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The map label for this gene is rpoD [H]

Identifier: 58617062

GI number: 58617062

Start: 554267

End: 556135

Strand: Reverse

Name: rpoD [H]

Synonym: ERGA_CDS_03350

Alternate gene names: 58617062

Gene position: 556135-554267 (Counterclockwise)

Preceding gene: 58617063

Following gene: 58617059

Centisome position: 37.08

GC content: 32.58

Gene sequence:

>1869_bases
ATGAAAGATCTACAGACAGATAAGGAGCTAATAAGAACCCTTGTTAGTAAAGGGATAAAGCAAGGCTTTGTTACATTTAA
TGACATTAATGATGTTTTTTCTGATTATGTATTATCCGCTGATAATATAGATGAAACAATTTCACTGCTTCAAGACTCAG
GTATCAACGTACTTGAACAGAGTGATGAAGATGAAGCTAGTAGTATAGTAGAAAGTGGCAGACTCAAAGATGGTATTGAC
GATGATGATGTCTCAGATACAAGTATAAAATCTTGGGATTTTGGGCAAACAGATGATCCTATACGTATGTATTTATGTGA
AATGAGCTCAGTTGAATTATTATCTCGTGAAGGAGAAATTGAAATTGCAAAGAAAATAAAATCAGAAAAAGTTAATATGC
TTAGGTCGTTAGTAGAATCACCAATGGTATTACGCACATTTATGTCATGGAGAGACGACTTAGTAAATGAACAAATAATG
TTAAGGGATTTAATAGATTTAGATGCAAATTATCGTTATGAATTTCCTGAAAAATTCTCTGACGTTGATGATGAGAGTGT
TTTAGATTATGATAAAGATTTAATGGACGAAGATGATACCGATGATATCTCAGATGATGATGATGACGATGATAATACTT
CAATAAATGCTTCAATCCTTGAAATGGAAAGTGCATTACTCCCTAAAGTAGTAAGTATTTTAGATGCAGTAATTGAATCA
GCAGAAAAGATTCTGGAGCTTAAGAAGCAACATAAAGGAAAGTTGACTAAAGATATTGAAAAACAATATAATGACTTACA
TGATAATATATGGGAAATGATATATCAGATTAAACTCAGTAATTCTGCAGTATTGTCAATTACACAACAAATTTACAGTC
TGAATAAATCAATTGCAGCAGAAGAAGCAAAAATTATTTCCCTCGCAGAAAGTTATGGTATACCACGTAAAGAATTCCTC
GATGCATATAATACTAATTCTGTACTAGAAAAAAAAGGTACATCTCCTGCATGGAATAATATGATAGAAAAAGAAGAAAC
TAACATAGTTAGTATGTATAATAAAATAAAATTACTTTCTGGAGAAAATAGTTTAGCCGAATTTAAATCTTTAGTAACAA
AAATACAAAAGCATGAACGTGCAGCAACCCAAGCAAAACAAGAGATGATAAAAGCAAATCTAAGATTAGTAGTATCTATC
GCAAAAAAGTATTCAAACAGAGGGTTGCAATTTCTTGATTTAGTACAAGAAGGAAATATTGGTTTAATGAAAGCAGTAGA
TAAATTTGATTATAAACGTGGATATAAGTTCTCAACTTATGCAACATGGTGGGTCAGACAAGCTATAACCAGAGCAATAG
CAGATCAAGCAAGAACTATCAGAATTCCAGTACATATGATTGAAACTGTGAATAAAATTAACCGTACTCTAAGACAAATG
CTACATGAAATTGGCAGAGAACCTACTTTAGAAGAACTGTCAGCAAGATTAAACATCAACGTAGATAAGATACGTAAAGT
TATGAAAATAGTCAAGGACCCGGTTAGCTTAGAAAGTCCTATAGGGGATGATGATAGTAGTACATTTGGTGATTGCATTG
AAGATAAACGAGCAGTAAGACCAGAAGATGCAGCAGTACTTGCAGATTTACGGGAAATTACTACAAAAGTATTATCAACA
TTAACTCCAAAAGAAGAAAGAATATTGCGTATGCGGTTTGGTATAGGCAAAGGTGGAAAAGATCACACTCTTGAAGAAGT
AGGTAAATTATTCAATGTAACAAGAGAACGTATAAGGCAGATTGAAGCAAAGGCTTTACGTAAATTACGCCATCCAAGCC
GTGCAAGAAAATTACGAGGGTTTTTTTAA

Upstream 100 bases:

>100_bases
AAATTATGATATTATGTATGCCCTCTTATTACGTTTTATAATTGACAATATATTTATAGTATGGTACTTGGTGAGATTTG
TCATTCCTTAAACATTAATT

Downstream 100 bases:

>100_bases
ATAAAGTTCTTTATTGTAACAAAACAATATAAATAATGAATAATTGAACTAGGCATATAGTAGTTACACTCGATAAGGGA
AGCTTTTATAAACATACTCA

Product: RNA polymerase sigma factor rpoD

Products: NA

Alternate protein names: Sigma-A; Major vegetative sigma factor [H]

Number of amino acids: Translated: 622; Mature: 622

Protein sequence:

>622_residues
MKDLQTDKELIRTLVSKGIKQGFVTFNDINDVFSDYVLSADNIDETISLLQDSGINVLEQSDEDEASSIVESGRLKDGID
DDDVSDTSIKSWDFGQTDDPIRMYLCEMSSVELLSREGEIEIAKKIKSEKVNMLRSLVESPMVLRTFMSWRDDLVNEQIM
LRDLIDLDANYRYEFPEKFSDVDDESVLDYDKDLMDEDDTDDISDDDDDDDNTSINASILEMESALLPKVVSILDAVIES
AEKILELKKQHKGKLTKDIEKQYNDLHDNIWEMIYQIKLSNSAVLSITQQIYSLNKSIAAEEAKIISLAESYGIPRKEFL
DAYNTNSVLEKKGTSPAWNNMIEKEETNIVSMYNKIKLLSGENSLAEFKSLVTKIQKHERAATQAKQEMIKANLRLVVSI
AKKYSNRGLQFLDLVQEGNIGLMKAVDKFDYKRGYKFSTYATWWVRQAITRAIADQARTIRIPVHMIETVNKINRTLRQM
LHEIGREPTLEELSARLNINVDKIRKVMKIVKDPVSLESPIGDDDSSTFGDCIEDKRAVRPEDAAVLADLREITTKVLST
LTPKEERILRMRFGIGKGGKDHTLEEVGKLFNVTRERIRQIEAKALRKLRHPSRARKLRGFF

Sequences:

>Translated_622_residues
MKDLQTDKELIRTLVSKGIKQGFVTFNDINDVFSDYVLSADNIDETISLLQDSGINVLEQSDEDEASSIVESGRLKDGID
DDDVSDTSIKSWDFGQTDDPIRMYLCEMSSVELLSREGEIEIAKKIKSEKVNMLRSLVESPMVLRTFMSWRDDLVNEQIM
LRDLIDLDANYRYEFPEKFSDVDDESVLDYDKDLMDEDDTDDISDDDDDDDNTSINASILEMESALLPKVVSILDAVIES
AEKILELKKQHKGKLTKDIEKQYNDLHDNIWEMIYQIKLSNSAVLSITQQIYSLNKSIAAEEAKIISLAESYGIPRKEFL
DAYNTNSVLEKKGTSPAWNNMIEKEETNIVSMYNKIKLLSGENSLAEFKSLVTKIQKHERAATQAKQEMIKANLRLVVSI
AKKYSNRGLQFLDLVQEGNIGLMKAVDKFDYKRGYKFSTYATWWVRQAITRAIADQARTIRIPVHMIETVNKINRTLRQM
LHEIGREPTLEELSARLNINVDKIRKVMKIVKDPVSLESPIGDDDSSTFGDCIEDKRAVRPEDAAVLADLREITTKVLST
LTPKEERILRMRFGIGKGGKDHTLEEVGKLFNVTRERIRQIEAKALRKLRHPSRARKLRGFF
>Mature_622_residues
MKDLQTDKELIRTLVSKGIKQGFVTFNDINDVFSDYVLSADNIDETISLLQDSGINVLEQSDEDEASSIVESGRLKDGID
DDDVSDTSIKSWDFGQTDDPIRMYLCEMSSVELLSREGEIEIAKKIKSEKVNMLRSLVESPMVLRTFMSWRDDLVNEQIM
LRDLIDLDANYRYEFPEKFSDVDDESVLDYDKDLMDEDDTDDISDDDDDDDNTSINASILEMESALLPKVVSILDAVIES
AEKILELKKQHKGKLTKDIEKQYNDLHDNIWEMIYQIKLSNSAVLSITQQIYSLNKSIAAEEAKIISLAESYGIPRKEFL
DAYNTNSVLEKKGTSPAWNNMIEKEETNIVSMYNKIKLLSGENSLAEFKSLVTKIQKHERAATQAKQEMIKANLRLVVSI
AKKYSNRGLQFLDLVQEGNIGLMKAVDKFDYKRGYKFSTYATWWVRQAITRAIADQARTIRIPVHMIETVNKINRTLRQM
LHEIGREPTLEELSARLNINVDKIRKVMKIVKDPVSLESPIGDDDSSTFGDCIEDKRAVRPEDAAVLADLREITTKVLST
LTPKEERILRMRFGIGKGGKDHTLEEVGKLFNVTRERIRQIEAKALRKLRHPSRARKLRGFF

Specific function: Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released. This is the primary sigma factor of this bacterium [H]

COG id: COG0568

COG function: function code K; DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32)

Gene ontology:

Cell location: Cytoplasm [C]

Metaboloic importance: Essential [C]

Operon status: Not Known

Operon components: None

Similarity: Belongs to the sigma-70 factor family [H]

Homologues:

Organism=Escherichia coli, GI1789448, Length=635, Percent_Identity=41.259842519685, Blast_Score=421, Evalue=1e-119,
Organism=Escherichia coli, GI1789098, Length=231, Percent_Identity=42.8571428571429, Blast_Score=211, Evalue=1e-55,
Organism=Escherichia coli, GI1789871, Length=261, Percent_Identity=28.3524904214559, Blast_Score=86, Evalue=5e-18,
Organism=Escherichia coli, GI1788231, Length=253, Percent_Identity=24.5059288537549, Blast_Score=75, Evalue=2e-14,

Paralogues:

None

Copy number: 700 (log & stationary phase) [C]

Swissprot (AC and ID): NA

Other databases:

- InterPro:   IPR014284
- InterPro:   IPR000943
- InterPro:   IPR009042
- InterPro:   IPR007627
- InterPro:   IPR007624
- InterPro:   IPR007630
- InterPro:   IPR007631
- InterPro:   IPR007127
- InterPro:   IPR013325
- InterPro:   IPR013324
- InterPro:   IPR012760
- InterPro:   IPR011991 [H]

Pfam domain/function: PF04546 Sigma70_ner; PF03979 Sigma70_r1_1; PF00140 Sigma70_r1_2; PF04542 Sigma70_r2; PF04539 Sigma70_r3; PF04545 Sigma70_r4 [H]

EC number: NA

Molecular weight: Translated: 71123; Mature: 71123

Theoretical pI: Translated: 4.79; Mature: 4.79

Prosite motif: PS00715 SIGMA70_1 ; PS00716 SIGMA70_2

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.3 %Cys     (Translated Protein)
2.9 %Met     (Translated Protein)
3.2 %Cys+Met (Translated Protein)
0.3 %Cys     (Mature Protein)
2.9 %Met     (Mature Protein)
3.2 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MKDLQTDKELIRTLVSKGIKQGFVTFNDINDVFSDYVLSADNIDETISLLQDSGINVLEQ
CCCCCHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHC
SDEDEASSIVESGRLKDGIDDDDVSDTSIKSWDFGQTDDPIRMYLCEMSSVELLSREGEI
CCCHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCH
EIAKKIKSEKVNMLRSLVESPMVLRTFMSWRDDLVNEQIMLRDLIDLDANYRYEFPEKFS
HHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHC
DVDDESVLDYDKDLMDEDDTDDISDDDDDDDNTSINASILEMESALLPKVVSILDAVIES
CCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHH
AEKILELKKQHKGKLTKDIEKQYNDLHDNIWEMIYQIKLSNSAVLSITQQIYSLNKSIAA
HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHH
EEAKIISLAESYGIPRKEFLDAYNTNSVLEKKGTSPAWNNMIEKEETNIVSMYNKIKLLS
HHHHHHHHHHHHCCCHHHHHHHHCCCHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHEEC
GENSLAEFKSLVTKIQKHERAATQAKQEMIKANLRLVVSIAKKYSNRGLQFLDLVQEGNI
CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHCCCC
GLMKAVDKFDYKRGYKFSTYATWWVRQAITRAIADQARTIRIPVHMIETVNKINRTLRQM
HHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHCCCEEEEHHHHHHHHHHHHHHHHHH
LHEIGREPTLEELSARLNINVDKIRKVMKIVKDPVSLESPIGDDDSSTFGDCIEDKRAVR
HHHHCCCCCHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHHHHCCC
PEDAAVLADLREITTKVLSTLTPKEERILRMRFGIGKGGKDHTLEEVGKLFNVTRERIRQ
CCHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHH
IEAKALRKLRHPSRARKLRGFF
HHHHHHHHHHCHHHHHHHCCCC
>Mature Secondary Structure
MKDLQTDKELIRTLVSKGIKQGFVTFNDINDVFSDYVLSADNIDETISLLQDSGINVLEQ
CCCCCHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHC
SDEDEASSIVESGRLKDGIDDDDVSDTSIKSWDFGQTDDPIRMYLCEMSSVELLSREGEI
CCCHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCH
EIAKKIKSEKVNMLRSLVESPMVLRTFMSWRDDLVNEQIMLRDLIDLDANYRYEFPEKFS
HHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHC
DVDDESVLDYDKDLMDEDDTDDISDDDDDDDNTSINASILEMESALLPKVVSILDAVIES
CCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHH
AEKILELKKQHKGKLTKDIEKQYNDLHDNIWEMIYQIKLSNSAVLSITQQIYSLNKSIAA
HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHH
EEAKIISLAESYGIPRKEFLDAYNTNSVLEKKGTSPAWNNMIEKEETNIVSMYNKIKLLS
HHHHHHHHHHHHCCCHHHHHHHHCCCHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHEEC
GENSLAEFKSLVTKIQKHERAATQAKQEMIKANLRLVVSIAKKYSNRGLQFLDLVQEGNI
CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHCCCC
GLMKAVDKFDYKRGYKFSTYATWWVRQAITRAIADQARTIRIPVHMIETVNKINRTLRQM
HHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHCCCEEEEHHHHHHHHHHHHHHHHHH
LHEIGREPTLEELSARLNINVDKIRKVMKIVKDPVSLESPIGDDDSSTFGDCIEDKRAVR
HHHHCCCCCHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHHHHCCC
PEDAAVLADLREITTKVLSTLTPKEERILRMRFGIGKGGKDHTLEEVGKLFNVTRERIRQ
CCHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHH
IEAKALRKLRHPSRARKLRGFF
HHHHHHHHHHCHHHHHHHCCCC

PDB accession: NA

Resolution: NA

Structure class: Alpha

Cofactors: NA

Metal ions: NA

Kcat value (1/min): NA

Specific activity: NA

Km value (mM): NA

Substrates: DNA [C]

Specific reaction: Protein + DNA = Protein-DNA [C]

General reaction: NA

Inhibitor: NA

Structure determination priority: 9.0

TargetDB status: NA

Availability: NA

References: 8491721; 11743193; 11743194 [H]