afuB:Gene Product(s): Difference between revisions

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<noinclude>{{TabsTop}}
<noinclude>{{TabsTop}}
{{Tab|Quickview|afuB}}{{Tab|Gene|afuB}}{{Tab On|Gene Product(s)|afuB}}{{Tab|Expression|afuB}}{{Tab|Evolution|afuB}}{{Tab|On One Page|afuB}}{{TabsBottom}}
{{Tab|Quickview|afuB}}{{Tab|Gene|afuB}}{{Tab On|Gene Product(s)|afuB}}{{Tab|Expression|afuB}}{{Tab|Evolution|afuB}}{{Tab|On One Page|afuB}}{{TabsBottom}}
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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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==Nomenclature==
==Nomenclature==
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|-
|-
!{{table heading style}} |Standard name
!align=left {{table heading style}} |Standard name
|
||
AfuB product
AfuB  
|-
|-
!{{table heading style}} |Synonyms
!align=left {{table heading style}} |Synonyms
|
||
CP4-6 prophage; predicted ferric trasnporter subunit<ref name='LIB:Riley_2006'/>, membrane component of ABC superfamily<ref name='LIB:Riley_2006'/>, B0263<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, AfuB<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, FbpB<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>  
''CP4-6 prophage; predicted ferric trasnporter subunit<ref name='LIB:Riley_2006'/>, membrane component of ABC superfamily<ref name='LIB:Riley_2006'/>, B0263<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, AfuB<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, FbpB<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/> , ECK0265, fbpB, JW0255, b0263''
|-
|-
!{{table heading style}} |Product description
!align=left {{table heading style}} |Product description
|
||
AfuB<ref name='LIB:EcoCyc10.6'/>; AfuB<ref name='LIB:EcoCyc11.1'/>
AfuB<ref name='LIB:EcoCyc10.6'/><ref name='LIB:EcoCyc11.1'/>


|-
|-
!{{table heading style}} |EC number (for enzymes)
!align=left {{table heading style}} |EC number (for enzymes)
|
||
*
 
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===Notes===
===Notes===
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==Function==
==Function==
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<protect>
<protect>
===Gene Ontology===
<big>'''Gene Ontology'''</big><br /><!--box uid=421aa90e079fa326b6494f812ad13e79.20135.X46aa2664b2c84-->
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{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="X46aa2664b2c84"  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:0005215
|
transporter activity
|
GOA:interpro<br />GO_REF:0000002
|
IEA: Inferred from Electronic Annotation
|
InterPro:IPR000515
|
F
|
Seeded from [[EcoCyc]] (v14.0)
|
complete
|-
|
 
|
GO:0005506
|
iron ion binding
|
GOA:spkw<br />SP_KW:GO_REF:0000004
|
IEA: Inferred from Electronic Annotation
|
SP_KW:KW-0408
|
F
|
Seeded from [[EcoCyc]] (v14.0)
|
complete
|-
|
 
|
GO:0005886
|
plasma membrane
|
GOA:spkw<br />SP_KW:GO_REF:0000004
|
IEA: Inferred from Electronic Annotation
|
SP_KW:KW-0997
|
C
|
Seeded from [[EcoCyc]] (v14.0)
|
complete
|-
|
 
|
GO:0005886
|
plasma membrane
|
GOA:spkw<br />SP_KW:GO_REF:0000004
|
IEA: Inferred from Electronic Annotation
|
SP_KW:KW-1003
|
C
|
Seeded from [[EcoCyc]] (v14.0)
|
complete
|-
|
 
|
GO:0006810
|
transport
|
GOA:interpro<br />GO_REF:0000002
|
IEA: Inferred from Electronic Annotation
|
InterPro:IPR000515
|
P
|
Seeded from [[EcoCyc]] (v14.0)
|
complete
|-
|
 
|
GO:0006810
|
transport
|
GOA:spkw<br />SP_KW:GO_REF:0000004
|
IEA: Inferred from Electronic Annotation
|
SP_KW:KW-0813
|
P
|
Seeded from [[EcoCyc]] (v14.0)
|
complete
|-
|
 
|
GO:0006811
|
ion transport
|
GOA:spkw<br />SP_KW:GO_REF:0000004
|
IEA: Inferred from Electronic Annotation
|
SP_KW:KW-0406
|
P
|
Seeded from [[EcoCyc]] (v14.0)
|
complete
|-
|
 
|
GO:0006826
|
iron ion transport
|
GOA:spkw<br />SP_KW:GO_REF:0000004
|
IEA: Inferred from Electronic Annotation
|
SP_KW:KW-0410
|
P
|
Seeded from [[EcoCyc]] (v14.0)
|
complete
|-
|
 
|
GO:0016020
|
membrane
|
GOA:interpro<br />GO_REF:0000002
|
IEA: Inferred from Electronic Annotation
|
InterPro:IPR000515
|
C
|
Seeded from [[EcoCyc]] (v14.0)
|
complete
|-
|
 
|
GO:0016020
|
membrane
|
GOA:spkw<br />SP_KW:GO_REF:0000004
|
IEA: Inferred from Electronic Annotation
|
SP_KW:KW-0472
|
C
|
Seeded from [[EcoCyc]] (v14.0)
|
complete
|-  
|
|
 
|
|
GO:0006810
GO:0016021
|
|
transport
integral to membrane
|
|
GOA:spkw<br />SP_KW:GO_REF:0000004
|
|
IEA: Inferred from Electronic Annotation
|
|
SP_KW:KW-0812
|
|
P
C
|
|
Seeded from EcoCyc 10.6<ref name='LIB:EcoCyc10.6'/>.  
Seeded from [[EcoCyc]] (v14.0)
|
|
required fields missing 
complete
|-
|-  
|
|
 
|
|
GO:0005215
GO:0016021
|
|
transporter activity
integral to membrane
|
|
GO_REF:0000023
|
|
IEA: Inferred from Electronic Annotation
|
|
SP_SL:SL-9909
|
|
F
C
|
|
Seeded from EcoCyc 11.1<ref name='LIB:EcoCyc11.1'/>.  
Seeded from [[EcoCyc]] (v14.0)
|
|
required fields missing 
complete
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===Interactions===
<span id="Interactions"></span><big>'''Interactions'''</big>
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!Partner Type!!Partner!!Notes
!|Partner Type!!Partner!!Notes!!References!!Evidence
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<!--Function_notes--></protect>
<!--Function_notes--></protect>
===Notes===
===Notes===


==Localization==
==Localization==
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!|Compartment!!Description!!Evidence!!Reference/Source!!Notes
|-
|
plasma membrane
|
C-terminus localized in the cytoplasm with 2 predicted transmembrane domains
|
Daley et al. (2005) <ref name=PMID:15919996/>
|
|
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<protect><!--Localization_notes--></protect>
<protect><!--Localization_notes--></protect>
===Notes===
===Notes===


==Structure and Physical Properties==
==Structure and Physical Properties==
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<protect>
<protect>
===Physical Properties===
<span id="Sequence"></span><big>'''Physical Properties'''</big>
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|-
!align=left {{table heading style}} |Name
||
 
|-
|-
!{{table heading style}} |Sequence
!align=left {{table heading style}} |Sequence
|
||
[http://biocyc.org/ECOLI/sequence-aa?object=G6137-MONOMER at EcoCyc]  
[http://biocyc.org/ECOLI/sequence-aa?object=G6137-MONOMER at EcoCyc]  
<pre>MESLPGQIDK SLDEASLSLR AGSLRTITHI LLPLLRPAIL SALIYSFVRA ITTVSAIVFL
<pre>MESLPGQIDK SLDEASLSLR AGSLRTITHI LLPLLRPAIL SALIYSFVRA ITTVSAIVFL
VTPDTRVATA YILNRVEDGE YGVAIAYGSI LIVVMLAIIF IFDWLIGESR TSRSKAKNQA</pre>  
VTPDTRVATA YILNRVEDGE YGVAIAYGSI LIVVMLAIIF IFDWLIGESR TSRSKAKNQA</pre>  
|-
|-
!{{table heading style}} |Mol. Wt
!align=left {{table heading style}} |Length
||
120
|-
!align=left {{table heading style}} |Mol. Wt
||
13.093 kDa
|-
!align=left {{table heading style}} |pI
||
9.6 (calculated)
|-
!align=left {{table heading style}} |Extinction coefficient
||
11,460 (calc based on 4 Y, 1 W, and 0 C residues)
 
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<span id="Domains/Motifs/Modification Sites"><big>'''Domains/Motifs/Modification Sites'''</big></span>
<table>
<tr align="left" valign="top">
<td>
 
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!|Type!!Residues!!Description!!Notes!!References
|-
|
Domain
|
1..102
|
[http://pfam.janelia.org/family/PF00528 PF00528  Binding-protein-dependent transport system inner membrane component]
|
|
13.09 kDa (calc) <ref name='LIB:EcoCyc10.6'/>
 
|-
!{{table heading style}} |pI
|
|
PMID:19920124
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<td>
<!-- motifs column 2-->
   
   
<motif_map/>
{{TMHMM Picture|afuB}}
</td>
</tr>
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<table><tr valign='top'><td>
<span id='Structure'></span><big>'''Structure'''</big><br />
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!{{table heading style}} |Extinction coefficient
!align=left {{table heading style}} |Structures
|
||
11460 (calc based on 4 Y, 1 W, and 0 C residues)
<beststructure>
gene=afuB
taxon=562,83333
</beststructure>
|-
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!align=left {{table heading style}} |Models
||
View models at:
* [http://www.proteinmodelportal.org/query/uniprot/P75681 Protein Model Portal]
* [http://bioinf.cs.ucl.ac.uk/psipred/ PSI-PRED]
* [http://spock.genes.nig.ac.jp/~genome/search.html Genomes TO Protein] (GTOP)
 
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===Domains/Motifs/Modification Sites===
</td><td></protect>
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==== Structure figures ====
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!Type!!Residues!!Description!!Notes
 
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{{Product_domains_motifs_help}}
 
===Structure===
 
 
 
 
 
 
 
 


{{Product_structure_help}}
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</td><tr><table><!--Structure_notes--></protect>
===Notes===
===Notes===




==Gene Product Resources==
==Gene Product Resources==
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!|Resource type!!Source!!Notes/Reference
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===Notes===
===Notes===


==Accessions in Other Databases==
==Accessions in Other Databases==
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{{BacktoTop}}
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|- {{table_heading_style}}
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!Database!!Accession!!Notes
!|Database!!Accession!!Notes
|-
|-
|
[[ASAP]]
|
ASAP:ABE-0000900
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-
|
[http://www.ncbi.nlm.nih.gov/protein NCBI (Protein)] ([[NCBI (Protein)|EcoliWiki Page]])
|
[http://www.ncbi.nlm.nih.gov/protein/ GeneID:947073]
|
Escherichia coli str. K-12 substr. MG1655
|-
|
[http://www.pir.uniprot.org/ UniProt] ([[UniProt|EcoliWiki Page]])
|
[http://www.uniprot.org/uniprot/P75681 UniProtKB/Swiss-Prot:P75681]
|
Escherichia coli str. K-12 substr. MG1655
|-
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[[EcoCyc]]
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EcoCyc:G6137
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
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[http://ecocyc.org EcoCyc] ([[EcoCyc|EcoliWiki Page]])
[[EcoGene]]
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[http://biocyc.org/ECOLI/NEW-IMAGE?type=NIL&object=G6137-MONOMER EcoCyc:G6137-MONOMER] 
EcoGene:EG14277
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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]])  
[http://www.ncbi.nlm.nih.gov/gene NCBI (Gene)] ([[NCBI (Gene)|EcoliWiki Page]])
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[http://www.expasy.ch/cgi-bin/sprot-search-ac?P75681 UniProt:P75681]
[http://www.ncbi.nlm.nih.gov/gene?term=947073 GeneID:947073]
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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_414797 RefSeq:NP_414797] 
RegulonDB:ECK120002757
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
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[http://BioCyc.org/ECOO157/ ECOO157CYC] ([[ECOO157CYC|EcoliWiki Page]])
[[EchoBASE]]
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[http://BioCyc.org/ECOO157/new-image?object=AFUB-MONOMER ECOO157CYC:AFUB-MONOMER] 
EchoBASE:EB4025
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
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===Notes===
===Notes===
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==Links==
==Links==
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==References==
==References==
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__NOTOC__
[[Category:GO:0006810]][[Category:GO:0005215]]</noinclude>
===Categories===
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[[Category:Proteins]]

Latest revision as of 20:23, 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

AfuB

Synonyms

CP4-6 prophage; predicted ferric trasnporter subunit[1], membrane component of ABC superfamily[1], B0263[2][1], AfuB[2][1], FbpB[2][1] , ECK0265, fbpB, JW0255, b0263

Product description

AfuB[2][3]

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:0005215

transporter activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000515

F

Seeded from EcoCyc (v14.0)

complete

GO:0005506

iron ion binding

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0408

F

Seeded from EcoCyc (v14.0)

complete

GO:0005886

plasma membrane

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0997

C

Seeded from EcoCyc (v14.0)

complete

GO:0005886

plasma membrane

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-1003

C

Seeded from EcoCyc (v14.0)

complete

GO:0006810

transport

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000515

P

Seeded from EcoCyc (v14.0)

complete

GO:0006810

transport

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0813

P

Seeded from EcoCyc (v14.0)

complete

GO:0006811

ion transport

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0406

P

Seeded from EcoCyc (v14.0)

complete

GO:0006826

iron ion transport

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0410

P

Seeded from EcoCyc (v14.0)

complete

GO:0016020

membrane

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000515

C

Seeded from EcoCyc (v14.0)

complete

GO:0016020

membrane

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0472

C

Seeded from EcoCyc (v14.0)

complete

GO:0016021

integral to membrane

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0812

C

Seeded from EcoCyc (v14.0)

complete

GO:0016021

integral to membrane

GO_REF:0000023

IEA: Inferred from Electronic Annotation

SP_SL:SL-9909

C

Seeded from EcoCyc (v14.0)

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

plasma membrane

C-terminus localized in the cytoplasm with 2 predicted transmembrane domains

Daley et al. (2005) [4]


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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 

MESLPGQIDK SLDEASLSLR AGSLRTITHI LLPLLRPAIL SALIYSFVRA ITTVSAIVFL
VTPDTRVATA YILNRVEDGE YGVAIAYGSI LIVVMLAIIF IFDWLIGESR TSRSKAKNQA
Length

120

Mol. Wt

13.093 kDa

pI

9.6 (calculated)

Extinction coefficient

11,460 (calc based on 4 Y, 1 W, and 0 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

1..102

PF00528 Binding-protein-dependent transport system inner membrane component

PMID:19920124[5]

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<motif_map/>

tmhmm.php?gene=afuB&show=pic&.jpg
Click the image to view raw output from TMHMM.

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

Structures

<beststructure> gene=afuB 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

ASAP

ASAP:ABE-0000900

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:947073

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P75681

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:G6137

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG14277

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:947073

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120002757

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB4025

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 1.3 1.4 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
  2. ↑ 2.0 2.1 2.2 2.3 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. ↑ Daley, DO et al. (2005) Global topology analysis of the Escherichia coli inner membrane proteome. Science 308 1321-3 PubMed
  5. ↑ Finn, RD et al. (2010) The Pfam protein families database. Nucleic Acids Res. 38 D211-22 PubMed

Categories

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