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The map label for this gene is rpoD [H]

Identifier: 154686781

GI number: 154686781

Start: 2469740

End: 2470861

Strand: Reverse

Name: rpoD [H]

Synonym: RBAM_023510

Alternate gene names: 154686781

Gene position: 2470861-2469740 (Counterclockwise)

Preceding gene: 154686782

Following gene: 154686780

Centisome position: 63.05

GC content: 44.3

Gene sequence:

>1122_bases
ATGGCTGATAAACAAACCCACGAAACAGAAACAGAACTTACATTAGACCAGGTAAAAGAGCAGCTTACTGAAACTGGAAA
AAAACGTGGCGTTTTAACATATGAAGAAATTGCTGAACGCATGTCCAGCTTTGAAATTGAATCAGACCAAATGGATGAGT
ATTATGAATTTTTAGGAGAACAAGGTGTTGAATTAATTAGTGAAAATGAAGAAACGGAAGATCCTAATATTCAACAGCTT
GCCAAAGCCGAAGAAGAATTTGACCTTAATGACCTCAGCGTACCGCCTGGCGTAAAGATCAATGATCCAGTCCGCATGTA
CCTTAAGGAAATCGGACGGGTAAATCTTCTTTCTGCTAAAGAAGAAATCACCTACGCTCAAAAAATTGAAGAGGGTGACG
AGGAATCTAAACGCAGACTGGCTGAAGCAAACCTTCGTTTAGTTGTCAGCATTGCTAAACGGTATGTCGGCCGCGGCATG
CTTTTCTTAGACTTGATCCAAGAAGGAAACATGGGTCTCATGAAAGCCGTCGAGAAGTTTGACTACCGTAAAGGATATAA
ATTCAGTACGTATGCGACTTGGTGGATCAGACAGGCGATTACACGCGCCATCGCTGACCAGGCGAGAACAATCCGTATCC
CGGTTCACATGGTGGAAACCATCAACAAATTAATCCGGGTGCAGCGTCAGCTTCTTCAGGATCTTGGCAGAGAGCCGACA
CCGGAAGAGATTGCTGAAGACATGGATCTTACACCTGAAAAAGTCCGTGAAATATTAAAAATTGCTCAAGAGCCTGTTTC
TTTAGAAACGCCGATCGGTGAAGAAGACGACTCACATCTCGGTGACTTCATCGAAGACCAGGAAGCGACATCTCCGTCGG
ATCATGCGGCATATGAGCTTTTAAAAGAACAGCTGGAAGATGTGCTGGATACGTTGACAGATCGTGAAGAAAACGTGCTG
CGTCTCCGTTTCGGTCTGGATGACGGACGCACAAGAACTTTGGAAGAAGTAGGCAAAGTGTTTGGAGTAACGAGAGAGCG
TATTCGCCAAATTGAAGCAAAAGCGCTTCGCAAATTGAGACATCCGAGCAGAAGCAAACGTCTGAAGGATTTTCTCGAAT
AG

Upstream 100 bases:

>100_bases
CCGCAGCCCTGCATGCTGAAAAAGAGAGAAGGCTTCCGGGTCGGATAAGAAACATACCGCTTTTAGAATTCGTTGCAAGC
TTTGGAAGGAGGGATCCATA

Downstream 100 bases:

>100_bases
AATGGAACGGGTCTTTTTGATCCGTTCTTTTTTATGTATAAGATATATGGATAATATACCTTTATTTTACTGGATAAGCA
TATGTTTTGCAAATGAGTTT

Product: RNA polymerase sigma factor RpoD

Products: NA

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

Number of amino acids: Translated: 373; Mature: 372

Protein sequence:

>373_residues
MADKQTHETETELTLDQVKEQLTETGKKRGVLTYEEIAERMSSFEIESDQMDEYYEFLGEQGVELISENEETEDPNIQQL
AKAEEEFDLNDLSVPPGVKINDPVRMYLKEIGRVNLLSAKEEITYAQKIEEGDEESKRRLAEANLRLVVSIAKRYVGRGM
LFLDLIQEGNMGLMKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGREPT
PEEIAEDMDLTPEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQEATSPSDHAAYELLKEQLEDVLDTLTDREENVL
RLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFLE

Sequences:

>Translated_373_residues
MADKQTHETETELTLDQVKEQLTETGKKRGVLTYEEIAERMSSFEIESDQMDEYYEFLGEQGVELISENEETEDPNIQQL
AKAEEEFDLNDLSVPPGVKINDPVRMYLKEIGRVNLLSAKEEITYAQKIEEGDEESKRRLAEANLRLVVSIAKRYVGRGM
LFLDLIQEGNMGLMKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGREPT
PEEIAEDMDLTPEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQEATSPSDHAAYELLKEQLEDVLDTLTDREENVL
RLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFLE
>Mature_372_residues
ADKQTHETETELTLDQVKEQLTETGKKRGVLTYEEIAERMSSFEIESDQMDEYYEFLGEQGVELISENEETEDPNIQQLA
KAEEEFDLNDLSVPPGVKINDPVRMYLKEIGRVNLLSAKEEITYAQKIEEGDEESKRRLAEANLRLVVSIAKRYVGRGML
FLDLIQEGNMGLMKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGREPTP
EEIAEDMDLTPEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQEATSPSDHAAYELLKEQLEDVLDTLTDREENVLR
LRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFLE

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=238, Percent_Identity=69.327731092437, Blast_Score=347, Evalue=9e-97,
Organism=Escherichia coli, GI1789098, Length=321, Percent_Identity=42.9906542056075, Blast_Score=244, Evalue=9e-66,
Organism=Escherichia coli, GI1789871, Length=272, Percent_Identity=30.8823529411765, Blast_Score=112, Evalue=5e-26,
Organism=Escherichia coli, GI1788231, Length=202, Percent_Identity=29.7029702970297, Blast_Score=69, Evalue=6e-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:   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: 43189; Mature: 43058

Theoretical pI: Translated: 4.49; Mature: 4.49

Prosite motif: PS00715 SIGMA70_1 ; PS00716 SIGMA70_2

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.0 %Cys     (Translated Protein)
2.4 %Met     (Translated Protein)
2.4 %Cys+Met (Translated Protein)
0.0 %Cys     (Mature Protein)
2.2 %Met     (Mature Protein)
2.2 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MADKQTHETETELTLDQVKEQLTETGKKRGVLTYEEIAERMSSFEIESDQMDEYYEFLGE
CCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHHHHHHHH
QGVELISENEETEDPNIQQLAKAEEEFDLNDLSVPPGVKINDPVRMYLKEIGRVNLLSAK
HHHHHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHHCCCCCHHHHH
EEITYAQKIEEGDEESKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLMKAVEKF
HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHCCCHHHHHHHHHH
DYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGREPT
HHHCCCCCHHHHHHHHHHHHHHHHHHCCCEEEHHHHHHHHHHHHHHHHHHHHHHCCCCCC
PEEIAEDMDLTPEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQEATSPSDHAAYEL
HHHHHHCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHHHCCCCCCCHHHHHHH
LKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLR
HHHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
HPSRSKRLKDFLE
CCHHHHHHHHHHC
>Mature Secondary Structure 
ADKQTHETETELTLDQVKEQLTETGKKRGVLTYEEIAERMSSFEIESDQMDEYYEFLGE
CCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHHHHHHHHHH
QGVELISENEETEDPNIQQLAKAEEEFDLNDLSVPPGVKINDPVRMYLKEIGRVNLLSAK
HHHHHHHCCCCCCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHHCCCCCHHHHH
EEITYAQKIEEGDEESKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLMKAVEKF
HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHCCCHHHHHHHHHH
DYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGREPT
HHHCCCCCHHHHHHHHHHHHHHHHHHCCCEEEHHHHHHHHHHHHHHHHHHHHHHCCCCCC
PEEIAEDMDLTPEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQEATSPSDHAAYEL
HHHHHHCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHHHCCCCCCCHHHHHHH
LKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLR
HHHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
HPSRSKRLKDFLE
CCHHHHHHHHHHC

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: 2987246; 3086839; 8969508; 9384377; 2166045; 8363585 [H]