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The map label for this gene is rpoD [H]

Identifier: 209550278

GI number: 209550278

Start: 2735498

End: 2737555

Strand: Reverse

Name: rpoD [H]

Synonym: Rleg2_2698

Alternate gene names: 209550278

Gene position: 2737555-2735498 (Counterclockwise)

Preceding gene: 209550279

Following gene: 209550277

Centisome position: 60.33

GC content: 61.22

Gene sequence:

>2058_bases
ATGGCAACCAAGGTCAAAGAGAACGAAGACGCGGAAGTCGAACGCGACGGCGCAAGCGACGGCCCTCTTCTCGATCTTTC
CGACGACGCGGTCAAGAAGATGATCAAGGCCGCCAAGAAGCGCGGCTATGTGACGATGGACGAGCTCAACGCGGTCCTGC
CGTCTGAAGAAGTGACGTCCGAGCAGATCGAAGACACGATGTCGATGCTGTCGGATATGGGCATCAACGTCATCGAAGAT
GAAGAAGCTGAGGAAGCCGGTGCTTCCGGCGGCGGCGATGACGACGATGCCGGCTCCGACGAGGAGAGCGAAGGCGGCGA
ACTCGCACCTTCGAGCGGCACCGCGCTTGCGACCGCCAAGAAGAAAGAACCGACCGACCGTACCGATGATCCGGTGCGCA
TGTATCTGCGCGAGATGGGCTCGGTGGAGCTTCTTTCCCGCGAGGGCGAAATCGCTATCGCCAAGCGTATCGAGGCCGGC
CGCGAGACGATGATCGCAGGTCTCTGCGAGAGCCCGCTGACCTTCCAGGCGATCATCATCTGGCGCGACGAACTTAACGA
AGGCACGACGCTGCTGCGCGAGATCATCGATCTCGAAACCACCTATTCCGGTCCTGAAGCCAAGGCTGCGCCGCAGTTCC
AGAGCCCCGAGAAGATCGAGGCCGACCGCAAGGCCGCCGAAGAAAAGGAAAAGACCCGCCGCGCCCGCTCCGGCGACGAC
GACATCACCGATGTCGGCGGCGAAGGCCTGCCTCCCGAGGAGGAGGAAGAGGACGAGGACGAATCCAACCTTTCGCTGGC
CGCGATGGAAGCCGAGCTTCGCCCGCAGGTGATGGAGACGCTGGATACGATCGCCGAGACCTACAAGAAGCTGCGCAAGC
TGCAGGACCAGCAGGTCGAGCAGCGCCTGTCGGCGTCCGGTACACTGTCTTCAGCCCAGGAGCGCCGCTATAAGGAGCTC
AAGGATGAACTCATCAAGGCCGTCAAGTCTCTGTCCTTGAACCAGAACCGCATCGACGCCCTGGTCGAACAGCTTTACGA
CATCAACAAGCGCCTCGTTTCCAACGAGGGCCGCCTGCTGCGTCTGGCCGAATCCTACGGCGTCAAGCGCGATAGCTTCC
TGGAGCAGTATCAGGGCGCCGAGCTCGATCCGAACTGGATGAAGTCGATCGGCAATCTAGCCGCCCGCGGCTGGAAGGAA
TTCGCCCGCGGCGAAAACACGACGATCCGGGATATCCGCCAGGAGATCCAGAATCTCGCGACCGAGACCGGCATTTCGAT
TTCGGAATTCCGCCGCATCGTCCACATGGTGCAGAAGGGCGAGCGCGAAGCGCGCATCGCTAAGAAGGAAATGGTCGAAG
CGAACCTTCGCCTCGTCATCTCCATCGCCAAGAAATATACGAACCGAGGCCTGCAGTTCCTCGACCTCATTCAGGAAGGC
AATATCGGCCTGATGAAGGCGGTCGACAAGTTCGAATATCGCCGCGGCTACAAGTTCTCGACCTATGCGACTTGGTGGAT
CCGCCAGGCGATCACCCGTTCGATCGCCGACCAGGCCCGCACGATCCGCATTCCGGTGCACATGATCGAGACGATCAACA
AGATCGTCCGCACCTCGCGCCAGATGCTGCACGAAATCGGCCGTGAACCGACGCCGGAAGAACTGGCCGAAAAGCTCGCC
ATGCCGCTCGAAAAGGTCCGCAAGGTCCTGAAGATCGCCAAGGAGCCGATCTCGCTCGAAACCCCGGTTGGCGACGAAGA
GGATTCGCATCTCGGCGATTTCATCGAGGACAAGAACGCGCTGCTGCCGATCGACGCCGCCATCCAGGCGAACCTGCGGG
AAACGACGACCCGCGTTCTCGCCTCGCTGACGCCGCGCGAGGAACGCGTGCTCCGCATGCGCTTCGGCATCGGCATGAAC
ACCGACCATACGCTCGAAGAAGTCGGTCAGCAGTTCTCGGTCACCCGCGAACGTATCCGCCAGATCGAGGCGAAGGCGCT
GCGCAAGCTGAAGCATCCGAGCCGCTCCAGGAAGCTGCGCTCCTTCCTCGACAGCTGA

Upstream 100 bases:

>100_bases
GGCAAAGGTGATTCTAGGGCGGCGCGAGCGACGTGTCAGGCCCTGAGACGGCCCATTCACCGTAGCGAGATTGGATAGCG
TCAGGAAGGCGACGATATAA

Downstream 100 bases:

>100_bases
GGCTTCGATACCGTACTGATTGGAAAAGCCGGGCCTTGCGCCCGGCTTTTGCTTTTGTGATTAACACCAATGAGTGTTGC
GGTTTTCTTGTCCCCTCATG

Product: RNA polymerase sigma factor RpoD

Products: NA

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

Number of amino acids: Translated: 685; Mature: 684

Protein sequence:

>685_residues
MATKVKENEDAEVERDGASDGPLLDLSDDAVKKMIKAAKKRGYVTMDELNAVLPSEEVTSEQIEDTMSMLSDMGINVIED
EEAEEAGASGGGDDDDAGSDEESEGGELAPSSGTALATAKKKEPTDRTDDPVRMYLREMGSVELLSREGEIAIAKRIEAG
RETMIAGLCESPLTFQAIIIWRDELNEGTTLLREIIDLETTYSGPEAKAAPQFQSPEKIEADRKAAEEKEKTRRARSGDD
DITDVGGEGLPPEEEEEDEDESNLSLAAMEAELRPQVMETLDTIAETYKKLRKLQDQQVEQRLSASGTLSSAQERRYKEL
KDELIKAVKSLSLNQNRIDALVEQLYDINKRLVSNEGRLLRLAESYGVKRDSFLEQYQGAELDPNWMKSIGNLAARGWKE
FARGENTTIRDIRQEIQNLATETGISISEFRRIVHMVQKGEREARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEG
NIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQMLHEIGREPTPEELAEKLA
MPLEKVRKVLKIAKEPISLETPVGDEEDSHLGDFIEDKNALLPIDAAIQANLRETTTRVLASLTPREERVLRMRFGIGMN
TDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFLDS

Sequences:

>Translated_685_residues
MATKVKENEDAEVERDGASDGPLLDLSDDAVKKMIKAAKKRGYVTMDELNAVLPSEEVTSEQIEDTMSMLSDMGINVIED
EEAEEAGASGGGDDDDAGSDEESEGGELAPSSGTALATAKKKEPTDRTDDPVRMYLREMGSVELLSREGEIAIAKRIEAG
RETMIAGLCESPLTFQAIIIWRDELNEGTTLLREIIDLETTYSGPEAKAAPQFQSPEKIEADRKAAEEKEKTRRARSGDD
DITDVGGEGLPPEEEEEDEDESNLSLAAMEAELRPQVMETLDTIAETYKKLRKLQDQQVEQRLSASGTLSSAQERRYKEL
KDELIKAVKSLSLNQNRIDALVEQLYDINKRLVSNEGRLLRLAESYGVKRDSFLEQYQGAELDPNWMKSIGNLAARGWKE
FARGENTTIRDIRQEIQNLATETGISISEFRRIVHMVQKGEREARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEG
NIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQMLHEIGREPTPEELAEKLA
MPLEKVRKVLKIAKEPISLETPVGDEEDSHLGDFIEDKNALLPIDAAIQANLRETTTRVLASLTPREERVLRMRFGIGMN
TDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFLDS
>Mature_684_residues
ATKVKENEDAEVERDGASDGPLLDLSDDAVKKMIKAAKKRGYVTMDELNAVLPSEEVTSEQIEDTMSMLSDMGINVIEDE
EAEEAGASGGGDDDDAGSDEESEGGELAPSSGTALATAKKKEPTDRTDDPVRMYLREMGSVELLSREGEIAIAKRIEAGR
ETMIAGLCESPLTFQAIIIWRDELNEGTTLLREIIDLETTYSGPEAKAAPQFQSPEKIEADRKAAEEKEKTRRARSGDDD
ITDVGGEGLPPEEEEEDEDESNLSLAAMEAELRPQVMETLDTIAETYKKLRKLQDQQVEQRLSASGTLSSAQERRYKELK
DELIKAVKSLSLNQNRIDALVEQLYDINKRLVSNEGRLLRLAESYGVKRDSFLEQYQGAELDPNWMKSIGNLAARGWKEF
ARGENTTIRDIRQEIQNLATETGISISEFRRIVHMVQKGEREARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGN
IGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQMLHEIGREPTPEELAEKLAM
PLEKVRKVLKIAKEPISLETPVGDEEDSHLGDFIEDKNALLPIDAAIQANLRETTTRVLASLTPREERVLRMRFGIGMNT
DHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFLDS

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=658, Percent_Identity=47.5683890577508, Blast_Score=513, Evalue=1e-146,
Organism=Escherichia coli, GI1789098, Length=238, Percent_Identity=41.1764705882353, Blast_Score=213, Evalue=2e-56,
Organism=Escherichia coli, GI1789871, Length=241, Percent_Identity=27.3858921161826, Blast_Score=84, Evalue=4e-17,
Organism=Escherichia coli, GI1788231, Length=202, Percent_Identity=27.7227722772277, Blast_Score=69, Evalue=9e-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: 77225; Mature: 77094

Theoretical pI: Translated: 4.71; Mature: 4.71

Prosite motif: PS00715 SIGMA70_1 ; PS00716 SIGMA70_2

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.1 %Cys     (Translated Protein)
2.9 %Met     (Translated Protein)
3.1 %Cys+Met (Translated Protein)
0.1 %Cys     (Mature Protein)
2.8 %Met     (Mature Protein)
2.9 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MATKVKENEDAEVERDGASDGPLLDLSDDAVKKMIKAAKKRGYVTMDELNAVLPSEEVTS
CCCCCCCCCCCCHHCCCCCCCCEECCCHHHHHHHHHHHHHCCCEEHHHHHHHCCCHHHHH
EQIEDTMSMLSDMGINVIEDEEAEEAGASGGGDDDDAGSDEESEGGELAPSSGTALATAK
HHHHHHHHHHHHCCCCEECCCCHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEECC
KKEPTDRTDDPVRMYLREMGSVELLSREGEIAIAKRIEAGRETMIAGLCESPLTFQAIII
CCCCCCCCCHHHHHHHHHHCCHHHHHCCCCCHHHHHHHHHHHHHHHHHHCCCCCEEEEEE
WRDELNEGTTLLREIIDLETTYSGPEAKAAPQFQSPEKIEADRKAAEEKEKTRRARSGDD
EHHHCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHCCCCC
DITDVGGEGLPPEEEEEDEDESNLSLAAMEAELRPQVMETLDTIAETYKKLRKLQDQQVE
CHHHCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
QRLSASGTLSSAQERRYKELKDELIKAVKSLSLNQNRIDALVEQLYDINKRLVSNEGRLL
HHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCEE
RLAESYGVKRDSFLEQYQGAELDPNWMKSIGNLAARGWKEFARGENTTIRDIRQEIQNLA
EEHHHHCCCHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHH
TETGISISEFRRIVHMVQKGEREARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEG
HHCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHCC
NIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSR
CCHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHEEEHHHHHHHHHHHHHHHHH
QMLHEIGREPTPEELAEKLAMPLEKVRKVLKIAKEPISLETPVGDEEDSHLGDFIEDKNA
HHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHHCCCC
LLPIDAAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIR
EECCHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHH
QIEAKALRKLKHPSRSRKLRSFLDS
HHHHHHHHHHHCCHHHHHHHHHHCC
>Mature Secondary Structure 
ATKVKENEDAEVERDGASDGPLLDLSDDAVKKMIKAAKKRGYVTMDELNAVLPSEEVTS
CCCCCCCCCCCHHCCCCCCCCEECCCHHHHHHHHHHHHHCCCEEHHHHHHHCCCHHHHH
EQIEDTMSMLSDMGINVIEDEEAEEAGASGGGDDDDAGSDEESEGGELAPSSGTALATAK
HHHHHHHHHHHHCCCCEECCCCHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEECC
KKEPTDRTDDPVRMYLREMGSVELLSREGEIAIAKRIEAGRETMIAGLCESPLTFQAIII
CCCCCCCCCHHHHHHHHHHCCHHHHHCCCCCHHHHHHHHHHHHHHHHHHCCCCCEEEEEE
WRDELNEGTTLLREIIDLETTYSGPEAKAAPQFQSPEKIEADRKAAEEKEKTRRARSGDD
EHHHCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHCCCCC
DITDVGGEGLPPEEEEEDEDESNLSLAAMEAELRPQVMETLDTIAETYKKLRKLQDQQVE
CHHHCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
QRLSASGTLSSAQERRYKELKDELIKAVKSLSLNQNRIDALVEQLYDINKRLVSNEGRLL
HHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCCEE
RLAESYGVKRDSFLEQYQGAELDPNWMKSIGNLAARGWKEFARGENTTIRDIRQEIQNLA
EEHHHHCCCHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHH
TETGISISEFRRIVHMVQKGEREARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEG
HHCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHCC
NIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSR
CCHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHEEEHHHHHHHHHHHHHHHHH
QMLHEIGREPTPEELAEKLAMPLEKVRKVLKIAKEPISLETPVGDEEDSHLGDFIEDKNA
HHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHHCCCC
LLPIDAAIQANLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIR
EECCHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHH
QIEAKALRKLKHPSRSRKLRSFLDS
HHHHHHHHHHHCCHHHHHHHHHHCC

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]