Click here to switch to the map view.

The map label for this gene is rpoD [H]

Identifier: 158340411

GI number: 158340411

Start: 235138

End: 235944

Strand: Direct

Name: rpoD [H]

Synonym: AM1_C0339

Alternate gene names: 158340411

Gene position: 235138-235944 (Clockwise)

Preceding gene: 158340410

Following gene: 158340415

Centisome position: 86.09

GC content: 44.24

Gene sequence:

>807_bases
ATGATTACTACTCCTGATAGTACTCAGAGCTACCTTCAGGAGATAGGACGCTATCCACTCCTATCTCCTGAAGAAGAAAT
TAACCTCGCTCGGCAAGTAAAAGCGGGCAATCTACGGGCCAAACAACGGATGATCGAGTGTAACCTACGCCTGGTCGTCT
CCATTGCGAAGAAACACCAGAATCGGGGTCTACCTTTATTAGACTTAATTCAGGAAGGAAACATCGGGCTTAGTCGAGCC
GTAGAGAAATTTGACCTAAATCAAGGCTGTCGGTTCAGCACCTATGCTTACTGGTGGATTTGGCAAGGAATCACACGAGC
ATTGCACAATAAGACCAAAATGATTCGACTGCCGATTCACCTCAATCAGCTCCACAGCAAAATTAAACGTACCTACTTCC
AGCTCAACCAAGAATATGGGCGTCAACCATCCCTTGATGAAGTCGCTTATGCAATGGATATTGACCCAACTCACATACAG
GAACAGCTCCAACTCTCTCAAGAGGTTATCTCTTTAGATAAATTCGTGAGTGAAAACCAGGGAGACACATTAGGCGAACT
CGTTGCCAAGGATCATTCTTCCCAAAAATACTTTGAGAATCTGATGAATAAAGATGAATTGTCCAAACTCATGGGGCACC
TGAGTGAGCGACAACAATTCATCATTGGTCAACGATTTGGCCTTGAAGATGGTCAACCTAAAACGCTGGTAGAGATTGCT
AAGTTACTCGACATGAGTCGGGAGGGTATTCGCAGAATCGAGAAAAAGGCTTTCCAGCAATTAAAAAAGTATGCCCAATT
TGCTTAG

Upstream 100 bases:

>100_bases
TTATGCTGACATCTTTTTCCTGAGCATCAACGAGATAATCACTCAATTGCTAGCATTGGGGGGGACGACCTCGTAACGGT
GATGTTTGTGAGGATCGATA

Downstream 100 bases:

>100_bases
GTAACCCCTAGACATCCAAGTACCCTGTGGTGATTCACAGGACATTCATCGGATCTTCAATCTTATCTGGGAACAAGAGC
AGCTATCTAGAGGGGGAGCT

Product: RNA polymerase sigma-70 factor

Products: NA

Alternate protein names: Sigma-43; Sigma-A [H]

Number of amino acids: Translated: 268; Mature: 268

Protein sequence:

>268_residues
MITTPDSTQSYLQEIGRYPLLSPEEEINLARQVKAGNLRAKQRMIECNLRLVVSIAKKHQNRGLPLLDLIQEGNIGLSRA
VEKFDLNQGCRFSTYAYWWIWQGITRALHNKTKMIRLPIHLNQLHSKIKRTYFQLNQEYGRQPSLDEVAYAMDIDPTHIQ
EQLQLSQEVISLDKFVSENQGDTLGELVAKDHSSQKYFENLMNKDELSKLMGHLSERQQFIIGQRFGLEDGQPKTLVEIA
KLLDMSREGIRRIEKKAFQQLKKYAQFA

Sequences:

>Translated_268_residues
MITTPDSTQSYLQEIGRYPLLSPEEEINLARQVKAGNLRAKQRMIECNLRLVVSIAKKHQNRGLPLLDLIQEGNIGLSRA
VEKFDLNQGCRFSTYAYWWIWQGITRALHNKTKMIRLPIHLNQLHSKIKRTYFQLNQEYGRQPSLDEVAYAMDIDPTHIQ
EQLQLSQEVISLDKFVSENQGDTLGELVAKDHSSQKYFENLMNKDELSKLMGHLSERQQFIIGQRFGLEDGQPKTLVEIA
KLLDMSREGIRRIEKKAFQQLKKYAQFA
>Mature_268_residues
MITTPDSTQSYLQEIGRYPLLSPEEEINLARQVKAGNLRAKQRMIECNLRLVVSIAKKHQNRGLPLLDLIQEGNIGLSRA
VEKFDLNQGCRFSTYAYWWIWQGITRALHNKTKMIRLPIHLNQLHSKIKRTYFQLNQEYGRQPSLDEVAYAMDIDPTHIQ
EQLQLSQEVISLDKFVSENQGDTLGELVAKDHSSQKYFENLMNKDELSKLMGHLSERQQFIIGQRFGLEDGQPKTLVEIA
KLLDMSREGIRRIEKKAFQQLKKYAQFA

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: Non_Essential [C]

Operon status: Not Known

Operon components: None

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

Homologues:

Organism=Escherichia coli, GI1789098, Length=263, Percent_Identity=39.1634980988593, Blast_Score=192, Evalue=1e-50,
Organism=Escherichia coli, GI1789448, Length=257, Percent_Identity=37.3540856031128, Blast_Score=177, Evalue=9e-46,
Organism=Escherichia coli, GI1789871, Length=270, Percent_Identity=28.5185185185185, Blast_Score=89, Evalue=2e-19,
Organism=Escherichia coli, GI1788231, Length=200, Percent_Identity=27, Blast_Score=62, Evalue=3e-11,

Paralogues:

None

Copy number: <10 (log phase) 250 (stationary phase) [C]

Swissprot (AC and ID): NA

Other databases:

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

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

EC number: NA

Molecular weight: Translated: 31131; Mature: 31131

Theoretical pI: Translated: 9.42; Mature: 9.42

Prosite motif: PS00716 SIGMA70_2 ; PS00867 CPSASE_2

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.7 %Cys     (Translated Protein)
2.6 %Met     (Translated Protein)
3.4 %Cys+Met (Translated Protein)
0.7 %Cys     (Mature Protein)
2.6 %Met     (Mature Protein)
3.4 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure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HHHHHHHHHHHHHHHHHHHHHHHHHCCC
>Mature Secondary Structure
MITTPDSTQSYLQEIGRYPLLSPEEEINLARQVKAGNLRAKQRMIECNLRLVVSIAKKHQ
CCCCCCCHHHHHHHHCCCCCCCCHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHH
NRGLPLLDLIQEGNIGLSRAVEKFDLNQGCRFSTYAYWWIWQGITRALHNKTKMIRLPIH
CCCCCHHHHHHCCCCCHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHCCHHEEEECHH
LNQLHSKIKRTYFQLNQEYGRQPSLDEVAYAMDIDPTHIQEQLQLSQEVISLDKFVSENQ
HHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHCCC
GDTLGELVAKDHSSQKYFENLMNKDELSKLMGHLSERQQFIIGQRFGLEDGQPKTLVEIA
CCHHHHHHHHCCCHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHH
KLLDMSREGIRRIEKKAFQQLKKYAQFA
HHHHHHHHHHHHHHHHHHHHHHHHHCCC

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: 10.0

TargetDB status: NA

Availability: NA

References: 11058132 [H]