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The map label for this gene is rpoD [H]

Identifier: 158335266

GI number: 158335266

Start: 2096725

End: 2097996

Strand: Direct

Name: rpoD [H]

Synonym: AM1_2109

Alternate gene names: 158335266

Gene position: 2096725-2097996 (Clockwise)

Preceding gene: 158335264

Following gene: 158335267

Centisome position: 32.24

GC content: 49.53

Gene sequence:

>1272_bases
ATGTCGGCAATTCCGCAAAAAGCAGAAGTCATTCATGCCGTTTATGACGGTCAAGGGAACAGTCGTGACCTTGATCAAAA
TTCCAATGAACCTGAGGAAGTAGAGTTTGATCCAAACGCTGATTTAGATGATGATGCTTCCGAAGATCTTGCCGCTTTGA
AGATGACTCCCATTTCTGCTGCCAATCGTCGGGGAACGACGGATTTGGTGCGGTTATACTTGCAAGAAATTGGCCGAGTA
AGCCTACTAGAGCGGGATGAAGAAGTCGCTGAAGCCCAGAAGGTGCAACGCTATATGCATCTACTGGAAACGCGAGAAGA
ATTTTTAGAAAGCCATCCAGTGATTGCTGAGTATGCCCGTTTAACGGATGTCCGCGATCGATTGACCGCCATGTTGGGGC
ATCGTCCGTCCTTCAACCGCTGGGCCAAGGAAGCTGATATTCCAGTCGCAGATCTGAAGCCCCGCCTAGCTGAAGGCAAA
ACCGCCTGGGCAGAGAAAGCTGAGTTATCCAATGCGGAGCTTGACCAAATCGTTAAGCAAGGCATTAAAGCGAAAGAGCA
TATGATTCAAGCCAATCTACGCTTGGTCGTCTCGGTCGCGAAGAAATACCAAAACCGAGGTTTAGAACTTCTGGACTTGA
TTCAAGAAGGAACCTTAGGTCTAGAACGGGCAGTTGAAAAGTTTGATCCCACTAAAGGGTATCGCTTTAGTACCTATGCC
TACTGGTGGATTCGCCAAGGGATCACCCGTGCGATAGCAACTCAAAGCCGCACCATCCGCCTCCCGGTCCATATCACTGA
GAAGCTAAACAAAATCAAGAAGGCTCAGCGCAAGCTGTCCCAAAGCAAAGGCCGCACCGCCAGCATTGAGGACATTGCCC
AGGAAATGGATATGACCCCGGAGCAAATTCGGGAACTCTTAGTCCGCGTCCCCCGCTCCGTCTCCCTGGAGATCAAAGTT
GGTAAGGACAAAGATACAGAGTTAGGTGACCTGCTAGAAACGGATGATATTTCTCCAGAAGAGCTGATCATGCGAGAGTC
CTTACAACAAGAACTGAAGCAGCTCCTCGCCGACCTAACCCCTCGGGAGCGAGATGTGATCACCATGCGATTTGGCCTCA
ATGATGGCAAAACTCATTCCCTTGCCCAAATTGGTAAGTCCTTAGATTTATCACGGGAGCGGGTTCGCCAAATTGAATCG
AAGGCGTTACAAAAGCTTCGACAACCCAAGCGACGTAACCGCATCCGTGACTTTTTAGAGGCCTTTGCCTAA

Upstream 100 bases:

>100_bases
AGCCAAAACTAGAACTCTTCATATGCTTGAAAGTCTTATTTTTTGGGAACTATAGAGGAAGGGAGCTGTTTTCGCTTTAA
CCTGTTAGAGGTGATCTTAG

Downstream 100 bases:

>100_bases
CCCTCTCGACCTTAACAATTGCCAAGATCACCCTAAGGGGATCGCTAAGCGATCCCCTTTCTTGCATCAAGGGCAAATAG
ACTGCAATGCAGGACAGCGT

Product: RNA polymerase sigma factor SigC

Products: NA

Alternate protein names: NA

Number of amino acids: Translated: 423; Mature: 422

Protein sequence:

>423_residues
MSAIPQKAEVIHAVYDGQGNSRDLDQNSNEPEEVEFDPNADLDDDASEDLAALKMTPISAANRRGTTDLVRLYLQEIGRV
SLLERDEEVAEAQKVQRYMHLLETREEFLESHPVIAEYARLTDVRDRLTAMLGHRPSFNRWAKEADIPVADLKPRLAEGK
TAWAEKAELSNAELDQIVKQGIKAKEHMIQANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKFDPTKGYRFSTYA
YWWIRQGITRAIATQSRTIRLPVHITEKLNKIKKAQRKLSQSKGRTASIEDIAQEMDMTPEQIRELLVRVPRSVSLEIKV
GKDKDTELGDLLETDDISPEELIMRESLQQELKQLLADLTPRERDVITMRFGLNDGKTHSLAQIGKSLDLSRERVRQIES
KALQKLRQPKRRNRIRDFLEAFA

Sequences:

>Translated_423_residues
MSAIPQKAEVIHAVYDGQGNSRDLDQNSNEPEEVEFDPNADLDDDASEDLAALKMTPISAANRRGTTDLVRLYLQEIGRV
SLLERDEEVAEAQKVQRYMHLLETREEFLESHPVIAEYARLTDVRDRLTAMLGHRPSFNRWAKEADIPVADLKPRLAEGK
TAWAEKAELSNAELDQIVKQGIKAKEHMIQANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKFDPTKGYRFSTYA
YWWIRQGITRAIATQSRTIRLPVHITEKLNKIKKAQRKLSQSKGRTASIEDIAQEMDMTPEQIRELLVRVPRSVSLEIKV
GKDKDTELGDLLETDDISPEELIMRESLQQELKQLLADLTPRERDVITMRFGLNDGKTHSLAQIGKSLDLSRERVRQIES
KALQKLRQPKRRNRIRDFLEAFA
>Mature_422_residues
SAIPQKAEVIHAVYDGQGNSRDLDQNSNEPEEVEFDPNADLDDDASEDLAALKMTPISAANRRGTTDLVRLYLQEIGRVS
LLERDEEVAEAQKVQRYMHLLETREEFLESHPVIAEYARLTDVRDRLTAMLGHRPSFNRWAKEADIPVADLKPRLAEGKT
AWAEKAELSNAELDQIVKQGIKAKEHMIQANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKFDPTKGYRFSTYAY
WWIRQGITRAIATQSRTIRLPVHITEKLNKIKKAQRKLSQSKGRTASIEDIAQEMDMTPEQIRELLVRVPRSVSLEIKVG
KDKDTELGDLLETDDISPEELIMRESLQQELKQLLADLTPRERDVITMRFGLNDGKTHSLAQIGKSLDLSRERVRQIESK
ALQKLRQPKRRNRIRDFLEAFA

Specific function: Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released [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=239, Percent_Identity=48.5355648535565, Blast_Score=241, Evalue=9e-65,
Organism=Escherichia coli, GI1789098, Length=228, Percent_Identity=43.421052631579, Blast_Score=194, Evalue=9e-51,
Organism=Escherichia coli, GI1789871, Length=243, Percent_Identity=28.3950617283951, Blast_Score=90, Evalue=3e-19,
Organism=Escherichia coli, GI1788231, Length=236, Percent_Identity=27.1186440677966, Blast_Score=69, Evalue=4e-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:   IPR013325
- InterPro:   IPR013324
- 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: 48423; Mature: 48292

Theoretical pI: Translated: 6.44; Mature: 6.44

Prosite motif: PS00715 SIGMA70_1 ; PS00716 SIGMA70_2

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.0 %Cys     (Translated Protein)
2.1 %Met     (Translated Protein)
2.1 %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
MSAIPQKAEVIHAVYDGQGNSRDLDQNSNEPEEVEFDPNADLDDDASEDLAALKMTPISA
CCCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEECCCCCCCCCCCHHHHHHHHCCCCCC
ANRRGTTDLVRLYLQEIGRVSLLERDEEVAEAQKVQRYMHLLETREEFLESHPVIAEYAR
CCCCCHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHH
LTDVRDRLTAMLGHRPSFNRWAKEADIPVADLKPRLAEGKTAWAEKAELSNAELDQIVKQ
HHHHHHHHHHHHCCCCCHHHHHHHCCCCHHHCCCHHHCCCHHHHHHHHCCCHHHHHHHHH
GIKAKEHMIQANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKFDPTKGYRFSTYA
HHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHCCCCHHHHHHHCCCCCCCEEHHHH
YWWIRQGITRAIATQSRTIRLPVHITEKLNKIKKAQRKLSQSKGRTASIEDIAQEMDMTP
HHHHHHHHHHHHHCCCCEEEEEEHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHCCCH
EQIRELLVRVPRSVSLEIKVGKDKDTELGDLLETDDISPEELIMRESLQQELKQLLADLT
HHHHHHHHHCCCCEEEEEEECCCCCCHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHCC
PRERDVITMRFGLNDGKTHSLAQIGKSLDLSRERVRQIESKALQKLRQPKRRNRIRDFLE
CCCCCEEEEEECCCCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHCHHHHHHHHHHHH
AFA
HHC
>Mature Secondary Structure 
SAIPQKAEVIHAVYDGQGNSRDLDQNSNEPEEVEFDPNADLDDDASEDLAALKMTPISA
CCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEECCCCCCCCCCCHHHHHHHHCCCCCC
ANRRGTTDLVRLYLQEIGRVSLLERDEEVAEAQKVQRYMHLLETREEFLESHPVIAEYAR
CCCCCHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHH
LTDVRDRLTAMLGHRPSFNRWAKEADIPVADLKPRLAEGKTAWAEKAELSNAELDQIVKQ
HHHHHHHHHHHHCCCCCHHHHHHHCCCCHHHCCCHHHCCCHHHHHHHHCCCHHHHHHHHH
GIKAKEHMIQANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKFDPTKGYRFSTYA
HHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHCCCCHHHHHHHCCCCCCCEEHHHH
YWWIRQGITRAIATQSRTIRLPVHITEKLNKIKKAQRKLSQSKGRTASIEDIAQEMDMTP
HHHHHHHHHHHHHCCCCEEEEEEHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHCCCH
EQIRELLVRVPRSVSLEIKVGKDKDTELGDLLETDDISPEELIMRESLQQELKQLLADLT
HHHHHHHHHCCCCEEEEEEECCCCCCHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHCC
PRERDVITMRFGLNDGKTHSLAQIGKSLDLSRERVRQIESKALQKLRQPKRRNRIRDFLE
CCCCCEEEEEECCCCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHCHHHHHHHHHHHH
AFA
HHC

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: 1385387; 11759840 [H]