked marker
|
CAG18491 = [http://cgsc2.biology.yale.edu/Strain.php?ID=40350 CGSC7464]<ref name='LIB:cgsc'/>
|
est. P1 cotransduction: 14% <ref name='LIB:Nichols_linked_Tn'/> 
Synonyms:metE3079::Tn10 nnnThe Tn10 in CAG13491 is inserted in the metE regulatory region, but causes a Met- phenotype.

|- class="tableEdit_footer"
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.18125.Z46a9fed0cefc2&page=18125&pagename={{FULLPAGENAMEE}}&type=&template=Gene_resource_table edit table] || || ||
|}


<protect></protect>
===Notes===

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

{{Gene_accessions_help}}
{| id="X46a9fed17a763" class=" tableEdit Gene_accessions_table"
|- {{table_heading_style}}
!|Database!!Accession!!Notes
|-
|
[http://ecocyc.org EcoCyc] ([[EcoCyc|EcoliWiki Page]])
|
[http://biocyc.org/ECOLI/NEW-IMAGE?type=NIL&object=EG10845 EcoCyc:EG10845]
|

|-
|
[http://www.ecoli-york.org EchoBASE] ([[EchoBASE|EcoliWiki Page]])
|
[http://www.york.ac.uk/res/thomas/Gene.cfm?recordID=EB0838 EchoBASE:EB0838]
|

|-
|
[http://chase.ou.edu/oubcf/index.php EcoliGenExpDB] ([[EcoliGenExpDB|EcoliWiki Page]])
|
[http://chase.ou.edu/macro/searchlink.php?bnum=b3783 EcoliGenExpDB:b3783]
|

|-
|
[http://BioCyc.org/ECOL199310/ ECOL199310CYC] ([[ECOL199310CYC|EcoliWiki Page]])
|
[http://BioCyc.org/ECOL199310/new-image?object=C4702 ECOL199310CYC:C4702]
|

|-
|
[http://ecogene.org EcoGene] ([[EcoGene|EcoliWiki Page]])
|
[http://ecogene.org/geneinfo.php?eg_id=EG10845 EcoGene:EG10845]
|

|-
|
[http://BioCyc.org/ECOO157/ ECOO157CYC] ([[ECOO157CYC|EcoliWiki Page]])
|
[http://BioCyc.org/ECOO157/new-image?object=RHO ECOO157CYC:RHO]
|

|-
|
[http://cgsc.biology.yale.edu CGSC] ([[CGSC|EcoliWiki Page]])
|
[http://cgsc.biology.yale.edu/cgi-bin/sybgw/cgsc/Site/288 CGSC:288]
|

|-
|
[https://asap.ahabs.wisc.edu/asap/logon.php ASAP] ([[ASAP|EcoliWikiPage]])
|
[http://asap.ahabs.wisc.edu/asap/feature_info.php?LocationID=WIS&FeatureID=0012362&formSubmitReturn=1 ASAP:ABE-0012362]
|

|- class="tableEdit_footer"
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.18125.X46a9fed17a763&page=18125&pagename={{FULLPAGENAMEE}}&type=0&template=Gene_accessions_table edit table] || ||
|}


<protect></protect>
===Notes===

==Links==
{{BacktoTop}}


{| id="R46a718d2508b7" class=" tableEdit Links_table"
|- {{table_heading_style}}
!|Name!!URL!!Comments

|- class="tableEdit_footer"
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.18125.R46a718d2508b7&page=18125&pagename={{FULLPAGENAMEE}}&type=0&template=Links_table edit table] || ||
|}


<noinclude><protect>
==References==
{{BacktoTop}}
{{RefHelp}}
<references />
__NOTOC__
===Categories===
[[Category:Gene List:MG1655]]
[[Category:Gene List:W3110]]
[[Category:Genes in the Keio knockout collection]]
[[Category:Genes in the ASKA clone collection]]
[[Category:rho genes]][[Category:Gene_List:DH10B]][[Category:Gene_List:REL606]]
[[Category:Gene_List:BW2952]]

PMID:8757798

2011-01-04T16:54:01Z

Rwashburn: Fill PMID: Page!

{{RightTOC}}
<protect>
 '''Washburn, RS, Jin, DJ and Stitt, BL''' (1996) The mechanism of early transcription termination by Rho026.''J. Mol. Biol.'' '''260''':347-58

{|{{Prettytable}} align = 'center' width= '70%'
|-
|{{TableHeadingColor}} |'''Abstract''' || <protect>We previously found that nusD-type mutations in Escherichia coli transcription termination factor Rho enhance in vitro transcription termination at four points within the lambdacro gene. Here we show that the early termination points are part of one Rho-dependent termination site, tRE, with properties like those of previously characterized Rho-dependent sites lamda tR1 and trpt'. The early termination points are all RNA polymerase pause sites, and by deletion analysis and oligonucleotide blocking experiments, a common 5' Rho entry site for the early termination points (rutE) is identified. We show that both Rho026 and Rho+ can use rutE as an entry point for termination, but that Rho026 is more efficient in releasing the nascent RNA at tRE. The RNA-dependent ATPase activities of wild-type and mutant Rhos are similar, as are their abilities to bind free RNA and to use (rC)10 oligomers for ATPase activation. We therefore suggest that Rho-RNA polymerase interactions that define the site of RNA 3' end formation are altered in NusD Rho mutants. NusD Rho mutants are less dependent on, but still responsive to, the transcription termination factor NusG. However, addition of NusG to in vitro termination assays allows Rho+ to terminate more efficiently at tRE. These results suggest that NusG aids in the 3' end formation process. The decreased dependence on NusG for termination by the mutant Rhos in vitro provides an explanation for poorer lambda growth in rho(nusD) cells by interference with lamdaN-mediated antitermination at Rho-dependent sites.</protect>
|-
|{{TableHeadingColor}} nowrap |'''Links''' ||
* [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=8757798 PubMed]
Online version:[http://dx.doi.org/10.1006/jmbi.1996.0405 10.1006/jmbi.1996.0405]
|}
</protect>
==Significance {{HelpIcon|Help:Literature}} ==
{{LitSignificance}}

== Useful Materials and Methods {{HelpIcon|Help:Literature}}==
{{LitMaterials}}

==Annotations {{HelpIcon|Help:Literature}}==
<protect>

{| id="W4d2350a958eba" class=" tableEdit GO_table_reference"
|- {{table heading style}}
!|Gene product!!Qualifier!!GO ID!!GO term name!!Evidence Code!!with/from!!Aspect!!Notes!!Status

|- class="tableEdit_footer"
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=63ce1649aab8b3180235b0af7618f667.176492.W4d2350a958eba&page=176492&pagename={{FULLPAGENAMEE}}&type=0&template=GO_table_reference edit table] || || || || || || || ||
|}
</protect>

==EcoliWiki Links {{HelpIcon|Help:Literature}} ==
{{LitLinks}}

==See also==

==References==
{{RefHelp}}
<references/>

PMID:8757798

2011-01-04T16:54:01Z

Rwashburn: New PMID: Page!

PMID:6225121

2011-01-04T16:53:49Z

Rwashburn: Fill PMID: Page!

{{RightTOC}}
<protect>
 '''Das, A, Gottesman, ME, Wardwell, J, Trisler, P and Gottesman, S''' (1983) lambda mutation in the Escherichia coli rho gene that inhibits the N protein activity of phage lambda.''Proc. Natl. Acad. Sci. U.S.A.'' '''80''':5530-4

{|{{Prettytable}} align = 'center' width= '70%'
|-
|{{TableHeadingColor}} |'''Abstract''' || <protect>Certain Escherichia coli rho mutations, exemplified by rho026, block the growth of phage lambda by interfering with phage gene expression. The phage gene N, whose product suppresses transcription termination, appears to be expressed normally in the mutants, and the functional stability of the N protein is not affected. Our data suggest that these rho mutations allow transcription to terminate despite the presence of N. Other E. coli mutants displaying a similar phenotype (Nus(-)) fail to propagate wild-type lambda but permit the growth of the lambda variant lambdanin5, which has undergone a deletion of the lambda terminator t(R2). The phenotype of the rho026 mutant differs: the growth of lambda is only marginally improved by the nin5 deletion. Interestingly, N activity at rho-independent terminators is not inhibited by the mutations, whereas its ability to suppress rho-dependent terminators is markedly reduced. The relevance of this specificity in terms of models of N action is discussed.</protect>
|-
|{{TableHeadingColor}} nowrap |'''Links''' ||
* [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=6225121 PubMed]

|}
</protect>
==Significance {{HelpIcon|Help:Literature}} ==
{{LitSignificance}}

== Useful Materials and Methods {{HelpIcon|Help:Literature}}==
{{LitMaterials}}

==Annotations {{HelpIcon|Help:Literature}}==
<protect>

{| id="G4d23509d5d0c6" class=" tableEdit GO_table_reference"
|- {{table heading style}}
!|Gene product!!Qualifier!!GO ID!!GO term name!!Evidence Code!!with/from!!Aspect!!Notes!!Status

|- class="tableEdit_footer"
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=63ce1649aab8b3180235b0af7618f667.176491.G4d23509d5d0c6&page=176491&pagename={{FULLPAGENAMEE}}&type=0&template=GO_table_reference edit table] || || || || || || || ||
|}
</protect>

==EcoliWiki Links {{HelpIcon|Help:Literature}} ==
{{LitLinks}}

==See also==

==References==
{{RefHelp}}
<references/>

PMID:6225121

2011-01-04T16:53:49Z

Rwashburn: New PMID: Page!

rho:Gene

2011-01-04T16:53:05Z

Rwashburn: Table edited by Rwashburn via TableEdit

{{#css:Suppresslinks.css}}<css>{{:Suppresslinks.css}}</css>
<noinclude>{{TabsTop}}
{{Tab|Quickview|rho}}{{Tab On|Gene|rho}}{{Tab|Gene Product(s)|rho}}{{Tab|Expression|rho}}{{Tab|Evolution|rho}}{{Tab|On One Page|rho}}{{TabsBottom}}
{|
|- style="background-color:white; border:solid 2px #CCFFFF; text-align:center; white-space: nowrap;"
|{{Sub}}[[#Nomenclature |Nomenclature]]
|{{Sub}}[[#Location(s) and DNA Sequence|Location(s) and DNA Sequence]]
|{{Sub}}[[#Sequence Features|Sequence Features]]
|{{Sub}}[[#Alleles and Phenotypes |Alleles and Phenotypes]]
|{{Sub}}[[#Genetic Resources |Genetic Resources]]
|{{Sub}}[[#Accessions in Other Databases |Accessions]]
|{{Sub}}[[#Links |Links]]
|{{Sub}}[[#References |References]]
|{{Sub}}[[Talk:{{PAGENAMEE}}| Suggestions]]
|}
</noinclude><protect>
==Nomenclature==
{{BacktoTop}}

{{Gene_nomenclature_help}}
{| id="B46a9fece78f75" class=" tableEdit Gene_nomenclature_table"

|-
!align=left {{table_heading_style}} |Standard name
||
''rho''
|-
!align=left {{table_heading_style}} |Mnemonic
||
Rho termination factor
|-
!align=left {{table_heading_style}} |Synonyms
||
''ECK3775, b3783, JW3756, nitA, nusD, psuA, rnsC, sun, tsu, psu, sbaA, suA''<ref name='LIB:Riley_2006'/>

|- class="tableEdit_footer"
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.18125.B46a9fece78f75&page=18125&pagename={{FULLPAGENAMEE}}&type=1&template=Gene_nomenclature_table edit table] ||
|}


</protect>
===Notes===

==Location(s) and DNA Sequence==
{{BacktoTop}}
<protect>

{{Gene_location_help}}
{| id="B46a9fecf07f4f" class=" tableEdit Gene_location_table"
|- {{table_heading_style}}
!|Strain!!Map location!!Genome coordinates!!Genome browsers!!Sequence links
|-
|
MG1655
|
85.45 minutes 
|
MG1655: 3964440..3965699 <gbrowseImage>
name=NC_000913:3964440..3965699
source=ecoli
preset=GeneLocation
</gbrowseImage>

|
*[http://biocyc.org/ECOLI/NEW-IMAGE?type=LOCUS-POSITION&chromosome=COLI-K12&object=EG10845 EcoCyc]
{{GBrowseLink|ecoli|NC_000913|3963440|3966699|GBrowse(MG1655)}}

|
{{GBrowseFastaLink|ecoli|NC_000913|3964440|3965699|FASTA Dump}}
*[http://biocyc.org/ECOLI/sequence?object=EG10845 EcoCyc Sequence Dump]
|-
|
[[REL606]]
|

|
NC_012967: 3928217..3929476 <gbrowseImage>
name=NC_012967:3928217..3929476
source=REL606
preset=GeneLocation
</gbrowseImage>

|
{{GBrowseLink|REL606|NC_012967|3928217|3929476|GBrowse (REL606)}}
|
{{GBrowseFastaLink|REL606|NC_012967|3928217|3929476|FASTA Dump}}
|-
|
[[BW2952]]
|

|
NC_012759: 3854109..3855368 <gbrowseImage>
name=NC_012759:3854109..3855368
source=BW2952
preset=GeneLocation
</gbrowseImage>

|
{{GBrowseLink|BW2952|012759|3854109|NC_3855368|GBrowse (BW2952)}}
|
{{GBrowseFastaLink|BW2952|012759|3854109|NC_3855368|FASTA Dump}}
|-
|
W3110
|
 
|
W3110: 3670264..3669005 <gbrowseImage>
name=AC_000091:3669005..3670264
source=ecoli_W3110
preset=GeneLocation
</gbrowseImage>

|
{{GBrowseLink|ecoli_W3110|AC_000091|3668005|3671264|GBrowse(W3110)}}
|
{{GBrowseFastaLink|ecoli_W3110|AC_000091|3669005|3670264|FASTA Dump}}
|-
|
[[DH10B]]
|

|
DH10B: 4063360..4064619 <gbrowseImage>
name=NC_010473:4063360..4064619
source=ecoli_DH10B
preset=GeneLocation
</gbrowseImage>

|
{{GBrowseLink|ecoli_DH10B|NC_010473|4060842|4067137|GBrowse(DH10B)}}
|
{{GBrowseFastaLink|ecoli_DH10B|NC_010473|4060842|4067137|FASTA Dump}}

|- class="tableEdit_footer"
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.18125.B46a9fecf07f4f&page=18125&pagename={{FULLPAGENAMEE}}&type=0&template=Gene_location_table edit table] || || || ||
|}


</protect>
===Notes===

==Sequence Features==
{{BacktoTop}}

{{Gene_sequence_features_help}}
{| id="U46a9fecfc05c3" class=" tableEdit Gene_sequence_features_table"
|- {{table_heading_style}}
!|Feature Type!!Strain!!Genomic Location!!Evidence!!Reference!!Notes
|-
|
Coding Start (SO:0000323)
|
[[MG1655]]
|
3964440
|
Edman degradation
|
PMID:6219230 PMID:9298646 PMID:9723924 
|

|- class="tableEdit_footer"
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.18125.U46a9fecfc05c3&page=18125&pagename={{FULLPAGENAMEE}}&type=0&template=Gene_sequence_features_table edit table] || || || || ||
|}


<protect></protect>
====Notes====

==Alleles and Phenotypes==
{{BacktoTop}}

{{Gene_alleles_help}}
{| {{Prettytable}} id="K46a9fed01665e" class=" tableEdit Gene_allele_table dataTable"
|- {{table_heading_style}}
!|Allele!!Nt change(s)!!AA change(s)!!Phenotype: Type!!Phenotype: Description!!Reference!!Availability!!Comments
|-
|
rhoF64L,A
|

|
F64L,A
|

|
Defective for RNA-binding
|

|

|
seeded from [http://www.uniprot.org/uniprot/P0AG30 UniProt:P0AG30]
|-
|
rhoK181Q
|

|
K181Q
|

|
Partial loss of ATPase, helicase and termination activity
|

|

|
seeded from [http://www.uniprot.org/uniprot/P0AG30 UniProt:P0AG30]
|-
|
rhoK184Q
|

|
K184Q
|

|
Improves ATPase and helicase activity but reduced termination activity
|

|

|
seeded from [http://www.uniprot.org/uniprot/P0AG30 UniProt:P0AG30]
|-
|
rhoF62L,A
|

|
F62L,A
|

|
Defective for RNA-binding
|

|

|
seeded from [http://www.uniprot.org/uniprot/P0AG30 UniProt:P0AG30]
|-
|
rhoD265N
|

|
D265N
|

|
Loss of ATPase activity, helicase and termination activity
|

|

|
seeded from [http://www.uniprot.org/uniprot/P0AG30 UniProt:P0AG30]
|-
|
''rho-15''(Ts)
|
IS1 insertion into C-terminus
|
changes seven amino acids, eliminates the last two (changes DFFEMMKRS to EVMTPTY)
|
Growth Phenotype
|
fails to grow at 42oC, grows slowly at 30oC, suppresses polarity
|
<ref name='PMID:132662'/><ref name='PMID: 7828920'/>
|

|
quickly loses temperature-sensitive phenotype due to accumulation of suppressor mutations <ref name='PMID: 3902796'/>
|-
|
''rho-4''(Am)
|

|

|

|

|

|
[[cgscmutation:5339|CGSC:5339]]
|
amber (UAG) mutation
|-
|
''rho-112''(Am)
|

|

|

|

|

|
[[cgscmutation:9184|CGSC:9184]]
|
amber (UAG) mutation
|-
|
''rho-702''(ts)
|

|

|
Growth Phenotype
|
temperature sensitive
|

|
[[cgscmutation:9191|CGSC:9191]]
|

|-
|
''rho-6''
|

|

|

|

|

|
[[cgscmutation:38239|CGSC:38239]]
|

|-
|
''rho026'' (aka ''rhoHDF026''
|

|

|
Other
|
Increased degradation of abnormal proteins, such as puromycyl polypeptides or canavanine-containing polypeptides.
|
PMID:377279
|

|

|-
|
''rho026'' (aka ''rhoHDF026'')
|

|
P103L, S153Y
|
Other
|
Unable to support growth of phage T4 and inhibits Lambda phage N activity.

Uninfected cells were temperature-sensitive for growth at 42°C in original isolate.
|
PMID:6999171
PMID:6225121
PMID:8757798
|

|
P103L change is responsible for interfering with T4 plating and Lambda N-mediated antitermination. S153Y was acquired as a suppressor of ts phenotype.

|- class="tableEdit_footer"
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.18125.K46a9fed01665e&page=18125&pagename={{FULLPAGENAMEE}}&type=&template=Gene_allele_table edit table] || || || || || || ||
|}


<protect></protect>
===Notes===
The Keio deletion appears to be the result of a gene duplication, wt ''rho'' is still present in the strain.<ref name='PMID:20029369'/>

==Genetic Resources==
{{BacktoTop}}

{{Gene_resources_help}}
{| id="Z46a9fed0cefc2" class=" tableEdit Gene_resource_table"
|- {{table_heading_style}}
!|Resource!!Resource Type!!Source!!Notes/Reference
|-
|
JW3756
|
Plasmid clone
|
[http://www.shigen.nig.ac.jp/ecoli/strain/askaCloneQueryAction.do?strainTypeId=9 Shigen]
|
PMID:16769691

Status:Clone OK

Primer 1:GCCAATCTTACCGAATTAAAGAA

Primer 2:CCTGAGCGTTTCATCATTTCGAA
|-
|
[[ilvD:Gene|ilvD500::Tn10]]
|
Linked marker
|
CAG18431 = [http://cgsc2.biology.yale.edu/Strain.php?ID=40338 CGSC7462]<ref name='LIB:cgsc'/>
|
est. P1 cotransduction: 67% <ref name='LIB:Nichols_linked_Tn'/> 
Synonyms:ilv500::Tn10
|-
|
metEo-3079::Tn10
|
Linked marker
|
CAG18491 = [http://cgsc2.biology.yale.edu/Strain.php?ID=40350 CGSC7464]<ref name='LIB:cgsc'/>
|
est. P1 cotransduction: 14% <ref name='LIB:Nichols_linked_Tn'/> 
Synonyms:metE3079::Tn10 nnnThe Tn10 in CAG13491 is inserted in the metE regulatory region, but causes a Met- phenotype.

|- class="tableEdit_footer"
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.18125.Z46a9fed0cefc2&page=18125&pagename={{FULLPAGENAMEE}}&type=&template=Gene_resource_table edit table] || || ||
|}


<protect></protect>
===Notes===

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

{{Gene_accessions_help}}
{| id="X46a9fed17a763" class=" tableEdit Gene_accessions_table"
|- {{table_heading_style}}
!|Database!!Accession!!Notes
|-
|
[http://ecocyc.org EcoCyc] ([[EcoCyc|EcoliWiki Page]])
|
[http://biocyc.org/ECOLI/NEW-IMAGE?type=NIL&object=EG10845 EcoCyc:EG10845]
|

|-
|
[http://www.ecoli-york.org EchoBASE] ([[EchoBASE|EcoliWiki Page]])
|
[http://www.york.ac.uk/res/thomas/Gene.cfm?recordID=EB0838 EchoBASE:EB0838]
|

|-
|
[http://chase.ou.edu/oubcf/index.php EcoliGenExpDB] ([[EcoliGenExpDB|EcoliWiki Page]])
|
[http://chase.ou.edu/macro/searchlink.php?bnum=b3783 EcoliGenExpDB:b3783]
|

|-
|
[http://BioCyc.org/ECOL199310/ ECOL199310CYC] ([[ECOL199310CYC|EcoliWiki Page]])
|
[http://BioCyc.org/ECOL199310/new-image?object=C4702 ECOL199310CYC:C4702]
|

|-
|
[http://ecogene.org EcoGene] ([[EcoGene|EcoliWiki Page]])
|
[http://ecogene.org/geneinfo.php?eg_id=EG10845 EcoGene:EG10845]
|

|-
|
[http://BioCyc.org/ECOO157/ ECOO157CYC] ([[ECOO157CYC|EcoliWiki Page]])
|
[http://BioCyc.org/ECOO157/new-image?object=RHO ECOO157CYC:RHO]
|

|-
|
[http://cgsc.biology.yale.edu CGSC] ([[CGSC|EcoliWiki Page]])
|
[http://cgsc.biology.yale.edu/cgi-bin/sybgw/cgsc/Site/288 CGSC:288]
|

|-
|
[https://asap.ahabs.wisc.edu/asap/logon.php ASAP] ([[ASAP|EcoliWikiPage]])
|
[http://asap.ahabs.wisc.edu/asap/feature_info.php?LocationID=WIS&FeatureID=0012362&formSubmitReturn=1 ASAP:ABE-0012362]
|

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|}


<protect></protect>
===Notes===

==Links==
{{BacktoTop}}


{| id="R46a718d2508b7" class=" tableEdit Links_table"
|- {{table_heading_style}}
!|Name!!URL!!Comments

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|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.18125.R46a718d2508b7&page=18125&pagename={{FULLPAGENAMEE}}&type=0&template=Links_table edit table] || ||
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<noinclude><protect>
==References==
{{BacktoTop}}
{{RefHelp}}
<references />
__NOTOC__
===Categories===
[[Category:Gene List:MG1655]]
[[Category:Gene List:W3110]]
[[Category:Genes in the Keio knockout collection]]
[[Category:Genes in the ASKA clone collection]]
[[Category:rho genes]][[Category:Gene_List:DH10B]][[Category:Gene_List:REL606]]
[[Category:Gene_List:BW2952]]

rho:Gene

2011-01-04T16:18:31Z

Rwashburn: Table edited by Rwashburn via TableEdit

{{#css:Suppresslinks.css}}<css>{{:Suppresslinks.css}}</css>
<noinclude>{{TabsTop}}
{{Tab|Quickview|rho}}{{Tab On|Gene|rho}}{{Tab|Gene Product(s)|rho}}{{Tab|Expression|rho}}{{Tab|Evolution|rho}}{{Tab|On One Page|rho}}{{TabsBottom}}
{|
|- style="background-color:white; border:solid 2px #CCFFFF; text-align:center; white-space: nowrap;"
|{{Sub}}[[#Nomenclature |Nomenclature]]
|{{Sub}}[[#Location(s) and DNA Sequence|Location(s) and DNA Sequence]]
|{{Sub}}[[#Sequence Features|Sequence Features]]
|{{Sub}}[[#Alleles and Phenotypes |Alleles and Phenotypes]]
|{{Sub}}[[#Genetic Resources |Genetic Resources]]
|{{Sub}}[[#Accessions in Other Databases |Accessions]]
|{{Sub}}[[#Links |Links]]
|{{Sub}}[[#References |References]]
|{{Sub}}[[Talk:{{PAGENAMEE}}| Suggestions]]
|}
</noinclude><protect>
==Nomenclature==
{{BacktoTop}}

{{Gene_nomenclature_help}}
{| id="B46a9fece78f75" class=" tableEdit Gene_nomenclature_table"

|-
!align=left {{table_heading_style}} |Standard name
||
''rho''
|-
!align=left {{table_heading_style}} |Mnemonic
||
Rho termination factor
|-
!align=left {{table_heading_style}} |Synonyms
||
''ECK3775, b3783, JW3756, nitA, nusD, psuA, rnsC, sun, tsu, psu, sbaA, suA''<ref name='LIB:Riley_2006'/>

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|}


</protect>
===Notes===

==Location(s) and DNA Sequence==
{{BacktoTop}}
<protect>

{{Gene_location_help}}
{| id="B46a9fecf07f4f" class=" tableEdit Gene_location_table"
|- {{table_heading_style}}
!|Strain!!Map location!!Genome coordinates!!Genome browsers!!Sequence links
|-
|
MG1655
|
85.45 minutes 
|
MG1655: 3964440..3965699 <gbrowseImage>
name=NC_000913:3964440..3965699
source=ecoli
preset=GeneLocation
</gbrowseImage>

|
*[http://biocyc.org/ECOLI/NEW-IMAGE?type=LOCUS-POSITION&chromosome=COLI-K12&object=EG10845 EcoCyc]
{{GBrowseLink|ecoli|NC_000913|3963440|3966699|GBrowse(MG1655)}}

|
{{GBrowseFastaLink|ecoli|NC_000913|3964440|3965699|FASTA Dump}}
*[http://biocyc.org/ECOLI/sequence?object=EG10845 EcoCyc Sequence Dump]
|-
|
[[REL606]]
|

|
NC_012967: 3928217..3929476 <gbrowseImage>
name=NC_012967:3928217..3929476
source=REL606
preset=GeneLocation
</gbrowseImage>

|
{{GBrowseLink|REL606|NC_012967|3928217|3929476|GBrowse (REL606)}}
|
{{GBrowseFastaLink|REL606|NC_012967|3928217|3929476|FASTA Dump}}
|-
|
[[BW2952]]
|

|
NC_012759: 3854109..3855368 <gbrowseImage>
name=NC_012759:3854109..3855368
source=BW2952
preset=GeneLocation
</gbrowseImage>

|
{{GBrowseLink|BW2952|012759|3854109|NC_3855368|GBrowse (BW2952)}}
|
{{GBrowseFastaLink|BW2952|012759|3854109|NC_3855368|FASTA Dump}}
|-
|
W3110
|
 
|
W3110: 3670264..3669005 <gbrowseImage>
name=AC_000091:3669005..3670264
source=ecoli_W3110
preset=GeneLocation
</gbrowseImage>

|
{{GBrowseLink|ecoli_W3110|AC_000091|3668005|3671264|GBrowse(W3110)}}
|
{{GBrowseFastaLink|ecoli_W3110|AC_000091|3669005|3670264|FASTA Dump}}
|-
|
[[DH10B]]
|

|
DH10B: 4063360..4064619 <gbrowseImage>
name=NC_010473:4063360..4064619
source=ecoli_DH10B
preset=GeneLocation
</gbrowseImage>

|
{{GBrowseLink|ecoli_DH10B|NC_010473|4060842|4067137|GBrowse(DH10B)}}
|
{{GBrowseFastaLink|ecoli_DH10B|NC_010473|4060842|4067137|FASTA Dump}}

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</protect>
===Notes===

==Sequence Features==
{{BacktoTop}}

{{Gene_sequence_features_help}}
{| id="U46a9fecfc05c3" class=" tableEdit Gene_sequence_features_table"
|- {{table_heading_style}}
!|Feature Type!!Strain!!Genomic Location!!Evidence!!Reference!!Notes
|-
|
Coding Start (SO:0000323)
|
[[MG1655]]
|
3964440
|
Edman degradation
|
PMID:6219230 PMID:9298646 PMID:9723924 
|

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|}


<protect></protect>
====Notes====

==Alleles and Phenotypes==
{{BacktoTop}}

{{Gene_alleles_help}}
{| {{Prettytable}} id="K46a9fed01665e" class=" tableEdit Gene_allele_table dataTable"
|- {{table_heading_style}}
!|Allele!!Nt change(s)!!AA change(s)!!Phenotype: Type!!Phenotype: Description!!Reference!!Availability!!Comments
|-
|
rhoF64L,A
|

|
F64L,A
|

|
Defective for RNA-binding
|

|

|
seeded from [http://www.uniprot.org/uniprot/P0AG30 UniProt:P0AG30]
|-
|
rhoK181Q
|

|
K181Q
|

|
Partial loss of ATPase, helicase and termination activity
|

|

|
seeded from [http://www.uniprot.org/uniprot/P0AG30 UniProt:P0AG30]
|-
|
rhoK184Q
|

|
K184Q
|

|
Improves ATPase and helicase activity but reduced termination activity
|

|

|
seeded from [http://www.uniprot.org/uniprot/P0AG30 UniProt:P0AG30]
|-
|
rhoF62L,A
|

|
F62L,A
|

|
Defective for RNA-binding
|

|

|
seeded from [http://www.uniprot.org/uniprot/P0AG30 UniProt:P0AG30]
|-
|
rhoD265N
|

|
D265N
|

|
Loss of ATPase activity, helicase and termination activity
|

|

|
seeded from [http://www.uniprot.org/uniprot/P0AG30 UniProt:P0AG30]
|-
|
''rho-15''(Ts)
|
IS1 insertion into C-terminus
|
changes seven amino acids, eliminates the last two (changes DFFEMMKRS to EVMTPTY)
|
Growth Phenotype
|
fails to grow at 42oC, grows slowly at 30oC, suppresses polarity
|
<ref name='PMID:132662'/><ref name='PMID: 7828920'/>
|

|
quickly loses temperature-sensitive phenotype due to accumulation of suppressor mutations <ref name='PMID: 3902796'/>
|-
|
''rho-4''(Am)
|

|

|

|

|

|
[[cgscmutation:5339|CGSC:5339]]
|
amber (UAG) mutation
|-
|
''rho-112''(Am)
|

|

|

|

|

|
[[cgscmutation:9184|CGSC:9184]]
|
amber (UAG) mutation
|-
|
''rho-702''(ts)
|

|

|
Growth Phenotype
|
temperature sensitive
|

|
[[cgscmutation:9191|CGSC:9191]]
|

|-
|
''rho-6''
|

|

|

|

|

|
[[cgscmutation:38239|CGSC:38239]]
|

|-
|
''rho026'' (aka ''rhoHDF026''
|

|

|
Other
|
Increased degradation of abnormal proteins, such as puromycyl polypeptides or canavanine-containing polypeptides.
|
PMID:377279
|

|

|-
|
''rho026'' (aka ''rhoHDF026'')
|

|

|
Other
|
Unable to support growth of phage T4.

Uninfected cells are temperature-sensitive for growth at 42°C.
|
PMID:6999171
|

|

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<protect></protect>
===Notes===
The Keio deletion appears to be the result of a gene duplication, wt ''rho'' is still present in the strain.<ref name='PMID:20029369'/>

==Genetic Resources==
{{BacktoTop}}

{{Gene_resources_help}}
{| id="Z46a9fed0cefc2" class=" tableEdit Gene_resource_table"
|- {{table_heading_style}}
!|Resource!!Resource Type!!Source!!Notes/Reference
|-
|
JW3756
|
Plasmid clone
|
[http://www.shigen.nig.ac.jp/ecoli/strain/askaCloneQueryAction.do?strainTypeId=9 Shigen]
|
PMID:16769691

Status:Clone OK

Primer 1:GCCAATCTTACCGAATTAAAGAA

Primer 2:CCTGAGCGTTTCATCATTTCGAA
|-
|
[[ilvD:Gene|ilvD500::Tn10]]
|
Linked marker
|
CAG18431 = [http://cgsc2.biology.yale.edu/Strain.php?ID=40338 CGSC7462]<ref name='LIB:cgsc'/>
|
est. P1 cotransduction: 67% <ref name='LIB:Nichols_linked_Tn'/> 
Synonyms:ilv500::Tn10
|-
|
metEo-3079::Tn10
|
Linked marker
|
CAG18491 = [http://cgsc2.biology.yale.edu/Strain.php?ID=40350 CGSC7464]<ref name='LIB:cgsc'/>
|
est. P1 cotransduction: 14% <ref name='LIB:Nichols_linked_Tn'/> 
Synonyms:metE3079::Tn10 nnnThe Tn10 in CAG13491 is inserted in the metE regulatory region, but causes a Met- phenotype.

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<protect></protect>
===Notes===

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

{{Gene_accessions_help}}
{| id="X46a9fed17a763" class=" tableEdit Gene_accessions_table"
|- {{table_heading_style}}
!|Database!!Accession!!Notes
|-
|
[http://ecocyc.org EcoCyc] ([[EcoCyc|EcoliWiki Page]])
|
[http://biocyc.org/ECOLI/NEW-IMAGE?type=NIL&object=EG10845 EcoCyc:EG10845]
|

|-
|
[http://www.ecoli-york.org EchoBASE] ([[EchoBASE|EcoliWiki Page]])
|
[http://www.york.ac.uk/res/thomas/Gene.cfm?recordID=EB0838 EchoBASE:EB0838]
|

|-
|
[http://chase.ou.edu/oubcf/index.php EcoliGenExpDB] ([[EcoliGenExpDB|EcoliWiki Page]])
|
[http://chase.ou.edu/macro/searchlink.php?bnum=b3783 EcoliGenExpDB:b3783]
|

|-
|
[http://BioCyc.org/ECOL199310/ ECOL199310CYC] ([[ECOL199310CYC|EcoliWiki Page]])
|
[http://BioCyc.org/ECOL199310/new-image?object=C4702 ECOL199310CYC:C4702]
|

|-
|
[http://ecogene.org EcoGene] ([[EcoGene|EcoliWiki Page]])
|
[http://ecogene.org/geneinfo.php?eg_id=EG10845 EcoGene:EG10845]
|

|-
|
[http://BioCyc.org/ECOO157/ ECOO157CYC] ([[ECOO157CYC|EcoliWiki Page]])
|
[http://BioCyc.org/ECOO157/new-image?object=RHO ECOO157CYC:RHO]
|

|-
|
[http://cgsc.biology.yale.edu CGSC] ([[CGSC|EcoliWiki Page]])
|
[http://cgsc.biology.yale.edu/cgi-bin/sybgw/cgsc/Site/288 CGSC:288]
|

|-
|
[https://asap.ahabs.wisc.edu/asap/logon.php ASAP] ([[ASAP|EcoliWikiPage]])
|
[http://asap.ahabs.wisc.edu/asap/feature_info.php?LocationID=WIS&FeatureID=0012362&formSubmitReturn=1 ASAP:ABE-0012362]
|

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<protect></protect>
===Notes===

==Links==
{{BacktoTop}}


{| id="R46a718d2508b7" class=" tableEdit Links_table"
|- {{table_heading_style}}
!|Name!!URL!!Comments

|- class="tableEdit_footer"
|[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.18125.R46a718d2508b7&page=18125&pagename={{FULLPAGENAMEE}}&type=0&template=Links_table edit table] || ||
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<noinclude><protect>
==References==
{{BacktoTop}}
{{RefHelp}}
<references />
__NOTOC__
===Categories===
[[Category:Gene List:MG1655]]
[[Category:Gene List:W3110]]
[[Category:Genes in the Keio knockout collection]]
[[Category:Genes in the ASKA clone collection]]
[[Category:rho genes]][[Category:Gene_List:DH10B]][[Category:Gene_List:REL606]]
[[Category:Gene_List:BW2952]]

rho:Quickview

2011-01-04T16:18:28Z

Rwashburn: Updating New_Quickview_Table table.