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The map label for this gene is rpoD [H]

Identifier: 114797662

GI number: 114797662

Start: 3045686

End: 3047686

Strand: Reverse

Name: rpoD [H]

Synonym: HNE_2888

Alternate gene names: 114797662

Gene position: 3047686-3045686 (Counterclockwise)

Preceding gene: 114799204

Following gene: 114798423

Centisome position: 82.26

GC content: 60.47

Gene sequence:

>2001_bases
ATGGCGACAGCCACCAAGAAGAAAAAGAACACGGCCGGTGACGGCGAGGGCGAAGACGACAAAGAGACGGAAAGCGGTCT
TGTCGATTTTAACGCCACAGACGTCAAAAAGGTTCTGAAGCGCGCCCAGAAGCGCGGCTTCATCACCCATGATGAGATAA
ACCAGCTTCTGCCGGACTCCGACATGAGTTCCGACCAGATCGAGGACGTGATGTCCCAGATCTCGGAGATGGGCATCGCT
GTGGTCGAGACCGAGGAAGAGGCCGAAGAACAGGGCAAGGCCCTCACCAAGATCGAGGACAAGAAAGTCGTCGCCAAGAA
GGGCAATGCCCGTGGCAGCGACCGGACCGACGATCCGGTGCGGATGTATCTGCGCGAGATGGGCGCGGTGGAGCTTCTTT
CCCGTGAGGGCGAGATTGCGATTGCCAAGCGCATCGAGGCCGGCCGGGACGCGATGATCCGCGGCCTGTGCGAAAGCCCG
CTGACCTTCGAGGCCATGATGGTGTGGCGCGATGAGCTCATGAATGAGCGCATCCTGCTGCGCGACCTGATCGACCTGGA
AGCCACCTATGGCGCGGAAAATCCGCCGCCCGAGCCCAAGCCTGTCGAAGAACGCCCGCCTGAGCCGGCTGCGCCGGTCA
AGGGCAAGAAGCGGTCTGCCGAAGAGGTCGACGAGGTTGAGGCTGAGCGCATGCGCCAGCAGCAGCAGGAAGAGGAAGAG
GAAGACGACGCGGTTGCGATGTCGATGTCGGCGATGGAAGGGGAGCTGCGCGAAGGCGTGCTCGCCAAGCTCGACGAGAT
TGCCGACGCGTTCAGCCGTTTCCGCAAGCTTCAGGATCGCCTGCTGGTCCGCCGGATTGAGGGCAAGGACCTTACCCCCA
AGGCACAGGGCGAATATGACGACCTGTCTCTGCAGATCGTGGACAATCTCAAGACGATCCACATCAACAACGCCCGTATC
GAGGCGCTGGTGGAGCAGCTCTACGCCATCAACAAGAAGCTGATGGGCCTTGAAGGCAAGCTGATGCGTCTGGCTGACGC
TCATGGCGTGCCGCGCAAGGAGTTCCTGCACAACTATATCGGCAGCGAGCTTGAGCCTGACTGGGCCGAGCGCGTGCGCG
AGATTTCGGCGAAATGGAAACGCCTGGTCGACGGCAAGGGCGAGGAAGTCCAGGTCGTTCGCGACGAGATTTCCGAGATT
GCCCAGGAAATCGGCATTCCAATCGATGACTTCCGCCGGATCGTTCAGACCGTGCAGAAGGGCGAGCGGGAAGCGCGCAT
CGCGAAGAAGGAGATGGTGGAAGCCAACCTCCGCCTCGTGATCTCGATTGCCAAGAAATATACCAACCGCGGCCTGCAAT
TCCTGGATCTCATCCAGGAGGGCAATATCGGCCTCATGAAAGCGGTCGATAAGTTCGAATATCGCCGCGGCTACAAATTC
TCGACCTATGCCACCTGGTGGATCCGTCAGGCCATTACCCGCTCTATTGCGGACCAGGCCCGGACGATCCGTATCCCGGT
GCACATGATCGAGACGATCAACAAGATCATCCGTACACAGCGCCAGATGCTGCACGAGATCGGCCGCGAGCCGACCCCGG
AAGAACTGGCCGAAAAGCTCGGCCTGCCGCTGGAGAAGATCCGCAAGGTTCTGAAAATCGCGAAAGAGCCGATCTCGCTG
GAAACGCCGATTGGCGACGACGAGGATTCAAACCTCGGCGACTTCATCGAGGACAAGATGGCGCTGCTTCCCGTGGACGC
GGCCATCCAGTCGAACCTGCGCGAGACGACGACCCGCGTGCTGGCTTCGCTCACCCCACGTGAGGAACGCGTTCTGCGGA
TGCGCTTTGGCATCGGCATGAACACGGACCACACGCTGGAAGAAGTCGGCCAGCAGTTCTCGGTCACCCGCGAACGCATC
CGCCAGATCGAGGCGAAGGCGCTGAGGAAACTCAAGCACCCGAGCCGGAGCCGGAAGCTGCGAAGCTTTCTGGATACCTG
A

Upstream 100 bases:

>100_bases
CATCCAGCAAGAGCAGCGATAGCTGAACTGAACGGTAAAGCGACAGGCACTGGCACGGCAGCTTGCGAGGCTACCGGTCC
GGACGGGAGATAGCTGAGAT

Downstream 100 bases:

>100_bases
TCCAATTCCAAAGGGCGGCCCAAAAGGCCGCCCTTTTTGTATGGCTTGACGAAGGCCGCAATGCCGGGTCGAATATTCGG
ATACCCTGTCGGAGCTCGTC

Product: RNA polymerase sigma factor RpoD

Products: NA

Alternate protein names: Sigma-70 [H]

Number of amino acids: Translated: 666; Mature: 665

Protein sequence:

>666_residues
MATATKKKKNTAGDGEGEDDKETESGLVDFNATDVKKVLKRAQKRGFITHDEINQLLPDSDMSSDQIEDVMSQISEMGIA
VVETEEEAEEQGKALTKIEDKKVVAKKGNARGSDRTDDPVRMYLREMGAVELLSREGEIAIAKRIEAGRDAMIRGLCESP
LTFEAMMVWRDELMNERILLRDLIDLEATYGAENPPPEPKPVEERPPEPAAPVKGKKRSAEEVDEVEAERMRQQQQEEEE
EDDAVAMSMSAMEGELREGVLAKLDEIADAFSRFRKLQDRLLVRRIEGKDLTPKAQGEYDDLSLQIVDNLKTIHINNARI
EALVEQLYAINKKLMGLEGKLMRLADAHGVPRKEFLHNYIGSELEPDWAERVREISAKWKRLVDGKGEEVQVVRDEISEI
AQEIGIPIDDFRRIVQTVQKGEREARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF
STYATWWIRQAITRSIADQARTIRIPVHMIETINKIIRTQRQMLHEIGREPTPEELAEKLGLPLEKIRKVLKIAKEPISL
ETPIGDDEDSNLGDFIEDKMALLPVDAAIQSNLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERI
RQIEAKALRKLKHPSRSRKLRSFLDT

Sequences:

>Translated_666_residues
MATATKKKKNTAGDGEGEDDKETESGLVDFNATDVKKVLKRAQKRGFITHDEINQLLPDSDMSSDQIEDVMSQISEMGIA
VVETEEEAEEQGKALTKIEDKKVVAKKGNARGSDRTDDPVRMYLREMGAVELLSREGEIAIAKRIEAGRDAMIRGLCESP
LTFEAMMVWRDELMNERILLRDLIDLEATYGAENPPPEPKPVEERPPEPAAPVKGKKRSAEEVDEVEAERMRQQQQEEEE
EDDAVAMSMSAMEGELREGVLAKLDEIADAFSRFRKLQDRLLVRRIEGKDLTPKAQGEYDDLSLQIVDNLKTIHINNARI
EALVEQLYAINKKLMGLEGKLMRLADAHGVPRKEFLHNYIGSELEPDWAERVREISAKWKRLVDGKGEEVQVVRDEISEI
AQEIGIPIDDFRRIVQTVQKGEREARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF
STYATWWIRQAITRSIADQARTIRIPVHMIETINKIIRTQRQMLHEIGREPTPEELAEKLGLPLEKIRKVLKIAKEPISL
ETPIGDDEDSNLGDFIEDKMALLPVDAAIQSNLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERI
RQIEAKALRKLKHPSRSRKLRSFLDT
>Mature_665_residues
ATATKKKKNTAGDGEGEDDKETESGLVDFNATDVKKVLKRAQKRGFITHDEINQLLPDSDMSSDQIEDVMSQISEMGIAV
VETEEEAEEQGKALTKIEDKKVVAKKGNARGSDRTDDPVRMYLREMGAVELLSREGEIAIAKRIEAGRDAMIRGLCESPL
TFEAMMVWRDELMNERILLRDLIDLEATYGAENPPPEPKPVEERPPEPAAPVKGKKRSAEEVDEVEAERMRQQQQEEEEE
DDAVAMSMSAMEGELREGVLAKLDEIADAFSRFRKLQDRLLVRRIEGKDLTPKAQGEYDDLSLQIVDNLKTIHINNARIE
ALVEQLYAINKKLMGLEGKLMRLADAHGVPRKEFLHNYIGSELEPDWAERVREISAKWKRLVDGKGEEVQVVRDEISEIA
QEIGIPIDDFRRIVQTVQKGEREARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFS
TYATWWIRQAITRSIADQARTIRIPVHMIETINKIIRTQRQMLHEIGREPTPEELAEKLGLPLEKIRKVLKIAKEPISLE
TPIGDDEDSNLGDFIEDKMALLPVDAAIQSNLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIR
QIEAKALRKLKHPSRSRKLRSFLDT

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=644, Percent_Identity=47.8260869565217, Blast_Score=506, Evalue=1e-144,
Organism=Escherichia coli, GI1789098, Length=233, Percent_Identity=41.6309012875536, Blast_Score=213, Evalue=4e-56,
Organism=Escherichia coli, GI1789871, Length=242, Percent_Identity=26.8595041322314, Blast_Score=87, Evalue=4e-18,
Organism=Escherichia coli, GI1788231, Length=202, Percent_Identity=28.2178217821782, Blast_Score=70, Evalue=3e-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:   IPR007631
- InterPro:   IPR007127
- InterPro:   IPR013325
- InterPro:   IPR013324
- InterPro:   IPR012760
- InterPro:   IPR011991 [H]

Pfam domain/function: PF04546 Sigma70_ner; PF03979 Sigma70_r1_1; PF00140 Sigma70_r1_2; PF04542 Sigma70_r2; PF04539 Sigma70_r3; PF04545 Sigma70_r4 [H]

EC number: NA

Molecular weight: Translated: 75950; Mature: 75819

Theoretical pI: Translated: 5.14; Mature: 5.14

Prosite motif: PS00715 SIGMA70_1 ; PS00716 SIGMA70_2

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.2 %Cys     (Translated Protein)
3.5 %Met     (Translated Protein)
3.6 %Cys+Met (Translated Protein)
0.2 %Cys     (Mature Protein)
3.3 %Met     (Mature Protein)
3.5 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MATATKKKKNTAGDGEGEDDKETESGLVDFNATDVKKVLKRAQKRGFITHDEINQLLPDS
CCCCCCCCCCCCCCCCCCCCCHHHCCCCCCCHHHHHHHHHHHHHCCCCCHHHHHHHCCCC
DMSSDQIEDVMSQISEMGIAVVETEEEAEEQGKALTKIEDKKVVAKKGNARGSDRTDDPV
CCCHHHHHHHHHHHHHCCEEEEECHHHHHHHCCHHHHHHHHHHHHHCCCCCCCCCCCHHH
RMYLREMGAVELLSREGEIAIAKRIEAGRDAMIRGLCESPLTFEAMMVWRDELMNERILL
HHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCHHHH
RDLIDLEATYGAENPPPEPKPVEERPPEPAAPVKGKKRSAEEVDEVEAERMRQQQQEEEE
HHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHH
EDDAVAMSMSAMEGELREGVLAKLDEIADAFSRFRKLQDRLLVRRIEGKDLTPKAQGEYD
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCC
DLSLQIVDNLKTIHINNARIEALVEQLYAINKKLMGLEGKLMRLADAHGVPRKEFLHNYI
CHHHEEECCCEEEEECHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHCCCCHHHHHHHHH
GSELEPDWAERVREISAKWKRLVDGKGEEVQVVRDEISEIAQEIGIPIDDFRRIVQTVQK
CCCCCCHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
GEREARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF
CHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHCCCCHHHHHHHHHHHHCCCCC
STYATWWIRQAITRSIADQARTIRIPVHMIETINKIIRTQRQMLHEIGREPTPEELAEKL
HHHHHHHHHHHHHHHHHHHHHEEEHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHH
GLPLEKIRKVLKIAKEPISLETPIGDDEDSNLGDFIEDKMALLPVDAAIQSNLRETTTRV
CCCHHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHH
LASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKL
HHHCCCHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHH
RSFLDT
HHHHCC
>Mature Secondary Structure 
ATATKKKKNTAGDGEGEDDKETESGLVDFNATDVKKVLKRAQKRGFITHDEINQLLPDS
CCCCCCCCCCCCCCCCCCCCHHHCCCCCCCHHHHHHHHHHHHHCCCCCHHHHHHHCCCC
DMSSDQIEDVMSQISEMGIAVVETEEEAEEQGKALTKIEDKKVVAKKGNARGSDRTDDPV
CCCHHHHHHHHHHHHHCCEEEEECHHHHHHHCCHHHHHHHHHHHHHCCCCCCCCCCCHHH
RMYLREMGAVELLSREGEIAIAKRIEAGRDAMIRGLCESPLTFEAMMVWRDELMNERILL
HHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCHHHH
RDLIDLEATYGAENPPPEPKPVEERPPEPAAPVKGKKRSAEEVDEVEAERMRQQQQEEEE
HHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHH
EDDAVAMSMSAMEGELREGVLAKLDEIADAFSRFRKLQDRLLVRRIEGKDLTPKAQGEYD
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCC
DLSLQIVDNLKTIHINNARIEALVEQLYAINKKLMGLEGKLMRLADAHGVPRKEFLHNYI
CHHHEEECCCEEEEECHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHCCCCHHHHHHHHH
GSELEPDWAERVREISAKWKRLVDGKGEEVQVVRDEISEIAQEIGIPIDDFRRIVQTVQK
CCCCCCHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
GEREARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF
CHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHCCCCHHHHHHHHHHHHCCCCC
STYATWWIRQAITRSIADQARTIRIPVHMIETINKIIRTQRQMLHEIGREPTPEELAEKL
HHHHHHHHHHHHHHHHHHHHHEEEHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHH
GLPLEKIRKVLKIAKEPISLETPIGDDEDSNLGDFIEDKMALLPVDAAIQSNLRETTTRV
CCCHHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHH
LASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKL
HHHCCCHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHH
RSFLDT
HHHHCC

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: 7543475; 11259647 [H]