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The map label for this gene is rpoD [H]

Identifier: 85373960

GI number: 85373960

Start: 1170672

End: 1172699

Strand: Reverse

Name: rpoD [H]

Synonym: ELI_05665

Alternate gene names: 85373960

Gene position: 1172699-1170672 (Counterclockwise)

Preceding gene: 85373961

Following gene: 85373959

Centisome position: 38.42

GC content: 60.4

Gene sequence:

>2028_bases
ATGGCTTCCAAGGCGAAGAAGAAAACCCAGGCGGAAGATGCTCCCCTGATCGATCTCAACGAAGCTTCGATCAAGAAGAT
GATCACCAAGGCCAAGCGCAAGGGCTACGTCACCTATGATGAGCTCAACGAAGCGCTGCCTTCGGGCGAAATGAGCCCCG
ACCAGATCGAGGATATCCAGACTTCGCTGTCCGAGATGGGCGTGCAAATCGTCGAGAGCGACGAGGAGGCCGAGGCCGAG
CAGGAACAGGCCAACGAGGTCGAGGAAATCGCGCCCGGCGCCGCCAAGGACGAAAAGAAAGACGCCAAGAAGCCCGCCGC
TGCCGTAAAAAAGACGACCACCGGCGACCGTACCGACGATCCGGTGCGGATGTATCTGCGCGAGATGGGCGCGGTCGAAT
TGCTCAGCCGCGAAGGCGAAATTGCCATTGCCAAGCGGATCGAGGCCGGTCGCGACACGATGATCATCGGATTGTGCCAG
AGCCCGATCACCTTCCACGCCATCATCCAGTGGTCCGAAGCGCTCAATGCCGAGGAAATGCAGCTGCGCGAGATCCTCGA
TCTCGATGCCATGCTGTCCAAGGAGCCGCCGGCCGAGAAGCTGGAGGAAGGCGCCGAGGACGATGACGATGGCGAAATCT
CGGAAGAGAATGCCGGCCCGACCATCGTCGACGATGACGACGATACCGATGACGAGGATTCGGACGACGAGGACGGCGAA
GAGGGCAGCAGCAAGTCCGACGACGATGAGGACGAGGACAACACCATGTCGCTCGCGCAGATGGAAGCGGCGCTGAAGCC
CGATGCCATCGAGCGCTTTGCGCGCATTACCTCGTTGTTCAAGAAATTCGAGAAACTGCAGCTAGAGCGTGTCGATACCA
TCGCCCGCGGCGAAGTTCTGCCCAAGGCGAAAGAGAACCGCTACGAGAAGCTCGGCGAGGAACTGACCGCCGAAGTCGAG
AGCATGCAGTTTCACGCCACCAAGATCGAATTCCTGGTCGACAATCTGTATGCCTTCAACCGCCGCCTGACCGCGCTCGG
CGGGCAGATGCTGCGCCTCGCAGAGCGCCACAAAATCAAGCGCGCGGACTTCCTGCAGGCCTATATCGGCAACGAGCTCG
ACGAGGATTTCCTCAAGGACCGTGTCAAGAAGGACAAGAAGTGGGCTGCCTTCGCCGACAAGGAAGCCGACGCGATCGAC
CGCATCCGCACGGAGATCGCCGATATCGCCAGCCAGACCGGCATGGCCCTGCCCGAGTTCCGCCGCATCGTGAACATGGT
GCAGAAGGGCGAACGCGAGGCGCGCATCGCGAAGAAGGAAATGGTCGAGGCGAATCTTCGCCTGGTGATTTCCATCGCCA
AGAAATATACCAACCGCGGCCTGCAATTCCTTGATCTTATTCAGGAAGGCAACATCGGCCTGATGAAGGCGGTCGACAAG
TTCGAGTACCGCCGCGGCTACAAGTTCAGCACCTACGCCACATGGTGGATCCGGCAGGCGATCACCCGCTCAATCGCCGA
CCAGGCCCGCACGATCCGTATCCCGGTCCATATGATCGAGACGATCAACAAGCTGGTCCGTACCAGCCGCCAGTTCCTGC
ACGAGCAGGGCCGCGAGCCGACACCGGAAGAAATGGCCGAGCGTCTTTCGATGCCGCTCGAGAAGGTGCGCAAGGTGATG
AAGATCGCCAAGGAACCGATCAGCCTCGAAACGCCGATCGGCGACGAAGAGGATTCGCACCTCGGCGATTTCATCGAGGA
CAAGAACGCCATCATCCCGGTCGATGCGGCGATCCAGGCGAACCTCAAGGAAACCGTCACCCGCGTGCTCGCCAGCCTGA
CTCCGCGCGAAGAACGCGTGCTGCGCATGCGCTTCGGCATCGGCATGAACACCGATCACACGCTCGAGGAAGTCGGGCAG
CAGTTTTCGGTGACGCGCGAACGCATCCGGCAGATCGAGGCCAAGGCGCTGCGCAAGCTCAAGCACCCGAGCCGCAGCCG
CAAGATGCGGTCTTTCCTGGATCAATAA

Upstream 100 bases:

>100_bases
CAAATGGCGAGTTTACAGGCCGCCCGCGGGCAGTCTGATCTGGGGTATACGTCACAGCCGGAACCGGCGGGCGAAGAAAA
AACGGATTGAAGCGAGACCT

Downstream 100 bases:

>100_bases
AACCGCTAGGATCAGGCGATGGAGAGTATAGAAAGCGCCATCGCATTCATCGGCGGCCCGGCTGCCTTGTGGATTCTTGC
GTCGGTCTATTTCGGCAGTG

Product: RNA polymerase sigma factor RpoD

Products: NA

Alternate protein names: Sigma-A; Major vegetative sigma factor [H]

Number of amino acids: Translated: 675; Mature: 674

Protein sequence:

>675_residues
MASKAKKKTQAEDAPLIDLNEASIKKMITKAKRKGYVTYDELNEALPSGEMSPDQIEDIQTSLSEMGVQIVESDEEAEAE
QEQANEVEEIAPGAAKDEKKDAKKPAAAVKKTTTGDRTDDPVRMYLREMGAVELLSREGEIAIAKRIEAGRDTMIIGLCQ
SPITFHAIIQWSEALNAEEMQLREILDLDAMLSKEPPAEKLEEGAEDDDDGEISEENAGPTIVDDDDDTDDEDSDDEDGE
EGSSKSDDDEDEDNTMSLAQMEAALKPDAIERFARITSLFKKFEKLQLERVDTIARGEVLPKAKENRYEKLGEELTAEVE
SMQFHATKIEFLVDNLYAFNRRLTALGGQMLRLAERHKIKRADFLQAYIGNELDEDFLKDRVKKDKKWAAFADKEADAID
RIRTEIADIASQTGMALPEFRRIVNMVQKGEREARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDK
FEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTSRQFLHEQGREPTPEEMAERLSMPLEKVRKVM
KIAKEPISLETPIGDEEDSHLGDFIEDKNAIIPVDAAIQANLKETVTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQ
QFSVTRERIRQIEAKALRKLKHPSRSRKMRSFLDQ

Sequences:

>Translated_675_residues
MASKAKKKTQAEDAPLIDLNEASIKKMITKAKRKGYVTYDELNEALPSGEMSPDQIEDIQTSLSEMGVQIVESDEEAEAE
QEQANEVEEIAPGAAKDEKKDAKKPAAAVKKTTTGDRTDDPVRMYLREMGAVELLSREGEIAIAKRIEAGRDTMIIGLCQ
SPITFHAIIQWSEALNAEEMQLREILDLDAMLSKEPPAEKLEEGAEDDDDGEISEENAGPTIVDDDDDTDDEDSDDEDGE
EGSSKSDDDEDEDNTMSLAQMEAALKPDAIERFARITSLFKKFEKLQLERVDTIARGEVLPKAKENRYEKLGEELTAEVE
SMQFHATKIEFLVDNLYAFNRRLTALGGQMLRLAERHKIKRADFLQAYIGNELDEDFLKDRVKKDKKWAAFADKEADAID
RIRTEIADIASQTGMALPEFRRIVNMVQKGEREARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDK
FEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTSRQFLHEQGREPTPEEMAERLSMPLEKVRKVM
KIAKEPISLETPIGDEEDSHLGDFIEDKNAIIPVDAAIQANLKETVTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQ
QFSVTRERIRQIEAKALRKLKHPSRSRKMRSFLDQ
>Mature_674_residues
ASKAKKKTQAEDAPLIDLNEASIKKMITKAKRKGYVTYDELNEALPSGEMSPDQIEDIQTSLSEMGVQIVESDEEAEAEQ
EQANEVEEIAPGAAKDEKKDAKKPAAAVKKTTTGDRTDDPVRMYLREMGAVELLSREGEIAIAKRIEAGRDTMIIGLCQS
PITFHAIIQWSEALNAEEMQLREILDLDAMLSKEPPAEKLEEGAEDDDDGEISEENAGPTIVDDDDDTDDEDSDDEDGEE
GSSKSDDDEDEDNTMSLAQMEAALKPDAIERFARITSLFKKFEKLQLERVDTIARGEVLPKAKENRYEKLGEELTAEVES
MQFHATKIEFLVDNLYAFNRRLTALGGQMLRLAERHKIKRADFLQAYIGNELDEDFLKDRVKKDKKWAAFADKEADAIDR
IRTEIADIASQTGMALPEFRRIVNMVQKGEREARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKF
EYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTSRQFLHEQGREPTPEEMAERLSMPLEKVRKVMK
IAKEPISLETPIGDEEDSHLGDFIEDKNAIIPVDAAIQANLKETVTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQ
FSVTRERIRQIEAKALRKLKHPSRSRKMRSFLDQ

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=348, Percent_Identity=62.0689655172414, Blast_Score=436, Evalue=1e-123,
Organism=Escherichia coli, GI1789098, Length=225, Percent_Identity=42.6666666666667, Blast_Score=214, Evalue=2e-56,
Organism=Escherichia coli, GI1789871, Length=243, Percent_Identity=27.5720164609054, Blast_Score=82, Evalue=1e-16,
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: 76683; Mature: 76551

Theoretical pI: Translated: 4.66; Mature: 4.66

Prosite motif: PS00715 SIGMA70_1 ; PS00716 SIGMA70_2

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.1 %Cys     (Translated Protein)
3.6 %Met     (Translated Protein)
3.7 %Cys+Met (Translated Protein)
0.1 %Cys     (Mature Protein)
3.4 %Met     (Mature Protein)
3.6 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MASKAKKKTQAEDAPLIDLNEASIKKMITKAKRKGYVTYDELNEALPSGEMSPDQIEDIQ
CCCCHHHHHCCCCCCEEECCHHHHHHHHHHHHHCCCCCHHHHHHHCCCCCCCHHHHHHHH
TSLSEMGVQIVESDEEAEAEQEQANEVEEIAPGAAKDEKKDAKKPAAAVKKTTTGDRTDD
HHHHHCCHHHHCCCHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHCCCCCCCCCH
PVRMYLREMGAVELLSREGEIAIAKRIEAGRDTMIIGLCQSPITFHAIIQWSEALNAEEM
HHHHHHHHHHHHHHHHCCCCCHHHHHHHCCCCEEEEEECCCCHHHHHHHHHHHHCCHHHH
QLREILDLDAMLSKEPPAEKLEEGAEDDDDGEISEENAGPTIVDDDDDTDDEDSDDEDGE
HHHHHHHHHHHHCCCCCHHHHHCCCCCCCCCCCCCCCCCCCEECCCCCCCCCCCCCCCCC
EGSSKSDDDEDEDNTMSLAQMEAALKPDAIERFARITSLFKKFEKLQLERVDTIARGEVL
CCCCCCCCCCCCHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC
PKAKENRYEKLGEELTAEVESMQFHATKIEFLVDNLYAFNRRLTALGGQMLRLAERHKIK
CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
RADFLQAYIGNELDEDFLKDRVKKDKKWAAFADKEADAIDRIRTEIADIASQTGMALPEF
HHHHHHHHHCCCCCHHHHHHHHHHCHHHHHHCCCHHHHHHHHHHHHHHHHHHCCCCCHHH
RRIVNMVQKGEREARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDK
HHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHCCCCHHHHHHHH
FEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTSRQFLHEQGREP
HHHHCCCCCHHHHHHHHHHHHHHHHHHHHHEEEHHHHHHHHHHHHHHHHHHHHHHCCCCC
TPEEMAERLSMPLEKVRKVMKIAKEPISLETPIGDEEDSHLGDFIEDKNAIIPVDAAIQA
CHHHHHHHHCCCHHHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHHCCCCEEECHHHHHH
NLKETVTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKL
HHHHHHHHHHHHCCCHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
KHPSRSRKMRSFLDQ
HCCHHHHHHHHHHCC
>Mature Secondary Structure 
ASKAKKKTQAEDAPLIDLNEASIKKMITKAKRKGYVTYDELNEALPSGEMSPDQIEDIQ
CCCHHHHHCCCCCCEEECCHHHHHHHHHHHHHCCCCCHHHHHHHCCCCCCCHHHHHHHH
TSLSEMGVQIVESDEEAEAEQEQANEVEEIAPGAAKDEKKDAKKPAAAVKKTTTGDRTDD
HHHHHCCHHHHCCCHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHCCCCCCCCCH
PVRMYLREMGAVELLSREGEIAIAKRIEAGRDTMIIGLCQSPITFHAIIQWSEALNAEEM
HHHHHHHHHHHHHHHHCCCCCHHHHHHHCCCCEEEEEECCCCHHHHHHHHHHHHCCHHHH
QLREILDLDAMLSKEPPAEKLEEGAEDDDDGEISEENAGPTIVDDDDDTDDEDSDDEDGE
HHHHHHHHHHHHCCCCCHHHHHCCCCCCCCCCCCCCCCCCCEECCCCCCCCCCCCCCCCC
EGSSKSDDDEDEDNTMSLAQMEAALKPDAIERFARITSLFKKFEKLQLERVDTIARGEVL
CCCCCCCCCCCCHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC
PKAKENRYEKLGEELTAEVESMQFHATKIEFLVDNLYAFNRRLTALGGQMLRLAERHKIK
CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
RADFLQAYIGNELDEDFLKDRVKKDKKWAAFADKEADAIDRIRTEIADIASQTGMALPEF
HHHHHHHHHCCCCCHHHHHHHHHHCHHHHHHCCCHHHHHHHHHHHHHHHHHHCCCCCHHH
RRIVNMVQKGEREARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDK
HHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHCCCCHHHHHHHH
FEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTSRQFLHEQGREP
HHHHCCCCCHHHHHHHHHHHHHHHHHHHHHEEEHHHHHHHHHHHHHHHHHHHHHHCCCCC
TPEEMAERLSMPLEKVRKVMKIAKEPISLETPIGDEEDSHLGDFIEDKNAIIPVDAAIQA
CHHHHHHHHCCCHHHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHHCCCCEEECHHHHHH
NLKETVTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKL
HHHHHHHHHHHHCCCHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
KHPSRSRKMRSFLDQ
HCCHHHHHHHHHHCC

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: 8491721; 11743193; 11743194 [H]