araA:Gene Product(s): Difference between revisions

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!align=left {{table heading style}} |Synonyms
!align=left {{table heading style}} |Synonyms
||
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L-arabinose isomerase<ref name='LIB:Riley_2006'/>, B0062<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, AraA<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, L-arabinose ketol-isomerase<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>  
''L-arabinose isomerase<ref name='LIB:Riley_2006'/>, B0062<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, AraA<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, L-arabinose ketol-isomerase<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/> , ECK0063, JW0061, b0062''
|-
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!align=left {{table heading style}} |Product description
!align=left {{table heading style}} |Product description
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* [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.3.1.4 5.3.1.4]<ref name='LIB:Riley_2006'/>
* [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.3.1.4 5.3.1.4]<ref name='LIB:Riley_2006'/>


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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
|-  
|-  
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L-arabinose isomerase activity
L-arabinose isomerase activity
|
|
GO_REF:0000002<br />GO_REF:0000003<br />GO_REF:0000020
GOA:hamap<br />GO_REF:0000020
|
|
IEA: Inferred from Electronic Annotation
IEA: Inferred from Electronic Annotation
|
|
InterPro:IPR003762<br />EC:5.3.1.4<br />HAMAP:MF_00519
HAMAP:MF_00519
|
|
F
F
|
|
Seeded from EcoCyc 12.5 <ref name = 'LIB:EcoCyc12.5'/>
Seeded from [[EcoCyc]] (v14.0)
|
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complete  
complete  
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L-arabinose isomerase activity
L-arabinose isomerase activity
|
|
PMID:8869631
GOA:interpro<br />GO_REF:0000002
|
|
IDA: Inferred from Direct Assay
IEA: Inferred from Electronic Annotation
|
|
 
InterPro:IPR003762
|
|
F
F
|
|
Seeded from EcoCyc 12.5 <ref name = 'LIB:EcoCyc12.5'/>
Seeded from [[EcoCyc]] (v14.0)
|
|
complete  
complete  
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|
|
GO:0019569
GO:0008733
|
|
L-arabinose catabolic process to xylulose 5-phosphate
L-arabinose isomerase activity
|
|
PMID:17619876
GOA:spec<br />GO_REF:0000003
|
|
IMP: Inferred from Mutant Phenotype
IEA: Inferred from Electronic Annotation
|
|
 
EC:5.3.1.4
|
|
P
F
|
|
Seeded from EcoCyc <ref name = 'LIB:EcoCyc13.0'/>
Seeded from [[EcoCyc]] (v14.0)
|
|
complete  
complete  
|-
|
|
GO:0005737
|
cytoplasm
|
|
|
|
C
|
Seeded from EcoCyc 11.1<ref name='LIB:EcoCyc11.1'/>.
|
required fields missing 
|-  
|-  
|
|


|
|
GO:0005975
GO:0019568
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|
carbohydrate metabolic process
arabinose catabolic process
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GO_REF:0000004
PMID:13829634
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|
IEA: Inferred from Electronic Annotation
IMP: Inferred from Mutant Phenotype
|
SP_KW:KW-0119
|
P
|
Seeded from EcoCyc <ref name = 'LIB:EcoCyc13.0'/>
|
complete
|-
|
|


|
GO:0008152
|
metabolic process
|
GO_REF:0000002
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IEA: Inferred from Electronic Annotation
|
InterPro:IPR003762
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|
P
P
|
Seeded from EcoCyc <ref name = 'LIB:EcoCyc13.0'/>
|
complete
|-
|
|


|
GO:0016853
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isomerase activity
|
GO_REF:0000004
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IEA: Inferred from Electronic Annotation
|
SP_KW:KW-0413
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F
|
Seeded from EcoCyc <ref name = 'LIB:EcoCyc13.0'/>
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|
complete  
complete  
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manganese ion binding
manganese ion binding
|
|
GO_REF:0000004
GOA:spkw<br />SP_KW:GO_REF:0000004
|
|
IEA: Inferred from Electronic Annotation
IEA: Inferred from Electronic Annotation
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F
F
|
|
Seeded from EcoCyc <ref name = 'LIB:EcoCyc13.0'/>
Seeded from [[EcoCyc]] (v14.0)
|
|
complete  
complete  
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|
|
GO:0046872
GO:0008733
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|
metal ion binding
L-arabinose isomerase activity
|
GO_REF:0000004
|
IEA: Inferred from Electronic Annotation
|
SP_KW:KW-0479
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F
|
Seeded from EcoCyc <ref name = 'LIB:EcoCyc13.0'/>
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complete
|-
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|
GO:0016052
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carbohydrate catabolic process
|
|
|
|
P
|
Seeded from EcoCyc 11.1<ref name='LIB:EcoCyc11.1'/>.
|
required fields missing 
|-
|
 
|
GO:0019568
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arabinose catabolic process
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|
PMID:13829634
PMID:13829634
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|
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P
F
|
|


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|
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GO:0008733
GO:0046872
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|
L-arabinose isomerase activity
metal ion binding
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|
PMID:13829634
GOA:spkw<br />SP_KW:GO_REF:0000004
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|
IMP: Inferred from Mutant Phenotype
IEA: Inferred from Electronic Annotation
|
|
 
SP_KW:KW-0479
|
|
F
F
|
|
 
Seeded from [[EcoCyc]] (v14.0)
|
|
complete  
complete  


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!|Partner Type!!Partner!!Notes!!References!!Evidence
!|Partner Type!!Partner!!Notes!!References!!Evidence
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Experiment(s):EBI-1135472<br />  
Experiment(s):EBI-1135472<br />  


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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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KLPVANALWK AQPDLPTASE AWILAGGAHH TVFSHALNLN DMRQFAEMHD IEITVIDNDT
KLPVANALWK AQPDLPTASE AWILAGGAHH TVFSHALNLN DMRQFAEMHD IEITVIDNDT
RLPAFKDALR WNEVYYGFRR</pre>  
RLPAFKDALR WNEVYYGFRR</pre>  
|-
!align=left {{table heading style}} |Length
||
500
|-
|-
!align=left {{table heading style}} |Mol. Wt
!align=left {{table heading style}} |Mol. Wt
||
||
56.07 kDa (calc) <ref name='LIB:EcoCyc10.6'/>
56.073 kDa
|-
|-
!align=left {{table heading style}} |pI
!align=left {{table heading style}} |pI
||
||
6.27<ref name='LIB:EcoCyc10.6'/>
6.6 (calculated)
|-
|-
!align=left {{table heading style}} |Extinction coefficient
!align=left {{table heading style}} |Extinction coefficient
||
||
76890 - 77765 (calc based on 11 Y, 11 W, and 7 C residues)  
76,890 - 77,765 (calc based on 11 Y, 11 W, and 7 C residues)


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<span id="Domains/Motifs/Modification Sites"><big>'''Domains/Motifs/Modification Sites'''</big></span>
<span id="Domains/Motifs/Modification Sites"><big>'''Domains/Motifs/Modification Sites'''</big></span><table>
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|- {{table heading style}}
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!|Type!!Residues!!Description!!Notes
!|Type!!Residues!!Description!!Notes!!References
|-
|
Domain
|
1..359
|
[http://pfam.janelia.org/family/PF02610 PF02610  L-arabinose isomerase]
|


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PMID:19920124
|-
|
Domain
|
362..476
|
[http://pfam.janelia.org/family/PF11762 PF11762  L-arabinose isomerase C-terminal domain]
|
 
|
PMID:19920124
 
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<td>
<!-- motifs column 2-->
<motif_map/>
</td>
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</table>


 
<table><tr valign='top'><td>
<span id="Structure"></span><big>'''Structure'''</big>
<span id='Structure'></span><big>'''Structure'''</big><br />
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!align=left {{table heading style}} |Structures
!align=left {{table heading style}} |Structures
||
||
<beststructure>araA
<beststructure>
562</beststructure>
gene=araA
 
taxon=562,83333
</beststructure>
|-
|-
!align=left {{table heading style}} |Models
!align=left {{table heading style}} |Models
||
||
View models at:
View models at:
* [http://dragon.bio.purdue.edu/ecolpredict2/localsearch/cgi-bin/search3.cgi?q=araA&sub=keywordSearc EcoliPredict]
* [http://www.proteinmodelportal.org/query/uniprot/P08202 Protein Model Portal]
* [http://modbase.compbio.ucsf.edu/modbase-cgi/model_search.cgi?searchmode=default&displaymode=moddetail&searchproperties=ALL&searchvalue=araA&organism=562&organismtext= ModBase]
* [http://bioinf.cs.ucl.ac.uk/genome3d/read?uniprot_id=P08202 PSI-PRED (P08202)]
* [http://bioinf.cs.ucl.ac.uk/psipred/ PSI-PRED]
* [http://spock.genes.nig.ac.jp/~genome/cgi-bin/gkeytext.pl.cgi?A&QUERY1=P08202 Genomes TO Protein (P08202)] (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)


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<!--Structure_notes--></protect>
</td><td></protect>
==== Structure figures ====
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
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===Notes===
===Notes===


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!|Resource type!!Source!!Notes/Reference
!|Resource type!!Source!!Notes/Reference


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!|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://biocyc.org/ECOLI/NEW-IMAGE?type=NIL&object=ARABISOM-MONOMER EcoCyc:ARABISOM-MONOMER]
[http://www.ncbi.nlm.nih.gov/protein/16128056 GI:16128056]
|
|
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_414604.1 GeneID:947511]
|
Escherichia coli str. K-12 substr. MG1655
|-
|
[[ASAP]]
|
ASAP:ABE-0000221
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-
|
[http://www.pir.uniprot.org/ UniProt] ([[UniProt|EcoliWiki Page]])
|
[http://www.uniprot.org/uniprot/P08202 UniProtKB/Swiss-Prot:P08202]
|
Escherichia coli str. K-12 substr. MG1655
|-
|
[[EcoCyc]]
|
EcoCyc:EG10052
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-  
|-  
|
|
[http://uniprot.org/ UniProt] ([[UniProt|EcoliWiki Page]])
[[EcoGene]]
|
|
[[uniprot:P08202|UniProt:P08202]]
EcoGene:EG10052
|
|
''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=PF02610 PFAM:PF02610]
[http://www.ncbi.nlm.nih.gov/gene?term=947511 GeneID:947511]
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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_414604 RefSeq:NP_414604]
RegulonDB:ECK120000048
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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=P08202 ModBase:P08202]
EchoBASE:EB0050
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]


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==References==
==References==
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{{BacktoTop}}
 
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<references/>
<references />
__NOTOC__
__NOTOC__
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===Categories===
===Categories===
{{BacktoTop}}
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[[Category:Proteins]]
[[Category:Proteins]]
[[Category:GO:0005737_!_cytoplasm]][[Category:GO:0016052_!_carbohydrate catabolic process]][[Category:Complex:L-arabinose isomerase]]

Latest revision as of 20:20, 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

AraA

Synonyms

L-arabinose isomerase[1], B0062[2][1], AraA[2][1], L-arabinose ketol-isomerase[2][1] , ECK0063, JW0061, b0062

Product description

L-arabinose isomerase[2][3];

Component of L-arabinose isomerase[2][3]

L-Arabinose isomerase; first step in arabinose catabolism; converts L-arabinose to L-ribulose[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:0008733

L-arabinose isomerase activity

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_00519

F

Seeded from EcoCyc (v14.0)

complete

GO:0008733

L-arabinose isomerase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR003762

F

Seeded from EcoCyc (v14.0)

complete

GO:0008733

L-arabinose isomerase activity

GOA:spec
GO_REF:0000003

IEA: Inferred from Electronic Annotation

EC:5.3.1.4

F

Seeded from EcoCyc (v14.0)

complete

GO:0019568

arabinose catabolic process

PMID:13829634[5]

IMP: Inferred from Mutant Phenotype

P

complete

GO:0030145

manganese ion binding

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0464

F

Seeded from EcoCyc (v14.0)

complete

GO:0008733

L-arabinose isomerase activity

PMID:13829634[5]

IMP: Inferred from Mutant Phenotype

F

complete

GO:0046872

metal ion binding

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0479

F

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

Protein

Subunits of L-arabinose isomerase

could be indirect

Protein

napC

PMID:16606699[6]

Experiment(s):EBI-1135472

Protein

aceE

PMID:16606699[6]

Experiment(s):EBI-1135472
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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 

MTIFDNYEVW FVIGSQHLYG PETLRQVTQH AEHVVNALNT EAKLPCKLVL KPLGTTPDEI
TAICRDANYD DRCAGLVVWL HTFSPAKMWI NGLTMLNKPL LQFHTQFNAA LPWDSIDMDF
MNLNQTAHGG REFGFIGARM RQQHAVVTGH WQDKQAHERI GSWMRQAVSK QDTRHLKVCR
FGDNMREVAV TDGDKVAAQI KFGFSVNTWA VGDLVQVVNS ISDGDVNALV DEYESCYTMT
PATQIHGKKR QNVLEAARIE LGMKRFLEQG GFHAFTTTFE DLHGLKQLPG LAVQRLMQQG
YGFAGEGDWK TAALLRIMKV MSTGLQGGTS FMEDYTYHFE KGNDLVLGSH MLEVCPSIAA
EEKPILDVQH LGIGGKDDPA RLIFNTQTGP AIVASLIDLG DRYRLLVNCI DTVKTPHSLP
KLPVANALWK AQPDLPTASE AWILAGGAHH TVFSHALNLN DMRQFAEMHD IEITVIDNDT
RLPAFKDALR WNEVYYGFRR
Length

500

Mol. Wt

56.073 kDa

pI

6.6 (calculated)

Extinction coefficient

76,890 - 77,765 (calc based on 11 Y, 11 W, and 7 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..359

PF02610 L-arabinose isomerase

PMID:19920124[7]

Domain

362..476

PF11762 L-arabinose isomerase C-terminal domain

PMID:19920124[7]

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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=araA 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:16128056

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:947511

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0000221

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P08202

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG10052

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10052

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:947511

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000048

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0050

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 2.4 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  3. ↑ 3.0 3.1 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. ↑ 5.0 5.1 GROSS, J & ENGLESBERG, E (1959) Determination of the order of mutational sites governing L-arabinose utilization in Escherichia coli B/r bv transduction with phage Plbt. Virology 9 314-31 PubMed
  6. ↑ 6.0 6.1 Arifuzzaman, M et al. (2006) Large-scale identification of protein-protein interaction of Escherichia coli K-12. Genome Res. 16 686-91 PubMed
  7. ↑ 7.0 7.1 Finn, RD et al. (2010) The Pfam protein families database. Nucleic Acids Res. 38 D211-22 PubMed

Categories

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