cbl:Gene Product(s): Difference between revisions

From EcoliWiki
Jump to navigation Jump to search
← Older edit
touch the Product_motif_table table.
touch table
 
(21 intermediate revisions by 2 users not shown)
Line 35: Line 35:
*  
*  
****************************************************************************************** -->{{Product_nomenclature_help}}
****************************************************************************************** -->{{Product_nomenclature_help}}
{| id="F46aa8abc19c36"  class=" tableEdit Product_nomenclature_table"   
{|   id="F46aa8abc19c36"  class=" tableEdit Product_nomenclature_table"   


|-
|-
Line 44: Line 44:
!align=left {{table heading style}} |Synonyms
!align=left {{table heading style}} |Synonyms
||
||
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'/>  
''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''
|-
|-
!align=left {{table heading style}} |Product description
!align=left {{table heading style}} |Product description
Line 75: Line 75:
*  
*  
****************************************************************************************** -->{{Product_GO_help}}
****************************************************************************************** -->{{Product_GO_help}}
{|   id="F46aa8abd22da0"  class=" tableEdit GO_table_product dataTable"   
{| 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}}
|- {{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:0003700
GO:0003677
|
|
transcription factor activity
DNA binding
|
|
GO_REF:0000002
GOA:spkw<br />SP_KW:GO_REF:0000004
|
|
IEA: Inferred from Electronic Annotation
IEA: Inferred from Electronic Annotation
|
|
InterPro:IPR000847
SP_KW:KW-0238
|
|
F
F
|
|
Seeded from EcoCyc <ref name = 'LIB:EcoCyc13.0'/>
Seeded from [[EcoCyc]] (v14.0)
|
|
complete  
complete  
Line 101: Line 101:


|
|
GO:0003677
GO:0003700
|
|
DNA binding
transcription factor activity
|
|
GO_REF:0000004
GOA:interpro<br />GO_REF:0000002
|
|
IEA: Inferred from Electronic Annotation
IEA: Inferred from Electronic Annotation
|
|
SP_KW:KW-0238
InterPro:IPR000847
|
|
F
F
|
|
Seeded from EcoCyc <ref name = 'LIB:EcoCyc13.0'/>
Seeded from [[EcoCyc]] (v14.0)
|
|
complete  
complete  
Line 124: Line 124:
transcription
transcription
|
|
GO_REF:0000004
GOA:spkw<br />SP_KW:GO_REF:0000004
|
|
IEA: Inferred from Electronic Annotation
IEA: Inferred from Electronic Annotation
Line 132: Line 132:
P
P
|
|
Seeded from EcoCyc 12.5 <ref name = 'LIB:EcoCyc12.5'/>
Seeded from [[EcoCyc]] (v14.0)
|
|
complete  
complete  
Line 143: Line 143:
regulation of transcription, DNA-dependent
regulation of transcription, DNA-dependent
|
|
GO_REF:0000002<br />GO_REF:0000004
GOA:interpro<br />GO_REF:0000002
|
|
IEA: Inferred from Electronic Annotation
IEA: Inferred from Electronic Annotation
|
|
InterPro:IPR000847<br />SP_KW:KW-0805
InterPro:IPR000847
|
P
|
Seeded from EcoCyc <ref name = 'LIB:EcoCyc13.0'/>
|
complete
|-
|
NOT
|
GO:0006790
|
sulfur metabolic process
|
PMID:10506196
|
IDA: Inferred from Direct Assay
|
 
|
|
P
P
|
|
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  
Line 184: Line 163:
|
|
PMID:10506196
PMID:10506196
|
IDA: Inferred from Direct Assay
|
|
P
|
Seeded from EcoCyc <ref name = 'LIB:EcoCyc13.0'/>
|
complete
|-
|
|
GO:0006350
|
transcription
|
PMID:10506196
|
IDA: Inferred from Direct Assay
|
|
P
|
Seeded from EcoCyc 11.1<ref name='LIB:EcoCyc11.1'/>.
|
complete
|-
|
NOT
|
GO:0019344
|
cysteine biosynthetic process
|
PMID:10506196
|
|
|
P
|
Seeded from EcoCyc 11.1<ref name='LIB:EcoCyc11.1'/>.
|
required field missing
|-
|
|
GO:0005737
|
cytoplasm
|
|
|
|
C
|
Seeded from EcoCyc 11.1<ref name='LIB:EcoCyc11.1'/>.
|
required fields missing 
|-
|
|
GO:0016563
|
transcription activator activity
|
PMID:10506196
|
IDA: Inferred from Direct Assay
|
|
F
|
Seeded from EcoCyc 11.1<ref name='LIB:EcoCyc11.1'/>.
|
complete
|-
|
|
GO:0045883
|
positive regulation of sulfur utilization
|
PMID:10506196
|
|
IDA: Inferred from Direct Assay
IDA: Inferred from Direct Assay
Line 304: Line 187:
*  
*  
****************************************************************************************** -->{{Product_interactions_help}}
****************************************************************************************** -->{{Product_interactions_help}}
{|   id="J46aa8ad67ea6a"  class=" tableEdit Product_interactions_table dataTable"   
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="J46aa8ad67ea6a"  class=" tableEdit Product_interactions_table dataTable"   
|- {{table heading style}}
|- {{table heading style}}
!|Partner Type!!Partner!!Notes!!References!!Evidence
!|Partner Type!!Partner!!Notes!!References!!Evidence
Line 325: Line 208:
*  
*  
****************************************************************************************** -->{{Product_localization_help}}
****************************************************************************************** -->{{Product_localization_help}}
{|   id="N46a81e0a21360"  class=" tableEdit Product_localization_table"   
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="N46a81e0a21360"  class=" tableEdit Product_localization_table"   
|- {{table heading style}}
|- {{table heading style}}
!|Compartment!!Description!!Evidence!!Source!!Notes
!|Compartment!!Description!!Evidence!!Reference/Source!!Notes


|- class="tableEdit_footer"  
|- class="tableEdit_footer"  
Line 350: Line 233:
*  
*  
****************************************************************************************** -->{{Product_physical_properties_help}}
****************************************************************************************** -->{{Product_physical_properties_help}}
{| id="G46aa8ad8633e7"  class=" tableEdit Product_phys_prop_table"   
{|   id="G46aa8ad8633e7"  class=" tableEdit Product_phys_prop_table"   
 
|-
!align=left {{table heading style}} |Name
||


|-
|-
Line 394: Line 281:
*  
*  
****************************************************************************************** -->{{Product_domains_motifs_help}}
****************************************************************************************** -->{{Product_domains_motifs_help}}
{|   id="S46aa8ad8cf9d2"  class=" tableEdit Product_motif_table dataTable"   
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="S46aa8ad8cf9d2"  class=" tableEdit Product_motif_table dataTable"   
|- {{table heading style}}
|- {{table heading style}}
!|Type!!Residues!!Description!!Notes!!References
!|Type!!Residues!!Description!!Notes!!References
|-
|
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


|- class="tableEdit_footer"  
|- class="tableEdit_footer"  
Line 419: Line 328:
*  
*  
****************************************************************************************** -->{{Product_structure_help}}
****************************************************************************************** -->{{Product_structure_help}}
{| id="L46a81e0be2589"  class=" tableEdit Product_structure_table"   
{|   id="L46a81e0be2589"  class=" tableEdit Product_structure_table"   


|-
|-
Line 432: Line 341:
||
||
View models at:
View models at:
* [http://dragon.bio.purdue.edu/ecolpredict2/localsearch/cgi-bin/search3.cgi?q=recA EcoliPredict]
* [http://www.proteinmodelportal.org/query/uniprot/Q47083 Protein Model Portal]
* [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/genome3d/read?uniprot_id=Q47083 PSI-PRED (Q47083)]
* [http://bioinf.cs.ucl.ac.uk/psipred/ PSI-PRED]
* [http://spock.genes.nig.ac.jp/~genome/cgi-bin/gkeytext.pl.cgi?A&QUERY1=Q47083 Genomes TO Protein (Q47083)] (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="tableEdit_footer"  
|- class="tableEdit_footer"  
Line 477: Line 384:
*  
*  
****************************************************************************************** -->{{Product_resources_help}}
****************************************************************************************** -->{{Product_resources_help}}
{|   id="X46aa8ad99468b"  class=" tableEdit Product_resource_table"   
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="X46aa8ad99468b"  class=" tableEdit Product_resource_table"   
|- {{table_heading_style}}
|- {{table_heading_style}}
!|Resource type!!Source!!Notes/Reference
!|Resource type!!Source!!Notes/Reference
Line 499: Line 406:
*  
*  
****************************************************************************************** -->{{Gene_accessions_help}}
****************************************************************************************** -->{{Gene_accessions_help}}
{|   id="N46aa8ad9f087d"  class=" tableEdit Gene_accessions_table"   
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="N46aa8ad9f087d"  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/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]]
|-
|
[http://www.pir.uniprot.org/ UniProt] ([[UniProt|EcoliWiki Page]])
|
[http://www.uniprot.org/uniprot/Q47083 UniProtKB/Swiss-Prot:Q47083]
|
|
[http://biocyc.org/ECOLI/NEW-IMAGE?type=NIL&object=G7071-MONOMER EcoCyc:G7071-MONOMER]
Escherichia coli str. K-12 substr. MG1655
|-  
|
|
[[EcoCyc]]
|
EcoCyc:G7071
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-  
|-  
|
|
[http://swissmodel.expasy.org/repository/ SwissModel] ([[SwissModel|EcoliWiki Page]])
[[EcoGene]]
|
|
[http://swissmodel.expasy.org/repository/smr.php?job=2&sptr_ac=Q47083 SwissModel:Q47083]
EcoGene:EG14264
|
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-  
|-  
|
|
[http://uniprot.org/ UniProt] ([[UniProt|EcoliWiki Page]])  
[http://www.ncbi.nlm.nih.gov/gene NCBI (Gene)] ([[NCBI (Gene)|EcoliWiki Page]])
|
|
[[uniprot:Q47083|UniProt:Q47083]]
[http://www.ncbi.nlm.nih.gov/gene?term=946502 GeneID:946502]
|
|
Escherichia coli str. K-12 substr. MG1655
|-  
|-  
|
|
[http://pfam.sanger.ac.uk/ PFAM] ([[PFAM|EcoliWiki Page]])
[[RegulonDB]]
|
|
[http://pfam.sanger.ac.uk/family?acc=PF00126 PFAM:PF00126]
RegulonDB:ECK120003657
|
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-  
|-  
|
|
[http://www.ncbi.nlm.nih.gov/RefSeq/ RefSeq] ([[RefSeq|EcoliWiki Page]])
[[EchoBASE]]
|
|
[http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?db=nucleotide&val=NP_416492 RefSeq:NP_416492]
EchoBASE:EB4012
|
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]


|- class="tableEdit_footer"  
|- class="tableEdit_footer"  
Line 556: Line 491:
*  
*  
****************************************************************************************** -->
****************************************************************************************** -->
{|   id="F46a81e104b863"  class=" tableEdit Links_table"   
{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="F46a81e104b863"  class=" tableEdit Links_table"   
|- {{table_heading_style}}
|- {{table_heading_style}}
!|Name!!URL!!Comments
!|Name!!URL!!Comments
Line 577: Line 512:
{{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)


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: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

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 

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)

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

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]

edit table

<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:

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: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

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 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

[back to top]


Retrieved from "https://ecoliwiki.org/colipedia/index.php?title=cbl:Gene_Product(s)&oldid=1493894"