rpoA:Gene Product(s): Difference between revisions

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!align=left {{table heading style}} |Synonyms
!align=left {{table heading style}} |Synonyms
||
||
RNA polymerase, alpha subunit<ref name='LIB:Riley_2006'/>, B3295<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, Sez<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, Phs<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, Pez<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, RpoA<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>  
''RNA polymerase, alpha subunit<ref name='LIB:Riley_2006'/>, B3295<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, Sez<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, Phs<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, Pez<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, RpoA<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/> , ECK3282, JW3257, pez, phs, sez, b3295''
|-
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!align=left {{table heading style}} |Product description
!align=left {{table heading style}} |Product description
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{|   id="H46aade42ee89a"  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
|-  
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Deprecated
|
|
GO:0008270
GO:0008270
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F
F
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The PMID listed is for a paper on spinal cord injury. I cannot find any experimental evidence for Zn binding by the alpha subunit of RNA polymerase. [[User:Siegele|Siegele]] ([[User talk:Siegele|talk]]) 16:16, 15 May 2019 (CDT)
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complete  
complete  
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!|Partner Type!!Partner!!Notes!!References!!Evidence
!|Partner Type!!Partner!!Notes!!References!!Evidence
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Protein
Protein
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|
[[mreB:Gene_Product(s)|mreB]]
mreB
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|


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PMID:19402753
PMID:19402753
|
|
MALDI(Z-score):36.959637  
MALDI(Z-score):36.959637  
|-  
|-  
|
|
Protein
Protein
|
|
[[rpsP:Gene_Product(s)|rpsP]]
rpsP
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Protein
Protein
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|
[[rpsS:Gene_Product(s)|rpsS]]
rpsS
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|


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Protein
Protein
|
|
[[rplU:Gene_Product(s)|rplU]]
rplU
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Protein
Protein
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|
[[rpsT:Gene_Product(s)|rpsT]]
rpsT
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Protein
Protein
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[[rpsN:Gene_Product(s)|rpsN]]
rpsN
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Protein
Protein
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[[rplP:Gene_Product(s)|rplP]]
rplP
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|


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Protein
Protein
|
|
[[rplX:Gene_Product(s)|rplX]]
rplX
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|


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Protein
Protein
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[[rpmG:Gene_Product(s)|rpmG]]
rpmG
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Protein
Protein
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[[rpmA:Gene_Product(s)|rpmA]]
rpmA
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Protein
Protein
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[[rpsA:Gene_Product(s)|rpsA]]
rpsA
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PMID:19402753
PMID:19402753
|
|
MALDI(Z-score):21.278856  
MALDI(Z-score):21.278856  
|-  
|-  
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Protein
Protein
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|
[[rpmB:Gene_Product(s)|rpmB]]
rpmB
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Protein
Protein
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[[rplA:Gene_Product(s)|rplA]]
rplA
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PMID:19402753
PMID:19402753
|
|
MALDI(Z-score):32.556213  
MALDI(Z-score):32.556213  
|-  
|-  
|
|
Protein
Protein
|
|
[[rplS:Gene_Product(s)|rplS]]
rplS
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|


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Protein
Protein
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|
[[aspS:Gene_Product(s)|aspS]]
aspS
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|


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Protein
Protein
|
|
Subunits of [[:Category:Complex:RNA polymerase sigma 24|RNA polymerase sigma 24]]
rpsJ
|
|
could be indirect
 
|
|
 
PMID:19402753
|
|
LCMS(ID Probability):97.9 MALDI(Z-score):16.475126
|-  
|-  
|
|
Protein
Protein
|
|
Subunits of [[:Category:Complex:RNA polymerase sigma 38|RNA polymerase sigma 38]]
rpsF
|
|
could be indirect
 
|
|
 
PMID:19402753
|
|
LCMS(ID Probability):99.6
|-  
|-  
|
|
Protein
Protein
|
|
Subunits of [[:Category:Complex:RNA polymerase sigma32|RNA polymerase sigma32]]
rplW
|
|
could be indirect
 
|
|
 
PMID:19402753
|
|
LCMS(ID Probability):99.6
|-  
|-  
|
|
Protein
Protein
|
|
Subunits of [[:Category:Complex:RNA polymerase sigma54|RNA polymerase sigma54]]
rplM
|
could be indirect
|
|


|
|
PMID:19402753
|
LCMS(ID Probability):99.6 MALDI(Z-score):17.053160
|-  
|-  
|
|
Protein
Protein
|
|
Subunits of [[:Category:Complex:RNA polymerase sigma70|RNA polymerase sigma70]]
hupA
|
|
could be indirect
 
|
|
 
PMID:19402753
|
|
LCMS(ID Probability):99.6 MALDI(Z-score):9.189812
|-  
|-  
|
|
Protein
Protein
|
|
Subunits of [[:Category:Complex:RNA polymerase sigma 19|RNA polymerase sigma 19]]
rpsC
|
|
could be indirect
 
|
|
 
PMID:19402753
|
|
MALDI(Z-score):41.404786
|-  
|-  
|
|
Protein
Protein
|
|
Subunits of [[:Category:Complex:RNA polymerase sigma 28|RNA polymerase sigma 28]]
rplB
|
|
could be indirect
 
|
|
 
PMID:19402753
|
|
MALDI(Z-score):37.610726
|-  
|-  
|
|
Protein
Protein
|
|
[[rpsJ:Gene_Product(s)|rpsJ]]
rpsO
|
|


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PMID:19402753
PMID:19402753
|
|
LCMS(ID Probability):97.9 MALDI(Z-score):16.475126
LCMS(ID Probability):99.6
|-
|
Protein
|
rpsD
|
 
|
PMID:19402753
|
MALDI(Z-score):34.513588
|-
|
Protein
|
rho
|
 
|
PMID:19402753
|
MALDI(Z-score):37.049801
|-
|
Protein
|
cspC
|
 
|
PMID:19402753
|
LCMS(ID Probability):99.6 MALDI(Z-score):13.185220
|-
|
Protein
|
rplD
|
 
|
PMID:19402753
|
LCMS(ID Probability):99.6 MALDI(Z-score):27.436806
|-
|
Protein
|
greA
|
 
|
PMID:19402753
|
LCMS(ID Probability):93.1 MALDI(Z-score):17.053160
|-
|
Protein
|
rpsU
|
 
|
PMID:19402753
|
LCMS(ID Probability):99.6
|-
|
Protein
|
pssA
|
 
|
PMID:19402753
|
MALDI(Z-score):19.670165
|-
|
Protein
|
nusG
|
 
|
PMID:19402753
|
LCMS(ID Probability):99.6 MALDI(Z-score):35.117471
|-
|
Protein
|
rpoB
|
 
|
PMID:19402753
|
LCMS(ID Probability):99.6 MALDI(Z-score):39.950272
|-
|
Protein
|
rpoC
|
 
|
PMID:19402753
|
LCMS(ID Probability):99.6 MALDI(Z-score):39.702103
|-
|
Protein
|
rapA
|
 
|
PMID:19402753
|
LCMS(ID Probability):99.6 MALDI(Z-score):18.240902
|-
|
Protein
|
rpoZ
|
 
|
PMID:19402753
|
LCMS(ID Probability):99.6 MALDI(Z-score):38.277175
|-
|
Protein
|
rffM
|
 
|
PMID:19402753
|
LCMS(ID Probability):99.6
|-
|
Protein
|
rpoD
|
 
|
PMID:19402753
|
LCMS(ID Probability):99.6 MALDI(Z-score):40.069162
|-
|
Protein
|
rplL
|
 
|
PMID:19402753
|
LCMS(ID Probability):99.6
|-
|
Protein
|
Subunits of [[:Category:Complex:RNA polymerase sigma 24|RNA polymerase sigma 24]]
|
could be indirect
|
 
|
|-
|
Protein
|
Subunits of [[:Category:Complex:RNA polymerase sigma 38|RNA polymerase sigma 38]]
|
could be indirect
|
 
|
|-
|
Protein
|
Subunits of [[:Category:Complex:RNA polymerase sigma32|RNA polymerase sigma32]]
|
could be indirect
|
 
|
|-
|
Protein
|
Subunits of [[:Category:Complex:RNA polymerase sigma54|RNA polymerase sigma54]]
|
could be indirect
|
 
|
|-
|
Protein
|
Subunits of [[:Category:Complex:RNA polymerase sigma70|RNA polymerase sigma70]]
|
could be indirect
|
 
|
|-
|
Protein
|
Subunits of [[:Category:Complex:RNA polymerase sigma 19|RNA polymerase sigma 19]]
|
could be indirect
|
 
|
|-
|
Protein
|
Subunits of [[:Category:Complex:RNA polymerase sigma 28|RNA polymerase sigma 28]]
|
could be indirect
|
 
|
 
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<!--Function_notes--></protect>
===Notes===
 
 
==Localization==
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|- {{table heading style}}
!|Compartment!!Description!!Evidence!!Reference/Source!!Notes
 
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<protect><!--Localization_notes--></protect>
 
===Notes===
 
 
==Structure and Physical Properties==
{{BacktoTop}}
<protect>
<span id="Sequence"></span><big>'''Physical Properties'''</big>
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|-
!align=left {{table heading style}} |Name
||
 
|-
!align=left {{table heading style}} |Sequence
||
[http://biocyc.org/ECOLI/sequence-aa?object=EG10893-MONOMER at EcoCyc]
<pre>MQGSVTEFLK PRLVDIEQVS STHAKVTLEP LERGFGHTLG NALRRILLSS MPGCAVTEVE
IDGVLHEYST KEGVQEDILE ILLNLKGLAV RVQGKDEVIL TLNKSGIGPV TAADITHDGD
VEIVKPQHVI CHLTDENASI SMRIKVQRGR GYVPASTRIH SEEDERPIGR LLVDACYSPV
ERIAYNVEAA RVEQRTDLDK LVIEMETNGT IDPEEAIRRA ATILAEQLEA FVDLRDVRQP
EVKEEKPEFD PILLRPVDDL ELTVRSANCL KAEAIHYIGD LVQRTEVELL KTPNLGKKSL
TEIKDVLASR GLSLGMRLEN WPPASIADE</pre>
|-
!align=left {{table heading style}} |Length
||
329
|-
!align=left {{table heading style}} |Mol. Wt
||
36.511 kDa
|-
!align=left {{table heading style}} |pI
||
4.8 (calculated)
|-
!align=left {{table heading style}} |Extinction coefficient
||
12,950 - 13,450 (calc based on 5 Y, 1 W, and 4 C residues)


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<!--Function_notes--></protect>
===Notes===


 
<span id="Domains/Motifs/Modification Sites"><big>'''Domains/Motifs/Modification Sites'''</big></span><table>
==Localization==
<tr align="left" valign="top">
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|- {{table heading style}}
|- {{table heading style}}
!|Compartment!!Description!!Evidence!!Source!!Notes
!|Type!!Residues!!Description!!Notes!!References
|-
|
Domain
|
58..178
|
[http://pfam.janelia.org/family/PF01000 PF01000  RNA polymerase Rpb3/RpoA insert domain]
|


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PMID:19920124
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Domain
|
243..309
|
[http://pfam.janelia.org/family/PF03118 PF03118  Bacterial RNA polymerase, alpha chain C terminal domain]
|


<protect><!--Localization_notes--></protect>
|
PMID:19920124
|-  
|
Domain
|
28..233
|
[http://pfam.janelia.org/family/PF01193 PF01193  RNA polymerase Rpb3/Rpb11 dimerisation domain]
|


===Notes===
|
PMID:19920124


 
|- class="tableEdit_footer"
==Structure and Physical Properties==
|<span class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.27049.V46aade578bac2&page=27049&pagename={{FULLPAGENAMEE}}&type=&template=Product_motif_table edit table]</span> || || || ||
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<protect>
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<span id="Sequence"></span><big>'''Physical Properties'''</big>
<td>
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<!-- motifs column 2-->
<motif_map/>
</td>
</tr>
</table>
 
<table><tr valign='top'><td>
<span id='Structure'></span><big>'''Structure'''</big><br />
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|-
|-
!align=left {{table heading style}} |Sequence
!align=left {{table heading style}} |Structures
||
||
[http://biocyc.org/ECOLI/sequence-aa?object=EG10893-MONOMER at EcoCyc]
<beststructure>
<pre>MQGSVTEFLK PRLVDIEQVS STHAKVTLEP LERGFGHTLG NALRRILLSS MPGCAVTEVE
gene=rpoA
IDGVLHEYST KEGVQEDILE ILLNLKGLAV RVQGKDEVIL TLNKSGIGPV TAADITHDGD
taxon=562,83333
VEIVKPQHVI CHLTDENASI SMRIKVQRGR GYVPASTRIH SEEDERPIGR LLVDACYSPV
</beststructure>
ERIAYNVEAA RVEQRTDLDK LVIEMETNGT IDPEEAIRRA ATILAEQLEA FVDLRDVRQP
|-
EVKEEKPEFD PILLRPVDDL ELTVRSANCL KAEAIHYIGD LVQRTEVELL KTPNLGKKSL
!align=left {{table heading style}} |Models
TEIKDVLASR GLSLGMRLEN WPPASIADE</pre>  
|-
!align=left {{table heading style}} |Length
||
||
329
View models at:
|-
* [http://www.proteinmodelportal.org/query/uniprot/P0A7Z4 Protein Model Portal]
!align=left {{table heading style}} |Mol. Wt
* [http://bioinf.cs.ucl.ac.uk/genome3d/read?uniprot_id=P0A7Z4 PSI-PRED (P0A7Z4)]
||
* [http://spock.genes.nig.ac.jp/~genome/cgi-bin/gkeytext.pl.cgi?A&QUERY1=P0A7Z4 Genomes TO Protein (P0A7Z4)] (GTOP)
36.511 kDa
|-
!align=left {{table heading style}} |pI
||
4.8 (calculated)
|-
!align=left {{table heading style}} |Extinction coefficient
||
12,950 - 13,450 (calc based on 5 Y, 1 W, and 4 C residues)


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</td><td></protect>
==== Structure figures ====




<span id="Domains/Motifs/Modification Sites"><big>'''Domains/Motifs/Modification Sites'''</big></span><table>
 
<tr align="left" valign="top">
 
<td><!--box uid=421aa90e079fa326b6494f812ad13e79.27049.V46aade578bac2-->
 
 
 
 
 
 
 
 
 
 
 
 
 
 
<protect><!--          ***** PLEASE DO NOT EDIT BELOW THIS LINE *****        -->
</td><tr><table><!--Structure_notes--></protect>
===Notes===
 
 
==Gene Product Resources==
{{BacktoTop}}
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|- {{table heading style}}
|- {{table_heading_style}}
!|Type!!Residues!!Description!!Notes!!References
!|Resource type!!Source!!Notes/Reference
 
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===Notes===
 
 
==Accessions in Other Databases==
{{BacktoTop}}
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|- {{table_heading_style}}
!|Database!!Accession!!Notes
|-  
|-  
|
|
Domain
[http://www.ncbi.nlm.nih.gov/protein NCBI (Protein)] ([[NCBI (Protein)|EcoliWiki Page]])
|
|
58..178
[http://www.ncbi.nlm.nih.gov/protein/16131174 GI:16131174]
|
|
[http://pfam.janelia.org/family/PF01000 PF01000  RNA polymerase Rpb3/RpoA insert domain]
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_417754.1 GeneID:947794]
|
|
PMID:19920124
Escherichia coli str. K-12 substr. MG1655
|-  
|-  
|
|
Domain
[[ASAP]]
|
ASAP:ABE-0010802
|
|
243..309
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-
|
|
[http://pfam.janelia.org/family/PF03118 PF03118  Bacterial RNA polymerase, alpha chain C terminal domain]
[http://www.pir.uniprot.org/ UniProt] ([[UniProt|EcoliWiki Page]])
|
|
 
[http://www.uniprot.org/uniprot/P0A7Z4 UniProtKB/Swiss-Prot:P0A7Z4]
|
|
PMID:19920124
Escherichia coli str. K-12 substr. MG1655
|-  
|-  
|
|
Domain
[[EcoCyc]]
|
28..233
|
[http://pfam.janelia.org/family/PF01193 PF01193  RNA polymerase Rpb3/Rpb11 dimerisation domain]
|
|
 
EcoCyc:EG10893
|
|
PMID:19920124
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]  
 
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<td>
<!-- motifs column 2-->
<motif_map/>
</td>
</tr>
</table>
 
<table><tr valign='top'><td>
<span id='Structure'></span><big>'''Structure'''</big><br />
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|-
!align=left {{table heading style}} |Structures
||
<beststructure>
gene=rpoA
taxon=562,83333
</beststructure>
|-
!align=left {{table heading style}} |Models
||
View models at:
* [http://dragon.bio.purdue.edu/ecolpredict2/localsearch/cgi-bin/search3.cgi?q=recA EcoliPredict]
* [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/psipred/ PSI-PRED]
* [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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</td><td></protect>
==== Structure figures ====
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
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</td><tr><table><!--Structure_notes--></protect>
===Notes===
 
 
==Gene Product Resources==
{{BacktoTop}}
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!|Resource type!!Source!!Notes/Reference
 
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<protect><!--Resources_notes--></protect>
===Notes===
 
 
==Accessions in Other Databases==
{{BacktoTop}}
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!|Database!!Accession!!Notes
|-  
|-  
|
|
[http://ecocyc.org EcoCyc] ([[EcoCyc|EcoliWiki Page]])
[[EcoGene]]
|
|
[http://biocyc.org/ECOLI/NEW-IMAGE?type=NIL&object=EG10893-MONOMER EcoCyc:EG10893-MONOMER]
EcoGene:EG10893
|
|
''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]])
|
|
[http://www.uniprot.org/uniprot/P0A7Z4 UniProt:P0A7Z4]
[http://www.ncbi.nlm.nih.gov/gene?term=947794 GeneID:947794]
|
|
Escherichia coli str. K-12 substr. MG1655
|-  
|-  
|
|
[http://pfam.sanger.ac.uk/ PFAM] ([[PFAM|EcoliWiki Page]])
[[RegulonDB]]
|
|
[http://pfam.janelia.org/protein/P0A7Z4 Pfam:P0A7Z4]
RegulonDB:ECK120000884
|
|
''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_417754 RefSeq:NP_417754]
EchoBASE:EB0886
|
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]


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!|Name!!URL!!Comments
!|Name!!URL!!Comments

Latest revision as of 21:16, 15 May 2019

{{#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

RpoA

Synonyms

RNA polymerase, alpha subunit[1], B3295[2][1], Sez[2][1], Phs[2][1], Pez[2][1], RpoA[2][1] , ECK3282, JW3257, pez, phs, sez, b3295

Product description

RNA polymerase, α subunit[2][3];

Component of RNA polymerase, core enzyme[2][3]; RNA polymerase sigma 24[2][3]; RNA polymerase sigma 38[2][3]; RNA polymerase sigma32[2]; RNA polymerase sigma 32[3]; RNA polymerase sigma54[2]; RNA polymerase sigma 54[3]; RNA polymerase sigma70[2]; RNA polymerase sigma 70[3]; RNA polymerase sigma 19[3]; RNA polymerase sigma 28[3]

RNA polymerase, alpha subunit; binds Zn(II)[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:0003677

DNA binding

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_00059

F

Seeded from EcoCyc (v14.0)

complete

GO:0003677

DNA binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR009025

F

Seeded from EcoCyc (v14.0)

complete

GO:0003677

DNA binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR011260

F

Seeded from EcoCyc (v14.0)

complete

GO:0003677

DNA binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR011773

F

Seeded from EcoCyc (v14.0)

complete

GO:0003899

DNA-directed RNA polymerase activity

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_00059

F

Seeded from EcoCyc (v14.0)

complete

GO:0003899

DNA-directed RNA polymerase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR009025

F

Seeded from EcoCyc (v14.0)

complete

GO:0003899

DNA-directed RNA polymerase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR011260

F

Seeded from EcoCyc (v14.0)

complete

GO:0003899

DNA-directed RNA polymerase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR011261

F

Seeded from EcoCyc (v14.0)

complete

GO:0003899

DNA-directed RNA polymerase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR011262

F

Seeded from EcoCyc (v14.0)

complete

Deprecated

GO:0008270

zinc ion binding

PMID:1985624[5]

IDA: Inferred from Direct Assay

F

The PMID listed is for a paper on spinal cord injury. I cannot find any experimental evidence for Zn binding by the alpha subunit of RNA polymerase. Siegele (talk) 16:16, 15 May 2019 (CDT)

complete

GO:0003899

DNA-directed RNA polymerase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR011263

F

Seeded from EcoCyc (v14.0)

complete

GO:0003899

DNA-directed RNA polymerase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR011773

F

Seeded from EcoCyc (v14.0)

complete

GO:0003899

DNA-directed RNA polymerase activity

GOA:spec
GO_REF:0000003

IEA: Inferred from Electronic Annotation

EC:2.7.7.6

F

Seeded from EcoCyc (v14.0)

complete

GO:0003899

DNA-directed RNA polymerase activity

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0240

F

Seeded from EcoCyc (v14.0)

complete

GO:0006350

transcription

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR009025

P

Seeded from EcoCyc (v14.0)

complete

GO:0006350

transcription

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR011260

P

Seeded from EcoCyc (v14.0)

complete

GO:0006350

transcription

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR011261

P

Seeded from EcoCyc (v14.0)

complete

GO:0006350

transcription

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR011262

P

Seeded from EcoCyc (v14.0)

complete

GO:0006350

transcription

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR011263

P

Seeded from EcoCyc (v14.0)

complete

GO:0006350

transcription

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0804

P

Seeded from EcoCyc (v14.0)

complete

GO:0006351

transcription, DNA-dependent

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_00059

P

Seeded from EcoCyc (v14.0)

complete

GO:0006351

transcription, DNA-dependent

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR011773

P

Seeded from EcoCyc (v14.0)

complete

GO:0016020

membrane

PMID:16858726[6]

IDA: Inferred from Direct Assay

C

Seeded from EcoCyc (v14.0)

complete

GO:0016740

transferase activity

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0808

F

Seeded from EcoCyc (v14.0)

complete

GO:0016779

nucleotidyltransferase activity

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0548

F

Seeded from EcoCyc (v14.0)

complete

GO:0046983

protein dimerization activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR011261

F

Seeded from EcoCyc (v14.0)

complete

GO:0046983

protein dimerization activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR011262

F

Seeded from EcoCyc (v14.0)

complete

edit table

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 RNA polymerase, core enzyme

could be indirect

Protein

aceE

PMID:15690043[7]

Experiment(s):EBI-879354

Protein

aceF

PMID:15690043[7]

Experiment(s):EBI-879354

Protein

aspS

PMID:15690043[7]

Experiment(s):EBI-879354, EBI-883271

Protein

mreB

PMID:15690043[7]

Experiment(s):EBI-879354

Protein

pssA

PMID:15690043[7]

Experiment(s):EBI-879354

Protein

waaU

PMID:15690043[7]

Experiment(s):EBI-879354

Protein

rho

PMID:15690043[7]

Experiment(s):EBI-879354

Protein

rplA

PMID:15690043[7]

Experiment(s):EBI-879354

Protein

rplC

PMID:15690043[7]

Experiment(s):EBI-879354

Protein

rplD

PMID:15690043[7]

Experiment(s):EBI-879354, EBI-883271

Protein

rplE

PMID:15690043[7]

Experiment(s):EBI-879354

Protein

rplM

PMID:15690043[7]

Experiment(s):EBI-879354, EBI-883271

Protein

rplO

PMID:15690043[7]

Experiment(s):EBI-879354

Protein

rpsA

PMID:15690043[7]

Experiment(s):EBI-879354

Protein

rpsB

PMID:15690043[7]

Experiment(s):EBI-879354

Protein

rpsC

PMID:15690043[7]

Experiment(s):EBI-879354

Protein

rpsD

PMID:15690043[7]

Experiment(s):EBI-879354

Protein

rpsE

PMID:15690043[7]

Experiment(s):EBI-879354, EBI-883271

Protein

rpsG

PMID:15690043[7]

Experiment(s):EBI-879354

Protein

rpsJ

PMID:15690043[7]

Experiment(s):EBI-879354

Protein

rpsM

PMID:15690043[7]

Experiment(s):EBI-879354

Protein

rplB

PMID:15690043[7]

Experiment(s):EBI-879354

Protein

cspC

PMID:15690043[7]

Experiment(s):EBI-883271

Protein

rplL

PMID:15690043[7]

Experiment(s):EBI-883271

Protein

rplP

PMID:15690043[7]

Experiment(s):EBI-883271

Protein

rplS

PMID:15690043[7]

Experiment(s):EBI-883271

Protein

rplU

PMID:15690043[7]

Experiment(s):EBI-883271

Protein

rplW

PMID:15690043[7]

Experiment(s):EBI-883271

Protein

rplX

PMID:15690043[7]

Experiment(s):EBI-883271

Protein

rpmA

PMID:15690043[7]

Experiment(s):EBI-883271

Protein

rpmB

PMID:15690043[7]

Experiment(s):EBI-883271

Protein

rpmG

PMID:15690043[7]

Experiment(s):EBI-883271

Protein

rpsN

PMID:15690043[7]

Experiment(s):EBI-883271

Protein

rpsO

PMID:15690043[7]

Experiment(s):EBI-883271

Protein

rpsF

PMID:15690043[7]

Experiment(s):EBI-883271

Protein

rpsP

PMID:15690043[7]

Experiment(s):EBI-883271

Protein

rpsS

PMID:15690043[7]

Experiment(s):EBI-883271

Protein

rpsT

PMID:15690043[7]

Experiment(s):EBI-883271

Protein

rpsU

PMID:15690043[7]

Experiment(s):EBI-883271

Protein

wecG

PMID:15690043[7]

Experiment(s):EBI-883271

Protein

rplB

PMID:16606699[8]

Experiment(s):EBI-1145418

Protein

rpsD

PMID:16606699[8]

Experiment(s):EBI-1145418

Protein

hybE

PMID:16606699[8]

Experiment(s):EBI-1145418

Protein

rpsE

PMID:16606699[8]

Experiment(s):EBI-1145418

Protein

pta

PMID:16606699[8]

Experiment(s):EBI-1145418

Protein

etk

PMID:16606699[8]

Experiment(s):EBI-1145418

Protein

rpoB

PMID:16606699[8]

Experiment(s):EBI-1145418

Protein

greA

PMID:16606699[8]

Experiment(s):EBI-1145418

Protein

rplO

PMID:16606699[8]

Experiment(s):EBI-1145418

Protein

rplF

PMID:16606699[8]

Experiment(s):EBI-1145418

Protein

rapA

PMID:16606699[8]

Experiment(s):EBI-1145418

Protein

rpoD

PMID:16606699[8]

Experiment(s):EBI-1145418

Protein

fur

PMID:16606699[8]

Experiment(s):EBI-1145418

Protein

mreB

PMID:19402753[9]

MALDI(Z-score):36.959637

Protein

rpsP

PMID:19402753[9]

LCMS(ID Probability):99.6

Protein

rpsS

PMID:19402753[9]

LCMS(ID Probability):99.6

Protein

rplU

PMID:19402753[9]

LCMS(ID Probability):99.6

Protein

rpsT

PMID:19402753[9]

LCMS(ID Probability):99.6

Protein

rpsN

PMID:19402753[9]

LCMS(ID Probability):99.6

Protein

rplP

PMID:19402753[9]

LCMS(ID Probability):99.6 MALDI(Z-score):3.353874

Protein

rplX

PMID:19402753[9]

LCMS(ID Probability):99.6

Protein

rpmG

PMID:19402753[9]

LCMS(ID Probability):99.6

Protein

rpmA

PMID:19402753[9]

LCMS(ID Probability):99.6

Protein

rpsA

PMID:19402753[9]

MALDI(Z-score):21.278856

Protein

rpmB

PMID:19402753[9]

LCMS(ID Probability):99.6

Protein

rplA

PMID:19402753[9]

MALDI(Z-score):32.556213

Protein

rplS

PMID:19402753[9]

LCMS(ID Probability):99.6

Protein

aspS

PMID:19402753[9]

LCMS(ID Probability):99.6 MALDI(Z-score):8.467531

Protein

rpsJ

PMID:19402753[9]

LCMS(ID Probability):97.9 MALDI(Z-score):16.475126

Protein

rpsF

PMID:19402753[9]

LCMS(ID Probability):99.6

Protein

rplW

PMID:19402753[9]

LCMS(ID Probability):99.6

Protein

rplM

PMID:19402753[9]

LCMS(ID Probability):99.6 MALDI(Z-score):17.053160

Protein

hupA

PMID:19402753[9]

LCMS(ID Probability):99.6 MALDI(Z-score):9.189812

Protein

rpsC

PMID:19402753[9]

MALDI(Z-score):41.404786

Protein

rplB

PMID:19402753[9]

MALDI(Z-score):37.610726

Protein

rpsO

PMID:19402753[9]

LCMS(ID Probability):99.6

Protein

rpsD

PMID:19402753[9]

MALDI(Z-score):34.513588

Protein

rho

PMID:19402753[9]

MALDI(Z-score):37.049801

Protein

cspC

PMID:19402753[9]

LCMS(ID Probability):99.6 MALDI(Z-score):13.185220

Protein

rplD

PMID:19402753[9]

LCMS(ID Probability):99.6 MALDI(Z-score):27.436806

Protein

greA

PMID:19402753[9]

LCMS(ID Probability):93.1 MALDI(Z-score):17.053160

Protein

rpsU

PMID:19402753[9]

LCMS(ID Probability):99.6

Protein

pssA

PMID:19402753[9]

MALDI(Z-score):19.670165

Protein

nusG

PMID:19402753[9]

LCMS(ID Probability):99.6 MALDI(Z-score):35.117471

Protein

rpoB

PMID:19402753[9]

LCMS(ID Probability):99.6 MALDI(Z-score):39.950272

Protein

rpoC

PMID:19402753[9]

LCMS(ID Probability):99.6 MALDI(Z-score):39.702103

Protein

rapA

PMID:19402753[9]

LCMS(ID Probability):99.6 MALDI(Z-score):18.240902

Protein

rpoZ

PMID:19402753[9]

LCMS(ID Probability):99.6 MALDI(Z-score):38.277175

Protein

rffM

PMID:19402753[9]

LCMS(ID Probability):99.6

Protein

rpoD

PMID:19402753[9]

LCMS(ID Probability):99.6 MALDI(Z-score):40.069162

Protein

rplL

PMID:19402753[9]

LCMS(ID Probability):99.6

Protein

Subunits of RNA polymerase sigma 24

could be indirect

Protein

Subunits of RNA polymerase sigma 38

could be indirect

Protein

Subunits of RNA polymerase sigma32

could be indirect

Protein

Subunits of RNA polymerase sigma54

could be indirect

Protein

Subunits of RNA polymerase sigma70

could be indirect

Protein

Subunits of RNA polymerase sigma 19

could be indirect

Protein

Subunits of RNA polymerase sigma 28

could be indirect


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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 

MQGSVTEFLK PRLVDIEQVS STHAKVTLEP LERGFGHTLG NALRRILLSS MPGCAVTEVE
IDGVLHEYST KEGVQEDILE ILLNLKGLAV RVQGKDEVIL TLNKSGIGPV TAADITHDGD
VEIVKPQHVI CHLTDENASI SMRIKVQRGR GYVPASTRIH SEEDERPIGR LLVDACYSPV
ERIAYNVEAA RVEQRTDLDK LVIEMETNGT IDPEEAIRRA ATILAEQLEA FVDLRDVRQP
EVKEEKPEFD PILLRPVDDL ELTVRSANCL KAEAIHYIGD LVQRTEVELL KTPNLGKKSL
TEIKDVLASR GLSLGMRLEN WPPASIADE
Length

329

Mol. Wt

36.511 kDa

pI

4.8 (calculated)

Extinction coefficient

12,950 - 13,450 (calc based on 5 Y, 1 W, and 4 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

58..178

PF01000 RNA polymerase Rpb3/RpoA insert domain

PMID:19920124[10]

Domain

243..309

PF03118 Bacterial RNA polymerase, alpha chain C terminal domain

PMID:19920124[10]

Domain

28..233

PF01193 RNA polymerase Rpb3/Rpb11 dimerisation domain

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=rpoA 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:16131174

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:947794

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0010802

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P0A7Z4

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG10893

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10893

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:947794

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000884

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0886

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. ↑ 2.00 2.01 2.02 2.03 2.04 2.05 2.06 2.07 2.08 2.09 2.10 2.11 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  3. ↑ 3.0 3.1 3.2 3.3 3.4 3.5 3.6 3.7 3.8 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. ↑ Groomes, TE & Huang, CT (1991) Orthostatic hypotension after spinal cord injury: treatment with fludrocortisone and ergotamine. Arch Phys Med Rehabil 72 56-8 PubMed
  6. ↑ 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
  7. ↑ 7.00 7.01 7.02 7.03 7.04 7.05 7.06 7.07 7.08 7.09 7.10 7.11 7.12 7.13 7.14 7.15 7.16 7.17 7.18 7.19 7.20 7.21 7.22 7.23 7.24 7.25 7.26 7.27 7.28 7.29 7.30 7.31 7.32 7.33 7.34 7.35 7.36 7.37 7.38 7.39 Butland, G et al. (2005) Interaction network containing conserved and essential protein complexes in Escherichia coli. Nature 433 531-7 PubMed
  8. ↑ 8.00 8.01 8.02 8.03 8.04 8.05 8.06 8.07 8.08 8.09 8.10 8.11 8.12 Arifuzzaman, M et al. (2006) Large-scale identification of protein-protein interaction of Escherichia coli K-12. Genome Res. 16 686-91 PubMed
  9. ↑ 9.00 9.01 9.02 9.03 9.04 9.05 9.06 9.07 9.08 9.09 9.10 9.11 9.12 9.13 9.14 9.15 9.16 9.17 9.18 9.19 9.20 9.21 9.22 9.23 9.24 9.25 9.26 9.27 9.28 9.29 9.30 9.31 9.32 9.33 9.34 9.35 9.36 9.37 Hu, P et al. (2009) Global functional atlas of Escherichia coli encompassing previously uncharacterized proteins. PLoS Biol. 7 e96 PubMed
  10. ↑ 10.0 10.1 10.2 Finn, RD et al. (2010) The Pfam protein families database. Nucleic Acids Res. 38 D211-22 PubMed

Categories

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