galE:Gene Product(s): Difference between revisions

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!align=left {{table heading style}} |Synonyms
!align=left {{table heading style}} |Synonyms
||
||
UDP-galactose-4-epimerase<ref name='LIB:Riley_2006'/>, B0759<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, GalD<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, GalE<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>  
''UDP-galactose-4-epimerase<ref name='LIB:Riley_2006'/>, B0759<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, GalD<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, GalE<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/> , ECK0748, galD, JW0742, b0759''
|-
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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=5.1.3.2 5.1.3.2]<ref name='LIB:Riley_2006'/>
* [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=5.1.3.2 5.1.3.2]<ref name='LIB:Riley_2006'/>


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{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="H46aa42291caff"  class=" tableEdit GO_table_product dataTable"   
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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
|-
|
 
|
GO:0003824
|
catalytic activity
|
GO_REF:0000002
|
IEA: Inferred from Electronic Annotation
|
InterPro:IPR001509
|
F
|
Seeded from EcoCyc 12.5 <ref name = 'LIB:EcoCyc12.5'/>
|
complete
|-  
|-  
|
|
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UDP-glucose 4-epimerase activity
UDP-glucose 4-epimerase activity
|
|
GO_REF:0000002<br />GO_REF:0000003
GOA:interpro<br />GO_REF:0000002
|
|
IEA: Inferred from Electronic Annotation
IEA: Inferred from Electronic Annotation
|
|
InterPro:IPR005886<br />EC:5.1.3.2
InterPro:IPR005886
|
|
F
F
|
|
Seeded from EcoCyc <ref name = 'LIB:EcoCyc13.0'/>
Seeded from [[EcoCyc]] (v14.0)
|
complete
|-
|
 
|
GO:0005975
|
carbohydrate metabolic process
|
GO_REF:0000004
|
IEA: Inferred from Electronic Annotation
|
SP_KW:KW-0119
|
P
|
Seeded from EcoCyc <ref name = 'LIB:EcoCyc13.0'/>
|
complete
|-
|
 
|
GO:0006012
|
galactose metabolic process
|
GO_REF:0000002<br />GO_REF:0000004
|
IEA: Inferred from Electronic Annotation
|
InterPro:IPR005886<br />SP_KW:KW-0299
|
P
|
Seeded from EcoCyc <ref name = 'LIB:EcoCyc13.0'/>
|
complete
|-
|
 
|
GO:0016853
|
isomerase activity
|
GO_REF:0000004
|
IEA: Inferred from Electronic Annotation
|
SP_KW:KW-0413
|
F
|
Seeded from EcoCyc <ref name = 'LIB:EcoCyc13.0'/>
|
complete
|-
|
 
|
GO:0044237
|
cellular metabolic process
|
GO_REF:0000002
|
IEA: Inferred from Electronic Annotation
|
InterPro:IPR001509
|
P
|
Seeded from EcoCyc <ref name = 'LIB:EcoCyc13.0'/>
|
complete
|-
|
 
|
GO:0050662
|
coenzyme binding
|
GO_REF:0000002
|
IEA: Inferred from Electronic Annotation
|
InterPro:IPR001509
|
F
|
Seeded from EcoCyc <ref name = 'LIB:EcoCyc13.0'/>
|
complete
|-
|
|
GO:0005737
|
cytoplasm
|
|
|
|
C
|
Seeded from EcoCyc 11.1<ref name='LIB:EcoCyc11.1'/>.
|
required fields missing 
|-
|
 
|
GO:0005488
|
binding
|
GO_REF:0000002
|
IEA: Inferred from Electronic Annotation
|
InterPro:IPR016040
|
F
|
Seeded from EcoCyc <ref name = 'LIB:EcoCyc13.0'/>
|
complete
|-
|
 
|
GO:0005829
|
cytosol
|
PMID:16858726
|
IDA: Inferred from Direct Assay
|
 
|
C
|
Seeded from EcoCyc <ref name = 'LIB:EcoCyc13.0'/>
|
complete
|-
|
 
|
GO:0008152
|
metabolic process
|
GO_REF:0000002
|
IEA: Inferred from Electronic Annotation
|
InterPro:IPR016040
|
P
|
Seeded from EcoCyc <ref name = 'LIB:EcoCyc13.0'/>
|
complete
|-
|
 
|
GO:0003824
|
catalytic activity
|
GO_REF:0000002<br />GO_REF:0000002
|
IEA: Inferred from Electronic Annotation
|
InterPro:IPR001509<br />InterPro:IPR016040
|
F
|
Seeded from EcoCyc
|
|
complete  
complete  
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UDP-glucose 4-epimerase activity
UDP-glucose 4-epimerase activity
|
|
GO_REF:0000002<br />GO_REF:0000003
GOA:spec<br />GO_REF:0000003
|
IEA: Inferred from Electronic Annotation
|
InterPro:IPR005886<br />EC:5.1.3.2
|
F
|
Seeded from EcoCyc
|
complete
|-
|
 
|
GO:0005488
|
binding
|
GO_REF:0000002
|
|
IEA: Inferred from Electronic Annotation
IEA: Inferred from Electronic Annotation
|
|
InterPro:IPR016040
EC:5.1.3.2
|
|
F
F
|
|
Seeded from EcoCyc
Seeded from [[EcoCyc]] (v14.0)
|
|
complete  
complete  
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C
C
|
|
Seeded from EcoCyc
Seeded from [[EcoCyc]] (v14.0)
|
|
complete  
complete  
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|
|
GO:0005975
GO:0006012
|
|
carbohydrate metabolic process
galactose metabolic process
|
|
GO_REF:0000004
PMID:13914787
|
IEA: Inferred from Electronic Annotation
|
SP_KW:KW-0119
|
P
|
Seeded from EcoCyc
|
complete
|-
|
 
|
GO:0009242
|
colanic acid biosynthetic process
|
PMID:6090411
 
|
|
IMP: Inferred from Mutant Phenotype
IMP: Inferred from Mutant Phenotype
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P
P
|
|
Seeded from EcoCyc 11.1<ref name='LIB:EcoCyc11.1'/>.  
Seeded from [[EcoCyc]] (v14.0)
|
|
complete  
complete  
|-
|
|
GO:0016052
|
carbohydrate catabolic process
|
|
|
|
P
|
Seeded from EcoCyc 11.1<ref name='LIB:EcoCyc11.1'/>.
|
required fields missing 
|-
|
|
GO:0009435
|
NAD biosynthetic process
|
|
|
|
P
|
Seeded from EcoCyc 11.1<ref name='LIB:EcoCyc11.1'/>.
|
required fields missing 
|-
|
Under review
|
GO:0009269
|
response to desiccation
|
|
|
|
P
|
Seeded from EcoCyc 11.1<ref name='LIB:EcoCyc11.1'/>.
See discussion page.
|
required field missing
|-
|
Under review
|
GO:0042603
|
capsule
|
|
|
|
C
|
Seeded from EcoCyc 11.1<ref name='LIB:EcoCyc11.1'/>.
GalE is not located in the capsule.
|
required field missing
|-  
|-  
|
|
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|
|


|
complete
|-
|
|
GO:0006012
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galactose metabolic process
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PMID:13914787
|
IMP: Inferred from Mutant Phenotype
|
|
P
|
Seeded from EcoCyc 12.5 <ref name = 'LIB:EcoCyc12.5'/>
|
|
complete  
complete  
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|
|
complete
Missing: with/from
|-  
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|
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|
|


|
complete
|-
|
|
GO:0006012
|
galactose metabolic process
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GO_REF:0000002<br />GO_REF:0000004
|
IEA: Inferred from Electronic Annotation
|
InterPro:IPR005886<br />SP_KW:KW-0299
|
P
|
Seeded from EcoCyc
|
|
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-1137880<br />  
Experiment(s):EBI-1137880<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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!align=left {{table heading style}} |Mol. Wt
!align=left {{table heading style}} |Mol. Wt
||
||
37.27 kDa (calc) <ref name='LIB:EcoCyc10.6'/>
37.264 kDa
|-
|-
!align=left {{table heading style}} |pI
!align=left {{table heading style}} |pI
||
||
6.28<ref name='LIB:EcoCyc10.6'/>
6.3 (calculated)
|-
|-
!align=left {{table heading style}} |Extinction coefficient
!align=left {{table heading style}} |Extinction coefficient
||
||
48360 - 48735 (calc based on 14 Y, 5 W, and 3 C residues)  
48,360 - 48,735 (calc based on 14 Y, 5 W, and 3 C residues)


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!|Type!!Residues!!Description!!Notes
!|Type!!Residues!!Description!!Notes!!References
|-
|
Domain
|
3..262
|
[http://pfam.janelia.org/family/PF01370 PF01370  NAD dependent epimerase/dehydratase family]
|
 
|
PMID:19920124


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</table>


<span id="Structure"></span><big>'''Structure'''</big>
<table><tr valign='top'><td>
<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>galE
<beststructure>
562</beststructure>
gene=galE
 
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=galE&sub=keywordSearc EcoliPredict]
* [http://www.proteinmodelportal.org/query/uniprot/P09147 Protein Model Portal]
* [http://modbase.compbio.ucsf.edu/modbase-cgi/model_search.cgi?searchmode=default&displaymode=moddetail&searchproperties=ALL&searchvalue=galE&organism=562&organismtext= ModBase]
* [http://bioinf.cs.ucl.ac.uk/genome3d/read?uniprot_id=P09147 PSI-PRED (P09147)]
* [http://bioinf.cs.ucl.ac.uk/psipred/ PSI-PRED]
* [http://spock.genes.nig.ac.jp/~genome/cgi-bin/gkeytext.pl.cgi?A&QUERY1=P09147 Genomes TO Protein (P09147)] (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://www.ncbi.nlm.nih.gov/protein/49176045 GI:49176045]
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Escherichia coli str. K-12 substr. MG1655
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[http://www.ncbi.nlm.nih.gov/protein NCBI (Protein)] ([[NCBI (Protein)|EcoliWiki Page]])
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[http://biocyc.org/ECOLI/NEW-IMAGE?type=NIL&object=UDPGLUCEPIM-MONOMER EcoCyc:UDPGLUCEPIM-MONOMER]
[http://www.ncbi.nlm.nih.gov/protein/NP_415280.3 GeneID:945354]
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Escherichia coli str. K-12 substr. MG1655
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[[ASAP]]
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ASAP:ABE-0002575
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
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[http://www.pir.uniprot.org/ UniProt] ([[UniProt|EcoliWiki Page]])
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[http://www.uniprot.org/uniprot/P09147 UniProtKB/Swiss-Prot:P09147]
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Escherichia coli str. K-12 substr. MG1655
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[http://uniprot.org/ UniProt] ([[UniProt|EcoliWiki Page]])
[[EcoCyc]]
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[[uniprot:P09147|UniProt:P09147]]
EcoCyc:EG10362
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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]])
[[EcoGene]]
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[http://pfam.sanger.ac.uk/family?acc=PF01370 PFAM:PF01370]
EcoGene:EG10362
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
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[http://www.ncbi.nlm.nih.gov/RefSeq/ RefSeq] ([[RefSeq|EcoliWiki Page]])  
[http://www.ncbi.nlm.nih.gov/gene NCBI (Gene)] ([[NCBI (Gene)|EcoliWiki Page]])
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[http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?db=nucleotide&val=NP_415280 RefSeq:NP_415280]
[http://www.ncbi.nlm.nih.gov/gene?term=945354 GeneID:945354]
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Escherichia coli str. K-12 substr. MG1655
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[http://modbase.compbio.ucsf.edu ModBase] ([[ModBase|EcoliWiki Page]])
[[RegulonDB]]
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[http://salilab.org/modbase/searchbyid?databaseID=P09147 ModBase:P09147]
RegulonDB:ECK120000355
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
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[http://www.rcsb.org/pdb PDB] ([[PDB|EcoliWiki Page]])
[[EchoBASE]]
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[http://www.rcsb.org/pdb/cgi/explore.cgi?pdbId=1A9Y PDB:1A9Y]
EchoBASE:EB0357
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]


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==References==
==References==
{{BacktoTop}}
{{BacktoTop}}
 
{{RefHelp}}
<references/>
<references />
__NOTOC__
__NOTOC__
</noinclude>
===Categories===
===Categories===
{{BacktoTop}}
{{BacktoTop}}
[[Category:Proteins]]
[[Category:Proteins]]
[[Category:GO:0005737_!_cytoplasm]][[Category:GO:0006012_!_galactose metabolic process]][[Category:GO:0009242_!_colanic acid biosynthetic process]][[Category:GO:0016052_!_carbohydrate catabolic process]][[Category:GO:0009435_!_NAD biosynthetic process]][[Category:GO:0009269_!_response to desiccation]][[Category:GO:0042280_!_cell surface antigen activity, host-interacting]][[Category:GO:0030113_!_capsule (sensu Bacteria)]][[Category:Complex:UDP-glucose 4-epimerase]][[Category:Products with structures in PDB]]
[[Category:RefGenome_Annotated_Gene]]

Latest revision as of 20:29, 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

GalE

Synonyms

UDP-galactose-4-epimerase[1], B0759[2][1], GalD[2][1], GalE[2][1] , ECK0748, galD, JW0742, b0759

Product description

UDP-glucose 4-epimerase[2][3];

Component of UDP-glucose 4-epimerase[2][3]

UDP-galactose 4-epimerase; hexose-1-phosphate uridylyltransferase[4]

EC number (for enzymes)
edit table


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:0003978

UDP-glucose 4-epimerase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR005886

F

Seeded from EcoCyc (v14.0)

complete

GO:0003978

UDP-glucose 4-epimerase activity

GOA:spec
GO_REF:0000003

IEA: Inferred from Electronic Annotation

EC:5.1.3.2

F

Seeded from EcoCyc (v14.0)

complete

GO:0005829

cytosol

PMID:16858726[5]

IDA: Inferred from Direct Assay

C

Seeded from EcoCyc (v14.0)

complete

GO:0006012

galactose metabolic process

PMID:13914787[6]

IMP: Inferred from Mutant Phenotype

P

Seeded from EcoCyc (v14.0)

complete

GO:0006012

galactose metabolic process

PMID:7025059[7]

IMP: Inferred from Mutant Phenotype

P

complete

GO:0005975

carbohydrate metabolic process

PMID:7025059[7]

IMP: Inferred from Mutant Phenotype

P

complete

GO:0016052

carbohydrate catabolic process

PMID:7025059[7]

IGI: Inferred from Genetic Interaction

P

Missing: with/from

GO:0016857

racemase and epimerase activity, acting on carbohydrates and derivatives

PMID:1821806[8]

IDA: Inferred from Direct Assay

F

complete

GO:0006012

galactose metabolic process

PMID:1821806[8]

IDA: Inferred from Direct Assay

P

complete

GO:0005737

cytoplasm

PMID:1821806[8]

IDA: Inferred from Direct Assay

C

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 UDP-glucose 4-epimerase

could be indirect

Protein

rsuA

PMID:16606699[9]

Experiment(s):EBI-1137880

Protein

yfcH

PMID:16606699[9]

Experiment(s):EBI-1137880

Protein

nadE

PMID:16606699[9]

Experiment(s):EBI-1137880
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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 

MRVLVTGGSG YIGSHTCVQL LQNGHDVIIL DNLCNSKRSV LPVIERLGGK HPTFVEGDIR
NEALMTEILH DHAIDTVIHF AGLKAVGESV QKPLEYYDNN VNGTLRLISA MRAANVKNFI
FSSSATVYGD QPKIPYVESF PTGTPQSPYG KSKLMVEQIL TDLQKAQPDW SIALLRYFNP
VGAHPSGDMG EDPQGIPNNL MPYIAQVAVG RRDSLAIFGN DYPTEDGTGV RDYIHVMDLA
DGHVVAMEKL ANKPGVHIYN LGAGVGNSVL DVVNAFSKAC GKPVNYHFAP RREGDLPAYW
ADASKADREL NWRVTRTLDE MAQDTWHWQS RHPQGYPD
Length

338

Mol. Wt

37.264 kDa

pI

6.3 (calculated)

Extinction coefficient

48,360 - 48,735 (calc based on 14 Y, 5 W, and 3 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

3..262

PF01370 NAD dependent epimerase/dehydratase family

PMID:19920124[10]

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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=galE taxon=562,83333 </beststructure>

Models

View models at:

edit table

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:49176045

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:945354

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0002575

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P09147

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG10362

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10362

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:945354

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000355

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0357

Escherichia coli str. K-12 substr. MG1655

edit table


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. ↑ Lasserre, JP et al. (2006) A complexomic study of Escherichia coli using two-dimensional blue native/SDS polyacrylamide gel electrophoresis. Electrophoresis 27 3306-21 PubMed
  6. ↑ SOFFER, RL (1961) Enzymatic expression of genetic units of function concerned with galactose metabolism in Escherichia coli. J. Bacteriol. 82 471-8 PubMed
  7. ↑ 7.0 7.1 7.2 Fietta, A et al. (1981) R-factor-mediated suppression of the galactose-sensitive phenotype of Escherichia coli K-12 galE Mutants. Plasmid 6 78-85 PubMed
  8. ↑ 8.0 8.1 8.2 Vorgias, CE et al. () Overexpression and purification of the galactose operon enzymes from Escherichia coli. Protein Expr. Purif. 2 330-8 PubMed
  9. ↑ 9.0 9.1 9.2 Arifuzzaman, M et al. (2006) Large-scale identification of protein-protein interaction of Escherichia coli K-12. Genome Res. 16 686-91 PubMed
  10. ↑ Finn, RD et al. (2010) The Pfam protein families database. Nucleic Acids Res. 38 D211-22 PubMed

Categories

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