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The map label for this gene is rpoD [H]

Identifier: 34499217

GI number: 34499217

Start: 4060005

End: 4061936

Strand: Reverse

Name: rpoD [H]

Synonym: CV_3762

Alternate gene names: 34499217

Gene position: 4061936-4060005 (Counterclockwise)

Preceding gene: 34499218

Following gene: 34499216

Centisome position: 85.5

GC content: 62.58

Gene sequence:

>1932_bases
ATGGCGGCCTCTCCCGAAAACCAGAAAGATGTGAAGGACAGCCAACAGGAGGTGATGAGCCTGGAAGAGCAGCGGAAACG
CTTGCGCCAGCTGATCGCCCTGGGCAAGGAGCGTGGGTACCTGACCTACGCCGAAATCAACGACCACCTGCCGGAAGACG
TATCCGACGCCGAGCAGATCGAGAACATCGTCACGATGATCGCCGGTCTGGGCATCCAGGTATGCGAGGAAGCGCCGGAC
GCCGAAACCTTGCTGATGTCCGACGCCACCCCGTCCGTGGCGGACGAGGACGCCGTGGAGGAGGCCGAGGCGGCCCTGTC
CTCGGTGGACTCCGAATTCGGCCGCACCACCGACCCGGTGCGCATGTACATGCGCGAAATGGGTTCGGTCGAGCTGTTGA
CCCGCGAGGGCGAAATCGAGATCGCCAAGCGGATCGAGGACGGCCTCAAGTACATGATCCAGGCCATCTCCGCCTGCCCC
GGCACCATCGCCGAGGTGCTGGAGCTGATGGAACGCGTGGCGCGCGATGAAATCCGCGTCGACGAAGTCGTCGACGGCTT
CATCGATCTCAACGCCCCGACCGAGGACGAGGCGCAATTCGCCGAACCGGAGGACAGCGACGATCTGCTGGACGAGGAAG
AGGAAGAGGAAGAGGACGAAGACGGCGCTCCGGTCGACGCCGACGCCGACGCCGCGGCCAATCTGGAAGAGCTGAAGCAA
CAGGCGCTGGAGCACTTCGCCGGCGTGCGCATGCTGTTCGACAAGATGGTCAAGGCGCTGAACGCCAAGGGCCAGCAGAG
CAAGGAATACCTGGAGCTGCAGGACGCGATCACCACCGAGTTCATGCTGGTGCGCTTCGCGACCCGCCAGGTGGAAAGCC
TTTGCGAGTCGCTGCGCGGCCGCGTCAACGAGATCCGCACCTACGAGCGCGATATCCAGGACATCTGCGTCAGCCGCGTG
CGCATGGACCGCGCCCACTTCATCAAGGTGTTCCCGGGCAACGAGACCAATCTTGACTGGGTGGAAAACGAGATCGATTC
CGGCAAGGCCTGGAGCGAGGCGTTGACCCGCTTCAAGCACGCGATCATCGAGAAGCAGACCCGCCTGTCCGATCTGCAAG
ACAAGGCGATGCTGTCGATCAAGGCGCTGAAGGAAATCAACCGCCAGATGTCGGCCGGCGAGTCCAAGGCGCGCCGCGCC
AAGAAGGAAATGATCGAGGCCAACCTGCGTCTGGTGATCTCCATCGCCAAGAAGTACACCAACCGCGGCCTGCAGTTCCT
CGACCTGATCCAGGAAGGCAACATCGGCCTGATGAAGGCGGTGGACAAGTTCGAATACCGCCGCGGCTACAAGTTCTCGA
CCTACGCCACCTGGTGGATCCGGCAGGCCATCACCCGCTCGATCGCTGACCAGGCCCGCACCATCCGCATTCCGGTGCAC
ATGATCGAGACCATCAACAAGATGAACCGCATCTCGCGGCAGATCCTGCAGGAAAGCGGCCGCGAGCCGGATCCGGCGGA
GCTGGCCGAGAAGATGGAGATGCCGGAAGAGAAGATTCGCAAGATCATGAAGATTTCCAAGGAGCCCATCTCCATGGAAA
CCCCGATCGGCGACGACGACGATTCCCATCTCGGCGATTTCATCGAGGACCAGAACAACCTGGCCCCGTCCGACGCGGCG
ATGTACTCCAGCCTGAAGGACGCGACCAAGGAAGTGCTGGACACGCTGACGCCGCGCGAGGCGAAAGTCCTGCGCATGCG
TTTCGGCATCGACATGAATACCGACCACACGCTGGAAGAAGTGGGCAAGCAGTTCGACGTGACCCGAGAGCGGATTCGCC
AGATCGAGGCCAAGGCGCTGCGCAAGCTGCGCCACCCGACCCGTTCCGAGCGTCTGCGCAGCTTCCTGGACAGCGAGCCG
GGCGGTCAGTAA

Upstream 100 bases:

>100_bases
AAATGTTCTCGCCGCCGAACTAACGGGTTCGGCGGAAAAGTTCAAGTGGTTGTGTTATAATCAACTGTTTTTTTCGGCTT
TTTTTCTAGCAGGAAGCGAA

Downstream 100 bases:

>100_bases
GCGCATCGCTTGAAATGCTGGAAATCCCCAAGCGCCTTGAATAAAGGGCTTGGGGATTTTTGTTTTCCTCGCTATAATTG
CCCACTCTTTCAGGGCCTCT

Product: RNA polymerase sigma factor RpoD

Products: NA

Alternate protein names: Sigma-70 [H]

Number of amino acids: Translated: 643; Mature: 642

Protein sequence:

>643_residues
MAASPENQKDVKDSQQEVMSLEEQRKRLRQLIALGKERGYLTYAEINDHLPEDVSDAEQIENIVTMIAGLGIQVCEEAPD
AETLLMSDATPSVADEDAVEEAEAALSSVDSEFGRTTDPVRMYMREMGSVELLTREGEIEIAKRIEDGLKYMIQAISACP
GTIAEVLELMERVARDEIRVDEVVDGFIDLNAPTEDEAQFAEPEDSDDLLDEEEEEEEDEDGAPVDADADAAANLEELKQ
QALEHFAGVRMLFDKMVKALNAKGQQSKEYLELQDAITTEFMLVRFATRQVESLCESLRGRVNEIRTYERDIQDICVSRV
RMDRAHFIKVFPGNETNLDWVENEIDSGKAWSEALTRFKHAIIEKQTRLSDLQDKAMLSIKALKEINRQMSAGESKARRA
KKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVH
MIETINKMNRISRQILQESGREPDPAELAEKMEMPEEKIRKIMKISKEPISMETPIGDDDDSHLGDFIEDQNNLAPSDAA
MYSSLKDATKEVLDTLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPTRSERLRSFLDSEP
GGQ

Sequences:

>Translated_643_residues
MAASPENQKDVKDSQQEVMSLEEQRKRLRQLIALGKERGYLTYAEINDHLPEDVSDAEQIENIVTMIAGLGIQVCEEAPD
AETLLMSDATPSVADEDAVEEAEAALSSVDSEFGRTTDPVRMYMREMGSVELLTREGEIEIAKRIEDGLKYMIQAISACP
GTIAEVLELMERVARDEIRVDEVVDGFIDLNAPTEDEAQFAEPEDSDDLLDEEEEEEEDEDGAPVDADADAAANLEELKQ
QALEHFAGVRMLFDKMVKALNAKGQQSKEYLELQDAITTEFMLVRFATRQVESLCESLRGRVNEIRTYERDIQDICVSRV
RMDRAHFIKVFPGNETNLDWVENEIDSGKAWSEALTRFKHAIIEKQTRLSDLQDKAMLSIKALKEINRQMSAGESKARRA
KKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVH
MIETINKMNRISRQILQESGREPDPAELAEKMEMPEEKIRKIMKISKEPISMETPIGDDDDSHLGDFIEDQNNLAPSDAA
MYSSLKDATKEVLDTLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPTRSERLRSFLDSEP
GGQ
>Mature_642_residues
AASPENQKDVKDSQQEVMSLEEQRKRLRQLIALGKERGYLTYAEINDHLPEDVSDAEQIENIVTMIAGLGIQVCEEAPDA
ETLLMSDATPSVADEDAVEEAEAALSSVDSEFGRTTDPVRMYMREMGSVELLTREGEIEIAKRIEDGLKYMIQAISACPG
TIAEVLELMERVARDEIRVDEVVDGFIDLNAPTEDEAQFAEPEDSDDLLDEEEEEEEDEDGAPVDADADAAANLEELKQQ
ALEHFAGVRMLFDKMVKALNAKGQQSKEYLELQDAITTEFMLVRFATRQVESLCESLRGRVNEIRTYERDIQDICVSRVR
MDRAHFIKVFPGNETNLDWVENEIDSGKAWSEALTRFKHAIIEKQTRLSDLQDKAMLSIKALKEINRQMSAGESKARRAK
KEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHM
IETINKMNRISRQILQESGREPDPAELAEKMEMPEEKIRKIMKISKEPISMETPIGDDDDSHLGDFIEDQNNLAPSDAAM
YSSLKDATKEVLDTLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPTRSERLRSFLDSEPG
GQ

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=611, Percent_Identity=58.4288052373159, Blast_Score=669, Evalue=0.0,
Organism=Escherichia coli, GI1789098, Length=294, Percent_Identity=37.0748299319728, Blast_Score=207, Evalue=2e-54,
Organism=Escherichia coli, GI1789871, Length=241, Percent_Identity=28.6307053941909, Blast_Score=84, Evalue=2e-17,
Organism=Escherichia coli, GI1788231, Length=211, Percent_Identity=26.5402843601896, Blast_Score=64, Evalue=3e-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:   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: 73249; Mature: 73117

Theoretical pI: Translated: 4.45; Mature: 4.45

Prosite motif: PS00715 SIGMA70_1 ; PS00716 SIGMA70_2 ; PS00867 CPSASE_2

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.6 %Cys     (Translated Protein)
4.0 %Met     (Translated Protein)
4.7 %Cys+Met (Translated Protein)
0.6 %Cys     (Mature Protein)
3.9 %Met     (Mature Protein)
4.5 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MAASPENQKDVKDSQQEVMSLEEQRKRLRQLIALGKERGYLTYAEINDHLPEDVSDAEQI
CCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCEEEECCCCCCCCCCHHHHHH
ENIVTMIAGLGIQVCEEAPDAETLLMSDATPSVADEDAVEEAEAALSSVDSEFGRTTDPV
HHHHHHHHHCCHHHHHCCCCCHHEEECCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCHHH
RMYMREMGSVELLTREGEIEIAKRIEDGLKYMIQAISACPGTIAEVLELMERVARDEIRV
HHHHHHCCCEEEEECCCCHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHH
DEVVDGFIDLNAPTEDEAQFAEPEDSDDLLDEEEEEEEDEDGAPVDADADAAANLEELKQ
HHHHHHHHCCCCCCCCCCCCCCCCCCCHHCCCCHHHHCCCCCCCCCCCCHHHCCHHHHHH
QALEHFAGVRMLFDKMVKALNAKGQQSKEYLELQDAITTEFMLVRFATRQVESLCESLRG
HHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
RVNEIRTYERDIQDICVSRVRMDRAHFIKVFPGNETNLDWVENEIDSGKAWSEALTRFKH
HHHHHHHHHHHHHHHHHHHHHHCHHHEEEEECCCCCCCHHHHHHHCCCHHHHHHHHHHHH
AIIEKQTRLSDLQDKAMLSIKALKEINRQMSAGESKARRAKKEMIEANLRLVISIAKKYT
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
NRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVH
HCCHHHHHHHHCCCCHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHEEEHHHH
MIETINKMNRISRQILQESGREPDPAELAEKMEMPEEKIRKIMKISKEPISMETPIGDDD
HHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHCCCHHHHHHHHHHCCCCCCCCCCCCCCC
DSHLGDFIEDQNNLAPSDAAMYSSLKDATKEVLDTLTPREAKVLRMRFGIDMNTDHTLEE
CHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHCCCCCCCHHHHH
VGKQFDVTRERIRQIEAKALRKLRHPTRSERLRSFLDSEPGGQ
HHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHCCCCCCC
>Mature Secondary Structure 
AASPENQKDVKDSQQEVMSLEEQRKRLRQLIALGKERGYLTYAEINDHLPEDVSDAEQI
CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCEEEECCCCCCCCCCHHHHHH
ENIVTMIAGLGIQVCEEAPDAETLLMSDATPSVADEDAVEEAEAALSSVDSEFGRTTDPV
HHHHHHHHHCCHHHHHCCCCCHHEEECCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCHHH
RMYMREMGSVELLTREGEIEIAKRIEDGLKYMIQAISACPGTIAEVLELMERVARDEIRV
HHHHHHCCCEEEEECCCCHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHH
DEVVDGFIDLNAPTEDEAQFAEPEDSDDLLDEEEEEEEDEDGAPVDADADAAANLEELKQ
HHHHHHHHCCCCCCCCCCCCCCCCCCCHHCCCCHHHHCCCCCCCCCCCCHHHCCHHHHHH
QALEHFAGVRMLFDKMVKALNAKGQQSKEYLELQDAITTEFMLVRFATRQVESLCESLRG
HHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
RVNEIRTYERDIQDICVSRVRMDRAHFIKVFPGNETNLDWVENEIDSGKAWSEALTRFKH
HHHHHHHHHHHHHHHHHHHHHHCHHHEEEEECCCCCCCHHHHHHHCCCHHHHHHHHHHHH
AIIEKQTRLSDLQDKAMLSIKALKEINRQMSAGESKARRAKKEMIEANLRLVISIAKKYT
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
NRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVH
HCCHHHHHHHHCCCCHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHEEEHHHH
MIETINKMNRISRQILQESGREPDPAELAEKMEMPEEKIRKIMKISKEPISMETPIGDDD
HHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHCCCHHHHHHHHHHCCCCCCCCCCCCCCC
DSHLGDFIEDQNNLAPSDAAMYSSLKDATKEVLDTLTPREAKVLRMRFGIDMNTDHTLEE
CHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHCCCCCCCHHHHH
VGKQFDVTRERIRQIEAKALRKLRHPTRSERLRSFLDSEPGGQ
HHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHCCCCCCC

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