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The map label for this gene is rpoD [H]

Identifier: 124025264

GI number: 124025264

Start: 500947

End: 502209

Strand: Reverse

Name: rpoD [H]

Synonym: NATL1_05531

Alternate gene names: 124025264

Gene position: 502209-500947 (Counterclockwise)

Preceding gene: 124025267

Following gene: 124025263

Centisome position: 26.93

GC content: 37.45

Gene sequence:

>1263_bases
ATGTTAAAGGAAAAACAGACATCTAAAAATATTTCTATTAATCAGGATCCTAAAAACAATTCCAAAAAAATTAAAAAAAC
AGCTGCCAAAGTAAACGTGACTAAAGAAACCCAAACTCTTCCTCAAGAATCTTCAAATGATCTAAAAATTGATTTAGATC
TAGAGGCGGATAAATTAATTGCTGAAGCAAATAAAGTGCCTGAAGCCGATATCGATCTAGATGATGATGACGATAATGCC
TCTGTGCTATCAAGTGCTCAAGAAGCAGCAGCTAAAGCCTTAGCAAGTATAAAAATAGGGCCAAAGGGTGTTTATACAGA
AGACTCGATTAGAGTTTATCTACAAGAGATTGGTCGTATAAGACTTCTCAGGCCAGACGAAGAAATTGAATTAGCCAGGA
AGATAGCAGATCTTCTTCAATTAGAGGAAGAAGCTGCACAATTTGAAAGTGAGAATGGACATTTCCCATCAGTCAAAGAA
TGGGCAGTTCTTGCAGACATGCCATTAACTCGCTTCCGAAGGCGATTAATGCTAGGCAGACGAGCAAAAGAAAAAATGGT
GCAATCAAATCTACGACTAGTAGTTTCAATTGCCAAGAAATATATGAATAGAGGTTTGTCTTTTCAAGATCTTATTCAAG
AAGGAAGTCTTGGTCTAATTCGTGCAGCTGAAAAATTTGATCATGAGAAAGGATATAAATTCTCAACTTACGCTACTTGG
TGGATAAGGCAGGCTATCACTAGAGCAATTGCAGATCAAAGCAGAACAATTCGTTTGCCTGTGCATTTATACGAAACAAT
TTCAAGGATCAAGAAAACCACTAAAGTTTTAAGTCAAGAGTTTGGAAGGAAACCAACCGAGGAAGAAATCGCCGAAAGCA
TGGAAATGACGATTGAAAAACTCAGATTCATTGCAAAAAGCGCTCAGCTCCCCATTTCTCTTGAGACCCCTATTGGGAAA
GAAGAAGATTCTAGACTTGGTGACTTTATTGAAGCAGACATAGAAAATCCTGAACAAGATGTGGCAAAAACCTTATTAAG
AGAAGATTTGGAGGGTGTTCTCGCTACATTAAGTCCAAGAGAGAGGGATGTTCTAAGACTTCGTTATGGCTTAGATGATG
GAAGAATGAAAACCCTTGAAGAAATTGGACAAATTTTTGATGTAACTAGAGAGAGAATCAGACAAATAGAGGCTAAGGCT
CTCAGAAAACTCCGCCATCCAAACAGAAACGGGGTTCTTAAAGAATATATCAAGCTAAATTAA

Upstream 100 bases:

>100_bases
TTAAATAGTTTTTCCTGAAATATCATCTCTAGGAGATTCCGACCAATTTTCGGGTAATAACCTGAGCTCTGCAACTGACC
ACAAAACCATCGGGGAAATC

Downstream 100 bases:

>100_bases
AACTTTAAACTAAATAACCTTTACTTTTACAAGCAACAAATACAAATAATTGTTTAGATCATAGATTTCATTTCACATCA
ACCTTATTAAATTATTTTCC

Product: RNA polymerase sigma factor RpoD

Products: NA

Alternate protein names: Sigma-A [H]

Number of amino acids: Translated: 420; Mature: 420

Protein sequence:

>420_residues
MLKEKQTSKNISINQDPKNNSKKIKKTAAKVNVTKETQTLPQESSNDLKIDLDLEADKLIAEANKVPEADIDLDDDDDNA
SVLSSAQEAAAKALASIKIGPKGVYTEDSIRVYLQEIGRIRLLRPDEEIELARKIADLLQLEEEAAQFESENGHFPSVKE
WAVLADMPLTRFRRRLMLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATW
WIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFGRKPTEEEIAESMEMTIEKLRFIAKSAQLPISLETPIGK
EEDSRLGDFIEADIENPEQDVAKTLLREDLEGVLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQIEAKA
LRKLRHPNRNGVLKEYIKLN

Sequences:

>Translated_420_residues
MLKEKQTSKNISINQDPKNNSKKIKKTAAKVNVTKETQTLPQESSNDLKIDLDLEADKLIAEANKVPEADIDLDDDDDNA
SVLSSAQEAAAKALASIKIGPKGVYTEDSIRVYLQEIGRIRLLRPDEEIELARKIADLLQLEEEAAQFESENGHFPSVKE
WAVLADMPLTRFRRRLMLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATW
WIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFGRKPTEEEIAESMEMTIEKLRFIAKSAQLPISLETPIGK
EEDSRLGDFIEADIENPEQDVAKTLLREDLEGVLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQIEAKA
LRKLRHPNRNGVLKEYIKLN
>Mature_420_residues
MLKEKQTSKNISINQDPKNNSKKIKKTAAKVNVTKETQTLPQESSNDLKIDLDLEADKLIAEANKVPEADIDLDDDDDNA
SVLSSAQEAAAKALASIKIGPKGVYTEDSIRVYLQEIGRIRLLRPDEEIELARKIADLLQLEEEAAQFESENGHFPSVKE
WAVLADMPLTRFRRRLMLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATW
WIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFGRKPTEEEIAESMEMTIEKLRFIAKSAQLPISLETPIGK
EEDSRLGDFIEADIENPEQDVAKTLLREDLEGVLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQIEAKA
LRKLRHPNRNGVLKEYIKLN

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=297, Evalue=1e-81,
Organism=Escherichia coli, GI1789098, Length=236, Percent_Identity=43.2203389830509, Blast_Score=195, Evalue=5e-51,
Organism=Escherichia coli, GI1789871, Length=245, Percent_Identity=29.3877551020408, Blast_Score=85, Evalue=9e-18,
Organism=Escherichia coli, GI1788231, Length=202, Percent_Identity=30.6930693069307, Blast_Score=74, Evalue=2e-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: 48010; Mature: 48010

Theoretical pI: Translated: 7.79; Mature: 7.79

Prosite motif: PS00715 SIGMA70_1 ; PS00716 SIGMA70_2

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
MLKEKQTSKNISINQDPKNNSKKIKKTAAKVNVTKETQTLPQESSNDLKIDLDLEADKLI
CCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHCCCHHHHHCCCCCCCCEEEEECCCHHHHH
AEANKVPEADIDLDDDDDNASVLSSAQEAAAKALASIKIGPKGVYTEDSIRVYLQEIGRI
HHHCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCE
RLLRPDEEIELARKIADLLQLEEEAAQFESENGHFPSVKEWAVLADMPLTRFRRRLMLGR
EEECCCHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHCCCHHHHHHHHHHHH
RAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATW
HHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHCCCCHHHHHHHHHHHCCCCCCHHHHHH
WIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFGRKPTEEEIAESMEMTIEK
HHHHHHHHHHHCCCCEEEEHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHH
LRFIAKSAQLPISLETPIGKEEDSRLGDFIEADIENPEQDVAKTLLREDLEGVLATLSPR
HHHHHHHCCCCEEECCCCCCCCHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCC
ERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQIEAKALRKLRHPNRNGVLKEYIKLN
HHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHCC
>Mature Secondary Structure
MLKEKQTSKNISINQDPKNNSKKIKKTAAKVNVTKETQTLPQESSNDLKIDLDLEADKLI
CCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHCCCHHHHHCCCCCCCCEEEEECCCHHHHH
AEANKVPEADIDLDDDDDNASVLSSAQEAAAKALASIKIGPKGVYTEDSIRVYLQEIGRI
HHHCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCE
RLLRPDEEIELARKIADLLQLEEEAAQFESENGHFPSVKEWAVLADMPLTRFRRRLMLGR
EEECCCHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHCCCHHHHHHHHHHHH
RAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATW
HHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHCCCCHHHHHHHHHHHCCCCCCHHHHHH
WIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFGRKPTEEEIAESMEMTIEK
HHHHHHHHHHHCCCCEEEEHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHH
LRFIAKSAQLPISLETPIGKEEDSRLGDFIEADIENPEQDVAKTLLREDLEGVLATLSPR
HHHHHHHCCCCEEECCCCCCCCHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCC
ERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQIEAKALRKLRHPNRNGVLKEYIKLN
HHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHCC

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]