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The map label for this gene is rpoD [H]

Identifier: 197294657

GI number: 197294657

Start: 608288

End: 609718

Strand: Reverse

Name: rpoD [H]

Synonym: PAa_0613

Alternate gene names: 197294657

Gene position: 609718-608288 (Counterclockwise)

Preceding gene: 197294658

Following gene: 197294656

Centisome position: 69.29

GC content: 29.84

Gene sequence:

>1431_bases
ATGGATTTTAAGGAAGCTATTAGAATTTTAAATAATAAAATAGGCCAAAACAAAGAAATAACTTTTCAAACTATTCGCTC
TTGCTTTGAGGGGCAAAATTCAGATCTTTTTTATCAACAAATTGAAAATGAATTAAAAAAGCAAGGAGTTAAAGTTGTTT
CTTCTTCTAACCAAAATTTTTTATATCAAAATGAATGTCAACCTACTGCAGATACTTTTTTAAAAGATGATTTTGAAGGT
GCGCAAGAATTAGAAGAAATTAGCAATCCAAATTTTTCCTCAAATGAAAATGAATACCCAATCGATGAAAAAAATTTGTT
AGCTGCTGACTTTCAAGAAACAGAAATTCCTGAACCATCAAATCTTTCTAATGATTTTATCGCAAATGACTCTAAATTAG
ATGAAGACCTAGATTTAGATTTCGATCCGGATTTAGAAATAGATCCTGAGGATGATAAATTTTCTAAAGAAAATATCACC
AAAATTAATTCTGATATTAAAATAGATGATTCTGTGAGAATGTATTTAAAGGAAATTGGTCGTATTCCTTTGCTTTCCAA
AGAAGAAGAACAGAAAAAAACCTTTGCAGTTTTTTTAGGAAAAGAAGCAAAAAAAAAATTAACTAAATTCCGCAATCAAG
AAATTGATTTATCAGATCAAGAAGTTAAACAATTAGAATCTCAAATTATTCAAGCTAATCAAGCCAAAGATGTTTTAGTA
GAATCAAATTATCGTTTGGTAGTTTCGATTGCTAAACGTTATATTGGTCGTGGAGTTTTATTTCTAGATTTGATTCAAGA
AGGAAATATGGGATTAATGCGTGCTGTTGACAAATTTGATTATCAAAAAGGGTTGAGACTTTCAACTTATGCCACTTATT
GGGTTATCCAAGGTGTCACAAGAGCAATCGCTGATCAAGCAAGAACCATTAGAATACCTGTTCATATTGTTGAAACTATT
AATAAAATGTCTCTTTGTACGAGAAAATTAACCCAAGAATTAAAGAAAAAACCTACAATCGAAGAGTTAGCTGAAAAAAT
GAATATACCTGCTGACAAATTAAGAAGCATTCAATATATTGAAAAAAAACCGATTTCCTTAGAAGTTCCACCAGCTGAAA
ATAAAGAAGATGAAACCTCTTTGGGTGATTTCATTTCAGACCCTAATGTTTTATCGCCTCATGAATATATGATGAAAGAA
GTGACTCAAAAACTTTTAGATGAAGTTTTAGAAAACACTTTAACTGAACGCGAAGAAAAAGTTTTAAAAATGCGTTACGG
TTTTCTTGATGGAAAAGTTTATACTTTAGAAGAAATTGGCAATTTGTTCGGTGTTACTAGAGAAAGAATTCGCCAAATTG
AATCCAAAGCCTTAAGACGTTTAAGAACCCCAGCTAAACAAAGTAAATTAAAAAGTTTATATCAAAACTAA

Upstream 100 bases:

>100_bases
ATTTATATCAATTAAGTGATTTGCAGAAAAAACTAAAAAAACTTTTAGAAAAAATAAACTAATTTTGAGAGAAAAAATAA
AAAATAAAGGTAGGTTAAAA

Downstream 100 bases:

>100_bases
AAAGAAAAAATGAAACGCATTAACTTTATCGCTTCTTTAACTAAAAATTATAATACCGTCTTAGATATAGGAACTGACCA
TGGATTTGTTTTAAAAAAAG

Product: RNA polymerase sigma factor

Products: NA

Alternate protein names: Sigma-42 [H]

Number of amino acids: Translated: 476; Mature: 476

Protein sequence:

>476_residues
MDFKEAIRILNNKIGQNKEITFQTIRSCFEGQNSDLFYQQIENELKKQGVKVVSSSNQNFLYQNECQPTADTFLKDDFEG
AQELEEISNPNFSSNENEYPIDEKNLLAADFQETEIPEPSNLSNDFIANDSKLDEDLDLDFDPDLEIDPEDDKFSKENIT
KINSDIKIDDSVRMYLKEIGRIPLLSKEEEQKKTFAVFLGKEAKKKLTKFRNQEIDLSDQEVKQLESQIIQANQAKDVLV
ESNYRLVVSIAKRYIGRGVLFLDLIQEGNMGLMRAVDKFDYQKGLRLSTYATYWVIQGVTRAIADQARTIRIPVHIVETI
NKMSLCTRKLTQELKKKPTIEELAEKMNIPADKLRSIQYIEKKPISLEVPPAENKEDETSLGDFISDPNVLSPHEYMMKE
VTQKLLDEVLENTLTEREEKVLKMRYGFLDGKVYTLEEIGNLFGVTRERIRQIESKALRRLRTPAKQSKLKSLYQN

Sequences:

>Translated_476_residues
MDFKEAIRILNNKIGQNKEITFQTIRSCFEGQNSDLFYQQIENELKKQGVKVVSSSNQNFLYQNECQPTADTFLKDDFEG
AQELEEISNPNFSSNENEYPIDEKNLLAADFQETEIPEPSNLSNDFIANDSKLDEDLDLDFDPDLEIDPEDDKFSKENIT
KINSDIKIDDSVRMYLKEIGRIPLLSKEEEQKKTFAVFLGKEAKKKLTKFRNQEIDLSDQEVKQLESQIIQANQAKDVLV
ESNYRLVVSIAKRYIGRGVLFLDLIQEGNMGLMRAVDKFDYQKGLRLSTYATYWVIQGVTRAIADQARTIRIPVHIVETI
NKMSLCTRKLTQELKKKPTIEELAEKMNIPADKLRSIQYIEKKPISLEVPPAENKEDETSLGDFISDPNVLSPHEYMMKE
VTQKLLDEVLENTLTEREEKVLKMRYGFLDGKVYTLEEIGNLFGVTRERIRQIESKALRRLRTPAKQSKLKSLYQN
>Mature_476_residues
MDFKEAIRILNNKIGQNKEITFQTIRSCFEGQNSDLFYQQIENELKKQGVKVVSSSNQNFLYQNECQPTADTFLKDDFEG
AQELEEISNPNFSSNENEYPIDEKNLLAADFQETEIPEPSNLSNDFIANDSKLDEDLDLDFDPDLEIDPEDDKFSKENIT
KINSDIKIDDSVRMYLKEIGRIPLLSKEEEQKKTFAVFLGKEAKKKLTKFRNQEIDLSDQEVKQLESQIIQANQAKDVLV
ESNYRLVVSIAKRYIGRGVLFLDLIQEGNMGLMRAVDKFDYQKGLRLSTYATYWVIQGVTRAIADQARTIRIPVHIVETI
NKMSLCTRKLTQELKKKPTIEELAEKMNIPADKLRSIQYIEKKPISLEVPPAENKEDETSLGDFISDPNVLSPHEYMMKE
VTQKLLDEVLENTLTEREEKVLKMRYGFLDGKVYTLEEIGNLFGVTRERIRQIESKALRRLRTPAKQSKLKSLYQN

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=281, Percent_Identity=48.7544483985765, Blast_Score=265, Evalue=4e-72,
Organism=Escherichia coli, GI1789098, Length=339, Percent_Identity=35.1032448377581, Blast_Score=196, Evalue=3e-51,
Organism=Escherichia coli, GI1789871, Length=246, Percent_Identity=26.8292682926829, Blast_Score=91, Evalue=2e-19,
Organism=Escherichia coli, GI1788231, Length=202, Percent_Identity=27.7227722772277, Blast_Score=63, Evalue=4e-11,

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: 55056; Mature: 55056

Theoretical pI: Translated: 4.73; Mature: 4.73

Prosite motif: PS00715 SIGMA70_1 ; PS00716 SIGMA70_2

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.6 %Cys     (Translated Protein)
1.9 %Met     (Translated Protein)
2.5 %Cys+Met (Translated Protein)
0.6 %Cys     (Mature Protein)
1.9 %Met     (Mature Protein)
2.5 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MDFKEAIRILNNKIGQNKEITFQTIRSCFEGQNSDLFYQQIENELKKQGVKVVSSSNQNF
CCHHHHHHHHHHHCCCCCCHHHHHHHHHHCCCCCCHHHHHHHHHHHHCCHHHHCCCCCCC
LYQNECQPTADTFLKDDFEGAQELEEISNPNFSSNENEYPIDEKNLLAADFQETEIPEPS
EECCCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCHHCCCCCCC
NLSNDFIANDSKLDEDLDLDFDPDLEIDPEDDKFSKENITKINSDIKIDDSVRMYLKEIG
CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHCCCCCEECHHHHHHHHHHC
RIPLLSKEEEQKKTFAVFLGKEAKKKLTKFRNQEIDLSDQEVKQLESQIIQANQAKDVLV
CCCCCCCHHHHHHHHHHHHCHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHCCHHHHEE
ESNYRLVVSIAKRYIGRGVLFLDLIQEGNMGLMRAVDKFDYQKGLRLSTYATYWVIQGVT
CCCCHHHHHHHHHHHCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHH
RAIADQARTIRIPVHIVETINKMSLCTRKLTQELKKKPTIEELAEKMNIPADKLRSIQYI
HHHHHCCCEEEEHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHCCCHHHHHHHHHH
EKKPISLEVPPAENKEDETSLGDFISDPNVLSPHEYMMKEVTQKLLDEVLENTLTEREEK
HCCCCEEECCCCCCCCCHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
VLKMRYGFLDGKVYTLEEIGNLFGVTRERIRQIESKALRRLRTPAKQSKLKSLYQN
HHHHHHCCCCCCEEEHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHCC
>Mature Secondary Structure
MDFKEAIRILNNKIGQNKEITFQTIRSCFEGQNSDLFYQQIENELKKQGVKVVSSSNQNF
CCHHHHHHHHHHHCCCCCCHHHHHHHHHHCCCCCCHHHHHHHHHHHHCCHHHHCCCCCCC
LYQNECQPTADTFLKDDFEGAQELEEISNPNFSSNENEYPIDEKNLLAADFQETEIPEPS
EECCCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCHHCCCCCCC
NLSNDFIANDSKLDEDLDLDFDPDLEIDPEDDKFSKENITKINSDIKIDDSVRMYLKEIG
CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHCCCCCEECHHHHHHHHHHC
RIPLLSKEEEQKKTFAVFLGKEAKKKLTKFRNQEIDLSDQEVKQLESQIIQANQAKDVLV
CCCCCCCHHHHHHHHHHHHCHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHCCHHHHEE
ESNYRLVVSIAKRYIGRGVLFLDLIQEGNMGLMRAVDKFDYQKGLRLSTYATYWVIQGVT
CCCCHHHHHHHHHHHCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHH
RAIADQARTIRIPVHIVETINKMSLCTRKLTQELKKKPTIEELAEKMNIPADKLRSIQYI
HHHHHCCCEEEEHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHCCCHHHHHHHHHH
EKKPISLEVPPAENKEDETSLGDFISDPNVLSPHEYMMKEVTQKLLDEVLENTLTEREEK
HCCCCEEECCCCCCCCCHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
VLKMRYGFLDGKVYTLEEIGNLFGVTRERIRQIESKALRRLRTPAKQSKLKSLYQN
HHHHHHCCCCCCEEEHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHCC

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: 9209063; 12397186 [H]