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The map label for this gene is rpoD [H]

Identifier: 158425267

GI number: 158425267

Start: 4181439

End: 4183511

Strand: Direct

Name: rpoD [H]

Synonym: AZC_3643

Alternate gene names: 158425267

Gene position: 4181439-4183511 (Clockwise)

Preceding gene: 158425266

Following gene: 158425268

Centisome position: 77.87

GC content: 64.83

Gene sequence:

>2073_bases
TTGAATTGGGATGAGCGGTGGCGCGCAGGCGGCACACCGCTTTCGCCGCCGCGCGGCGATGTGCAGGAGATGTCCATGGC
GAAGCAGGCCACCGAGACGACCGAAGCTCCGGAGAAGGAGGTCGACGCCCCCGACGGGCCGTTGCTCGACCTCTCGGACG
CGGCTGTCCGGAAGATGATCAAGTCTGCCAAGCGCCGCGGCTATGTGACCTACGAGCAGCTCAATGAAGTGATGCCCTCC
GAGGAGGTGACCTCCGAGCAGATCGAGGACACCCTCGCCATGCTCAACGACATGGGCATCAACGTCATCGAGGCCGAAGA
GGCGGAAGCCGAGGAAGCCAGCGAGGAAGGCGAGACCGCCGACGAGCCGGAAGAGGTGGACAGCGGCGAACTCGCCGAGC
AGTCCCCGCGCGCCGTCGTCCGCTCCGAGACCAAGTCCGAGCCGGGCGAGCGCACGGACGATCCGGTACGCATGTACCTG
CGCGAGATGGGCAGCGTCGAACTGCTCTCCCGCGAGGGCGAAATCGCCATCGCCAAGCGCATCGAGGCGGGCCGCGAGGC
CATGATCGCCGGCCTGTGCGAAAGCCCCCTCACCTTCCAGGCCATCATCATCTGGCGCGACGAGCTCACCGAAGGCCGCG
TCCTGCTGCGCGACATCATCGACCTTGAAGCCACCTATGCCGGCCCCGAGGGCAAGGCGGGTCCGGTGATCGAGGGCGAG
ACGGCGCTCGCGCCCGAAGCCGGCGAGGACGGCCTCCTCAACGACAGCGCCGCTCCGGGCGATGACGAAGACGACATGGA
GAATTCCCTGTCGCTCGCCGCCATGGAGACGGAGATCAAGCCGAAGGTGTTGGAGACCTTCGAGCGCATCGCCGACAACT
ACAAGAAGCTGCGCCGCCTCCAGGACCAGAATGTCGAATCGAAGCTGAAGAACGAGACCCTCTCGCCCGCGCAGGAGCGC
AAGGCGAAGAAGCTCAAGGAAGACCTCGTTCTCGACATGAAGTCGCTGTCGCTCAACCAGGCGCGCATCGATTCGCTGGT
CGAGCAGCTCTATGAGATCAACAAGCGCCTCGTGAGCCTCGAGGGCCGCCTGCTCCGCCTCGCGGAGAGCTATGGCGTCG
CCCGCGACGACTTCCTGCGCCAGTACCAGGGCTATGAGCTCGACCCGAAGTGGCTGCTGCGGGTCTCCAAGCTCGGCTCC
AAGGGCTGGAAGGAATTCGTCGCCCACGAGAAGGACGGCATCCACACCCTGCGCGGCGACATCCACGCCCTCGCCACCGA
GACGGCGCTCGAGATCGCAGAATTCCGCAAGATCGTGCAGATGGTGCAGAAGGGCGAGAAGGAAGCCCGCCAGGCCAAGA
AGGAGATGGTGGAGGCGAACCTGCGCCTTGTGATCTCCATCGCCAAGAAGTACACGAACCGCGGCCTTCAGTTCCTGGAC
CTCATCCAGGAGGGCAACATCGGCCTCATGAAGGCGGTCGACAAGTTCGAGTACCGCCGCGGCTACAAGTTCTCGACCTA
TGCCACGTGGTGGATCCGGCAGGCCATCACGCGCTCGATCGCCGATCAGGCCCGCACCATCCGCATCCCGGTGCACATGA
TCGAGACGATCAACAAGATCGTCCGCACGTCGCGCCAGATGCTGCATGAGATCGGACGCGAGCCGACCCCGGAAGAGCTG
GCCGAGAAGCTCGGTATGCCGCTGGAGAAGGTCCGCAAGGTCCTGAAGATCGCCAAGGAGCCCATCTCCCTCGAAACGCC
CATCGGCGACGAGGAAGATTCGCACCTCGGCGACTTCATCGAGGACAAGAATGCGGTGCTGCCCATCGACGCCGCGATCC
AGTCCAACCTGCGCGAGACCACGACCCGCGTGCTGGCCTCGCTCACGCCCCGCGAAGAGCGTGTGCTGCGCATGCGTTTC
GGCATCGGCATGAACACGGACCACACCCTTGAGGAAGTGGGCCAGCAGTTCTCCGTGACCCGCGAGCGTATCCGCCAGAT
CGAGGCCAAGGCGCTGCGCAAGCTCAAGCACCCCTCGCGCTCGCGCAAGCTGCGCAGCTTCCTCGACAACTAG

Upstream 100 bases:

>100_bases
CTCTGCGCTTTTTGAAGGGCCAAGGGGGCCTGCCGCCTCTTTTTGGGGTTGGAGCGGCCTTCAGGCTGGTTTAACGGGAT
CGCCATAGGGTGGCCCGCGT

Downstream 100 bases:

>100_bases
GGCGTCGCGGCGATCTCAAGGGCAAGGGAGCGAAGTCGTTGGCAAGCGGCCACGACTTCGCTCACCACATCCATCTGCTC
CGAGAGCGGCCTGTCCCAAG

Product: RNA polymerase sigma factor RpoD

Products: NA

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

Number of amino acids: Translated: 690; Mature: 690

Protein sequence:

>690_residues
MNWDERWRAGGTPLSPPRGDVQEMSMAKQATETTEAPEKEVDAPDGPLLDLSDAAVRKMIKSAKRRGYVTYEQLNEVMPS
EEVTSEQIEDTLAMLNDMGINVIEAEEAEAEEASEEGETADEPEEVDSGELAEQSPRAVVRSETKSEPGERTDDPVRMYL
REMGSVELLSREGEIAIAKRIEAGREAMIAGLCESPLTFQAIIIWRDELTEGRVLLRDIIDLEATYAGPEGKAGPVIEGE
TALAPEAGEDGLLNDSAAPGDDEDDMENSLSLAAMETEIKPKVLETFERIADNYKKLRRLQDQNVESKLKNETLSPAQER
KAKKLKEDLVLDMKSLSLNQARIDSLVEQLYEINKRLVSLEGRLLRLAESYGVARDDFLRQYQGYELDPKWLLRVSKLGS
KGWKEFVAHEKDGIHTLRGDIHALATETALEIAEFRKIVQMVQKGEKEARQAKKEMVEANLRLVISIAKKYTNRGLQFLD
LIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQMLHEIGREPTPEEL
AEKLGMPLEKVRKVLKIAKEPISLETPIGDEEDSHLGDFIEDKNAVLPIDAAIQSNLRETTTRVLASLTPREERVLRMRF
GIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFLDN

Sequences:

>Translated_690_residues
MNWDERWRAGGTPLSPPRGDVQEMSMAKQATETTEAPEKEVDAPDGPLLDLSDAAVRKMIKSAKRRGYVTYEQLNEVMPS
EEVTSEQIEDTLAMLNDMGINVIEAEEAEAEEASEEGETADEPEEVDSGELAEQSPRAVVRSETKSEPGERTDDPVRMYL
REMGSVELLSREGEIAIAKRIEAGREAMIAGLCESPLTFQAIIIWRDELTEGRVLLRDIIDLEATYAGPEGKAGPVIEGE
TALAPEAGEDGLLNDSAAPGDDEDDMENSLSLAAMETEIKPKVLETFERIADNYKKLRRLQDQNVESKLKNETLSPAQER
KAKKLKEDLVLDMKSLSLNQARIDSLVEQLYEINKRLVSLEGRLLRLAESYGVARDDFLRQYQGYELDPKWLLRVSKLGS
KGWKEFVAHEKDGIHTLRGDIHALATETALEIAEFRKIVQMVQKGEKEARQAKKEMVEANLRLVISIAKKYTNRGLQFLD
LIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQMLHEIGREPTPEEL
AEKLGMPLEKVRKVLKIAKEPISLETPIGDEEDSHLGDFIEDKNAVLPIDAAIQSNLRETTTRVLASLTPREERVLRMRF
GIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFLDN
>Mature_690_residues
MNWDERWRAGGTPLSPPRGDVQEMSMAKQATETTEAPEKEVDAPDGPLLDLSDAAVRKMIKSAKRRGYVTYEQLNEVMPS
EEVTSEQIEDTLAMLNDMGINVIEAEEAEAEEASEEGETADEPEEVDSGELAEQSPRAVVRSETKSEPGERTDDPVRMYL
REMGSVELLSREGEIAIAKRIEAGREAMIAGLCESPLTFQAIIIWRDELTEGRVLLRDIIDLEATYAGPEGKAGPVIEGE
TALAPEAGEDGLLNDSAAPGDDEDDMENSLSLAAMETEIKPKVLETFERIADNYKKLRRLQDQNVESKLKNETLSPAQER
KAKKLKEDLVLDMKSLSLNQARIDSLVEQLYEINKRLVSLEGRLLRLAESYGVARDDFLRQYQGYELDPKWLLRVSKLGS
KGWKEFVAHEKDGIHTLRGDIHALATETALEIAEFRKIVQMVQKGEKEARQAKKEMVEANLRLVISIAKKYTNRGLQFLD
LIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQMLHEIGREPTPEEL
AEKLGMPLEKVRKVLKIAKEPISLETPIGDEEDSHLGDFIEDKNAVLPIDAAIQSNLRETTTRVLASLTPREERVLRMRF
GIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFLDN

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=648, Percent_Identity=49.0740740740741, Blast_Score=518, Evalue=1e-148,
Organism=Escherichia coli, GI1789098, Length=233, Percent_Identity=41.6309012875536, Blast_Score=214, Evalue=2e-56,
Organism=Escherichia coli, GI1789871, Length=242, Percent_Identity=27.2727272727273, Blast_Score=87, Evalue=4e-18,
Organism=Escherichia coli, GI1788231, Length=202, Percent_Identity=28.7128712871287, Blast_Score=74, Evalue=3e-14,

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: 78073; Mature: 78073

Theoretical pI: Translated: 4.78; Mature: 4.78

Prosite motif: PS00715 SIGMA70_1 ; PS00716 SIGMA70_2

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.1 %Cys     (Translated Protein)
3.0 %Met     (Translated Protein)
3.2 %Cys+Met (Translated Protein)
0.1 %Cys     (Mature Protein)
3.0 %Met     (Mature Protein)
3.2 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MNWDERWRAGGTPLSPPRGDVQEMSMAKQATETTEAPEKEVDAPDGPLLDLSDAAVRKMI
CCCHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHCCCCHHHCCCCCCCCCCCCHHHHHHHH
KSAKRRGYVTYEQLNEVMPSEEVTSEQIEDTLAMLNDMGINVIEAEEAEAEEASEEGETA
HHHHHCCCCCHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCCEEECCHHHHHHHHHCCCCC
DEPEEVDSGELAEQSPRAVVRSETKSEPGERTDDPVRMYLREMGSVELLSREGEIAIAKR
CCCCCCCCCCHHHCCCHHHHHHHHCCCCCCCCCHHHHHHHHHHCCHHHHHCCCCCHHHHH
IEAGREAMIAGLCESPLTFQAIIIWRDELTEGRVLLRDIIDLEATYAGPEGKAGPVIEGE
HHHHHHHHHHHHHCCCCCEEEEEEEECCCCCHHHHHHHHHHHHHHCCCCCCCCCCEECCC
TALAPEAGEDGLLNDSAAPGDDEDDMENSLSLAAMETEIKPKVLETFERIADNYKKLRRL
CCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHH
QDQNVESKLKNETLSPAQERKAKKLKEDLVLDMKSLSLNQARIDSLVEQLYEINKRLVSL
HHCCHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHH
EGRLLRLAESYGVARDDFLRQYQGYELDPKWLLRVSKLGSKGWKEFVAHEKDGIHTLRGD
HHHHHHHHHHHCCHHHHHHHHHCCCCCCHHHHHHHHHHCCHHHHHHHHCCCCCCHHHHHH
IHALATETALEIAEFRKIVQMVQKGEKEARQAKKEMVEANLRLVISIAKKYTNRGLQFLD
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHH
LIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKI
HHHCCCCHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHEEEHHHHHHHHHHHH
VRTSRQMLHEIGREPTPEELAEKLGMPLEKVRKVLKIAKEPISLETPIGDEEDSHLGDFI
HHHHHHHHHHHCCCCCHHHHHHHHCCCHHHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHH
EDKNAVLPIDAAIQSNLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVT
HCCCCEEEEHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHCCCCCCCHHHHHHHHHHHHH
RERIRQIEAKALRKLKHPSRSRKLRSFLDN
HHHHHHHHHHHHHHHHCCHHHHHHHHHHCC
>Mature Secondary Structure
MNWDERWRAGGTPLSPPRGDVQEMSMAKQATETTEAPEKEVDAPDGPLLDLSDAAVRKMI
CCCHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHCCCCHHHCCCCCCCCCCCCHHHHHHHH
KSAKRRGYVTYEQLNEVMPSEEVTSEQIEDTLAMLNDMGINVIEAEEAEAEEASEEGETA
HHHHHCCCCCHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCCEEECCHHHHHHHHHCCCCC
DEPEEVDSGELAEQSPRAVVRSETKSEPGERTDDPVRMYLREMGSVELLSREGEIAIAKR
CCCCCCCCCCHHHCCCHHHHHHHHCCCCCCCCCHHHHHHHHHHCCHHHHHCCCCCHHHHH
IEAGREAMIAGLCESPLTFQAIIIWRDELTEGRVLLRDIIDLEATYAGPEGKAGPVIEGE
HHHHHHHHHHHHHCCCCCEEEEEEEECCCCCHHHHHHHHHHHHHHCCCCCCCCCCEECCC
TALAPEAGEDGLLNDSAAPGDDEDDMENSLSLAAMETEIKPKVLETFERIADNYKKLRRL
CCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHH
QDQNVESKLKNETLSPAQERKAKKLKEDLVLDMKSLSLNQARIDSLVEQLYEINKRLVSL
HHCCHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHH
EGRLLRLAESYGVARDDFLRQYQGYELDPKWLLRVSKLGSKGWKEFVAHEKDGIHTLRGD
HHHHHHHHHHHCCHHHHHHHHHCCCCCCHHHHHHHHHHCCHHHHHHHHCCCCCCHHHHHH
IHALATETALEIAEFRKIVQMVQKGEKEARQAKKEMVEANLRLVISIAKKYTNRGLQFLD
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHH
LIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKI
HHHCCCCHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHEEEHHHHHHHHHHHH
VRTSRQMLHEIGREPTPEELAEKLGMPLEKVRKVLKIAKEPISLETPIGDEEDSHLGDFI
HHHHHHHHHHHCCCCCHHHHHHHHCCCHHHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHH
EDKNAVLPIDAAIQSNLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVT
HCCCCEEEEHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHCCCCCCCHHHHHHHHHHHHH
RERIRQIEAKALRKLKHPSRSRKLRSFLDN
HHHHHHHHHHHHHHHHCCHHHHHHHHHHCC

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]