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The map label for this gene is rpoD [H]

Identifier: 89055941

GI number: 89055941

Start: 3497884

End: 3499890

Strand: Direct

Name: rpoD [H]

Synonym: Jann_3450

Alternate gene names: 89055941

Gene position: 3497884-3499890 (Clockwise)

Preceding gene: 89055940

Following gene: 89055942

Centisome position: 81.01

GC content: 61.14

Gene sequence:

>2007_bases
ATGGCCAAAGATACCGACGATCGTAAGCAGGACGGCGACGAGACCGAAATGGGCCTGGATATGAGCCAGGCCGCCGTCAA
GAAAATGATCGCGGAGGCTCGGGTCAGAGGCTACATCACCTACGATCAGCTCAACACCGTTCTGCCGCCGGAGCAGGTCA
GCTCGGAGCAGATCGAAGACGTCATGTCGATGCTGTCGGAGATGGGCATCAACATCATCGAGGATGATGAGGCCGAGGAA
GGCGACGACAAACCCGCCGGCGAATTGGTGACCACCGAAGGCTCCCGCGAGGTCGCGGTTGCAGCCACGGAGACCGAGAA
ACTCGACCGCACCGATGACCCCGTCCGCATGTATCTGCGCGAAATGGGCAGTGTGGAACTGCTGTCGCGTGAGGGCGAGA
TTGCCATCGCCAAGCGGATCGAGGCCGGGCGCAACACGATGATCGCGGGCCTGTGCGAAAGCCCGCTGACCTTCCAGGCG
ATCACCATCTGGCGTGACGAACTTCTGGAAGAAGACATCCTGCTGCGTGATGTCATCGACCTCGACACCACCTTCGGGCG
CACGATGGGCGATGAAAACGACACCCCGGTCGTGCCCGCAGGCGTCGGCTCCACGCCGCCATCCGCCACGCCCGCCCCCC
CGCCGGAGCCAAAGAAAGAAGAGCCTACGCAGGAACTGGACGCCGACGGCAACCCCATCGCCAAGGACGACGATGAGGAT
GAGGACGAGCAGGCCAACATGTCGCTCGCCGCGATGGAACTGGCGCTGAAGCCCCAGGTCCTCGCCACGCTTGACCAGAT
CGCCAACGATTACATCCGCCTGTCGGAAATGCAGGACAGCCGGATTTCGGCGACCCTGAACGAAGATGACAGCTTCTCCA
AGGCAGAGGAGGCCGAATACCAGCACCTGCGCTCCGAGATCGTGGAACTGGTCAATGAGCTGCACCTGCATAACAACCGC
ATCGAGGCGCTGGTGGACCAGCTTTACGGCATCAACCGCCGGATCATGTCCATCGATTCCAGCATGGTGAAGCTGGCCGA
TCAGGCCCGCATCAACCGCCGCGAGTTCATCGAAGAATACCGCAACCAGGAACTTGATCCGACCTGGATGGAGCGGATGA
CGCAAAAGTCCGGCCGCGGCTGGCAGGCGCTGATGGAGCGCTCGTCGGGCAAGATCGAGGAATTGCGCGGGGATATGGCG
CAGGTCGGTCAGTATGTGGGCCTCGACATCCCCGAATTCCGCCGCATCGTGAACCAGGTCCAGAAGGGCGAGAAAGAAGC
CCGCCAGGCCAAGAAGGAAATGGTCGAAGCCAACCTGCGTCTGGTGATTTCCATCGCCAAGAAATACACCAACCGGGGCC
TGCAATTCCTTGATCTCATTCAGGAAGGTAACATCGGCCTGATGAAGGCCGTCGACAAGTTCGAATACCGCCGGGGCTAC
AAGTTCTCCACCTATGCGACGTGGTGGATCCGTCAGGCGATCACCCGCTCCATCGCCGATCAGGCCCGCACGATCCGCAT
CCCGGTCCACATGATCGAGACGATCAACAAGCTGGTCCGCACCGGTCGCCAGATGCTGCACGAAATCGGCCGGGAGCCGA
CGCCGGAGGAATTGGCCGAGAAGCTGCAAATGCCGCTGGAGAAGGTCCGCAAGGTGATGAAGATCGCCAAGGAGCCGATC
AGCCTTGAGACGCCCATCGGCGACGAGGAGGATTCACAGCTTGGCGATTTCATCGAGGACAAGAACGCCGTCCTGCCGCT
GGATTCAGCGATCCAGGAGAACCTCAAAGAAACCACAACCCGGGTTCTGGCCTCCCTCACCCCCCGCGAAGAACGCGTCC
TGCGCATGCGCTTCGGCATCGGCATGAACACCGACCACACGCTGGAAGAAGTCGGCCAACAGTTCAGCGTGACCCGCGAA
CGGATCAGGCAGATCGAGGCGAAGGCGCTGCGGAAGCTGAAGCACCCCAGCCGGTCAAGGAAGCTGCGGTCGTTCCTGGA
TCAGTGA

Upstream 100 bases:

>100_bases
CCTGTCCGAATCAGTGATTCGCACTAGGATATGGTTTCAGACACAATGATTCGCCCGTCACGCCGGTGCGGATGGACTTA
GTCCGAAAGGGTAGACGCAC

Downstream 100 bases:

>100_bases
GGGCGACCGACGGGGACATCGCGCGCCTACTTGATCGTTGGCAAGCCTGCCACTGCGAACCCCACGAAACACATTTAAAA
TTTTATGAAGGCCTGAACTT

Product: RNA polymerase sigma factor RpoD

Products: NA

Alternate protein names: Sigma-70 [H]

Number of amino acids: Translated: 668; Mature: 667

Protein sequence:

>668_residues
MAKDTDDRKQDGDETEMGLDMSQAAVKKMIAEARVRGYITYDQLNTVLPPEQVSSEQIEDVMSMLSEMGINIIEDDEAEE
GDDKPAGELVTTEGSREVAVAATETEKLDRTDDPVRMYLREMGSVELLSREGEIAIAKRIEAGRNTMIAGLCESPLTFQA
ITIWRDELLEEDILLRDVIDLDTTFGRTMGDENDTPVVPAGVGSTPPSATPAPPPEPKKEEPTQELDADGNPIAKDDDED
EDEQANMSLAAMELALKPQVLATLDQIANDYIRLSEMQDSRISATLNEDDSFSKAEEAEYQHLRSEIVELVNELHLHNNR
IEALVDQLYGINRRIMSIDSSMVKLADQARINRREFIEEYRNQELDPTWMERMTQKSGRGWQALMERSSGKIEELRGDMA
QVGQYVGLDIPEFRRIVNQVQKGEKEARQAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGY
KFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTGRQMLHEIGREPTPEELAEKLQMPLEKVRKVMKIAKEPI
SLETPIGDEEDSQLGDFIEDKNAVLPLDSAIQENLKETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRE
RIRQIEAKALRKLKHPSRSRKLRSFLDQ

Sequences:

>Translated_668_residues
MAKDTDDRKQDGDETEMGLDMSQAAVKKMIAEARVRGYITYDQLNTVLPPEQVSSEQIEDVMSMLSEMGINIIEDDEAEE
GDDKPAGELVTTEGSREVAVAATETEKLDRTDDPVRMYLREMGSVELLSREGEIAIAKRIEAGRNTMIAGLCESPLTFQA
ITIWRDELLEEDILLRDVIDLDTTFGRTMGDENDTPVVPAGVGSTPPSATPAPPPEPKKEEPTQELDADGNPIAKDDDED
EDEQANMSLAAMELALKPQVLATLDQIANDYIRLSEMQDSRISATLNEDDSFSKAEEAEYQHLRSEIVELVNELHLHNNR
IEALVDQLYGINRRIMSIDSSMVKLADQARINRREFIEEYRNQELDPTWMERMTQKSGRGWQALMERSSGKIEELRGDMA
QVGQYVGLDIPEFRRIVNQVQKGEKEARQAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGY
KFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTGRQMLHEIGREPTPEELAEKLQMPLEKVRKVMKIAKEPI
SLETPIGDEEDSQLGDFIEDKNAVLPLDSAIQENLKETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRE
RIRQIEAKALRKLKHPSRSRKLRSFLDQ
>Mature_667_residues
AKDTDDRKQDGDETEMGLDMSQAAVKKMIAEARVRGYITYDQLNTVLPPEQVSSEQIEDVMSMLSEMGINIIEDDEAEEG
DDKPAGELVTTEGSREVAVAATETEKLDRTDDPVRMYLREMGSVELLSREGEIAIAKRIEAGRNTMIAGLCESPLTFQAI
TIWRDELLEEDILLRDVIDLDTTFGRTMGDENDTPVVPAGVGSTPPSATPAPPPEPKKEEPTQELDADGNPIAKDDDEDE
DEQANMSLAAMELALKPQVLATLDQIANDYIRLSEMQDSRISATLNEDDSFSKAEEAEYQHLRSEIVELVNELHLHNNRI
EALVDQLYGINRRIMSIDSSMVKLADQARINRREFIEEYRNQELDPTWMERMTQKSGRGWQALMERSSGKIEELRGDMAQ
VGQYVGLDIPEFRRIVNQVQKGEKEARQAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYK
FSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTGRQMLHEIGREPTPEELAEKLQMPLEKVRKVMKIAKEPIS
LETPIGDEEDSQLGDFIEDKNAVLPLDSAIQENLKETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRER
IRQIEAKALRKLKHPSRSRKLRSFLDQ

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=650, Percent_Identity=48, Blast_Score=514, Evalue=1e-147,
Organism=Escherichia coli, GI1789098, Length=225, Percent_Identity=42.6666666666667, Blast_Score=216, Evalue=5e-57,
Organism=Escherichia coli, GI1789871, Length=243, Percent_Identity=27.5720164609054, Blast_Score=86, Evalue=7e-18,
Organism=Escherichia coli, GI1788231, Length=202, Percent_Identity=27.2277227722772, Blast_Score=67, Evalue=5e-12,

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: 75990; Mature: 75859

Theoretical pI: Translated: 4.52; Mature: 4.52

Prosite motif: PS00715 SIGMA70_1 ; PS00716 SIGMA70_2

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.1 %Cys     (Translated Protein)
4.2 %Met     (Translated Protein)
4.3 %Cys+Met (Translated Protein)
0.1 %Cys     (Mature Protein)
4.0 %Met     (Mature Protein)
4.2 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MAKDTDDRKQDGDETEMGLDMSQAAVKKMIAEARVRGYITYDQLNTVLPPEQVSSEQIED
CCCCCCCHHCCCCHHHHCCCHHHHHHHHHHHHHHHHCCEEHHHHCCCCCCHHCCHHHHHH
VMSMLSEMGINIIEDDEAEEGDDKPAGELVTTEGSREVAVAATETEKLDRTDDPVRMYLR
HHHHHHHCCCEEECCCCCCCCCCCCCCCEEECCCCCEEEEEECCHHHCCCCCHHHHHHHH
EMGSVELLSREGEIAIAKRIEAGRNTMIAGLCESPLTFQAITIWRDELLEEDILLRDVID
HCCCHHHHHCCCCCHHHHHHHHCCCCEEHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHH
LDTTFGRTMGDENDTPVVPAGVGSTPPSATPAPPPEPKKEEPTQELDADGNPIAKDDDED
HHHHHCCCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCCCCCHHHHCCCCCCCCCCCCCC
EDEQANMSLAAMELALKPQVLATLDQIANDYIRLSEMQDSRISATLNEDDSFSKAEEAEY
CHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHCCCHHEEECCCCCCCCHHHHHHH
QHLRSEIVELVNELHLHNNRIEALVDQLYGINRRIMSIDSSMVKLADQARINRREFIEEY
HHHHHHHHHHHHHHHHCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHCCHHHHHHHH
RNQELDPTWMERMTQKSGRGWQALMERSSGKIEELRGDMAQVGQYVGLDIPEFRRIVNQV
CCCCCCHHHHHHHHHHCCCHHHHHHHHCCCHHHHHHCHHHHHHHHHCCCCHHHHHHHHHH
QKGEKEARQAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGY
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHCCCCHHHHHHHHHHHHCCC
KFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTGRQMLHEIGREPTPEELAE
CCHHHHHHHHHHHHHHHHHHHHHEEEHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHH
KLQMPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFIEDKNAVLPLDSAIQENLKETTT
HHHHHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHHHCCCCCCCCHHHHHHHHHHHHH
RVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSR
HHHHHCCCHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHH
KLRSFLDQ
HHHHHHCC
>Mature Secondary Structure 
AKDTDDRKQDGDETEMGLDMSQAAVKKMIAEARVRGYITYDQLNTVLPPEQVSSEQIED
CCCCCCHHCCCCHHHHCCCHHHHHHHHHHHHHHHHCCEEHHHHCCCCCCHHCCHHHHHH
VMSMLSEMGINIIEDDEAEEGDDKPAGELVTTEGSREVAVAATETEKLDRTDDPVRMYLR
HHHHHHHCCCEEECCCCCCCCCCCCCCCEEECCCCCEEEEEECCHHHCCCCCHHHHHHHH
EMGSVELLSREGEIAIAKRIEAGRNTMIAGLCESPLTFQAITIWRDELLEEDILLRDVID
HCCCHHHHHCCCCCHHHHHHHHCCCCEEHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHH
LDTTFGRTMGDENDTPVVPAGVGSTPPSATPAPPPEPKKEEPTQELDADGNPIAKDDDED
HHHHHCCCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCCCCCHHHHCCCCCCCCCCCCCC
EDEQANMSLAAMELALKPQVLATLDQIANDYIRLSEMQDSRISATLNEDDSFSKAEEAEY
CHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHCCCHHEEECCCCCCCCHHHHHHH
QHLRSEIVELVNELHLHNNRIEALVDQLYGINRRIMSIDSSMVKLADQARINRREFIEEY
HHHHHHHHHHHHHHHHCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHCCHHHHHHHH
RNQELDPTWMERMTQKSGRGWQALMERSSGKIEELRGDMAQVGQYVGLDIPEFRRIVNQV
CCCCCCHHHHHHHHHHCCCHHHHHHHHCCCHHHHHHCHHHHHHHHHCCCCHHHHHHHHHH
QKGEKEARQAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGY
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHCCCCHHHHHHHHHHHHCCC
KFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTGRQMLHEIGREPTPEELAE
CCHHHHHHHHHHHHHHHHHHHHHEEEHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHH
KLQMPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFIEDKNAVLPLDSAIQENLKETTT
HHHHHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHHHCCCCCCCCHHHHHHHHHHHHH
RVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSR
HHHHHCCCHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHH
KLRSFLDQ
HHHHHHCC

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: NA