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The map label for this gene is rpoD [H]

Identifier: 169630092

GI number: 169630092

Start: 3067302

End: 3068705

Strand: Direct

Name: rpoD [H]

Synonym: MAB_3009

Alternate gene names: 169630092

Gene position: 3067302-3068705 (Clockwise)

Preceding gene: 169630091

Following gene: 169630093

Centisome position: 60.53

GC content: 66.6

Gene sequence:

>1404_bases
GTGGCAGCCACGAAAGCAGCTCCGGTAACGCAGGCCACCGCCGAGACACCTTCGAACACCACCGCCACCAAGGCAGCGCC
GGCCAAGAAGGCCCCCGCGAAGGCCGCCACCAAGGCGCCCGCCAAGAAGGCACCGGCCAAGAAGGCCCCCGCGAAGGCCG
CCACCAAGGCGCCCGCCAAGAAGGCACCGGCCAAGAAAGCGCCGGCCAAGAAGGCCGCTGCCAAGGCAACCGATCCCGCT
CTCGAGCCGCAGGGCGCCGCCGATGACGCCGACATCGAGCCCGGCGATGACTTGGACACCGACCTCGCCGACGACGCCGA
TATCGAGGCCGACCTCGCCGAAGCCGCTGCCGAGCCCGAGCCCGAGGCAGAAGCTGACGGCGACGACGAGCCCTCCGAGA
AAGACAAGGCTTCAGGCGATTTCGTCTGGGACGAAGAAGAGTCCGAGGCGCTGCGCCAGGCCCGCAAGGATGCCGAGCTC
ACCGCCTCCGCGGACTCGGTGCGTGCCTACCTCAAGCAGATCGGCAAGGTGGCGCTGCTCAACGCCGAAGAGGAAGTTGA
GCTGGCCAAGCGGATCGAGGCCGGGCTGTACGCGACGCAAATCGTCACCGAGCTGACCGAGAAGGGCGAGAAGCTTCCCG
CCGCGCAGCGCCGCGACATGATGTGGATCTGCCGCGACGGAGACCGCGCCAAGAACCATCTGCTGGAAGCCAACCTGCGC
CTGGTGGTCTCGCTGGCCAAGCGCTACACCGGCCGCGGCATGGCGTTCCTGGACCTGATTCAGGAAGGCAACCTGGGTCT
GATCCGGGCGGTCGAGAAGTTCGACTACACAAAGGGTTACAAGTTCTCGACGTACGCCACCTGGTGGATCCGTCAGGCCA
TCACCCGCGCGATGGCCGACCAGGCCCGCACCATTCGTATCCCCGTGCACATGGTCGAGGTCATCAACAAGCTCGGCCGT
ATCCAGCGTGAGCTGCTACAGGACCTGGGTCGCGAGCCCACGCCCGAAGAGCTGGCCAAGGAAATGGACATCACGCCGGA
GAAGGTGCTGGAAATCCAGCAGTACGCGCGTGAGCCCATCTCGCTGGACCAGACCATCGGCGACGAGGGCGACTCGCAGC
TCGGCGACTTCATCGAAGACTCCGAGGCCGTGGTCGCCGTGGACGCGGTGTCCTTCACCCTGCTGCAGGATCAGCTGCAG
TCGGTGCTGGAGACCCTGTCCGAGCGCGAGGCCGGCGTGGTGCGTCTGCGCTTCGGCCTCACCGACGGTCAGCCGCGCAC
GCTCGACGAGATCGGTCAGGTGTACGGGGTCACCCGCGAGCGCATCCGGCAGATCGAGTCCAAGACCATGTCCAAGCTGC
GCCACCCGAGCCGTTCACAGGTGCTGCGCGACTACCTGGACTAA

Upstream 100 bases:

>100_bases
ACGCAGGTGTTCCCCCGCGGCGACGAACATCAAGCAGACAGCCAAATTCTCGATTTTGCATGCCCATGCGCGTCGAAGAA
GTAGCCAGGAAAGGGCGTAC

Downstream 100 bases:

>100_bases
GCCGTTCCCTTTCGCGCCGAGCGTGAAGCCATTGCGGGATTCCCACCGATTTTCCGCACTGGCTTCACGCTCGCCGTATT
TGAGTGAAATCGAGTAGCCC

Product: RNA polymerase sigma factor

Products: NA

Alternate protein names: Sigma-A [H]

Number of amino acids: Translated: 467; Mature: 466

Protein sequence:

>467_residues
MAATKAAPVTQATAETPSNTTATKAAPAKKAPAKAATKAPAKKAPAKKAPAKAATKAPAKKAPAKKAPAKKAAAKATDPA
LEPQGAADDADIEPGDDLDTDLADDADIEADLAEAAAEPEPEAEADGDDEPSEKDKASGDFVWDEEESEALRQARKDAEL
TASADSVRAYLKQIGKVALLNAEEEVELAKRIEAGLYATQIVTELTEKGEKLPAAQRRDMMWICRDGDRAKNHLLEANLR
LVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLGR
IQRELLQDLGREPTPEELAKEMDITPEKVLEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVVAVDAVSFTLLQDQLQ
SVLETLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD

Sequences:

>Translated_467_residues
MAATKAAPVTQATAETPSNTTATKAAPAKKAPAKAATKAPAKKAPAKKAPAKAATKAPAKKAPAKKAPAKKAAAKATDPA
LEPQGAADDADIEPGDDLDTDLADDADIEADLAEAAAEPEPEAEADGDDEPSEKDKASGDFVWDEEESEALRQARKDAEL
TASADSVRAYLKQIGKVALLNAEEEVELAKRIEAGLYATQIVTELTEKGEKLPAAQRRDMMWICRDGDRAKNHLLEANLR
LVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLGR
IQRELLQDLGREPTPEELAKEMDITPEKVLEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVVAVDAVSFTLLQDQLQ
SVLETLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD
>Mature_466_residues
AATKAAPVTQATAETPSNTTATKAAPAKKAPAKAATKAPAKKAPAKKAPAKAATKAPAKKAPAKKAPAKKAAAKATDPAL
EPQGAADDADIEPGDDLDTDLADDADIEADLAEAAAEPEPEAEADGDDEPSEKDKASGDFVWDEEESEALRQARKDAELT
ASADSVRAYLKQIGKVALLNAEEEVELAKRIEAGLYATQIVTELTEKGEKLPAAQRRDMMWICRDGDRAKNHLLEANLRL
VVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLGRI
QRELLQDLGREPTPEELAKEMDITPEKVLEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVVAVDAVSFTLLQDQLQS
VLETLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD

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=239, Percent_Identity=60.2510460251046, Blast_Score=311, Evalue=6e-86,
Organism=Escherichia coli, GI1789098, Length=362, Percent_Identity=36.4640883977901, Blast_Score=193, Evalue=3e-50,
Organism=Escherichia coli, GI1789871, Length=231, Percent_Identity=30.7359307359307, Blast_Score=89, Evalue=7e-19,
Organism=Escherichia coli, GI1788231, Length=204, Percent_Identity=28.921568627451, Blast_Score=63, Evalue=4e-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:   IPR013325
- InterPro:   IPR013324
- InterPro:   IPR012760
- 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: 51040; Mature: 50909

Theoretical pI: Translated: 4.71; Mature: 4.71

Prosite motif: PS00715 SIGMA70_1 ; PS00716 SIGMA70_2 ; PS00867 CPSASE_2

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.2 %Cys     (Translated Protein)
1.7 %Met     (Translated Protein)
1.9 %Cys+Met (Translated Protein)
0.2 %Cys     (Mature Protein)
1.5 %Met     (Mature Protein)
1.7 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MAATKAAPVTQATAETPSNTTATKAAPAKKAPAKAATKAPAKKAPAKKAPAKAATKAPAK
CCCCCCCCCCHHHCCCCCCCCCCCCCCCCCCCCHHHHCCCHHCCCCCCCCCHHHHCCCCC
KAPAKKAPAKKAAAKATDPALEPQGAADDADIEPGDDLDTDLADDADIEADLAEAAAEPE
CCCCCCCCHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHCCCCC
PEAEADGDDEPSEKDKASGDFVWDEEESEALRQARKDAELTASADSVRAYLKQIGKVALL
CCCCCCCCCCCCHHHCCCCCCCCCCHHHHHHHHHHHHHHHHCCHHHHHHHHHHHCCEEEE
NAEEEVELAKRIEAGLYATQIVTELTEKGEKLPAAQRRDMMWICRDGDRAKNHLLEANLR
CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHCCEEEEECCCCHHHHHHHHHHHH
LVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIRQAITRAMAD
HHHHHHHHHCCCCHHHHHHHHCCCCHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHH
QARTIRIPVHMVEVINKLGRIQRELLQDLGREPTPEELAKEMDITPEKVLEIQQYAREPI
CCCEEECHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHCCCCHHHHHHHHHHHCCCC
SLDQTIGDEGDSQLGDFIEDSEAVVAVDAVSFTLLQDQLQSVLETLSEREAGVVRLRFGL
CHHHHHCCCCCHHHHHHHCCCCCEEEEHHHHHHHHHHHHHHHHHHHHHHCCCEEEEEECC
TDGQPRTLDEIGQVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD
CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHCC
>Mature Secondary Structure 
AATKAAPVTQATAETPSNTTATKAAPAKKAPAKAATKAPAKKAPAKKAPAKAATKAPAK
CCCCCCCCCHHHCCCCCCCCCCCCCCCCCCCCHHHHCCCHHCCCCCCCCCHHHHCCCCC
KAPAKKAPAKKAAAKATDPALEPQGAADDADIEPGDDLDTDLADDADIEADLAEAAAEPE
CCCCCCCCHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHCCCCC
PEAEADGDDEPSEKDKASGDFVWDEEESEALRQARKDAELTASADSVRAYLKQIGKVALL
CCCCCCCCCCCCHHHCCCCCCCCCCHHHHHHHHHHHHHHHHCCHHHHHHHHHHHCCEEEE
NAEEEVELAKRIEAGLYATQIVTELTEKGEKLPAAQRRDMMWICRDGDRAKNHLLEANLR
CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHCCEEEEECCCCHHHHHHHHHHHH
LVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIRQAITRAMAD
HHHHHHHHHCCCCHHHHHHHHCCCCHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHH
QARTIRIPVHMVEVINKLGRIQRELLQDLGREPTPEELAKEMDITPEKVLEIQQYAREPI
CCCEEECHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHCCCCHHHHHHHHHHHCCCC
SLDQTIGDEGDSQLGDFIEDSEAVVAVDAVSFTLLQDQLQSVLETLSEREAGVVRLRFGL
CHHHHHCCCCCHHHHHHHCCCCCEEEEHHHHHHHHHHHHHHHHHHHHHHCCCEEEEEECC
TDGQPRTLDEIGQVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD
CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHCC

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: 12788972 [H]