rpoC:Gene Product(s)

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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

RpoC

Synonyms

RNA polymerase, beta prime subunit[1], B3988[2][1], TabB[2][1], RpoC[2][1] , ECK3979, JW3951, tabB, b3988

Product description

RNA polymerase, β' 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, beta' subunit; binds Zn(II)[4]

EC number (for enzymes)
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Notes

Function

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<protect> 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_01322

F

Seeded from EcoCyc (v14.0)

complete

GO:0003677

DNA binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000722

F

Seeded from EcoCyc (v14.0)

complete

GO:0003677

DNA binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR006592

F

Seeded from EcoCyc (v14.0)

complete

GO:0003677

DNA binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR007066

F

Seeded from EcoCyc (v14.0)

complete

GO:0003677

DNA binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR007080

F

Seeded from EcoCyc (v14.0)

complete

GO:0003677

DNA binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR007081

F

Seeded from EcoCyc (v14.0)

complete

GO:0003677

DNA binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR007083

F

Seeded from EcoCyc (v14.0)

complete

GO:0003677

DNA binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR012754

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_01322

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:IPR000722

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:IPR006592

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:IPR007066

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:IPR007080

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:IPR007081

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:IPR007083

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:IPR012754

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:0005515

protein binding

PMID:10764785[5]

IPI: Inferred from Physical Interaction

UniProtKB:P00579

F

Seeded from EcoCyc (v14.0)

complete

GO:0005515

protein binding

PMID:17960736[6]

IPI: Inferred from Physical Interaction

UniProtKB:P0A8V2

F

Seeded from EcoCyc (v14.0)

complete

GO:0006350

transcription

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000722

P

Seeded from EcoCyc (v14.0)

complete

GO:0006350

transcription

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR006592

P

Seeded from EcoCyc (v14.0)

complete

GO:0006350

transcription

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR007066

P

Seeded from EcoCyc (v14.0)

complete

GO:0006350

transcription

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR007080

P

Seeded from EcoCyc (v14.0)

complete

GO:0006350

transcription

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR007081

P

Seeded from EcoCyc (v14.0)

complete

GO:0006350

transcription

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR007083

P

Seeded from EcoCyc (v14.0)

complete

GO:0006350

transcription

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR012754

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_01322

P

Seeded from EcoCyc (v14.0)

complete

GO:0016020

membrane

PMID:16858726[7]

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

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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 RNA polymerase, core enzyme

could be indirect

Protein

sdhA

PMID:16606699[8]

Experiment(s):EBI-1147184

Protein

ycgE

PMID:16606699[8]

Experiment(s):EBI-1147184

Protein

ftsK

PMID:16606699[8]

Experiment(s):EBI-1147184

Protein

rhsD

PMID:16606699[8]

Experiment(s):EBI-1147184

Protein

yagS

PMID:16606699[8]

Experiment(s):EBI-1147184

Protein

lon

PMID:16606699[8]

Experiment(s):EBI-1147184

Protein

dnaK

PMID:16606699[8]

Experiment(s):EBI-1147184

Protein

metH

PMID:16606699[8]

Experiment(s):EBI-1147184

Protein

priA

PMID:16606699[8]

Experiment(s):EBI-1147184

Protein

rpoA

PMID:16606699[8]

Experiment(s):EBI-1147184, EBI-1145418

Protein

ydfE

PMID:16606699[8]

Experiment(s):EBI-1147184

Protein

htpG

PMID:16606699[8]

Experiment(s):EBI-1147184

Protein

rplB

PMID:16606699[8]

Experiment(s):EBI-1147184

Protein

rpsA

PMID:16606699[8]

Experiment(s):EBI-1147184

Protein

clpB

PMID:16606699[8]

Experiment(s):EBI-1147184

Protein

malP

PMID:15690043[9]

Experiment(s):EBI-879261

Protein

rplB

PMID:15690043[9]

Experiment(s):EBI-879261, EBI-883046

Protein

rplC

PMID:15690043[9]

Experiment(s):EBI-879261, EBI-883046

Protein

rplM

PMID:15690043[9]

Experiment(s):EBI-879261

Protein

rplO

PMID:15690043[9]

Experiment(s):EBI-879261

Protein

rplQ

PMID:15690043[9]

Experiment(s):EBI-879261

Protein

rpoA

PMID:15690043[9]

Experiment(s):EBI-879261, EBI-879354, EBI-883046, EBI-883271

Protein

rpoB

PMID:15690043[9]

Experiment(s):EBI-879261, EBI-879304, EBI-883046, EBI-883170

Protein

rpsD

PMID:15690043[9]

Experiment(s):EBI-879261, EBI-883046

Protein

rpsE

PMID:15690043[9]

Experiment(s):EBI-879261, EBI-883046

Protein

rpsG

PMID:15690043[9]

Experiment(s):EBI-879261, EBI-883046

Protein

rpsM

PMID:15690043[9]

Experiment(s):EBI-879261

Protein

ylbH

PMID:15690043[9]

Experiment(s):EBI-883046

Protein

yfdV

PMID:15690043[9]

Experiment(s):EBI-883046

Protein

cysQ

PMID:15690043[9]

Experiment(s):EBI-883046

Protein

flxA

PMID:15690043[9]

Experiment(s):EBI-883046

Protein

focA

PMID:15690043[9]

Experiment(s):EBI-883046

Protein

hemC

PMID:15690043[9]

Experiment(s):EBI-883046

Protein

hupA

PMID:15690043[9]

Experiment(s):EBI-883046

Protein

rplI

PMID:15690043[9]

Experiment(s):EBI-883046

Protein

rplP

PMID:15690043[9]

Experiment(s):EBI-883046

Protein

rplS

PMID:15690043[9]

Experiment(s):EBI-883046

Protein

rplV

PMID:15690043[9]

Experiment(s):EBI-883046

Protein

rplX

PMID:15690043[9]

Experiment(s):EBI-883046

Protein

rpsC

PMID:15690043[9]

Experiment(s):EBI-883046

Protein

rpsJ

PMID:15690043[9]

Experiment(s):EBI-883046

Protein

rpsP

PMID:15690043[9]

Experiment(s):EBI-883046

Protein

ygcP

PMID:15690043[9]

Experiment(s):EBI-883046, EBI-891354

Protein

yjbH

PMID:15690043[9]

Experiment(s):EBI-883046

Protein

rplP

PMID:19402753[10]

LCMS(ID Probability):99.0

Protein

rpsD

PMID:19402753[10]

LCMS(ID Probability):99.0 MALDI(Z-score):17.053160

Protein

hupA

PMID:19402753[10]

LCMS(ID Probability):99.0 MALDI(Z-score):4.008937

Protein

malP

PMID:19402753[10]

MALDI(Z-score):27.382239

Protein

rplB

PMID:19402753[10]

LCMS(ID Probability):99.0 MALDI(Z-score):36.865190

Protein

nusG

PMID:19402753[10]

LCMS(ID Probability):99.0 MALDI(Z-score):34.911932

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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<protect> 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 

MKDLLKFLKA QTKTEEFDAI KIALASPDMI RSWSFGEVKK PETINYRTFK PERDGLFCAR
IFGPVKDYEC LCGKYKRLKH RGVICEKCGV EVTQTKVRRE RMGHIELASP TAHIWFLKSL
PSRIGLLLDM PLRDIERVLY FESYVVIEGG MTNLERQQIL TEEQYLDALE EFGDEFDAKM
GAEAIQALLK SMDLEQECEQ LREELNETNS ETKRKKLTKR IKLLEAFVQS GNKPEWMILT
VLPVLPPDLR PLVPLDGGRF ATSDLNDLYR RVINRNNRLK RLLDLAAPDI IVRNEKRMLQ
EAVDALLDNG RRGRAITGSN KRPLKSLADM IKGKQGRFRQ NLLGKRVDYS GRSVITVGPY
LRLHQCGLPK KMALELFKPF IYGKLELRGL ATTIKAAKKM VEREEAVVWD ILDEVIREHP
VLLNRAPTLH RLGIQAFEPV LIEGKAIQLH PLVCAAYNAD FDGDQMAVHV PLTLEAQLEA
RALMMSTNNI LSPANGEPII VPSQDVVLGL YYMTRDCVNA KGEGMVLTGP KEAERLYRSG
LASLHARVKV RITEYEKDAN GELVAKTSLK DTTVGRAILW MIVPKGLPYS IVNQALGKKA
ISKMLNTCYR ILGLKPTVIF ADQIMYTGFA YAARSGASVG IDDMVIPEKK HEIISEAEAE
VAEIQEQFQS GLVTAGERYN KVIDIWAAAN DRVSKAMMDN LQTETVINRD GQEEKQVSFN
SIYMMADSGA RGSAAQIRQL AGMRGLMAKP DGSIIETPIT ANFREGLNVL QYFISTHGAR
KGLADTALKT ANSGYLTRRL VDVAQDLVVT EDDCGTHEGI MMTPVIEGGD VKEPLRDRVL
GRVTAEDVLK PGTADILVPR NTLLHEQWCD LLEENSVDAV KVRSVVSCDT DFGVCAHCYG
RDLARGHIIN KGEAIGVIAA QSIGEPGTQL TMRTFHIGGA ASRAAAESSI QVKNKGSIKL
SNVKSVVNSS GKLVITSRNT ELKLIDEFGR TKESYKVPYG AVLAKGDGEQ VAGGETVANW
DPHTMPVITE VSGFVRFTDM IDGQTITRQT DELTGLSSLV VLDSAERTAG GKDLRPALKI
VDAQGNDVLI PGTDMPAQYF LPGKAIVQLE DGVQISSGDT LARIPQESGG TKDITGGLPR
VADLFEARRP KEPAILAEIS GIVSFGKETK GKRRLVITPV DGSDPYEEMI PKWRQLNVFE
GERVERGDVI SDGPEAPHDI LRLRGVHAVT RYIVNEVQDV YRLQGVKIND KHIEVIVRQM
LRKATIVNAG SSDFLEGEQV EYSRVKIANR ELEANGKVGA TYSRDLLGIT KASLATESFI
SAASFQETTR VLTEAAVAGK RDELRGLKEN VIVGRLIPAG TGYAYHQDRM RRRAAGEAPA
APQVTAEDAS ASLAELLNAG LGGSDNE
Length

1,407

Mol. Wt

155.163 kDa

pI

7.1 (calculated)

Extinction coefficient

100,160 - 102,035 (calc based on 34 Y, 9 W, and 15 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

14..342

PF04997 RNA polymerase Rpb1, domain 1

PMID:19920124[11]

Domain

344..486

PF00623 RNA polymerase Rpb1, domain 2

PMID:19920124[11]

Domain

489..644

PF04983 RNA polymerase Rpb1, domain 3

PMID:19920124[11]

Domain

673..764

PF05000 RNA polymerase Rpb1, domain 4

PMID:19920124[11]

Domain

766..1322

PF04998 RNA polymerase Rpb1, domain 5

PMID:19920124[11]

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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=rpoC taxon=562,83333 </beststructure>

Models

View models at:

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Structure figures

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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:16131818

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:948487

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0013043

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P0A8T7

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG10895

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10895

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:948487

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000886

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0888

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

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References

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See Help:References for how to manage references in EcoliWiki.

  1. ↑ 1.0 1.1 1.2 1.3 1.4 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
  2. ↑ 2.0 2.1 2.2 2.3 2.4 2.5 2.6 2.7 2.8 2.9 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. ↑ Arthur, TM et al. (2000) Mutational analysis of beta '260-309, a sigma 70 binding site located on Escherichia coli core RNA polymerase. J. Biol. Chem. 275 23113-9 PubMed
  6. ↑ Weerasekera, R et al. (2007) Interactome and interface protocol (2IP): a novel strategy for high sensitivity topology mapping of protein complexes. Proteomics 7 3835-52 PubMed
  7. ↑ 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
  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 8.13 8.14 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 Butland, G et al. (2005) Interaction network containing conserved and essential protein complexes in Escherichia coli. Nature 433 531-7 PubMed
  10. ↑ 10.0 10.1 10.2 10.3 10.4 10.5 Hu, P et al. (2009) Global functional atlas of Escherichia coli encompassing previously uncharacterized proteins. PLoS Biol. 7 e96 PubMed
  11. ↑ 11.0 11.1 11.2 11.3 11.4 Finn, RD et al. (2010) The Pfam protein families database. Nucleic Acids Res. 38 D211-22 PubMed

Categories

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