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The map label for this gene is rpoD [H]

Identifier: 159899067

GI number: 159899067

Start: 3274623

End: 3275783

Strand: Reverse

Name: rpoD [H]

Synonym: Haur_2548

Alternate gene names: 159899067

Gene position: 3275783-3274623 (Counterclockwise)

Preceding gene: 159899068

Following gene: 159899066

Centisome position: 51.61

GC content: 51.08

Gene sequence:

>1161_bases
ATGATTGACAAGCTACTGGAGCTTGCGGCAAAAAATCAAAACCGCATCAAACGCGAAGACATTCTCAGCGTGTTGCCAGA
GCCAGAAACGAATATCGAAGCCCTCGAAAGCCTCTACGAACAAATCGAAGAAGCGGGGATCGAGGTTGTTGATGCAGATG
AAGCGCCCAACGTTGCCGACCTCGATCTCGATTTAGATCTTGATAGTGATCACGACCTCGACGGAGCCTTGCCTGATCTT
TCGGATATTGCGCTCGACGACCCAGTGCGCATGTACTTGCAAGAAATTGGTCAAGTACCCTTGCTGACTGCGGCGGAAGA
AGTCGATCTGGCCAAGAAGATGGAAGTGGCTCACGCCGCCAACGATACCTTGCTGCAAGATGATGGCATGCTTGAACATA
GTGATCGAATTTCGTTAAAACGCCATATCGATACTGGCCGAGCAGCCCGCCAACATTTGATTCAGGCTAACTTGCGCTTG
GTGGTTTCGATTGCCAAAAAATATACCTCGTATGGCTTGACCATGATGGATCTGGTGCAAGAGGGCAATATTGGCTTGAT
GCGGGCAGTCGAGAAATTCGATTACACCAAAGGCCATAAGTTCTCGACCTACGCGACGTGGTGGATTCGCCAAGCAATTA
CGCGAGCGATCGCCGACCAAAGCCGCACCATCCGCTTGCCTGTGCACATGGGCGAGGCAATTAGCCAAGTTAAGCGAACG
TCGCATAAGTTGCAACAAACCATGCAGCGCGAACCAACGCCCGAAGAAATAGCCGAAGCCATGGGCATTACCGCCTCGAA
AGTGCGTCGCACCTTGGAAGCCTCGATGCACCCACTTTCGTTGGAAATGCCGGTTGGTCAAGAAGGCGAAGGCCGCATGG
GCGATTTCATCGAGGATGATCGAGTTTCAACCCCAGTTGATGCTGCGGCCATGACCATGTTGCGCGAACAAATTGAAGAA
GTTTTGCAAAAATTGCCTGAGCGCGAACGCAAAATAATTCAATTGCGCTATGGCCTTAAAGATGGCCGCTACCGTACCCT
CGAAGAAGTTGGCCTTGAATTTGGCATTACTCGCGAACGGATTCGCCAAATCGAAGCGGTGGCCTTGCGTAAACTGCGTC
ACCCCCACCTTGGCAAGAAATTACGTGGCTATCTTGATTAA

Upstream 100 bases:

>100_bases
CTGTCGCCGCGCCTCGTGCCGATGCTTGGGGGGCGGCGTTCGATCATTAGTTTAGATAGAAACATCTTGCCTGCGACTCA
ACCTCGGAGGAGCCATTTCA

Downstream 100 bases:

>100_bases
CGAATGGCGCTAAAACTACCGACCCAGCGCACATTTAACGTGGCGTTGGGTTGATTTTTTGCGTAACAACCTGTTTTATG
GTACACTATCGCAGTTTTGC

Product: RpoD family RNA polymerase sigma factor

Products: NA

Alternate protein names: Sigma-42 [H]

Number of amino acids: Translated: 386; Mature: 386

Protein sequence:

>386_residues
MIDKLLELAAKNQNRIKREDILSVLPEPETNIEALESLYEQIEEAGIEVVDADEAPNVADLDLDLDLDSDHDLDGALPDL
SDIALDDPVRMYLQEIGQVPLLTAAEEVDLAKKMEVAHAANDTLLQDDGMLEHSDRISLKRHIDTGRAARQHLIQANLRL
VVSIAKKYTSYGLTMMDLVQEGNIGLMRAVEKFDYTKGHKFSTYATWWIRQAITRAIADQSRTIRLPVHMGEAISQVKRT
SHKLQQTMQREPTPEEIAEAMGITASKVRRTLEASMHPLSLEMPVGQEGEGRMGDFIEDDRVSTPVDAAAMTMLREQIEE
VLQKLPERERKIIQLRYGLKDGRYRTLEEVGLEFGITRERIRQIEAVALRKLRHPHLGKKLRGYLD

Sequences:

>Translated_386_residues
MIDKLLELAAKNQNRIKREDILSVLPEPETNIEALESLYEQIEEAGIEVVDADEAPNVADLDLDLDLDSDHDLDGALPDL
SDIALDDPVRMYLQEIGQVPLLTAAEEVDLAKKMEVAHAANDTLLQDDGMLEHSDRISLKRHIDTGRAARQHLIQANLRL
VVSIAKKYTSYGLTMMDLVQEGNIGLMRAVEKFDYTKGHKFSTYATWWIRQAITRAIADQSRTIRLPVHMGEAISQVKRT
SHKLQQTMQREPTPEEIAEAMGITASKVRRTLEASMHPLSLEMPVGQEGEGRMGDFIEDDRVSTPVDAAAMTMLREQIEE
VLQKLPERERKIIQLRYGLKDGRYRTLEEVGLEFGITRERIRQIEAVALRKLRHPHLGKKLRGYLD
>Mature_386_residues
MIDKLLELAAKNQNRIKREDILSVLPEPETNIEALESLYEQIEEAGIEVVDADEAPNVADLDLDLDLDSDHDLDGALPDL
SDIALDDPVRMYLQEIGQVPLLTAAEEVDLAKKMEVAHAANDTLLQDDGMLEHSDRISLKRHIDTGRAARQHLIQANLRL
VVSIAKKYTSYGLTMMDLVQEGNIGLMRAVEKFDYTKGHKFSTYATWWIRQAITRAIADQSRTIRLPVHMGEAISQVKRT
SHKLQQTMQREPTPEEIAEAMGITASKVRRTLEASMHPLSLEMPVGQEGEGRMGDFIEDDRVSTPVDAAAMTMLREQIEE
VLQKLPERERKIIQLRYGLKDGRYRTLEEVGLEFGITRERIRQIEAVALRKLRHPHLGKKLRGYLD

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=241, Percent_Identity=55.1867219917012, Blast_Score=284, Evalue=8e-78,
Organism=Escherichia coli, GI1789098, Length=287, Percent_Identity=39.7212543554007, Blast_Score=209, Evalue=3e-55,
Organism=Escherichia coli, GI1789871, Length=299, Percent_Identity=28.4280936454849, Blast_Score=101, Evalue=8e-23,
Organism=Escherichia coli, GI1788231, Length=205, Percent_Identity=29.2682926829268, Blast_Score=77, Evalue=2e-15,

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:   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: 43770; Mature: 43770

Theoretical pI: Translated: 4.95; Mature: 4.95

Prosite motif: PS00715 SIGMA70_1 ; PS00716 SIGMA70_2

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.0 %Cys     (Translated Protein)
3.9 %Met     (Translated Protein)
3.9 %Cys+Met (Translated Protein)
0.0 %Cys     (Mature Protein)
3.9 %Met     (Mature Protein)
3.9 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MIDKLLELAAKNQNRIKREDILSVLPEPETNIEALESLYEQIEEAGIEVVDADEAPNVAD
CHHHHHHHHHCCHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHCCCEEEECCCCCCCEE
LDLDLDLDSDHDLDGALPDLSDIALDDPVRMYLQEIGQVPLLTAAEEVDLAKKMEVAHAA
EEEEECCCCCCCCCCCCCCHHHHCCCCHHHHHHHHHCCCCEEHHHHHHHHHHHHHHHHHC
NDTLLQDDGMLEHSDRISLKRHIDTGRAARQHLIQANLRLVVSIAKKYTSYGLTMMDLVQ
CCCEECCCCCCCCCCHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHH
EGNIGLMRAVEKFDYTKGHKFSTYATWWIRQAITRAIADQSRTIRLPVHMGEAISQVKRT
CCCHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHCCCCEEEEEHHHHHHHHHHHHH
SHKLQQTMQREPTPEEIAEAMGITASKVRRTLEASMHPLSLEMPVGQEGEGRMGDFIEDD
HHHHHHHHHCCCCHHHHHHHHCCCHHHHHHHHHHHCCCCEEECCCCCCCCCCCCCCCCCC
RVSTPVDAAAMTMLREQIEEVLQKLPERERKIIQLRYGLKDGRYRTLEEVGLEFGITRER
CCCCCHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHCCCCCCCHHHHHHHHHCCCCHHH
IRQIEAVALRKLRHPHLGKKLRGYLD
HHHHHHHHHHHHCCCCCCHHHHCCCC
>Mature Secondary Structure
MIDKLLELAAKNQNRIKREDILSVLPEPETNIEALESLYEQIEEAGIEVVDADEAPNVAD
CHHHHHHHHHCCHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHCCCEEEECCCCCCCEE
LDLDLDLDSDHDLDGALPDLSDIALDDPVRMYLQEIGQVPLLTAAEEVDLAKKMEVAHAA
EEEEECCCCCCCCCCCCCCHHHHCCCCHHHHHHHHHCCCCEEHHHHHHHHHHHHHHHHHC
NDTLLQDDGMLEHSDRISLKRHIDTGRAARQHLIQANLRLVVSIAKKYTSYGLTMMDLVQ
CCCEECCCCCCCCCCHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHH
EGNIGLMRAVEKFDYTKGHKFSTYATWWIRQAITRAIADQSRTIRLPVHMGEAISQVKRT
CCCHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHCCCCEEEEEHHHHHHHHHHHHH
SHKLQQTMQREPTPEEIAEAMGITASKVRRTLEASMHPLSLEMPVGQEGEGRMGDFIEDD
HHHHHHHHHCCCCHHHHHHHHCCCHHHHHHHHHHHCCCCEEECCCCCCCCCCCCCCCCCC
RVSTPVDAAAMTMLREQIEEVLQKLPERERKIIQLRYGLKDGRYRTLEEVGLEFGITRER
CCCCCHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHCCCCCCCHHHHHHHHHCCCCHHH
IRQIEAVALRKLRHPHLGKKLRGYLD
HHHHHHHHHHHHCCCCCCHHHHCCCC

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: 8914262; 12663927 [H]