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The map label for this gene is rpoD [H]

Identifier: 154245186

GI number: 154245186

Start: 1423114

End: 1425114

Strand: Reverse

Name: rpoD [H]

Synonym: Xaut_1238

Alternate gene names: 154245186

Gene position: 1425114-1423114 (Counterclockwise)

Preceding gene: 154245187

Following gene: 154245183

Centisome position: 26.84

GC content: 65.47

Gene sequence:

>2001_bases
ATGGCGAAGCAGTCTTCCGAAGCGACCGAGGCTCCCGAGAAGGAGACCGACGCGCCCGACGGGCCGTTGCTCGACCTCTC
CGACGCCGCCGTCCGGAAGATGATCAAGAATGCCAAGCGCCGCGGCTATGTGACCTACGAGCAGCTCAATGAGGTGATGC
CTTCCGAGGAAGTCACCTCCGAGCAGATCGAGGACACTCTCGCGATGCTCAACGACATGGGCATCAACGTCATCGAGGCC
GAGGAAGCCGAGGCCGAAGAGGGCGCCGAGGAAACCGAGACCGCCGAGGAGCCCGAGGAGGCCGAAGGCGGCGAGCTCGC
TGAGCCCGCCCCGCGCGCCGTCGCGCGCTCCGAGACCAAGTCCGAGCCGGCCGAGCGCACCGACGATCCGGTGCGCATGT
ACCTGCGCGAGATGGGATCGGTGGAGCTGCTCTCCCGCGAGGGCGAAATCGCCATCGCCAAGCGCATCGAGGCCGGCCGC
GAGGCCATGATCGCCGGCCTGTGCGAGAGCCCGCTGACGTTCCAGGCCATCATCATCTGGCGCGACGAGCTCACCGAGGG
CCGCGTGCTGTTGCGCGACATCATCGACCTCGAGGCGACCTACGCCGGCCCCGAGGGCAAGAACCCGCCCGCGGCCCTCG
GCGAGGAAGCCGCCCTTGCGCCTGAGGCCGGGGAAGACGGCCTTCTGGGCGACGCCCCCGGTCCCGAGGGCGAGGACGAC
GACATGGAAAATTCCATGTCGCTCGCCGCCATGGAGGCGGAGATCAAGCCGAAGGTGCTGGAAACCTTCGACCGCATCGC
CTCCTCCTACACCAAGCTGCGGCGCCTGCAGGACCAGAACGTCGAATCCAAGCTGAAGAACGAGACGCTGTCGCCGGCGC
AGGAGCGCAAGGCGAAGAAGCTGAAGGAAGACCTCGTTGGCGACGTGAAGAGCCTGTCCCTCAACCAGGCCCGCATCGAC
GCCTTGGTGGAGCAGCTCTACGAGATCAACAAGCGCCTCGTGGGCCTGGAGGGGCGCCTGCTACGCCTCGCCGACAGCTA
TGGCGTGACCCGCGACGACTTCCTGAAGAACTACATGGGCGCGGAGCTGGACCCCAAGTGGCTGCTGCGGGTCTCCAAGC
TCGGCACCAAGGGCTGGAAGGGCTTTGTCGGCCACGAGAAGGATACCATCCACGAGATCCGCGGCGACATCCACGCGCTG
GCCACTGAGACCGGGCTGGAAATCGCCGAGTTCCGCAAGATCGTGCAGATGGTGCAGAAGGGCGAGAAGGAAGCCCGCCA
GGCCAAGAAGGAAATGGTGGAGGCCAACCTGCGCCTCGTCATCTCCATCGCCAAGAAGTACACGAACCGCGGCCTGCAGT
TCCTGGACCTGATCCAGGAGGGCAACATCGGCCTGATGAAGGCGGTGGACAAGTTCGAGTACCGGCGCGGCTACAAGTTC
TCCACCTATGCCACCTGGTGGATCCGGCAGGCCATCACGCGATCCATCGCCGACCAGGCGCGCACCATCCGCATTCCCGT
GCACATGATCGAGACGATCAACAAGATCGTGCGCACGAGCCGGCAGATGCTGCACGAGATTGGCCGCGAGCCCACACCCG
AGGAGCTGGCCGAGAAGCTCGGCATGCCGCTCGAGAAGGTGCGCAAGGTGCTGAAGATCGCCAAGGAGCCCATCTCCCTC
GAAACGCCCATCGGCGACGAGGAGGATTCGCACCTCGGCGACTTCATCGAGGACAAGAACGCCATCCTGCCCATCGACGC
GGCGATCCAGTCCAACCTGCGCGAGACCACCACGCGAGTTCTGGCCTCCCTCACCCCGCGCGAGGAACGCGTTCTGCGCA
TGCGCTTCGGCATCGGCATGAACACGGACCACACGCTGGAAGAAGTGGGCCAGCAGTTCTCGGTGACCCGCGAGCGTATC
CGCCAGATCGAGGCGAAGGCGCTGCGCAAGCTCAAGCACCCCTCGCGCTCGCGCAAGCTGCGGTCGTTCCTCGACAATTG
A

Upstream 100 bases:

>100_bases
AAAAAAGCCGCTCCCGGGCGCAAAGGCAAAAGGTGGTACGGCCGAGGCGCCGCGCCGCCGTTCTGCTGTTGGCACTCAGC
AGGATCCGCAGGAGAAGTCC

Downstream 100 bases:

>100_bases
GCGGGCGGCATATCTGATTGGAAAAGGCGGTCCTTGCGGCCGCCTTTTCTTTTGGCGCCAGCGCATTCAGCGCGCCGGCG
CCTCCACCAGCAGGGCGACG

Product: RNA polymerase sigma factor RpoD

Products: NA

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

Number of amino acids: Translated: 666; Mature: 665

Protein sequence:

>666_residues
MAKQSSEATEAPEKETDAPDGPLLDLSDAAVRKMIKNAKRRGYVTYEQLNEVMPSEEVTSEQIEDTLAMLNDMGINVIEA
EEAEAEEGAEETETAEEPEEAEGGELAEPAPRAVARSETKSEPAERTDDPVRMYLREMGSVELLSREGEIAIAKRIEAGR
EAMIAGLCESPLTFQAIIIWRDELTEGRVLLRDIIDLEATYAGPEGKNPPAALGEEAALAPEAGEDGLLGDAPGPEGEDD
DMENSMSLAAMEAEIKPKVLETFDRIASSYTKLRRLQDQNVESKLKNETLSPAQERKAKKLKEDLVGDVKSLSLNQARID
ALVEQLYEINKRLVGLEGRLLRLADSYGVTRDDFLKNYMGAELDPKWLLRVSKLGTKGWKGFVGHEKDTIHEIRGDIHAL
ATETGLEIAEFRKIVQMVQKGEKEARQAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF
STYATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQMLHEIGREPTPEELAEKLGMPLEKVRKVLKIAKEPISL
ETPIGDEEDSHLGDFIEDKNAILPIDAAIQSNLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERI
RQIEAKALRKLKHPSRSRKLRSFLDN

Sequences:

>Translated_666_residues
MAKQSSEATEAPEKETDAPDGPLLDLSDAAVRKMIKNAKRRGYVTYEQLNEVMPSEEVTSEQIEDTLAMLNDMGINVIEA
EEAEAEEGAEETETAEEPEEAEGGELAEPAPRAVARSETKSEPAERTDDPVRMYLREMGSVELLSREGEIAIAKRIEAGR
EAMIAGLCESPLTFQAIIIWRDELTEGRVLLRDIIDLEATYAGPEGKNPPAALGEEAALAPEAGEDGLLGDAPGPEGEDD
DMENSMSLAAMEAEIKPKVLETFDRIASSYTKLRRLQDQNVESKLKNETLSPAQERKAKKLKEDLVGDVKSLSLNQARID
ALVEQLYEINKRLVGLEGRLLRLADSYGVTRDDFLKNYMGAELDPKWLLRVSKLGTKGWKGFVGHEKDTIHEIRGDIHAL
ATETGLEIAEFRKIVQMVQKGEKEARQAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF
STYATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQMLHEIGREPTPEELAEKLGMPLEKVRKVLKIAKEPISL
ETPIGDEEDSHLGDFIEDKNAILPIDAAIQSNLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERI
RQIEAKALRKLKHPSRSRKLRSFLDN
>Mature_665_residues
AKQSSEATEAPEKETDAPDGPLLDLSDAAVRKMIKNAKRRGYVTYEQLNEVMPSEEVTSEQIEDTLAMLNDMGINVIEAE
EAEAEEGAEETETAEEPEEAEGGELAEPAPRAVARSETKSEPAERTDDPVRMYLREMGSVELLSREGEIAIAKRIEAGRE
AMIAGLCESPLTFQAIIIWRDELTEGRVLLRDIIDLEATYAGPEGKNPPAALGEEAALAPEAGEDGLLGDAPGPEGEDDD
MENSMSLAAMEAEIKPKVLETFDRIASSYTKLRRLQDQNVESKLKNETLSPAQERKAKKLKEDLVGDVKSLSLNQARIDA
LVEQLYEINKRLVGLEGRLLRLADSYGVTRDDFLKNYMGAELDPKWLLRVSKLGTKGWKGFVGHEKDTIHEIRGDIHALA
TETGLEIAEFRKIVQMVQKGEKEARQAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFS
TYATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQMLHEIGREPTPEELAEKLGMPLEKVRKVLKIAKEPISLE
TPIGDEEDSHLGDFIEDKNAILPIDAAIQSNLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIR
QIEAKALRKLKHPSRSRKLRSFLDN

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=643, Percent_Identity=48.6780715396579, Blast_Score=512, Evalue=1e-146,
Organism=Escherichia coli, GI1789098, Length=225, Percent_Identity=42.6666666666667, Blast_Score=214, Evalue=2e-56,
Organism=Escherichia coli, GI1789871, Length=242, Percent_Identity=27.2727272727273, Blast_Score=87, Evalue=3e-18,
Organism=Escherichia coli, GI1788231, Length=202, Percent_Identity=28.7128712871287, Blast_Score=73, Evalue=5e-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: 74833; Mature: 74702

Theoretical pI: Translated: 4.79; Mature: 4.79

Prosite motif: PS00715 SIGMA70_1 ; PS00716 SIGMA70_2

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.2 %Cys     (Translated Protein)
3.0 %Met     (Translated Protein)
3.2 %Cys+Met (Translated Protein)
0.2 %Cys     (Mature Protein)
2.9 %Met     (Mature Protein)
3.0 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MAKQSSEATEAPEKETDAPDGPLLDLSDAAVRKMIKNAKRRGYVTYEQLNEVMPSEEVTS
CCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHCCCCCHHHHHHHCCCHHHHH
EQIEDTLAMLNDMGINVIEAEEAEAEEGAEETETAEEPEEAEGGELAEPAPRAVARSETK
HHHHHHHHHHHHCCCCEEECCHHHHHCCCHHHHCCCCCCCCCCCCCCCCCHHHHHHHHHC
SEPAERTDDPVRMYLREMGSVELLSREGEIAIAKRIEAGREAMIAGLCESPLTFQAIIIW
CCCCCCCCHHHHHHHHHHCCHHHHHCCCCCHHHHHHHHHHHHHHHHHHCCCCCEEEEEEE
RDELTEGRVLLRDIIDLEATYAGPEGKNPPAALGEEAALAPEAGEDGLLGDAPGPEGEDD
ECCCCCHHHHHHHHHHHHHHCCCCCCCCCCHHCCCCCCCCCCCCCCCCCCCCCCCCCCCC
DMENSMSLAAMEAEIKPKVLETFDRIASSYTKLRRLQDQNVESKLKNETLSPAQERKAKK
HHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHCCCCHHHHHHHHH
LKEDLVGDVKSLSLNQARIDALVEQLYEINKRLVGLEGRLLRLADSYGVTRDDFLKNYMG
HHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCCHHHHHHHHHC
AELDPKWLLRVSKLGTKGWKGFVGHEKDTIHEIRGDIHALATETGLEIAEFRKIVQMVQK
CCCCHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
GEKEARQAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHCCCCHHHHHHHHHHHHCCCCC
STYATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQMLHEIGREPTPEELAEKL
HHHHHHHHHHHHHHHHHHHHHEEEHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHH
GMPLEKVRKVLKIAKEPISLETPIGDEEDSHLGDFIEDKNAILPIDAAIQSNLRETTTRV
CCCHHHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHHCCCCEEEEHHHHHHHHHHHHHHH
LASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKL
HHHCCCHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHH
RSFLDN
HHHHCC
>Mature Secondary Structure 
AKQSSEATEAPEKETDAPDGPLLDLSDAAVRKMIKNAKRRGYVTYEQLNEVMPSEEVTS
CCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHCCCCCHHHHHHHCCCHHHHH
EQIEDTLAMLNDMGINVIEAEEAEAEEGAEETETAEEPEEAEGGELAEPAPRAVARSETK
HHHHHHHHHHHHCCCCEEECCHHHHHCCCHHHHCCCCCCCCCCCCCCCCCHHHHHHHHHC
SEPAERTDDPVRMYLREMGSVELLSREGEIAIAKRIEAGREAMIAGLCESPLTFQAIIIW
CCCCCCCCHHHHHHHHHHCCHHHHHCCCCCHHHHHHHHHHHHHHHHHHCCCCCEEEEEEE
RDELTEGRVLLRDIIDLEATYAGPEGKNPPAALGEEAALAPEAGEDGLLGDAPGPEGEDD
ECCCCCHHHHHHHHHHHHHHCCCCCCCCCCHHCCCCCCCCCCCCCCCCCCCCCCCCCCCC
DMENSMSLAAMEAEIKPKVLETFDRIASSYTKLRRLQDQNVESKLKNETLSPAQERKAKK
HHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHCCCCHHHHHHHHH
LKEDLVGDVKSLSLNQARIDALVEQLYEINKRLVGLEGRLLRLADSYGVTRDDFLKNYMG
HHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCCHHHHHHHHHC
AELDPKWLLRVSKLGTKGWKGFVGHEKDTIHEIRGDIHALATETGLEIAEFRKIVQMVQK
CCCCHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
GEKEARQAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHCCCCHHHHHHHHHHHHCCCCC
STYATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQMLHEIGREPTPEELAEKL
HHHHHHHHHHHHHHHHHHHHHEEEHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHH
GMPLEKVRKVLKIAKEPISLETPIGDEEDSHLGDFIEDKNAILPIDAAIQSNLRETTTRV
CCCHHHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHHCCCCEEEEHHHHHHHHHHHHHHH
LASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKL
HHHCCCHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHH
RSFLDN
HHHHCC

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]