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The map label for this gene is rpoD [H]

Identifier: 113474981

GI number: 113474981

Start: 1886638

End: 1888128

Strand: Reverse

Name: rpoD [H]

Synonym: Tery_1214

Alternate gene names: 113474981

Gene position: 1888128-1886638 (Counterclockwise)

Preceding gene: 113474983

Following gene: 113474978

Centisome position: 24.36

GC content: 33.33

Gene sequence:

>1491_bases
ATGATAATGATAGGGCATACATTAGAACTAGACGATCTAAAAAAAATTAGTAGCCCGAAAAAGATAGTAGCTTTGTTTGA
AAAACTTGGCTTCAATTTCCAAATTGAACATTTAGATATTGAACAACTAGAACTACCAAGTTATTGCAGAGAAACGATTG
ATAATACTTATAAAATTTATAATCCGAACCAAGAGGAATTACAAGTATTTCTTTTAGAATTAAGACAAGAAAAATTTAAA
ACAAATTATAAAGAGCAAGAAAGAATAATAACTATTTCTCAGGGAATCTTGAGAAACAAAAATAATTTCTTGCTAATTGC
CACAAAAAAATATAATAAGTTAATAATAGTTGCTCCTCATAGAAGAGAAAATCAAAATATTAAAATTTCAATTAAATGGT
GGTTAATTGATTGTCAAAATCCTAATTATTATGATACTTACTGGCTAGAAAATGTAGCTATAAATAATTGTGAACCTACA
GAAGAATTGACAAATAAACATAATAGTGAAGGTAGCTACGACCCAGACATAGAACCGCCTACTGGAACATTTACTGAAGA
CTCAATTCAACTTTATTATAAGCAAGTTAATAGCTTCGCCCGCTTGCACCCTGAGGAAGAAATTCATTTAGCACATCAAA
TTGATGGGCTATTAGCTTTAGAGAAAATTTATGAAAAATTAGAGGAAAAGCTCAACCGTTCGCCTAACGAAATAGAATGG
GCAACAGAAGCCAAAATGAGCAAATGGGAACTGTGTGATCGCCTCGAGCAAGGTAGACGAGCTAAAAATCAAATGGTGAC
AGCTAACTTGCGACTGGTGACATCAGTTGCCAAACGATACCAAAACCGTGGTCTAGACTTCCAAGATTTAATTCAAGAGG
GAGTTATAGGATTACTTCGTGCCACAGAAAAATTTGATCATACAAAAGGTTATAAGTTTTCTACTTATGGTATTTGGTGG
ATTCGACAAGCTATTACCAGAGCTATTTGTGACTATTCTCGGATCGTTCGGTTGCCAGTTTATCTCTACGAAACTATTTC
CCAAATTAAGAAAATAGTTAAGCAAATTTCAATAGAATGTTCTCCCCTAACTGCAGAAGAAGTTGCTACACGCATGGAAA
TGACAACGGAGAAGTTGCAATTTATTATAGAATGCGCTCAAGAAACTTTATCTCTAGACTACCCTATAAATAAAGGGGAA
AACATTATCTACAAGGAAATGATTAAATTTAATGGGGAAACACCAACAAAATATGTCTTTGAAAATTGCTTGCAAGAAGA
TGTAGAAAGTGTTTTGAAAACTCTAACTGAACGAGAAAGAAATGTGTTACAAATGCGATTCGGTTTGGATGATGGTCAAG
AAAAGACCCTCAAAGAAATTGGTGATACTTTTAATTTAACGCGGGAAAGAATTAGGCAAATAGAGGCTAAAGCATTGAGA
AAGTTAGAAGATCCAAAGCGAAACCATATTCTCAGGGAATATATTCATTAG

Upstream 100 bases:

>100_bases
TTATAAGTTTGCTACTAATCGAAAAAAACAGAAAAAATAATGCCTTGAATTGACATCAATGAGGACTAAAGATATTAAGA
TAAATTAATTTTGGAGATAG

Downstream 100 bases:

>100_bases
AACCAAGATTCCGCACTTCAATTTGTAACATGAAAATTCCTATAAAACCCGTAGCTTGCTTTTGAATTTGGGGAAAGCTT
TTGAACTTCTCTAACACTCC

Product: RNA polymerase, sigma 28 subunit

Products: NA

Alternate protein names: Sigma-A [H]

Number of amino acids: Translated: 496; Mature: 496

Protein sequence:

>496_residues
MIMIGHTLELDDLKKISSPKKIVALFEKLGFNFQIEHLDIEQLELPSYCRETIDNTYKIYNPNQEELQVFLLELRQEKFK
TNYKEQERIITISQGILRNKNNFLLIATKKYNKLIIVAPHRRENQNIKISIKWWLIDCQNPNYYDTYWLENVAINNCEPT
EELTNKHNSEGSYDPDIEPPTGTFTEDSIQLYYKQVNSFARLHPEEEIHLAHQIDGLLALEKIYEKLEEKLNRSPNEIEW
ATEAKMSKWELCDRLEQGRRAKNQMVTANLRLVTSVAKRYQNRGLDFQDLIQEGVIGLLRATEKFDHTKGYKFSTYGIWW
IRQAITRAICDYSRIVRLPVYLYETISQIKKIVKQISIECSPLTAEEVATRMEMTTEKLQFIIECAQETLSLDYPINKGE
NIIYKEMIKFNGETPTKYVFENCLQEDVESVLKTLTERERNVLQMRFGLDDGQEKTLKEIGDTFNLTRERIRQIEAKALR
KLEDPKRNHILREYIH

Sequences:

>Translated_496_residues
MIMIGHTLELDDLKKISSPKKIVALFEKLGFNFQIEHLDIEQLELPSYCRETIDNTYKIYNPNQEELQVFLLELRQEKFK
TNYKEQERIITISQGILRNKNNFLLIATKKYNKLIIVAPHRRENQNIKISIKWWLIDCQNPNYYDTYWLENVAINNCEPT
EELTNKHNSEGSYDPDIEPPTGTFTEDSIQLYYKQVNSFARLHPEEEIHLAHQIDGLLALEKIYEKLEEKLNRSPNEIEW
ATEAKMSKWELCDRLEQGRRAKNQMVTANLRLVTSVAKRYQNRGLDFQDLIQEGVIGLLRATEKFDHTKGYKFSTYGIWW
IRQAITRAICDYSRIVRLPVYLYETISQIKKIVKQISIECSPLTAEEVATRMEMTTEKLQFIIECAQETLSLDYPINKGE
NIIYKEMIKFNGETPTKYVFENCLQEDVESVLKTLTERERNVLQMRFGLDDGQEKTLKEIGDTFNLTRERIRQIEAKALR
KLEDPKRNHILREYIH
>Mature_496_residues
MIMIGHTLELDDLKKISSPKKIVALFEKLGFNFQIEHLDIEQLELPSYCRETIDNTYKIYNPNQEELQVFLLELRQEKFK
TNYKEQERIITISQGILRNKNNFLLIATKKYNKLIIVAPHRRENQNIKISIKWWLIDCQNPNYYDTYWLENVAINNCEPT
EELTNKHNSEGSYDPDIEPPTGTFTEDSIQLYYKQVNSFARLHPEEEIHLAHQIDGLLALEKIYEKLEEKLNRSPNEIEW
ATEAKMSKWELCDRLEQGRRAKNQMVTANLRLVTSVAKRYQNRGLDFQDLIQEGVIGLLRATEKFDHTKGYKFSTYGIWW
IRQAITRAICDYSRIVRLPVYLYETISQIKKIVKQISIECSPLTAEEVATRMEMTTEKLQFIIECAQETLSLDYPINKGE
NIIYKEMIKFNGETPTKYVFENCLQEDVESVLKTLTERERNVLQMRFGLDDGQEKTLKEIGDTFNLTRERIRQIEAKALR
KLEDPKRNHILREYIH

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=242, Percent_Identity=48.7603305785124, Blast_Score=230, Evalue=1e-61,
Organism=Escherichia coli, GI1789098, Length=227, Percent_Identity=35.2422907488987, Blast_Score=153, Evalue=3e-38,
Organism=Escherichia coli, GI1788231, Length=217, Percent_Identity=25.8064516129032, Blast_Score=64, Evalue=2e-11,

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:   IPR013325
- InterPro:   IPR013324
- InterPro:   IPR012760
- InterPro:   IPR017848
- InterPro:   IPR011991 [H]

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

EC number: NA

Molecular weight: Translated: 58650; Mature: 58650

Theoretical pI: Translated: 6.22; Mature: 6.22

Prosite motif: PS00716 SIGMA70_2

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

1.6 %Cys     (Translated Protein)
1.6 %Met     (Translated Protein)
3.2 %Cys+Met (Translated Protein)
1.6 %Cys     (Mature Protein)
1.6 %Met     (Mature Protein)
3.2 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MIMIGHTLELDDLKKISSPKKIVALFEKLGFNFQIEHLDIEQLELPSYCRETIDNTYKIY
CEEECCCCCHHHHHHHCCHHHHHHHHHHHCCCEEEEECCHHHHCCHHHHHHHHCCCEEEC
NPNQEELQVFLLELRQEKFKTNYKEQERIITISQGILRNKNNFLLIATKKYNKLIIVAPH
CCCHHHHHHHHHHHHHHHHHCCCCHHHHEEEEHHHHHCCCCCEEEEEECCCCEEEEECCC
RRENQNIKISIKWWLIDCQNPNYYDTYWLENVAINNCEPTEELTNKHNSEGSYDPDIEPP
CCCCCCEEEEEEEEEEECCCCCCCCHHEECCCCCCCCCCHHHHHCCCCCCCCCCCCCCCC
TGTFTEDSIQLYYKQVNSFARLHPEEEIHLAHQIDGLLALEKIYEKLEEKLNRSPNEIEW
CCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCEEH
ATEAKMSKWELCDRLEQGRRAKNQMVTANLRLVTSVAKRYQNRGLDFQDLIQEGVIGLLR
HHHHHHHHHHHHHHHHHHHHHHHHEEHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHH
ATEKFDHTKGYKFSTYGIWWIRQAITRAICDYSRIVRLPVYLYETISQIKKIVKQISIEC
HHHHHCCCCCCEEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC
SPLTAEEVATRMEMTTEKLQFIIECAQETLSLDYPINKGENIIYKEMIKFNGETPTKYVF
CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHCCCCCHHHHH
ENCLQEDVESVLKTLTERERNVLQMRFGLDDGQEKTLKEIGDTFNLTRERIRQIEAKALR
HHHHHHHHHHHHHHHHHHHHHHHHHEECCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
KLEDPKRNHILREYIH
HHCCCHHHHHHHHHCC
>Mature Secondary Structure
MIMIGHTLELDDLKKISSPKKIVALFEKLGFNFQIEHLDIEQLELPSYCRETIDNTYKIY
CEEECCCCCHHHHHHHCCHHHHHHHHHHHCCCEEEEECCHHHHCCHHHHHHHHCCCEEEC
NPNQEELQVFLLELRQEKFKTNYKEQERIITISQGILRNKNNFLLIATKKYNKLIIVAPH
CCCHHHHHHHHHHHHHHHHHCCCCHHHHEEEEHHHHHCCCCCEEEEEECCCCEEEEECCC
RRENQNIKISIKWWLIDCQNPNYYDTYWLENVAINNCEPTEELTNKHNSEGSYDPDIEPP
CCCCCCEEEEEEEEEEECCCCCCCCHHEECCCCCCCCCCHHHHHCCCCCCCCCCCCCCCC
TGTFTEDSIQLYYKQVNSFARLHPEEEIHLAHQIDGLLALEKIYEKLEEKLNRSPNEIEW
CCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCEEH
ATEAKMSKWELCDRLEQGRRAKNQMVTANLRLVTSVAKRYQNRGLDFQDLIQEGVIGLLR
HHHHHHHHHHHHHHHHHHHHHHHHEEHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHH
ATEKFDHTKGYKFSTYGIWWIRQAITRAICDYSRIVRLPVYLYETISQIKKIVKQISIEC
HHHHHCCCCCCEEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC
SPLTAEEVATRMEMTTEKLQFIIECAQETLSLDYPINKGENIIYKEMIKFNGETPTKYVF
CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHCCCCCHHHHH
ENCLQEDVESVLKTLTERERNVLQMRFGLDDGQEKTLKEIGDTFNLTRERIRQIEAKALR
HHHHHHHHHHHHHHHHHHHHHHHHHEECCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
KLEDPKRNHILREYIH
HHCCCHHHHHHHHHCC

PDB accession: NA

Resolution: NA

Structure class: Unstructured

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: 1901566; 11759840 [H]