thiC:Gene Product(s): Difference between revisions

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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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{|{{Prettytable}}
{|  id="V46ab1438c1c2d"  class=" tableEdit Product_nomenclature_table" 
 
|-
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!{{table heading style}} |Standard name
!align=left {{table heading style}} |Standard name
|
||
ThiC product
ThiC  
|-
|-
!{{table heading style}} |Synonyms
!align=left {{table heading style}} |Synonyms
|
||
thiamin (pyrimidine moiety) biosynthesis protein product<ref name='LIB:Riley_2006'/>, B3994 product<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, ThiC product<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>  
''thiamin (pyrimidine moiety) biosynthesis protein<ref name='LIB:Riley_2006'/>, B3994<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, ThiC<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/> , ECK3986, JW3958, b3994''
|-
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!{{table heading style}} |Product description
!align=left {{table heading style}} |Product description
|
||
thiamin biosynthesis protein ThiC<ref name='LIB:EcoCyc10.6'/><ref name='LIB:EcoCyc11.1'/>
thiamin biosynthesis protein ThiC<ref name='LIB:EcoCyc10.6'/><ref name='LIB:EcoCyc11.1'/>


Hydroxymethylpyrimidine synthesis, for thiamine biosynthesis<ref name='LIB:EcoGene'/>
|-
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!{{table heading style}} |EC number (for enzymes)
!align=left {{table heading style}} |EC number (for enzymes)
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*
 
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===Notes===
===Notes===
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<big>'''Gene Ontology'''</big><br />{{Product_GO_help}}<!--box uid=421aa90e079fa326b6494f812ad13e79.28653.O46ab1439dd615-->
<big>'''Gene Ontology'''</big><br /><!--box uid=421aa90e079fa326b6494f812ad13e79.28653.O46ab1439dd615-->
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{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="O46ab1439dd615"  class=" tableEdit GO_table_product dataTable"   
|- {{table_heading_style}}
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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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|
|
[[Category:GO:0009228_!_thiamin_biosynthetic_process]][http://gowiki.tamu.edu/wiki/index.php/Category:GO:0009228_!_thiamin_biosynthetic_process GO:0009228]
GO:0009228
|
|
thiamin_biosynthesis
thiamin biosynthetic process
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|
[http://www.geneontology.org/cgi-bin/references.cgi/#GO_REF:0000002 GO_REF:0000002]<br />
GOA:hamap<br />GO_REF:0000020
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|
IEA: Inferred from Electronic Annotation
IEA: Inferred from Electronic Annotation
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|
InterPro:IPR002817
HAMAP:MF_00089
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P
P
|
|
Seeded from EcoCyc 12.5 <ref name = 'LIB:EcoCyc12.5'/>
Seeded from [[EcoCyc]] (v14.0)
|
|
complete
|-  
|-  
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|


|
|
[[Category:GO:0009228_!_thiamin_biosynthetic_process]][http://gowiki.tamu.edu/wiki/index.php/Category:GO:0009228_!_thiamin_biosynthetic_process GO:0009228]
GO:0009228
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|
thiamin_biosynthesis
thiamin biosynthetic process
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|
[http://www.geneontology.org/cgi-bin/references.cgi/#GO_REF:0000020 GO_REF:0000020]<br />
GOA:interpro<br />GO_REF:0000002
|
|
IEA: Inferred from Electronic Annotation
IEA: Inferred from Electronic Annotation
|
|
HAMAP:MF_00089
InterPro:IPR002817
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P
P
|
|
Seeded from EcoCyc 12.5 <ref name = 'LIB:EcoCyc12.5'/>
Seeded from [[EcoCyc]] (v14.0)
|
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complete
|-  
|-  
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|


|
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[[Category:GO:0009228_!_thiamin_biosynthetic_process]][http://gowiki.tamu.edu/wiki/index.php/Category:GO:0009228_!_thiamin_biosynthetic_process GO:0009228]
GO:0009228
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|
thiamin_biosynthesis
thiamin biosynthetic process
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[http://www.geneontology.org/cgi-bin/references.cgi/#GO_REF:0000004 GO_REF:0000004]<br />
GOA:spkw<br />SP_KW:GO_REF:0000004
|
|
IEA: Inferred from Electronic Annotation
IEA: Inferred from Electronic Annotation
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P
P
|
|
Seeded from EcoCyc 12.5 <ref name = 'LIB:EcoCyc12.5'/>
Seeded from [[EcoCyc]] (v14.0)
|
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complete


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!Partner Type!!Partner!!Notes
!|Partner Type!!Partner!!Notes!!References!!Evidence
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Protein
|
moaC<br />
|
 
|
PMID:16606699
|
Experiment(s):EBI-1147221<br />
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Protein
|
glpD<br />
|
 
|
PMID:16606699
|
Experiment(s):EBI-1147221<br />
|-
|
Protein
|
napG<br />
|
 
|
PMID:16606699
|
Experiment(s):EBI-1147221<br />
|-
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Protein
|
napC<br />
|
 
|
PMID:16606699
|
Experiment(s):EBI-1147221<br />
|-
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Protein
|
hycF<br />
|
 
|
PMID:16606699
|
Experiment(s):EBI-1147221<br />
|-
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Protein
|
hemG<br />
|
 
|
PMID:16606699
|
Experiment(s):EBI-1147221<br />
 
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===Notes===
===Notes===
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!Compartment!!Description!!Evidence!!Notes
!|Compartment!!Description!!Evidence!!Reference/Source!!Notes
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{|{{Prettytable}}
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!align=left {{table heading style}} |Name
||
 
|-
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!{{table heading style}} |Sequence
!align=left {{table heading style}} |Sequence
|
||
[http://biocyc.org/ECOLI/sequence-aa?object=THIC-MONOMER at EcoCyc]  
[http://biocyc.org/ECOLI/sequence-aa?object=THIC-MONOMER at EcoCyc]  
<pre>MSATKLTRRE QRARAQHFID TLEGTAFPNS KRIYITGTHP GVRVPMREIQ LSPTLIGGSK
<pre>MSATKLTRRE QRARAQHFID TLEGTAFPNS KRIYITGTHP GVRVPMREIQ LSPTLIGGSK
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AATQTIEMGM ADMSENFRAR GGEIYLRKEE A</pre>  
AATQTIEMGM ADMSENFRAR GGEIYLRKEE A</pre>  
|-
|-
!{{table heading style}} |Mol. Wt
!align=left {{table heading style}} |Length
|
||
70.85 kDa (calc) <ref name='LIB:EcoCyc10.6'/>
631
|-
|-
!{{table heading style}} |pI
!align=left {{table heading style}} |Mol. Wt
|
||
6.02<ref name='LIB:EcoCyc10.6'/>
70.851 kDa
|-
|-
!{{table heading style}} |Extinction coefficient
!align=left {{table heading style}} |pI
|
||
79300 - 80425 (calc based on 20 Y, 9 W, and 9 C residues)  
6.0 (calculated)
|-
|-
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!align=left {{table heading style}} |Extinction coefficient
||
79,300 - 80,425 (calc based on 20 Y, 9 W, and 9 C residues)
 
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<big>'''Domains/Motifs/Modification Sites'''</big>
 
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<span id="Domains/Motifs/Modification Sites"><big>'''Domains/Motifs/Modification Sites'''</big></span><table>
<tr align="left" valign="top">
<td><!--box uid=421aa90e079fa326b6494f812ad13e79.28653.S46ab143fd2cc5-->
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!Type!!Residues!!Description!!Notes
!|Type!!Residues!!Description!!Notes!!References
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|
Domain
|
148..598
|
[http://pfam.janelia.org/family/PF01964 PF01964  ThiC family]
|
 
|
PMID:19920124
 
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<td>
<!-- motifs column 2-->
<motif_map/>
</td>
</tr>
</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>
gene=thiC
taxon=562,83333
</beststructure>
|-
|-
!align=left {{table heading style}} | Models
!align=left {{table heading style}} |Models
||
View models at:
* [http://www.proteinmodelportal.org/query/uniprot/P30136 Protein Model Portal]
* [http://bioinf.cs.ucl.ac.uk/genome3d/read?uniprot_id=P30136 PSI-PRED (P30136)]
* [http://spock.genes.nig.ac.jp/~genome/cgi-bin/gkeytext.pl.cgi?A&QUERY1=P30136 Genomes TO Protein (P30136)] (GTOP)


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


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===Notes===
===Notes===
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!Database!!Accession!!Notes
!|Database!!Accession!!Notes
|-
|-
|
[http://www.ncbi.nlm.nih.gov/protein NCBI (Protein)] ([[NCBI (Protein)|EcoliWiki Page]])
|
[http://www.ncbi.nlm.nih.gov/protein/16131824 GI:16131824]
|
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_418422.1 GeneID:948492]
|
Escherichia coli str. K-12 substr. MG1655
|-
|
[[ASAP]]
|
ASAP:ABE-0013057
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-
|
[http://www.pir.uniprot.org/ UniProt] ([[UniProt|EcoliWiki Page]])
|
[http://www.uniprot.org/uniprot/P30136 UniProtKB/Swiss-Prot:P30136]
|
Escherichia coli str. K-12 substr. MG1655
|-
|
[[EcoCyc]]
|
EcoCyc:EG11585
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-  
|
|
[http://ecocyc.org EcoCyc] ([[EcoCyc|EcoliWiki Page]])
[[EcoGene]]
|
|
[http://biocyc.org/ECOLI/NEW-IMAGE?type=NIL&object=THIC-MONOMER EcoCyc:THIC-MONOMER] 
EcoGene:EG11585
|
|
''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]])
|
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[[uniprot:P30136|UniProt:P30136]] 
[http://www.ncbi.nlm.nih.gov/gene?term=948492 GeneID:948492]
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Escherichia coli str. K-12 substr. MG1655
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[http://pfam.sanger.ac.uk/ PFAM] ([[PFAM|EcoliWiki Page]])
[[RegulonDB]]
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[http://pfam.sanger.ac.uk/family?acc=PF01964 PFAM:PF01964] 
RegulonDB:ECK120001535
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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]])
[[EchoBASE]]
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[http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?db=nucleotide&val=NP_418422 RefSeq:NP_418422] 
EchoBASE:EB1544
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
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===Categories===
===Categories===
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[[Category:Proteins]]
[[Category:Proteins]]
[[Category:GO:0009228_!_thiamin biosynthetic process]]

Latest revision as of 21:11, 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

ThiC

Synonyms

thiamin (pyrimidine moiety) biosynthesis protein[1], B3994[2][1], ThiC[2][1] , ECK3986, JW3958, b3994

Product description

thiamin biosynthesis protein ThiC[2][3]

Hydroxymethylpyrimidine synthesis, for thiamine biosynthesis[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:0009228

thiamin biosynthetic process

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_00089

P

Seeded from EcoCyc (v14.0)

complete

GO:0009228

thiamin biosynthetic process

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR002817

P

Seeded from EcoCyc (v14.0)

complete

GO:0009228

thiamin biosynthetic process

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0784

P

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

moaC

PMID:16606699[5]

Experiment(s):EBI-1147221

Protein

glpD

PMID:16606699[5]

Experiment(s):EBI-1147221

Protein

napG

PMID:16606699[5]

Experiment(s):EBI-1147221

Protein

napC

PMID:16606699[5]

Experiment(s):EBI-1147221

Protein

hycF

PMID:16606699[5]

Experiment(s):EBI-1147221

Protein

hemG

PMID:16606699[5]

Experiment(s):EBI-1147221
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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 

MSATKLTRRE QRARAQHFID TLEGTAFPNS KRIYITGTHP GVRVPMREIQ LSPTLIGGSK
EQPQYEENEA IPVYDTSGPY GDPQIAINVQ QGLAKLRQPW IDARGDTEEL TVRSSDYTKA
RLADDGLDEL RFSGVLTPKR AKAGRRVTQL HYARQGIITP EMEFIAIREN MGRERIRSEV
LRHQHPGMSF GAHLPENITA EFVRDEVAAG RAIIPANINH PESEPMIIGR NFLVKVNANI
GNSAVTSSIE EEVEKLVWST RWGADTVMDL STGRYIHETR EWILRNSPVP IGTVPIYQAL
EKVNGIAEDL TWEAFRDTLL EQAEQGVDYF TIHAGVLLRY VPMTAKRLTG IVSRGGSIMA
KWCLSHHQEN FLYQHFREIC EICAAYDVSL SLGDGLRPGS IQDANDEAQF AELHTLGELT
KIAWEYDVQV MIEGPGHVPM QMIRRNMTEE LEHCHEAPFY TLGPLTTDIA PGYDHFTSGI
GAAMIGWFGC AMLCYVTPKE HLGLPNKEDV KQGLITYKIA AHAADLAKGH PGAQIRDNAM
SKARFEFRWE DQFNLALDPF TARAYHDETL PQESGKVAHF CSMCGPKFCS MKISQEVRDY
AATQTIEMGM ADMSENFRAR GGEIYLRKEE A
Length

631

Mol. Wt

70.851 kDa

pI

6.0 (calculated)

Extinction coefficient

79,300 - 80,425 (calc based on 20 Y, 9 W, and 9 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

148..598

PF01964 ThiC family

PMID:19920124[6]

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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=thiC 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:16131824

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:948492

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0013057

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P30136

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG11585

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG11585

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:948492

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120001535

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB1544

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 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. ↑ 5.0 5.1 5.2 5.3 5.4 5.5 Arifuzzaman, M et al. (2006) Large-scale identification of protein-protein interaction of Escherichia coli K-12. Genome Res. 16 686-91 PubMed
  6. ↑ Finn, RD et al. (2010) The Pfam protein families database. Nucleic Acids Res. 38 D211-22 PubMed

Categories

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