cbl:Gene Product(s): Difference between revisions

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|{{Sub}}[[#Localization |Localization]]
|{{Sub}}[[#Localization |Localization]]
|{{Sub}}[[#Sequence|Sequence]]
|{{Sub}}[[#Sequence|Sequence]]
|{{Sub}}[[#Domains/Motifs/Modification Sites|Domains]]
|{{Sub}}[[#Structure|Structure]]
|{{Sub}}[[#Structure|Structure]]
|{{Sub}}[[#Gene Product Resources|Resources]]
|{{Sub}}[[#Gene Product Resources|Resources]]
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|-
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!{{table heading style}} |Standard name
!align=left {{table heading style}} |Standard name
|
||
Cbl product
Cbl  
|-
|-
!{{table heading style}} |Synonyms
!align=left {{table heading style}} |Synonyms
|
||
DNA-binding transcriptional activator of cysteine biosynthesis product<ref name='LIB:Riley_2006'/>, B1987 product<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, Cbl product<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>  
''DNA-binding transcriptional activator of cysteine biosynthesis<ref name='LIB:Riley_2006'/>, B1987<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, Cbl<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/> , ECK1982, JW1966, b1987''
|-
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!{{table heading style}} |Product description
!align=left {{table heading style}} |Product description
|
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Cbl transcriptional activator<ref name='LIB:EcoCyc10.6'/><ref name='LIB:EcoCyc11.1'/>
Cbl transcriptional activator<ref name='LIB:EcoCyc10.6'/><ref name='LIB:EcoCyc11.1'/>


ssuEADCB and tauABCD operon activator<ref name='LIB:EcoGene'/>
|-
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!{{table heading style}} |EC number (for enzymes)
!align=left {{table heading style}} |EC number (for enzymes)
|
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*
 
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===Notes===
===Notes===
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<protect>
<protect>
<big>'''Gene Ontology'''</big>
<big>'''Gene Ontology'''</big><br /><!--box uid=421aa90e079fa326b6494f812ad13e79.24094.F46aa8abd22da0-->
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{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="F46aa8abd22da0"  class=" tableEdit GO_table_product dataTable"   
|- {{table_heading_style}}
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!|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
|-  
|-  
|
|
NOT
 
|
|
[[Category:GO:0006790_!_sulfur_metabolic_process]][http://gowiki.tamu.edu/wiki/index.php/Category:GO:0006790_!_sulfur_metabolic_process GO:0006790]
GO:0003677
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|
sulfur metabolic process
DNA binding
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|
[[PMID:10506196]]<ref name=PMID:10506196/>
GOA:spkw<br />SP_KW:GO_REF:0000004
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|
IDA: Inferred from Direct Assay
IEA: Inferred from Electronic Annotation
|
|
 
SP_KW:KW-0238
|
|
P
F
|
|
Seeded from EcoCyc 11.1<ref name='LIB:EcoCyc11.1'/>.
Seeded from [[EcoCyc]] (v14.0)
 
This is not part of the sulfur metabolic process. See below for the regulation of sulfur utilization.
|
|
complete  
complete  
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|
|
[[Category:GO:0006350_!_transcription]][http://gowiki.tamu.edu/wiki/index.php/Category:GO:0006350_!_transcription GO:0006350]
GO:0003700
|
|
transcription
transcription factor activity
|
|
[[PMID:10506196]]<ref name=PMID:10506196/>  
GOA:interpro<br />GO_REF:0000002
|
|
IDA: Inferred from Direct Assay
IEA: Inferred from Electronic Annotation
|
|
 
InterPro:IPR000847
|
|
P
F
|
|
Seeded from EcoCyc 11.1<ref name='LIB:EcoCyc11.1'/>.  
Seeded from [[EcoCyc]] (v14.0)
|
|
complete  
complete  
|-  
|-  
|
|
NOT
 
|
|
[[Category:GO:0019344_!_cysteine_biosynthetic_process]][http://gowiki.tamu.edu/wiki/index.php/Category:GO:0019344_!_cysteine_biosynthetic_process GO:0019344]
GO:0006350
|
|
cysteine biosynthetic process
transcription
|
|
[[PMID:10506196]]<ref name=PMID:10506196/>
GOA:spkw<br />SP_KW:GO_REF:0000004
|
|
 
IEA: Inferred from Electronic Annotation
|
|
 
SP_KW:KW-0804
|
|
P
P
|
|
Seeded from EcoCyc 11.1<ref name='LIB:EcoCyc11.1'/>.  
Seeded from [[EcoCyc]] (v14.0)
|
|
required field missing
complete
|-
|
|
[[Category:GO:0016564_!_transcription_repressor_activity]][http://gowiki.tamu.edu/wiki/index.php/Category:GO:0016564_!_transcription_repressor_activity GO:0016564]
|
transcription repressor activity
|
|
|
|
F
|
Seeded from EcoCyc 10.6<ref name='LIB:EcoCyc10.6'/>.
|
required fields missing 
|-
|
|
[[Category:GO:0005737_!_cytoplasm]][http://gowiki.tamu.edu/wiki/index.php/Category:GO:0005737_!_cytoplasm GO:0005737]
|
cytoplasm
|
|
|
|
C
|
Seeded from EcoCyc 11.1<ref name='LIB:EcoCyc11.1'/>.
|
required fields missing 
|-  
|-  
|
|


|
|
[[Category:GO:0016563_!_transcription_activator_activity]][http://gowiki.tamu.edu/wiki/index.php/Category:GO:0016563_!_transcription_activator_activity GO:0016563]
GO:0006355
|
|
transcription activator activity
regulation of transcription, DNA-dependent
|
|
[[PMID:10506196]]<ref name=PMID:10506196/>  
GOA:interpro<br />GO_REF:0000002
|
|
IDA: Inferred from Direct Assay
IEA: Inferred from Electronic Annotation
|
|
 
InterPro:IPR000847
|
|
F
P
|
|
Seeded from EcoCyc 11.1<ref name='LIB:EcoCyc11.1'/>.  
Seeded from [[EcoCyc]] (v14.0)
|
|
complete  
complete  
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|
|
[[Category:GO:0045883_!_positive_regulation_of_sulfur_utilization]][http://gowiki.tamu.edu/wiki/index.php/Category:GO:0045883_!_positive_regulation_of_sulfur_utilization GO:0045883]
GO:0045883
|
|
positive regulation of sulfur utilization
positive regulation of sulfur utilization
|
|
[[PMID:10506196]]<ref name=PMID:10506196/>
PMID:10506196
 
|
|
IDA: Inferred from Direct Assay
IDA: Inferred from Direct Assay
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complete  
complete  


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<span id="Interactions"></span><big>'''Interactions'''</big>
<span id="Interactions"></span><big>'''Interactions'''</big>
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===Notes===
===Notes===
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!Compartment!!Description!!Evidence!!Notes
!|Compartment!!Description!!Evidence!!Reference/Source!!Notes
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!align=left {{table heading style}} |Name
||
 
|-
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!{{table heading style}} |Sequence
!align=left {{table heading style}} |Sequence
|
||
[http://biocyc.org/ECOLI/sequence-aa?object=G7071-MONOMER at EcoCyc]  
[http://biocyc.org/ECOLI/sequence-aa?object=G7071-MONOMER at EcoCyc]  
<pre>MNFQQLKIIR EAARQDYNLT EVANMLFTSQ SGVSRHIREL EDELGIEIFV RRGKRLLGMT
<pre>MNFQQLKIIR EAARQDYNLT EVANMLFTSQ SGVSRHIREL EDELGIEIFV RRGKRLLGMT
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KRQVMESSEE EIDYQI</pre>  
KRQVMESSEE EIDYQI</pre>  
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!{{table heading style}} |Mol. Wt
!align=left {{table heading style}} |Length
|
||
35.86 kDa (calc) <ref name='LIB:EcoCyc10.6'/>
316
|-
|-
!{{table heading style}} |pI
!align=left {{table heading style}} |Mol. Wt
|
||
35.856 kDa
|-
|-
!{{table heading style}} |Extinction coefficient
!align=left {{table heading style}} |pI
|
||
36440 - 36565 (calc based on 6 Y, 5 W, and 1 C residues)  
5.3 (calculated)
|-
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!align=left {{table heading style}} |Extinction coefficient
||
36,440 - 36,565 (calc based on 6 Y, 5 W, and 1 C residues)
 
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<big>'''Domains/Motifs/Modification Sites'''</big>
 
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<span id="Domains/Motifs/Modification Sites"><big>'''Domains/Motifs/Modification Sites'''</big></span><table>
<tr align="left" valign="top">
<td><!--box uid=421aa90e079fa326b6494f812ad13e79.24094.S46aa8ad8cf9d2-->
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!Type!!Residues!!Description!!Notes
!|Type!!Residues!!Description!!Notes!!References
|-class='sortbottom'
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Domain
|
88..296
|
[http://pfam.janelia.org/family/PF03466 PF03466  LysR substrate binding domain]
|
 
|
PMID:19920124
|-
|
Domain
|
3..64
|
[http://pfam.janelia.org/family/PF00126 PF00126  Bacterial regulatory helix-turn-helix protein, lysR family]
|
 
|
PMID:19920124
 
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<td>
<!-- motifs column 2-->
<motif_map/>
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<span id="Structure"></span><big>'''Structure'''</big>
<table><tr valign='top'><td>
<span id='Structure'></span><big>'''Structure'''</big><br />
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!Structure Type!!Organism!!Accession!!Residues covered!!Notes
|-
|-class='sortbottom'
!align=left {{table heading style}} |Structures
|[{{SERVER}}{{SCRIPTPATH}}/index.php?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.24094.L46a81e0be2589&page=24094&pagename={{FULLPAGENAMEE}} edit table] || || || ||
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<beststructure>
gene=cbl
taxon=562,83333
</beststructure>
|-
!align=left {{table heading style}} |Models
||
View models at:
* [http://www.proteinmodelportal.org/query/uniprot/Q47083 Protein Model Portal]
* [http://bioinf.cs.ucl.ac.uk/genome3d/read?uniprot_id=Q47083 PSI-PRED (Q47083)]
* [http://spock.genes.nig.ac.jp/~genome/cgi-bin/gkeytext.pl.cgi?A&QUERY1=Q47083 Genomes TO Protein (Q47083)] (GTOP)
 
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<!--Structure_notes--></protect>
</td><td></protect>
==== Structure figures ====
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
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===Notes===
===Notes===


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===Notes===
===Notes===
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!Database!!Accession!!Notes
!|Database!!Accession!!Notes
|-
|-
|
[http://www.ncbi.nlm.nih.gov/protein NCBI (Protein)] ([[NCBI (Protein)|EcoliWiki Page]])
|
[http://www.ncbi.nlm.nih.gov/protein/16129929 GI:16129929]
|
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/NP_416492.1 GeneID:946502]
|
Escherichia coli str. K-12 substr. MG1655
|-
|
[[ASAP]]
|
ASAP:ABE-0006590
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-  
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[http://ecocyc.org EcoCyc] ([[EcoCyc|EcoliWiki Page]])  
[http://www.pir.uniprot.org/ UniProt] ([[UniProt|EcoliWiki Page]])
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[http://biocyc.org/ECOLI/NEW-IMAGE?type=NIL&object=G7071-MONOMER EcoCyc:G7071-MONOMER]
[http://www.uniprot.org/uniprot/Q47083 UniProtKB/Swiss-Prot:Q47083]
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Escherichia coli str. K-12 substr. MG1655
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[http://swissmodel.expasy.org/repository/ SwissModel] ([[SwissModel|EcoliWiki Page]])
[[EcoCyc]]
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[http://swissmodel.expasy.org/repository/smr.php?job=2&sptr_ac=Q47083 SwissModel:Q47083] 
EcoCyc:G7071
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
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[http://uniprot.org/ UniProt] ([[UniProt|EcoliWiki Page]])
[[EcoGene]]
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[http://www.expasy.ch/cgi-bin/sprot-search-ac?Q47083 UniProt:Q47083] 
EcoGene:EG14264
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
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[http://pfam.sanger.ac.uk/ PFAM] ([[PFAM|EcoliWiki Page]])  
[http://www.ncbi.nlm.nih.gov/gene NCBI (Gene)] ([[NCBI (Gene)|EcoliWiki Page]])
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[http://pfam.sanger.ac.uk/family?acc=PF00126 PFAM:PF00126]
[http://www.ncbi.nlm.nih.gov/gene?term=946502 GeneID:946502]
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Escherichia coli str. K-12 substr. MG1655
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[http://www.ncbi.nlm.nih.gov/RefSeq/ RefSeq] ([[RefSeq|EcoliWiki Page]])
[[RegulonDB]]
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[http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?db=nucleotide&val=NP_416492 RefSeq:NP_416492] 
RegulonDB:ECK120003657
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
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[http://modbase.compbio.ucsf.edu ModBase] ([[ModBase|EcoliWiki Page]])
[[EchoBASE]]
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[http://salilab.org/modbase/searchbyid?databaseID=Q47083 ModBase:Q47083] 
EchoBASE:EB4012
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
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===Categories===
===Categories===
{{BacktoTop}}
{{BacktoTop}}
[[Category:Proteins]]
[[Category:Proteins]]
[[Category:GO:0006790_!_sulfur metabolic process]][[Category:GO:0006350_!_transcription]][[Category:GO:0019344_!_cysteine biosynthetic process]][[Category:GO:0016564_!_transcription repressor activity]][[Category:GO:0005737_!_cytoplasm]][[Category:GO:0016563_!_transcription activator activity]]

Latest revision as of 20:45, 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

Cbl

Synonyms

DNA-binding transcriptional activator of cysteine biosynthesis[1], B1987[2][1], Cbl[2][1] , ECK1982, JW1966, b1987

Product description

Cbl transcriptional activator[2][3]

ssuEADCB and tauABCD operon activator[4]

EC number (for enzymes)


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Notes

Function

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

Qualifier GO ID GO term name Reference Evidence Code with/from Aspect Notes Status
GO:0003677

DNA binding

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0238

F

Seeded from EcoCyc (v14.0)

complete

GO:0003700

transcription factor activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000847

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:0006355

regulation of transcription, DNA-dependent

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000847

P

Seeded from EcoCyc (v14.0)

complete

GO:0045883

positive regulation of sulfur utilization

PMID:10506196[5]

IDA: Inferred from Direct Assay

P

complete

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

Partner Type Partner Notes References Evidence
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Notes

Localization

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

Compartment Description Evidence Reference/Source Notes
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Notes

Structure and Physical Properties

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

Name
Sequence

at EcoCyc 

MNFQQLKIIR EAARQDYNLT EVANMLFTSQ SGVSRHIREL EDELGIEIFV RRGKRLLGMT
EPGKALLVIA ERILNEASNV RRLADLFTND TSGVLTIATT HTQARYSLPE VIKAFRELFP
EVRLELIQGT PQEIATLLQN GEADIGIASE RLSNDPQLVA FPWFRWHHSL LVPHDHPLTQ
ISPLTLESIA KWPLITYRQG ITGRSRIDDA FARKGLLADI VLSAQDSDVI KTYVALGLGI
GLVAEQSSGE QEEENLIRLD TRHLFDANTV WLGLKRGQLQ RNYVWRFLEL CNAGLSVEDI
KRQVMESSEE EIDYQI
Length

316

Mol. Wt

35.856 kDa

pI

5.3 (calculated)

Extinction coefficient

36,440 - 36,565 (calc based on 6 Y, 5 W, and 1 C residues)

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Domains/Motifs/Modification Sites

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

Type Residues Description Notes References

Domain

88..296

PF03466 LysR substrate binding domain

PMID:19920124[6]

Domain

3..64

PF00126 Bacterial regulatory helix-turn-helix protein, lysR family

PMID:19920124[6]

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<motif_map/>

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

Structures

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

Models

View models at:

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Structure figures

Notes

Gene Product Resources

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

Resource type Source Notes/Reference
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Notes

Accessions in Other Databases

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

Database Accession Notes

NCBI (Protein) (EcoliWiki Page)

GI:16129929

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:946502

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0006590

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:Q47083

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:G7071

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG14264

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:946502

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120003657

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB4012

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

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References

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

  1. ↑ 1.0 1.1 1.2 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
  2. ↑ 2.0 2.1 2.2 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  3. ↑ EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  4. ↑ EcoGene: Rudd, KE (2000) EcoGene: a genome sequence database for Escherichia coli K-12. Nucleic Acids Res 28:60-4.
  5. ↑ van Der Ploeg, JR et al. (1999) The Escherichia coli ssuEADCB gene cluster is required for the utilization of sulfur from aliphatic sulfonates and is regulated by the transcriptional activator Cbl. J. Biol. Chem. 274 29358-65 PubMed
  6. ↑ 6.0 6.1 Finn, RD et al. (2010) The Pfam protein families database. Nucleic Acids Res. 38 D211-22 PubMed

Categories

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