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The map label for this gene is rpoD [H]

Identifier: 78778882

GI number: 78778882

Start: 464827

End: 466008

Strand: Reverse

Name: rpoD [H]

Synonym: PMT9312_0497

Alternate gene names: 78778882

Gene position: 466008-464827 (Counterclockwise)

Preceding gene: 78778884

Following gene: 78778881

Centisome position: 27.26

GC content: 33.33

Gene sequence:

>1182_bases
ATGTGTCCAGTAGCAGCAGATTCAAAGAATTCCAAGCCTAGCTCAAAAAAAAAGATTAACAAAAAAATTAATTCCAATTT
AGAAACAGTGGTTGAAGAAAATAGTAATATCAATAGTGAAAATTTAAAGGAATCTTCTTATTCAAACGAAAGCAGCTTAG
AAAACAATAATGAATTTAGTGATTCTGAAGATGCAGATAAGGGCCTTGGGAACATAAAGCTTGGGCCAAAAGGTATATAC
ACCGAAGATTCAATAAGAGTTTACCTGCAAGAAATTGGAAGAATTAGACTTTTAAGACCAGATGAAGAAATTGAACTTGC
AAGAAAAATTGCTGACTTACTCCAATTAGAAGAACTGGCAACTCAATATGAGTCAGAAAAAGGCCATTTCCCTTCTGTTA
GAGAATGGGCAGAATTAATAGATATGCCTCTTTCCAAATTTAGAAGAAGACTACTTTTAGGAAGAAGAGCTAAAGAAAAA
ATGGTTCAATCAAATTTAAGATTAGTTGTTTCCATTGCTAAAAAATATATGAATAGAGGTTTATCATTCCAAGATTTAAT
ACAAGAAGGAAGTTTGGGTTTGATCAGGGCAGCAGAAAAATTTGACCATGAAAAAGGTTATAAATTCTCTACTTATGCTA
CTTGGTGGATTCGCCAAGCCATTACTAGAGCAATCGCAGACCAAAGTAGGACTATTAGATTGCCAGTTCATTTATACGAG
ACAATATCCAGAATTAAAAAAACCACAAAAGTTCTCAGCCAAGAATTCGGAAGGAAACCCAGTGAAGAAGAAATAGCTGA
GAGTATGGAAATGACAATTGAAAAATTAAGATTTATAGCTAAAAGTGCTCAGTTACCTATTTCTTTAGAAACTCCAATAG
GCAAAGAAGAAGACTCAAGACTTGGAGACTTTATAGAGGCTGATATAGAAAATCCAGAGCAAGATGTGTCTAAAACTTTA
TTAAGAGAAGATTTAGAGGGAGTCCTAGCAACTCTAAGTCCAAGGGAAAGAGATGTTCTTAGATTGAGATACGGAATTGA
TGATGGAAGAATGAAAACTCTTGAAGAAATTGGACAGATATTTGATGTAACTCGAGAAAGAATTAGACAAATAGAAGCAA
AAGCCCTAAGAAAACTTAGACATCCAAATCGAAATGGGGTTTTAAAAGAATATATAAAATAA

Upstream 100 bases:

>100_bases
AAGTTCTTTTACAAAGAAAAGGGGATTTTACTACTAAATGTACAAATTAGCCCTAAATAAAATTTTATCTAGTTAAATTC
ACCGTAGAAAGGAGTCAATC

Downstream 100 bases:

>100_bases
TAATAGTTAAATATAATTTTCAGCTTTAAAAAGTTGCAAAATAATAGCTTAAAATAGATACGACTTAATTTTAATCCAAA
CTCAAAATAATATTTGATGA

Product: RNA polymerase sigma factor RpoD

Products: NA

Alternate protein names: Sigma-A [H]

Number of amino acids: Translated: 393; Mature: 393

Protein sequence:

>393_residues
MCPVAADSKNSKPSSKKKINKKINSNLETVVEENSNINSENLKESSYSNESSLENNNEFSDSEDADKGLGNIKLGPKGIY
TEDSIRVYLQEIGRIRLLRPDEEIELARKIADLLQLEELATQYESEKGHFPSVREWAELIDMPLSKFRRRLLLGRRAKEK
MVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYE
TISRIKKTTKVLSQEFGRKPSEEEIAESMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEADIENPEQDVSKTL
LREDLEGVLATLSPRERDVLRLRYGIDDGRMKTLEEIGQIFDVTRERIRQIEAKALRKLRHPNRNGVLKEYIK

Sequences:

>Translated_393_residues
MCPVAADSKNSKPSSKKKINKKINSNLETVVEENSNINSENLKESSYSNESSLENNNEFSDSEDADKGLGNIKLGPKGIY
TEDSIRVYLQEIGRIRLLRPDEEIELARKIADLLQLEELATQYESEKGHFPSVREWAELIDMPLSKFRRRLLLGRRAKEK
MVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYE
TISRIKKTTKVLSQEFGRKPSEEEIAESMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEADIENPEQDVSKTL
LREDLEGVLATLSPRERDVLRLRYGIDDGRMKTLEEIGQIFDVTRERIRQIEAKALRKLRHPNRNGVLKEYIK
>Mature_393_residues
MCPVAADSKNSKPSSKKKINKKINSNLETVVEENSNINSENLKESSYSNESSLENNNEFSDSEDADKGLGNIKLGPKGIY
TEDSIRVYLQEIGRIRLLRPDEEIELARKIADLLQLEELATQYESEKGHFPSVREWAELIDMPLSKFRRRLLLGRRAKEK
MVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYE
TISRIKKTTKVLSQEFGRKPSEEEIAESMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEADIENPEQDVSKTL
LREDLEGVLATLSPRERDVLRLRYGIDDGRMKTLEEIGQIFDVTRERIRQIEAKALRKLRHPNRNGVLKEYIK

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=249, Percent_Identity=59.0361445783133, Blast_Score=296, Evalue=2e-81,
Organism=Escherichia coli, GI1789098, Length=264, Percent_Identity=42.0454545454545, Blast_Score=197, Evalue=1e-51,
Organism=Escherichia coli, GI1789871, Length=243, Percent_Identity=28.8065843621399, Blast_Score=83, Evalue=3e-17,
Organism=Escherichia coli, GI1788231, Length=206, Percent_Identity=29.6116504854369, Blast_Score=72, Evalue=7e-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:   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: 45255; Mature: 45255

Theoretical pI: Translated: 8.77; Mature: 8.77

Prosite motif: PS00715 SIGMA70_1 ; PS00716 SIGMA70_2

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.3 %Cys     (Translated Protein)
1.8 %Met     (Translated Protein)
2.0 %Cys+Met (Translated Protein)
0.3 %Cys     (Mature Protein)
1.8 %Met     (Mature Protein)
2.0 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MCPVAADSKNSKPSSKKKINKKINSNLETVVEENSNINSENLKESSYSNESSLENNNEFS
CCCCCCCCCCCCCCHHHHHHHHHHCHHHHHHHCCCCCCHHHHHHHCCCCCCCCCCCCCCC
DSEDADKGLGNIKLGPKGIYTEDSIRVYLQEIGRIRLLRPDEEIELARKIADLLQLEELA
CCCHHHCCCCCCCCCCCCCCCCHHHHHHHHHHCCEEECCCCHHHHHHHHHHHHHHHHHHH
TQYESEKGHFPSVREWAELIDMPLSKFRRRLLLGRRAKEKMVQSNLRLVVSIAKKYMNRG
HHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC
LSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYE
CCHHHHHHCCCCHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHCCCCEEEEHHHHHH
TISRIKKTTKVLSQEFGRKPSEEEIAESMEMTIEKLRFIAKSAQLPISLETPIGKEEDSR
HHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCEEECCCCCCCCHHH
LGDFIEADIENPEQDVSKTLLREDLEGVLATLSPRERDVLRLRYGIDDGRMKTLEEIGQI
HHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHCCCCCHHHHHHHHHHHH
FDVTRERIRQIEAKALRKLRHPNRNGVLKEYIK
HHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHCC
>Mature Secondary Structure
MCPVAADSKNSKPSSKKKINKKINSNLETVVEENSNINSENLKESSYSNESSLENNNEFS
CCCCCCCCCCCCCCHHHHHHHHHHCHHHHHHHCCCCCCHHHHHHHCCCCCCCCCCCCCCC
DSEDADKGLGNIKLGPKGIYTEDSIRVYLQEIGRIRLLRPDEEIELARKIADLLQLEELA
CCCHHHCCCCCCCCCCCCCCCCHHHHHHHHHHCCEEECCCCHHHHHHHHHHHHHHHHHHH
TQYESEKGHFPSVREWAELIDMPLSKFRRRLLLGRRAKEKMVQSNLRLVVSIAKKYMNRG
HHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC
LSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYE
CCHHHHHHCCCCHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHCCCCEEEEHHHHHH
TISRIKKTTKVLSQEFGRKPSEEEIAESMEMTIEKLRFIAKSAQLPISLETPIGKEEDSR
HHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCEEECCCCCCCCHHH
LGDFIEADIENPEQDVSKTLLREDLEGVLATLSPRERDVLRLRYGIDDGRMKTLEEIGQI
HHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHCCCCCHHHHHHHHHHHH
FDVTRERIRQIEAKALRKLRHPNRNGVLKEYIK
HHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHCC

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: 1901566; 11759840 [H]