recE:Gene Product(s): Difference between revisions

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touch the Product_localization_table table.
touch table
 
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!align=left {{table heading style}} |Synonyms
!align=left {{table heading style}} |Synonyms
||
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Rac prophage; exonuclease VIII, 5' -> 3' specific dsDNA exonuclease<ref name='LIB:Riley_2006'/>, B1350<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, RmuB<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, Rac<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, SbcA<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, RecE<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>  
''Rac prophage; exonuclease VIII, 5' -> 3' specific dsDNA exonuclease<ref name='LIB:Riley_2006'/>, B1350<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, RmuB<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, Rac<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, SbcA<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, RecE<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/> , ECK1347, JW1344, rmuB, sbcA, b1350''
|-
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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=3.1.11.- 3.1.11.-]<ref name='LIB:Riley_2006'/>
* [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.11.- 3.1.11.-]<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="S46aa651f5a641"  class=" tableEdit GO_table_product dataTable"   
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|- {{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
|-  
|-  
|
|


|
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GO:0016787
GO:0004518
|
|
hydrolase activity
nuclease activity
|
|
GO_REF:0000004
GOA:spkw<br />SP_KW:GO_REF:0000004
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|
IEA: Inferred from Electronic Annotation
IEA: Inferred from Electronic Annotation
|
|
SP_KW:KW-0378
SP_KW:KW-0540
|
|
F
F
|
|
Seeded from EcoCyc <ref name = 'LIB:EcoCyc13.0'/>
Seeded from [[EcoCyc]] (v14.0)
|
|
complete  
complete  
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exonuclease activity
exonuclease activity
|
|
GO_REF:0000004
GOA:spkw<br />SP_KW:GO_REF:0000004
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|
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)
|
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complete  
complete  
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|
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GO:0004518
GO:0016787
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|
nuclease activity
hydrolase activity
|
|
GO_REF:0000004
GOA:spkw<br />SP_KW:GO_REF:0000004
|
|
IEA: Inferred from Electronic Annotation
IEA: Inferred from Electronic Annotation
|
|
SP_KW:KW-0540
SP_KW:KW-0378
|
|
F
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'/>.
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required fields missing 
|-
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GO:0006308
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DNA catabolic process
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|
|
|
P
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Seeded from EcoCyc 11.1<ref name='LIB:EcoCyc11.1'/>.
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required fields missing 
|-
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GO:0006281
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DNA repair
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|
|
|
P
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Seeded from EcoCyc 11.1<ref name='LIB:EcoCyc11.1'/>.
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required fields missing 


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!|Partner Type!!Partner!!Notes!!References!!Evidence
!|Partner Type!!Partner!!Notes!!References!!Evidence
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Experiment(s):EBI-1139608<br />  
Experiment(s):EBI-1139608<br />  
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Protein
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ligA
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PMID:19402753
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MALDI(Z-score):23.878210


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!|Compartment!!Description!!Evidence!!Source!!Notes
!|Compartment!!Description!!Evidence!!Reference/Source!!Notes


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106,230 - 107,980 (calc based on 27 Y, 12 W, and 14 C residues)
106,230 - 107,980 (calc based on 27 Y, 12 W, and 14 C residues)


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!|Type!!Residues!!Description!!Notes
!|Type!!Residues!!Description!!Notes!!References
|-
|
Domain
|
1..178
|
[http://pfam.janelia.org/family/PF06630 PF06630  Enterobacterial exodeoxyribonuclease VIII]
|
 
|
PMID:19920124


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||
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/P15032 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=P15032 PSI-PRED (P15032)]
* [http://bioinf.cs.ucl.ac.uk/psipred/ PSI-PRED]
* [http://spock.genes.nig.ac.jp/~genome/cgi-bin/gkeytext.pl.cgi?A&QUERY1=P15032 Genomes TO Protein (P15032)] (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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!|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/16129311 GI:16129311]
|
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_415866.1 GeneID:945918]
|
Escherichia coli str. K-12 substr. MG1655
|-
|
[[ASAP]]
|
ASAP:ABE-0004531
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-
|
[http://www.pir.uniprot.org/ UniProt] ([[UniProt|EcoliWiki Page]])
|
[http://www.uniprot.org/uniprot/P15032 UniProtKB/Swiss-Prot:P15032]
|
Escherichia coli str. K-12 substr. MG1655
|-
|
[[EcoCyc]]
|
EcoCyc:EG10827
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-
|
[[EcoGene]]
|
|
[http://biocyc.org/ECOLI/NEW-IMAGE?type=NIL&object=EG10827-MONOMER EcoCyc:EG10827-MONOMER]
EcoGene:EG10827
|
|
''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:P15032|UniProt:P15032]]
[http://www.ncbi.nlm.nih.gov/gene?term=945918 GeneID:945918]
|
|
Escherichia coli str. K-12 substr. MG1655
|-  
|-  
|
|
[http://pfam.sanger.ac.uk/ PFAM] ([[PFAM|EcoliWiki Page]])
[[RegulonDB]]
|
|
[http://pfam.sanger.ac.uk/family?acc=PF06630 PFAM:PF06630]
RegulonDB:ECK120000818
|
|
''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_415866 RefSeq:NP_415866]
EchoBASE:EB0820
|
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]


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{{BacktoTop}}
{{BacktoTop}}
[[Category:Proteins]]
[[Category:Proteins]]
[[Category:GO:0005737_!_cytoplasm]][[Category:GO:0006308_!_DNA catabolic process]][[Category:GO:0006281_!_DNA repair]]

Latest revision as of 20:37, 17 February 2015

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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

RecE

Synonyms

Rac prophage; exonuclease VIII, 5' -> 3' specific dsDNA exonuclease[1], B1350[2][1], RmuB[2][1], Rac[2][1], SbcA[2][1], RecE[2][1] , ECK1347, JW1344, rmuB, sbcA, b1350

Product description

exonuclease VIII, ds DNA exonuclease, 5' --> 3' specific[2][3]

RecET recombinase, exonuclease VIII, Rac prophage; recombination and repair; degrades one strand 5'-3' in duplex DNA[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:0004518

nuclease activity

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0540

F

Seeded from EcoCyc (v14.0)

complete

GO:0004527

exonuclease activity

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0269

F

Seeded from EcoCyc (v14.0)

complete

GO:0016787

hydrolase activity

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0378

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

aceE

PMID:15690043[5]

Experiment(s):EBI-882168

Protein

ligA

PMID:15690043[5]

Experiment(s):EBI-882168, EBI-883824

Protein

rpsB

PMID:16606699[6]

Experiment(s):EBI-1139608

Protein

mreB

PMID:16606699[6]

Experiment(s):EBI-1139608

Protein

recG

PMID:16606699[6]

Experiment(s):EBI-1139608

Protein

rfaG

PMID:16606699[6]

Experiment(s):EBI-1139608

Protein

glpR

PMID:16606699[6]

Experiment(s):EBI-1139608

Protein

pheA

PMID:16606699[6]

Experiment(s):EBI-1139608

Protein

idnO

PMID:16606699[6]

Experiment(s):EBI-1139608

Protein

ligA

PMID:19402753[7]

MALDI(Z-score):23.878210

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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 

MSTKPLFLLR KAKKSSGEPD VVLWASNDFE STCATLDYLI VKSGKKLSSY FKAVATNFPV
VNDLPAEGEI DFTWSERYQL SKDSMTWELK PGAAPDNAHY QGNTNVNGED MTEIEENMLL
PISGQELPIR WLAQHGSEKP VTHVSRDGLQ ALHIARAEEL PAVTALAVSH KTSLLDPLEI
RELHKLVRDT DKVFPNPGNS NLGLITAFFE AYLNADYTDR GLLTKEWMKG NRVSHITRTA
SGANAGGGNL TDRGEGFVHD LTSLARDVAT GVLARSMDLD IYNLHPAHAK RIEEIIAENK
PPFSVFRDKF ITMPGGLDYS RAIVVASVKE APIGIEVIPA HVTEYLNKVL TETDHANPDP
EIVDIACGRS SAPMPQRVTE EGKQDDEEKP QPSGTTAVEQ GEAETMEPDA TEHHQDTQPL
DAQSQVNSVD AKYQELRAEL HEARKNIPSK NPVDDDKLLA ASRGEFVDGI SDPNDPKWVK
GIQTRDCVYQ NQPETEKTSP DMNQPEPVVQ QEPEIACNAC GQTGGDNCPD CGAVMGDATY
QETFDEESQV EAKENDPEEM EGAEHPHNEN AGSDPHRDCS DETGEVADPV IVEDIEPGIY
YGISNENYHA GPGISKSQLD DIADTPALYL WRKNAPVDTT KTKTLDLGTA FHCRVLEPEE
FSNRFIVAPE FNRRTNAGKE EEKAFLMECA STGKTVITAE EGRKIELMYQ SVMALPLGQW
LVESAGHAES SIYWEDPETG ILCRCRPDKI IPEFHWIMDV KTTADIQRFK TAYYDYRYHV
QDAFYSDGYE AQFGVQPTFV FLVASTTIEC GRYPVEIFMM GEEAKLAGQQ EYHRNLRTLS
DCLNTDEWPA IKTLSLPRWA KEYAND
Length

866

Mol. Wt

96.368 kDa

pI

4.6 (calculated)

Extinction coefficient

106,230 - 107,980 (calc based on 27 Y, 12 W, and 14 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..178

PF06630 Enterobacterial exodeoxyribonuclease VIII

PMID:19920124[8]

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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=recE 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:16129311

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:945918

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0004531

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P15032

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG10827

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10827

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:945918

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000818

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0820

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 1.5 1.6 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 2.5 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. ↑ 5.0 5.1 Butland, G et al. (2005) Interaction network containing conserved and essential protein complexes in Escherichia coli. Nature 433 531-7 PubMed
  6. ↑ 6.0 6.1 6.2 6.3 6.4 6.5 6.6 Arifuzzaman, M et al. (2006) Large-scale identification of protein-protein interaction of Escherichia coli K-12. Genome Res. 16 686-91 PubMed
  7. ↑ Hu, P et al. (2009) Global functional atlas of Escherichia coli encompassing previously uncharacterized proteins. PLoS Biol. 7 e96 PubMed
  8. ↑ Finn, RD et al. (2010) The Pfam protein families database. Nucleic Acids Res. 38 D211-22 PubMed

Categories

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