rpoC:On One Page

From EcoliWiki
Jump to: navigation, search

{{#css:Suppresslinks.css}}<css>h1 .editsection { display:none;} h2 .editsection { display:none;}</css>

Quickview   Gene   Gene Product(s)   Expression   Evolution   On One Page    
Quickview | Gene | Product(s) | Expression| Evolution | References |

Quickview

[back to top]


{{#css:Suppresslinks.css}}<css>h1 .editsection { display:none;} h2 .editsection { display:none;}</css>

<protect>

Standard Name

rpoC

Gene Synonym(s)

ECK3979, b3988, JW3951, tabD, tabB[1], tabB

Product Desc.

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]

Product Synonyms(s)

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

Function from GO

<GO_nr />

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): rplKAJL-rpoBC[2], rpoBC[2], rplJL-rpoBC[2]

Regulation/Activity
Quick Links

porteco.png EcoCyc.gif regulondb.jpg

dnadisplay.png proteindisplay.png   pubmed.jpg   textpresso.jpg  

edit table

</protect> See Help:Quickview for help with entering information in the Quickview table. <protect></protect>

Notes

[back to top]


HT_Cmplx11_Mem: RpoA+RpoB+RpoC. HT_Cmplx2_Cyt: RpoA+RpoB+RpoC.[4]



Gene

[back to top]


{{#css:Suppresslinks.css}}<css>h1 .editsection { display:none;} h2 .editsection { display:none;}</css> <protect>

Nomenclature

[back to top]


See Help:Gene_nomenclature for help with entering information in the Gene Nomenclature table.

Standard name

rpoC

Mnemonic

RNA polymerase

Synonyms

ECK3979, b3988, JW3951, tabD, tabB[1], tabB

edit table

</protect>

Notes

Location(s) and DNA Sequence

[back to top]


<protect> See Help:Gene_location for help entering information in the Gene Location and DNA sequence table.

Strain Map location Genome coordinates Genome browsers Sequence links

MG1655

90.17 minutes 

MG1655: 4183373..4187596
<gbrowseImage> name=NC_000913:4183373..4187596 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 4164961..4169184
<gbrowseImage> name=NC_012967:4164961..4169184 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 4073053..4077276
<gbrowseImage> name=NC_012759:4073053..4077276 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 3451331..3447108
<gbrowseImage> name=NC_007779:3447108..3451331 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 4283069..4287292
<gbrowseImage> name=NC_010473:4283069..4287292 source=DH10B preset=GeneLocation </gbrowseImage>

edit table

</protect>

Notes

Sequence Features

[back to top]


See Help:Gene_sequence_features for help in entering sequence features in EcoliWiki.

Feature Type Strain Genomic Location Evidence Reference Notes

Coding Start (SO:0000323)

MG1655

4183373

Edman degradation

PMID:1095419
PMID:6266829
PMID:6287430


edit table

<protect></protect>

Notes

Alleles and Phenotypes

[back to top]


See Help:Gene_alleles for how to enter or edit alleles and phenotypes in EcoliWiki.

Allele Nt change(s) AA change(s) Phenotype: Type Phenotype: Description Reference Availability Comments

rpoC110(ts)

Growth Phenotype

temperature sensitive

CGSC:9746

rpoCE925A

Glu 925 substituted with Ala

None

PMID:18272182

mutation in predicted ppGpp binding pocket doesn't affect response to ppGpp in vitro (Fig. 2)

rpoC4(ts)

Growth Phenotype

temperature sensitive

CGSC:9754

rpoC397

16 bp deletion that produces a frameshift and truncation of the protein

Growth Phenotype

temperature-sensitive for growth at 43.5C

PMID:8955324

rpoC397

16 bp deletion that produces a frameshift and truncation of the protein

Resistant to

blocks growth of phage P2 at 33C

PMID:8955324


edit table

<protect></protect>

Notes

Genetic Interactions

[back to top]


<protect>

Interactor Interaction Allele Score(s) Reference(s) Accessions Notes
edit table

</protect>

Notes

Genetic Resources

[back to top]


See Help:Gene_resources for help entering information into the Genetic Resources table.

Resource Resource Type Source Notes/Reference

JW3951

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:gccAAAGATTTATTAAAGTTTCTGAAAGCGCAGAC

Primer 2:ccCTCGTTATCAGAACCGCCCAGACCTGCGTTCAG

7B7

Kohara Phage

Genobase

PMID:3038334

argE86::Tn10

Linked marker

CAG12185 = CGSC7471[5]

est. P1 cotransduction: 30% [6]

thiC39::Tn10

Linked marker

CAG18500 = CGSC7472[5]

est. P1 cotransduction: 69% [6]
Synonyms:thi-39::Tn10

edit table

<protect></protect>

Notes

Accessions in Other Databases

[back to top]


See Help:Gene_accessions for help with entering information into the Gene Accessions table.

Database Accession Notes

EcoCyc

EcoCyc:EG10895

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10895

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000886

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:948487

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0888

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0013043

Escherichia coli str. K-12 substr. MG1655

edit table

<protect></protect>

Notes

Links

[back to top]



Product(s)

[back to top]


{{#css:Suppresslinks.css}}<css>h1 .editsection { display:none;} h2 .editsection { display:none;}</css>

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)
edit table

<protect></protect>

Notes

Function

[back to top]


<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

IPI: Inferred from Physical Interaction

UniProtKB:P00579

F

Seeded from EcoCyc (v14.0)

complete

GO:0005515

protein binding

PMID:17960736

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

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

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

sdhA

PMID:16606699

Experiment(s):EBI-1147184

Protein

ycgE

PMID:16606699

Experiment(s):EBI-1147184

Protein

ftsK

PMID:16606699

Experiment(s):EBI-1147184

Protein

rhsD

PMID:16606699

Experiment(s):EBI-1147184

Protein

yagS

PMID:16606699

Experiment(s):EBI-1147184

Protein

lon

PMID:16606699

Experiment(s):EBI-1147184

Protein

dnaK

PMID:16606699

Experiment(s):EBI-1147184

Protein

metH

PMID:16606699

Experiment(s):EBI-1147184

Protein

priA

PMID:16606699

Experiment(s):EBI-1147184

Protein

rpoA

PMID:16606699

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

Protein

ydfE

PMID:16606699

Experiment(s):EBI-1147184

Protein

htpG

PMID:16606699

Experiment(s):EBI-1147184

Protein

rplB

PMID:16606699

Experiment(s):EBI-1147184

Protein

rpsA

PMID:16606699

Experiment(s):EBI-1147184

Protein

clpB

PMID:16606699

Experiment(s):EBI-1147184

Protein

malP

PMID:15690043

Experiment(s):EBI-879261

Protein

rplB

PMID:15690043

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

Protein

rplC

PMID:15690043

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

Protein

rplM

PMID:15690043

Experiment(s):EBI-879261

Protein

rplO

PMID:15690043

Experiment(s):EBI-879261

Protein

rplQ

PMID:15690043

Experiment(s):EBI-879261

Protein

rpoA

PMID:15690043

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

Protein

rpoB

PMID:15690043

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

Protein

rpsD

PMID:15690043

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

Protein

rpsE

PMID:15690043

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

Protein

rpsG

PMID:15690043

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

Protein

rpsM

PMID:15690043

Experiment(s):EBI-879261

Protein

ylbH

PMID:15690043

Experiment(s):EBI-883046

Protein

yfdV

PMID:15690043

Experiment(s):EBI-883046

Protein

cysQ

PMID:15690043

Experiment(s):EBI-883046

Protein

flxA

PMID:15690043

Experiment(s):EBI-883046

Protein

focA

PMID:15690043

Experiment(s):EBI-883046

Protein

hemC

PMID:15690043

Experiment(s):EBI-883046

Protein

hupA

PMID:15690043

Experiment(s):EBI-883046

Protein

rplI

PMID:15690043

Experiment(s):EBI-883046

Protein

rplP

PMID:15690043

Experiment(s):EBI-883046

Protein

rplS

PMID:15690043

Experiment(s):EBI-883046

Protein

rplV

PMID:15690043

Experiment(s):EBI-883046

Protein

rplX

PMID:15690043

Experiment(s):EBI-883046

Protein

rpsC

PMID:15690043

Experiment(s):EBI-883046

Protein

rpsJ

PMID:15690043

Experiment(s):EBI-883046

Protein

rpsP

PMID:15690043

Experiment(s):EBI-883046

Protein

ygcP

PMID:15690043

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

Protein

yjbH

PMID:15690043

Experiment(s):EBI-883046

Protein

rplP

PMID:19402753

LCMS(ID Probability):99.0

Protein

rpsD

PMID:19402753

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

Protein

hupA

PMID:19402753

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

Protein

malP

PMID:19402753

MALDI(Z-score):27.382239

Protein

rplB

PMID:19402753

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

Protein

nusG

PMID:19402753

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


edit table

</protect>

Notes

Localization

See Help:Product_localization for how to add or edit information in this section of EcoliWiki.

Compartment Description Evidence Reference/Source Notes
edit table

<protect></protect>

Notes

Structure and Physical Properties

[back to top]


<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)

edit table


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

Domain

344..486

PF00623 RNA polymerase Rpb1, domain 2

PMID:19920124

Domain

489..644

PF04983 RNA polymerase Rpb1, domain 3

PMID:19920124

Domain

673..764

PF05000 RNA polymerase Rpb1, domain 4

PMID:19920124

Domain

766..1322

PF04998 RNA polymerase Rpb1, domain 5

PMID:19920124

edit table

<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:

edit table
</protect>

Structure figures

<protect>

</protect>

Notes

Gene Product Resources

[back to top]


See Help:Product_resources for help with entering or editing information in this section of EcoliWiki.

Resource type Source Notes/Reference
edit table

<protect></protect>

Notes

Accessions in Other Databases

[back to top]


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

edit table

<protect></protect>

Notes

Links

[back to top]




Expression

[back to top]


{{#css:Suppresslinks.css}}<css>h1 .editsection { display:none;} h2 .editsection { display:none;}</css>

Overview

This is a placeholder for a summary statement on how expression of this gene product is regulated. You can help EcoliWiki by becoming a user and writing/editing this statement.


Cellular Levels

[back to top]


See Help:Cellular levels

Molecule Organism or Strain Value Units Experimental Conditions Assay used Notes Reference(s)

Protein

E. coli K-12 MC4100

4.18E+03

molecules/cell

  • Medium: median data from rich and minimal media
  • Temperature (°C): 37
  • Doubling time (min): Growth Rate(min):
  • Growth phase: other:

emPAI

PMID:18304323

Protein

E. coli K-12 MG1655

17553

molecules/cell/generation

  • Medium: MOPS Complete
  • Temperature (°C): 37
  • Doubling time (min):
  • *Growth phase:
  • OD:
  • other:

Ribosome Profiling

PMID: 24766808

Protein

E. coli K-12 MG1655

3715

molecules/cell/generation

  • Medium: MOPS Minimal
  • Temperature (°C): 37
  • Doubling time (min):
  • *Growth phase:
  • OD:
  • other:

Ribosome Profiling

PMID: 24766808

Protein

E. coli K-12 MG1655

10380

molecules/cell/generation

  • Medium: MOPS Complete without Methionine
  • Temperature (°C): 37
  • Doubling time (min):
  • *Growth phase:
  • OD:
  • other:

Ribosome Profiling

PMID: 24766808

edit table

Notes

Transcription and Transcriptional Regulation

[back to top]


<protect>

See Help:Expression_transcription for help entering or editing information in this section of EcoliWiki.

Transcription unit(s)

rplKAJL-rpoBC

rpoBC

rplJL-rpoBC

edit table
Figure courtesy of RegulonDB

</protect>

Notes

This is a placeholder for a summary statement about how transcription of this gene is regulated. You can help EcoliWiki by becoming a user and writing/editing this statement.

Translation and Regulation of Translation

[back to top]


<protect><gbrowseImage> name=NC_000913:4183353..4183393 source=MG1655 type=Gene+DNA_+Protein preset=Nterminus </gbrowseImage> This picture shows the sequence around the N-terminus.

</protect>

Notes

This is a placeholder for a summary statement about how translation of this gene product is regulated. You can help EcoliWiki by becoming a user and writing/editing this statement.

Turnover and Regulation of Turnover

</protect>

Notes

This is a placeholder for a summary statement about turnover of this gene product. You can help EcoliWiki by becoming a user and writing/editing this statement.

Experimental

[back to top]


<protect> Mutations Affecting Expression See Help:Expression_mutations for help entering or editing information in this section of EcoliWiki.

Allele Name Mutation Phenotype Reference
edit table


Expression Studies See Help:Expression_studies for help entering or editing information in this section of EcoliWiki.

Type Reference Notes

microarray

GEO Profiles:b3988 (EcoliWiki Page)

NCBI GEO profiles for rpoC

microarray

GenExpDB:b3988 (EcoliWiki Page)

Summary of data for rpoC from multiple microarray studies

edit table


Expression Resources See Help:Expression_resources for help entering or editing information in this section of EcoliWiki.

Resource Name Resource Type Description Source Notes
edit table

<protect></protect>

Notes

Accessions Related to rpoC Expression

[back to top]


See Help:Gene_accessions for help with entering information into the Gene Accessions table.

Database Accession Notes

EcoCyc

EcoCyc:EG10895

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0888

Escherichia coli str. K-12 substr. MG1655

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b3988

EcoGene

EcoGene:EG10895

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000886

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0013043

Escherichia coli str. K-12 substr. MG1655

edit table

<protect></protect>

Notes

Links

[back to top]



Evolution

[back to top]


{{#css:Suppresslinks.css}}<css>h1 .editsection { display:none;} h2 .editsection { display:none;}</css>

Homologs in Other Organisms

[back to top]


See Help:Evolution_homologs for help entering or editing information in this section of EcoliWiki.

Organism Homologs (Statistics) Comments

Anopheles gambiae

  • ENSANGP00000010305 (score: 1.000; bootstrap: 96%)
  • ENSANGP00000017502 (score: 0.117)
  • ENSANGP00000008667 (score: 0.060)

From Inparanoid:20070104

Apis mellifera

  • ENSAPMP00000028140 (score: 1.000; bootstrap: 100%)
  • ENSAPMP00000006261 (score: 0.180)
  • ENSAPMP00000025187 (score: 0.098)

From Inparanoid:20070104

Arabidopsis thaliana

  • AT4G35800 (score: 1.000; bootstrap: 100%)
  • AT5G60040 (score: 0.119)
  • AT3G57660 (score: 0.079)

From Inparanoid:20070104

Bos taurus

  • ENSBTAP00000013100 (score: 1.000; bootstrap: 100%)
  • ENSBTAP00000017638 (score: 0.114)
  • ENSBTAP00000008496 (score: 0.056)

From Inparanoid:20070104

Caenorhabditis briggsae

  • WBGene00027817 (score: 1.000; bootstrap: 100%)
  • WBGene00028171 (score: 0.132)
  • WBGene00039661 (score: 0.080)

From Inparanoid:20070104

Caenorhabditis elegans

  • WBGene00000123 (score: 1.000; bootstrap: 100%)
  • WBGene00004411 (score: 0.132)
  • WBGene00012999 (score: 0.077)

From Inparanoid:20070104

Canis familiaris

  • ENSCAFP00000024423 (score: 1.000; bootstrap: 100%)
  • ENSCAFP00000022912 (score: 0.118)
  • ENSCAFP00000011333 (score: 0.071)

From Inparanoid:20070104

Ciona intestinalis

  • ENSCINP00000016160 (score: 1.000; bootstrap: 100%)
  • ENSCINP00000018127 (score: 0.126)
  • ENSCINP00000015751 (score: 0.064)

From Inparanoid:20070104

Dictyostelium discoideum

  • DDB0215406 (score: 1.000; bootstrap: 100%)
  • DDB0216293 (score: 0.156)
  • DDB0216292 (score: 0.103)

From Inparanoid:20070104

Drosophila melanogaster

  • FBgn0003277 (score: 1.000; bootstrap: 100%)
  • FBgn0019938 (score: 0.084)
  • FBgn0030687 (score: 0.080)

From Inparanoid:20070104

Drosophila pseudoobscura

  • GA13798-PA (score: 1.000; bootstrap: 100%)
  • GA10089-PA (score: 0.078)

From Inparanoid:20070104

Gallus gallus

  • ENSGALP00000007915 (score: 1.000; bootstrap: 100%)
  • ENSGALP00000025378 (score: 0.087)

From Inparanoid:20070104

Homo sapiens

  • ENSP00000314949 (score: 1.000; bootstrap: 100%)
  • ENSP00000277783 (score: 0.121)
  • ENSP00000263857 (score: 0.055)

From Inparanoid:20070104

Macaca mulatta

  • ENSMMUP00000007294 (score: 1.000; bootstrap: 100%)
  • ENSMMUP00000031094 (score: 0.118)
  • ENSMMUP00000020791 (score: 0.100)

From Inparanoid:20070104

Monodelphis domestica

  • ENSMODP00000008691 (score: 1.000; bootstrap: 100%)
  • ENSMODP00000001232 (score: 0.132)
  • ENSMODP00000011668 (score: 0.072)

From Inparanoid:20070104

Mus musculus

  • MGI:98086 (score: 1.000; bootstrap: 100%)
  • MGI:1096397 (score: 0.064)

From Inparanoid:20070104

Oryza gramene

  • P16024 (score: 1.000; bootstrap: 99%)
  • Q9XPS8 (score: 1.000; bootstrap: 99%)
  • Q6L3A6 (score: 0.992)
  • Q6ENX2 (score: 0.992)
  • Q6QY82 (score: 0.937)
  • Q6QY19 (score: 0.937)
  • P12092 (score: 0.937)
  • Q6ENI3 (score: 0.937)
  • Q8S1Q5 (score: 0.937)
  • Q6Z1U9 (score: 0.936)

From Inparanoid:20070104

Pan troglodytes

  • ENSPTRP00000014817 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Rattus norvegicus

  • ENSRNOP00000046047 (score: 1.000; bootstrap: 100%)
  • ENSRNOP00000013587 (score: 0.065)

From Inparanoid:20070104

Saccharomyces cerevisiae

  • YDL140C (score: 1.000; bootstrap: 100%)
  • YOR116C (score: 0.135)
  • YOR341W (score: 0.077)

From Inparanoid:20070104

Schizosaccharomyces pombe

  • SPBC28F22 (score: 1.000; bootstrap: 100%)
  • SPBC6518c (score: 0.130)
  • SPBC4C35c (score: 0.086)

From Inparanoid:20070104

Takifugu rubripes

  • NEWSINFRUP00000158879 (score: 1.000; bootstrap: 100%)
  • NEWSINFRUP00000174091 (score: 0.136)
  • NEWSINFRUP00000157438 (score: 0.076)

From Inparanoid:20070104

Tetraodon nigroviridis

  • GSTENP00019215001 (score: 1.000; bootstrap: 100%)
  • GSTENP00024646001 (score: 0.117)

From Inparanoid:20070104

Xenopus tropicalis

  • ENSXETP00000009649 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Shigella flexneri

RPOC

From SHIGELLACYC

E. coli O157

RPOC

From ECOO157CYC

edit table


Do-It-Yourself Web Tools

<protect></protect>

Notes

Families

[back to top]


See Help:Gene_accessions for help with entering information into the Gene Accessions table.

Database Accession Notes

Pfam (EcoliWiki Page)

PF04998 RNA polymerase Rpb1, domain 5

Pfam (EcoliWiki Page)

PF04983 RNA polymerase Rpb1, domain 3

Pfam (EcoliWiki Page)

PF05000 RNA polymerase Rpb1, domain 4

Pfam (EcoliWiki Page)

PF04997 RNA polymerase Rpb1, domain 1

Pfam (EcoliWiki Page)

PF00623 RNA polymerase Rpb1, domain 2

Panther (EcoliWiki Page)

PTHR19376:SF4

Superfamily (EcoliWiki Page)

SUPERFAMILY:64484

EcoCyc

EcoCyc:EG10895

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10895

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

ASAP

ASAP:ABE-0013043

Escherichia coli str. K-12 substr. MG1655

edit table

<protect></protect>

Notes

Links

[back to top]



References

[back to top]


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

  1. ↑ 1.00 1.01 1.02 1.03 1.04 1.05 1.06 1.07 1.08 1.09 1.10 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 2.12 2.13 2.14 2.15 2.16 2.17 2.18 2.19 2.20 2.21 2.22 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  3. ↑ 3.00 3.01 3.02 3.03 3.04 3.05 3.06 3.07 3.08 3.09 3.10 3.11 3.12 3.13 3.14 3.15 3.16 3.17 EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  4. ↑ 4.0 4.1 4.2 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 CGSC: The Coli Genetics Stock Center
  6. ↑ 6.0 6.1 The Tn10 insertion sites determined by Nichols et al. 1998 (PMID:9829956) were reannotated by alignment with E. coli K-12 genome sequence (GenBank accession NC_000913). P1 contransduction frequencies were calculated using the formula of Wu (PMID:5338813).

Categories

[back to top]


Retrieved from "https://ecoliwiki.org/colipedia/index.php?title=rpoC:On_One_Page&oldid=222378"