Click here to switch to the map view.

The map label for this gene is rpoD [H]

Identifier: 158334481

GI number: 158334481

Start: 1290797

End: 1291753

Strand: Direct

Name: rpoD [H]

Synonym: AM1_1305

Alternate gene names: 158334481

Gene position: 1290797-1291753 (Clockwise)

Preceding gene: 158334480

Following gene: 158334483

Centisome position: 19.85

GC content: 45.25

Gene sequence:

>957_bases
ATGAAATCCTCAGTTCAGAGTAAAGATTCGATTACCGCTTATTTGCAGGAAATTGGCCGGTTTCCTTTGTTGAACCATGA
ACAAGAAATCATCTTTGGCAAACAAGTTCAGCGAATGATCATGTTGCAGGAACTCAAGCAACAGTTGCACGAACAACTCG
AACGGGAGCCTAATCTGTCGGAATGGGCAGATCAAGCTGACATTCCTGTCTCTCAATTGCAGAAAGAGCTGAAGTTAGGT
CAAACAGCCAATCGTAAAATGGTTGAGTCCAATTTGCGATTAGTCGTCTCTATTGCCAAGAAATATAACAAAGCTAAACT
TGAATTCCTCGATCTAATCCAAGAAGGCACCATTGGCTTGCAACGAGGGGTGGAGAAGTTCGACCCAACCAAAGGCTATC
GATTTTCCACCTATGCTTATTGGTGGATTCGCCAAGCCATGACTCGCGCCATTGCCGAACAAGAACGTACTATTCGCTTG
CCAATCCATATCAATGAGAAATTAAACAAGCTGCGTAAAGTCAAACGGCAACTCTCCCTCAAACTCCATCGAGATCCGAC
GGTTGCAGAGTTAGCCACTGAGATGGAGCTTTCCCCTAAGAAAGTTGAAGCCTTCTTGAGTTATGCCCGTCATTCGATTT
CCTTGGATGTTCAAGTGGGCGATCAGCAAAATACTGAATTATGGGAACTACTAGAAGACCCTCATGCATCCCCAGAAGAC
TATGCAACAGCATCCTATTTGCAGTCAGATTTAGCCAAACTCCTAAACGTTCTCAATCCTCAACAACGGGAAGTAATTAC
CTTACGATATGGCCTGATTGACCAGAACCCCTTGACCTTAGCAAAGGTGGGGGAGCGTCTTAACGTCAGTCGAGAATGGG
TGCGTCGGGTTGAGCGAGAAGCATTTCAACTGCTGCGGTCACAGAAAGTGGTCTTACAAGAGTATCTGGCTTCTTAG

Upstream 100 bases:

>100_bases
ATCGTCCTGAATCGTCCTTAGTTATTCTTTCCTTCTTTCTTGACCCCAGTTGTGAGCTGGGGTCATTTGTTTCTCCTTTC
ATCATTGAATCCTTCCCATC

Downstream 100 bases:

>100_bases
CCTAGAACCACTTCAATCTCCTACTACCTCTAAACGGCTCTTCGGTGGAAGAGCCGTTTCTCTTTATATACCGTTACAAA
ACTAATCGACCAAGGAACTT

Product: RNA polymerase sigma-70 factor

Products: NA

Alternate protein names: NA

Number of amino acids: Translated: 318; Mature: 318

Protein sequence:

>318_residues
MKSSVQSKDSITAYLQEIGRFPLLNHEQEIIFGKQVQRMIMLQELKQQLHEQLEREPNLSEWADQADIPVSQLQKELKLG
QTANRKMVESNLRLVVSIAKKYNKAKLEFLDLIQEGTIGLQRGVEKFDPTKGYRFSTYAYWWIRQAMTRAIAEQERTIRL
PIHINEKLNKLRKVKRQLSLKLHRDPTVAELATEMELSPKKVEAFLSYARHSISLDVQVGDQQNTELWELLEDPHASPED
YATASYLQSDLAKLLNVLNPQQREVITLRYGLIDQNPLTLAKVGERLNVSREWVRRVEREAFQLLRSQKVVLQEYLAS

Sequences:

>Translated_318_residues
MKSSVQSKDSITAYLQEIGRFPLLNHEQEIIFGKQVQRMIMLQELKQQLHEQLEREPNLSEWADQADIPVSQLQKELKLG
QTANRKMVESNLRLVVSIAKKYNKAKLEFLDLIQEGTIGLQRGVEKFDPTKGYRFSTYAYWWIRQAMTRAIAEQERTIRL
PIHINEKLNKLRKVKRQLSLKLHRDPTVAELATEMELSPKKVEAFLSYARHSISLDVQVGDQQNTELWELLEDPHASPED
YATASYLQSDLAKLLNVLNPQQREVITLRYGLIDQNPLTLAKVGERLNVSREWVRRVEREAFQLLRSQKVVLQEYLAS
>Mature_318_residues
MKSSVQSKDSITAYLQEIGRFPLLNHEQEIIFGKQVQRMIMLQELKQQLHEQLEREPNLSEWADQADIPVSQLQKELKLG
QTANRKMVESNLRLVVSIAKKYNKAKLEFLDLIQEGTIGLQRGVEKFDPTKGYRFSTYAYWWIRQAMTRAIAEQERTIRL
PIHINEKLNKLRKVKRQLSLKLHRDPTVAELATEMELSPKKVEAFLSYARHSISLDVQVGDQQNTELWELLEDPHASPED
YATASYLQSDLAKLLNVLNPQQREVITLRYGLIDQNPLTLAKVGERLNVSREWVRRVEREAFQLLRSQKVVLQEYLAS

Specific function: Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released. This sigma factor is a component of the biological clock pathway that affects the circadian expression of a subset of ge

COG id: COG0568

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

Gene ontology:
GO:0003677: RNA polymerase sigma-70 factor, putative
GO:0003700: RNA polymerase sigma-70 factor, putative
GO:0006351: RNA polymerase sigma-70 factor, putative
GO:0006352: RNA polymerase sigma-70 factor, putative
GO:0006355: RNA polymerase sigma-70 factor, putative
GO:0016987: RNA polymerase sigma-70 factor, putative

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=282, Percent_Identity=38.6524822695035, Blast_Score=207, Evalue=7e-55,
Organism=Escherichia coli, GI1789098, Length=299, Percent_Identity=37.123745819398, Blast_Score=188, Evalue=3e-49,
Organism=Escherichia coli, GI1789871, Length=235, Percent_Identity=27.6595744680851, Blast_Score=68, Evalue=7e-13,

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:   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: 37046; Mature: 37046

Theoretical pI: Translated: 9.50; Mature: 9.50

Prosite motif: NA

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.0 %Cys     (Translated Protein)
1.9 %Met     (Translated Protein)
1.9 %Cys+Met (Translated Protein)
0.0 %Cys     (Mature Protein)
1.9 %Met     (Mature Protein)
1.9 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MKSSVQSKDSITAYLQEIGRFPLLNHEQEIIFGKQVQRMIMLQELKQQLHEQLEREPNLS
CCCCCCCHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHH
EWADQADIPVSQLQKELKLGQTANRKMVESNLRLVVSIAKKYNKAKLEFLDLIQEGTIGL
HHHHCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHCCHHH
QRGVEKFDPTKGYRFSTYAYWWIRQAMTRAIAEQERTIRLPIHINEKLNKLRKVKRQLSL
HHCHHHCCCCCCCEEHHHHHHHHHHHHHHHHHHCCCEEEEEEEEHHHHHHHHHHHHHHHH
KLHRDPTVAELATEMELSPKKVEAFLSYARHSISLDVQVGDQQNTELWELLEDPHASPED
HHCCCCHHHHHHHHHCCCHHHHHHHHHHHHHHEEEEEEECCCCCHHHHHHHHCCCCCCHH
YATASYLQSDLAKLLNVLNPQQREVITLRYGLIDQNPLTLAKVGERLNVSREWVRRVERE
HHHHHHHHHHHHHHHHHHCCCHHHEEEEEECCCCCCCCHHHHHHHHCCCCHHHHHHHHHH
AFQLLRSQKVVLQEYLAS
HHHHHHHHHHHHHHHHCC
>Mature Secondary Structure
MKSSVQSKDSITAYLQEIGRFPLLNHEQEIIFGKQVQRMIMLQELKQQLHEQLEREPNLS
CCCCCCCHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHH
EWADQADIPVSQLQKELKLGQTANRKMVESNLRLVVSIAKKYNKAKLEFLDLIQEGTIGL
HHHHCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHCCHHH
QRGVEKFDPTKGYRFSTYAYWWIRQAMTRAIAEQERTIRLPIHINEKLNKLRKVKRQLSL
HHCHHHCCCCCCCEEHHHHHHHHHHHHHHHHHHCCCEEEEEEEEHHHHHHHHHHHHHHHH
KLHRDPTVAELATEMELSPKKVEAFLSYARHSISLDVQVGDQQNTELWELLEDPHASPED
HHCCCCHHHHHHHHHCCCHHHHHHHHHHHHHHEEEEEEECCCCCHHHHHHHHCCCCCCHH
YATASYLQSDLAKLLNVLNPQQREVITLRYGLIDQNPLTLAKVGERLNVSREWVRRVERE
HHHHHHHHHHHHHHHHHHCCCHHHEEEEEECCCCCCCCHHHHHHHHCCCCHHHHHHHHHH
AFQLLRSQKVVLQEYLAS
HHHHHHHHHHHHHHHHCC

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: 10.0

TargetDB status: NA

Availability: NA

References: 8665856; 1368828 [H]