|
PEC Original Annotations
|
|
Essentiality
|
|
Class
|
essential
|
|
References (PMID)
|
Mol Gen Genet. 1983;189(2):193-8.
Intragenic localization of amber and temperature-sensitive rpoD mutations affecting RNA polymerase sigma factor of Escherichia coli.
Nakamura Y, Osawa T, Yura T.
(
6343786
)
|
|
|
Deletion
|
OCL34,35-3 (BK2-10 / AK1-10)
(D)
|
|
Related gene (W3110 PEC)
|
|
Gene Search
|
Search MG1655 PEC by gene name:
rpoD
|
|
Related strains
|
|
Strains Search
|
Search strains by gene name:
rpoD
Search strains by all related name:
rpoD alt b3067 ECK3057 JW3039
|
General information (Go to Linear View: )
|
|
Gene Name
|
rpoD
|
|
Alternative name
|
alt,b3067,ECK3057,JW3039
|
|
Location, Length
|
3,211,069 - 3,212,910
(
+
)
;
69.21
min
;
1842
(bp) ,
613
(aa)
|
|
Product
|
RNA polymerase, sigma 70 (sigma D) factor
|
|
Operon Name
|
rpsU-dnaG-rpoD
|
|
Note
|
RNA polymerase, sigma(70) factor; regulation of proteins induced at high temperatures; GO_component: GO:0005737 - cytoplasm; GO_process: GO:0006350 - transcription
|
|
Function
|
factor; Global regulatory functions
|
|
Gene Ontology
|
GO:0003677
;
DNA binding ( rpoD )
GO:0003700
;
transcription factor activity ( rpoD )
GO:0006350
;
transcription ( rpoD )
GO:0006352
;
transcription initiation ( rpoD )
GO:0006355
;
regulation of transcription, DNA-dependent ( rpoD )
GO:0016987
;
sigma factor activity ( rpoD )
GO:0030528
;
transcription regulator activity ( rpoD )
GO:0045449
;
regulation of transcription ( rpoD )
|
|
PID
|
1789448
|
EC number
(KEGG Pathway)
|
|
|
Verified Protein Starts
(data
compiled from literature and appropriate citations are available from EcoGene)
|
|
EcoGene
|
rpoD
(
EG10896
)
|
|
Number of removed
|
0 aa cleaved
|
|
SWISS-PROT
(
Show details
[
2
more]
)
|
Entry name(Acc.no)
|
RPOD_ECOLI
(
P00579
)
|
|
- Protein name
|
RNA polymerase sigma factor rpoD
|
|
- Synonyms
|
Sigma-70
|
|
- Gene name
|
Name=rpoD; Synonyms=alt; OrderedLocusNames=b3067;
|
|
Homology Analysis
|
|
BLAST
|
|
Bacteria
|
|
GTOP
|
rpoD
(
homologous genes of other bacterias
)
|
|
PDB
(database updated :
2007.02.20
)
|
|
PSI-BLAST
|
Chain , Crystal Structure Of A Sigma70 Subunit Fragment From Escherichia Coli Rna Polymerase
|
|
SWISS-PROT
(database updated :
2007.02.20
)
|
|
BLAST
|
RNA polymerase sigma factor rpoD
|
|
PSI-BLAST
|
Myosin-8
|
|
nr
(database updated :
2007.02.20
)
|
|
BLAST
|
RNA polymerase sigma factor [Escherichia coli K12]
|
|
Pfam 28.0
(database updated :
2015-05
)
|
|
Pfam
|
|
|
PROSITE
|
|
PROSITE
|
ASN_GLYCOSYLATION
CAMP_PHOSPHO_SITE
PKC_PHOSPHO_SITE
CK2_PHOSPHO_SITE
TYR_PHOSPHO_SITE
MYRISTYL
SIGMA70_1
SIGMA70_2
|
|
MMBR References
|
J Mol Biol. 1989;206(4):579-90.
A mutant Escherichia coli sigma 70 subunit of RNA polymerase with altered promoter specificity.
Gardella T, Moyle H, Susskind MM.
(
2661827
)
|
Proc Natl Acad Sci U S A. 1979;76:5789-5793
Isolation and characterization of transducing phage coding for a subunit of Escherichia coli RNA polymerase.
Gross, C. A., F. R. Blattner, W. E. Taylor, P. A. Lowe, and R. R. Burgess.
|
Mol Gen Genet. 1995;248(1):1-8.
Mutational analysis of the role of the first helix of region 4.2 of the sigma 70 subunit of Escherichia coli RNA polymerase in transcriptional activation by activator protein PhoB.
Kim SK, Makino K, Amemura M, Nakata A, Shinagawa H.
(
7651320
)
|
Mol Gen Genet. 1980;177(2):277-82.
A new mutation rpoD800, affecting the sigma subunit of E. coli RNA polymerase is allelic to two other sigma mutants.
Liebke H, Gross C, Walter W, Burgess R.
(
6988671
)
|
Mol Gen Genet. 1984;195(3):391-401.
Promotion, termination, and anti-termination in the rpsU-dnaG-rpoD macromolecular synthesis operon of E. coli K-12.
Lupski JR, Ruiz AA, Godson GN.
(
6206376
)
|
Mol Gen Genet. 1983;189(1):48-57.
Regulation of the rpsU-dnaG-rpoD macromolecular synthesis operon and the initiation of DNA replication in Escherichia coli K-12.
Lupski JR, Smiley BL, Godson GN.
(
6222240
)
|
Mol Gen Genet. 1980;178(3):487-97.
Hybrid plasmid carrying Escherichia coli genes for the primase (dnaG) and RNA polymerase sigma factor (rpoD); gene organization and control of their expression.
Nakamura Y.
(
6993850
)
|
Proc Natl Acad Sci U S A. 1979;76:4593-4597
Sigma subunit of Escherichia coli RNA polymerase affects the function of lambda N gene.
Nakamura, Y., T. Kurihara, H. Saito, and H. Uchida.
|
J Mol Biol. 1989;206(4):591-603.
Altered promoter recognition by mutant forms of the sigma 70 subunit of Escherichia coli RNA polymerase.
Siegele DA, Hu JC, Walter WA, Gross CA.
(
2661828
)
|
Mol Gen Genet. 1972;118(3):223-34.
ALT: a new factor involved in the synthesis of RNA by Escherichia coli.
Silverstone AE, Goman M, Scaife JG.
(
4343249
)
|
Cell. 1984;38(2):371-81.
Transcription from a heat-inducible promoter causes heat shock regulation of the sigma subunit of E. coli RNA polymerase.
Taylor WE, Straus DB, Grossman AD, Burton ZF, Gross CA, Burgess RR.
(
6380764
)
|
Mol Gen Genet. 1979;175(3):251-7.
Altered chemical properties in three mutants of E. coli RNA polymerase sigma subunit.
Burgess RR, Gross CA, Walter W, Lowe PA.
(
392226
)
|
Cell. 1983;32(2):335-49.
The operon that encodes the sigma subunit of RNA polymerase also encodes ribosomal protein S21 and DNA primase in E. coli K12.
Burton ZF, Gross CA, Watanabe KK, Burgess RR.
(
6186393
)
|
Nucleic Acids Res. 1981;9:2889-2903
The nucleotide sequence of the cloned rpoD gene for the RNA polymerase sigma subunit from E. coli K12.
Burton, Z. F., R. R. Burgess, J. Lin, D. Moore, S. Holder, and C. A. Gross.
|
| Sequences |
Amino acid
FASTA format
|
0001 MEQNPQSQLK LLVTRGKEQG YLTYAEVNDH LPEDIVDSDQ IEDIIQMIND MGIQVMEEAP DADDLMLAEN
0071 TADEDAAEAA AQVLSSVESE IGRTTDPVRM YMREMGTVEL LTREGEIDIA KRIEDGINQV QCSVAEYPEA
0141 ITYLLEQYDR VEAEEARLSD LITGFVDPNA EEDLAPTATH VGSELSQEDL DDDEDEDEED GDDDSADDDN
0211 SIDPELAREK FAELRAQYVV TRDTIKAKGR SHATAQEEIL KLSEVFKQFR LVPKQFDYLV NSMRVMMDRV
0281 RTQERLIMKL CVEQCKMPKK NFITLFTGNE TSDTWFNAAI AMNKPWSEKL HDVSEEVHRA LQKLQQIEEE
0351 TGLTIEQVKD INRRMSIGEA KARRAKKEMV EANLRLVISI AKKYTNRGLQ FLDLIQEGNI GLMKAVDKFE
0421 YRRGYKFSTY ATWWIRQAIT RSIADQARTI RIPVHMIETI NKLNRISRQM LQEMGREPTP EELAERMLMP
0491 EDKIRKVLKI AKEPISMETP IGDDEDSHLG DFIEDTTLEL PLDSATTESL RAATHDVLAG LTAREAKVLR
0561 MRFGIDMNTD YTLEEVGKQF DVTRERIRQI EAKALRKLRH PSRSEVLRSF LDD
|
Nucleotide
FASTA format
View sequence out neighbor 100bp
|
-100 GTTGGCGGTA AACAACCGTT GGATTTCAGC
-070 GTTAACGGCT GAAGGACATC GGGTCAATCG CCCAACACCA ACCTCATGAA ATAAGTGTGG ATACCGTCTT
0001 atggagcaaa acccgcagtc acagctgaaa cttcttgtca cccgtggtaa ggagcaaggc tatctgacct
0071 atgccgaggt caatgaccat ctgccggaag atatcgtcga ttcagatcag atcgaagaca tcatccaaat
0141 gatcaacgac atgggcattc aggtgatgga agaagcaccg gatgccgatg atctgatgct ggctgaaaac
0211 accgcggacg aagatgctgc cgaagccgcc gcgcaggtgc tttccagcgt ggaatctgaa atcgggcgca
0281 cgactgaccc ggtacgcatg tacatgcgtg aaatgggcac cgttgaactg ttgacccgcg aaggcgaaat
0351 tgacatcgct aagcgtattg aagacgggat caaccaggtt caatgctccg ttgctgaata tccggaagcg
0421 atcacctatc tgctggaaca gtacgatcgt gttgaagcag aagaagcgcg tctgtccgat ctgatcaccg
0491 gctttgttga cccgaacgca gaagaagatc tggcacctac cgccactcac gtcggttctg agctttccca
0561 ggaagatctg gacgatgacg aagatgaaga cgaagaagat ggcgatgacg acagcgccga tgatgacaac
0631 agcatcgacc cggaactggc tcgcgaaaaa tttgcggaac tacgcgctca gtacgttgta acgcgtgaca
0701 ccatcaaagc gaaaggtcgc agtcacgcta ccgctcagga agagatcctg aaactgtctg aagtattcaa
0771 acagttccgc ctggtgccga agcagtttga ctacctggtc aacagcatgc gcgtcatgat ggaccgcgtt
0841 cgtacgcaag aacgtctgat catgaagctc tgcgttgagc agtgcaaaat gccgaagaaa aacttcatta
0911 ccctgtttac cggcaacgaa accagcgata cctggttcaa cgcggcaatt gcgatgaaca agccgtggtc
0981 ggaaaaactg cacgatgtct ctgaagaagt gcatcgcgcc ctgcaaaaac tgcagcagat tgaagaagaa
1051 accggcctga ccatcgagca ggttaaagat atcaaccgtc gtatgtccat cggtgaagcg aaagcccgcc
1121 gtgcgaagaa agagatggtt gaagcgaact tacgtctggt tatttctatc gctaagaaat acaccaaccg
1191 tggcttgcag ttccttgacc tgattcagga aggcaacatc ggtctgatga aagcggttga taaattcgaa
1261 taccgccgtg gttacaagtt ctccacctac gcaacctggt ggatccgtca ggcgatcacc cgctctatcg
1331 cggatcaggc gcgcaccatc cgtattccgg tgcatatgat tgagaccatc aacaagctca accgtatttc
1401 tcgccagatg ctgcaagaga tgggccgtga accgacgccg gaagaactgg ctgaacgtat gctgatgccg
1471 gaagacaaga tccgcaaagt gctgaagatc gccaaagagc caatctccat ggaaacgccg atcggtgatg
1541 atgaagattc gcatctgggg gatttcatcg aggataccac cctcgagctg ccgctggatt ctgcgaccac
1611 cgaaagcctg cgtgcggcaa cgcacgacgt gctggctggc ctgaccgcgc gtgaagcaaa agttctgcgt
1681 atgcgtttcg gtatcgatat gaacaccgac tacacgctgg aagaagtggg taaacagttc gacgttaccc
1751 gcgaacgtat ccgtcagatc gaagcgaagg cgctgcgcaa actgcgtcac ccgagccgtt ctgaagtgct
1821 gcgtagcttc ctggacgatt aaTCGGTAGG CCGGATCAGG CGTTACGCCG CACCCGGCAC TAGGCCCTCT
1891 GCACAAACGC CACCTTTTCG GTGGCGTTTT TTATCGCCCA CGCACTACCA GC
|
