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The map label for this gene is rpoD [H]

Identifier: 49475878

GI number: 49475878

Start: 1272715

End: 1274718

Strand: Reverse

Name: rpoD [H]

Synonym: BH11530

Alternate gene names: 49475878

Gene position: 1274718-1272715 (Counterclockwise)

Preceding gene: 49475879

Following gene: 49475877

Centisome position: 66.01

GC content: 40.97

Gene sequence:

>2004_bases
ATGGCAACAAAGGTTAAACAGAAAGACAATACAGAAGTAACGACCCAAGCGAGTGTGGACAGTCCTCTTCTCGATTTTTC
TGATGATGCCATCAAAAAAATGGTTAAAATCGCCAAAAAAAATGGTTACGTGACAATGGATGAACTGAACGCAGTTCTTC
CTCCTGATGAGGTTACATCTGAACAAATTGAAGATACCTTGGCGATGTTCTCGGAGATGGGCATTAATGTCGTGGATGAT
GAGGGTGAGGCTGAGAATTATGAAGAAGAGGTTAGGGTAGAGGGGGGGGATTTAGTAGAAGCTACGAGCAATGCGCTTGT
AACGACAGCCAAGCGTGAGCTAACAGATCGCACCGATGATCCAGTGCGCATGTATTTGCGTGAGATGGGGGCTGTTGAGC
TCCTTTCACGAGAAGGTGAAATTGCCATTGCTAAGCGTATTGAAGCAGGACGTGAAACAATGATTGCGGGGCTTTGTGAG
AGTCCCTTAACTTTTCAGGCTCTTATTATCTGGCGTGAAGAATTAAAAGAGCAGCGTATTCTCCTGCGTGAAATTATTGA
TCTTGAAATGACTTATGCAGGTCCAGAAGCTAAGCAGGCTCCTGTTATTGAACGAAGTGAGGTCCAAAAAGTAAAAGAGG
AAAAGTCCTCTTCTGCCATGCGTGATATGGAGAATATTGCGCGAGATATAGGTGTCGAAGAGGATGATGAAGAAGACGAT
GATGTTAATTTATCGCTTGCTGCAATGGAAAATGAACTCTGTCCTCAGGTTATGGGAACTTTGGATTTTATTGCTGAAAC
CTATGTGAAATTGCGAAAATTACAAGATCAGCATGTTGAAAGTAGTTTGGCAGAGCGTAAAGAGGGAGCTCTTTCACCTT
CACAGAGGAAAAAATGTATTCAATTGAAGAGCGAATTGGTTCAGGCAGTGAAATCTCTTTCTTTGAACCAAAATCGTATT
GAGTCGTTGGTTGAGCAGCTTTATGATATCAATAAGAGATTGATTCATAATGAAGGTAAGTTGAAGCGGATTGCTAATAA
TTATGGCGTTGGTCATGAGGAGTTTTTAAAAGAATACCAAGGTCGTGAATTAGATGCAGATTGGATTAATTATATTGCAA
CTTTGTCTGGACGCGGTTGGAAAGAGTTTTCTAAGCGTGAAGCGAAAGAAATTAAAACTTTGCGCAGCGAAATACAAAAT
TTGGCGCAAGAAACAGCTATTTCGATTGGCGAATTTCGTCGGATTGTGACACAAGTGCAGAAAGGTGAGCGCGAATCGAC
AATTGCAAAAAAGGAAATGGTGGAAGCTAATTTGCGTCTCGTAATTTCAATTGCAAAAAAATATACTAATCGTGGTTTGC
AGTTTCTTGATCTTATTCAAGAAGGCAATATCGGTTTGATGAAGGCAGTGGATAAATTTGAATATCGTCGTGGATATAAG
TTTTCAACTTATGCAACATGGTGGATTCGTCAGGCAATTACACGCTCAATTGCTGATCAGGCACGCACTATTCGTATTCC
TGTTCATATGATTGAAACAATTAATAAAATTGTTCGTACATCGCGTCAGATTTTACACGAAATCGGGCGTGACCCTACGC
CAGAAGAATTGTCTAGTAAACTTTCTATGCCCTTAGAGAAAGTGCGAAAAGTTCTTAAAATTGCAAAGGAACCGATTTCA
CTTGAAACACCCGTTGGTGATGAAGATGATTCCCATTTGGGTGATTTTATTGAAGATAGGAACGCATTATTGCCGATAGA
TGCCGCTATTCAAGCTAATCTGCGCGATACGACAACGCGTGTACTTGCTTCACTAACACCACGTGAAGAACGTGTTTTGC
GAATGCGTTTTGGTATAGGAATGAATACTGATCATACATTGGAGGAAGTTGGTCAACAGTTTTCAGTTACACGCGAGCGC
ATTCGTCAGATTGAAGCAAAGGCGCTTCGTAAGTTAAAGCATCCTAGTCGTTCACGCAAATTGCGTAGTTTTCTTGATTC
TTAA

Upstream 100 bases:

>100_bases
GAAGTAGAGAAGTATATATGGAAAATTATTGATACGCTAAGTGGGAACGCAACAAACTGGTCACGTGGAAGCTGCAGAGT
GATCAAGTGGAGTTAACGGT

Downstream 100 bases:

>100_bases
CTGTGCTGCGTTTTTTTCAAAGATGCATGAAAGAAAGGCTTATCATGTAGTTCTTAAGATGTCTTTCTGCCACAGATAAC
AGATTGTGTGTTGAGTATTT

Product: RNA polymerase sigma factor RpoD

Products: NA

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

Number of amino acids: Translated: 667; Mature: 666

Protein sequence:

>667_residues
MATKVKQKDNTEVTTQASVDSPLLDFSDDAIKKMVKIAKKNGYVTMDELNAVLPPDEVTSEQIEDTLAMFSEMGINVVDD
EGEAENYEEEVRVEGGDLVEATSNALVTTAKRELTDRTDDPVRMYLREMGAVELLSREGEIAIAKRIEAGRETMIAGLCE
SPLTFQALIIWREELKEQRILLREIIDLEMTYAGPEAKQAPVIERSEVQKVKEEKSSSAMRDMENIARDIGVEEDDEEDD
DVNLSLAAMENELCPQVMGTLDFIAETYVKLRKLQDQHVESSLAERKEGALSPSQRKKCIQLKSELVQAVKSLSLNQNRI
ESLVEQLYDINKRLIHNEGKLKRIANNYGVGHEEFLKEYQGRELDADWINYIATLSGRGWKEFSKREAKEIKTLRSEIQN
LAQETAISIGEFRRIVTQVQKGERESTIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYK
FSTYATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQILHEIGRDPTPEELSSKLSMPLEKVRKVLKIAKEPIS
LETPVGDEDDSHLGDFIEDRNALLPIDAAIQANLRDTTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRER
IRQIEAKALRKLKHPSRSRKLRSFLDS

Sequences:

>Translated_667_residues
MATKVKQKDNTEVTTQASVDSPLLDFSDDAIKKMVKIAKKNGYVTMDELNAVLPPDEVTSEQIEDTLAMFSEMGINVVDD
EGEAENYEEEVRVEGGDLVEATSNALVTTAKRELTDRTDDPVRMYLREMGAVELLSREGEIAIAKRIEAGRETMIAGLCE
SPLTFQALIIWREELKEQRILLREIIDLEMTYAGPEAKQAPVIERSEVQKVKEEKSSSAMRDMENIARDIGVEEDDEEDD
DVNLSLAAMENELCPQVMGTLDFIAETYVKLRKLQDQHVESSLAERKEGALSPSQRKKCIQLKSELVQAVKSLSLNQNRI
ESLVEQLYDINKRLIHNEGKLKRIANNYGVGHEEFLKEYQGRELDADWINYIATLSGRGWKEFSKREAKEIKTLRSEIQN
LAQETAISIGEFRRIVTQVQKGERESTIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYK
FSTYATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQILHEIGRDPTPEELSSKLSMPLEKVRKVLKIAKEPIS
LETPVGDEDDSHLGDFIEDRNALLPIDAAIQANLRDTTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRER
IRQIEAKALRKLKHPSRSRKLRSFLDS
>Mature_666_residues
ATKVKQKDNTEVTTQASVDSPLLDFSDDAIKKMVKIAKKNGYVTMDELNAVLPPDEVTSEQIEDTLAMFSEMGINVVDDE
GEAENYEEEVRVEGGDLVEATSNALVTTAKRELTDRTDDPVRMYLREMGAVELLSREGEIAIAKRIEAGRETMIAGLCES
PLTFQALIIWREELKEQRILLREIIDLEMTYAGPEAKQAPVIERSEVQKVKEEKSSSAMRDMENIARDIGVEEDDEEDDD
VNLSLAAMENELCPQVMGTLDFIAETYVKLRKLQDQHVESSLAERKEGALSPSQRKKCIQLKSELVQAVKSLSLNQNRIE
SLVEQLYDINKRLIHNEGKLKRIANNYGVGHEEFLKEYQGRELDADWINYIATLSGRGWKEFSKREAKEIKTLRSEIQNL
AQETAISIGEFRRIVTQVQKGERESTIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF
STYATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQILHEIGRDPTPEELSSKLSMPLEKVRKVLKIAKEPISL
ETPVGDEDDSHLGDFIEDRNALLPIDAAIQANLRDTTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERI
RQIEAKALRKLKHPSRSRKLRSFLDS

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=649, Percent_Identity=45.7627118644068, Blast_Score=488, Evalue=1e-139,
Organism=Escherichia coli, GI1789098, Length=276, Percent_Identity=37.6811594202899, Blast_Score=209, Evalue=4e-55,
Organism=Escherichia coli, GI1789871, Length=241, Percent_Identity=27.3858921161826, Blast_Score=83, Evalue=5e-17,
Organism=Escherichia coli, GI1788231, Length=202, Percent_Identity=26.7326732673267, Blast_Score=66, Evalue=6e-12,

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: 76080; Mature: 75949

Theoretical pI: Translated: 5.11; Mature: 5.11

Prosite motif: PS00715 SIGMA70_1 ; PS00716 SIGMA70_2

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.4 %Cys     (Translated Protein)
2.8 %Met     (Translated Protein)
3.3 %Cys+Met (Translated Protein)
0.5 %Cys     (Mature Protein)
2.7 %Met     (Mature Protein)
3.2 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MATKVKQKDNTEVTTQASVDSPLLDFSDDAIKKMVKIAKKNGYVTMDELNAVLPPDEVTS
CCCCCCCCCCCCEEEECCCCCCCCCCCHHHHHHHHHHHHCCCCEEHHHCCCCCCCHHHHH
EQIEDTLAMFSEMGINVVDDEGEAENYEEEVRVEGGDLVEATSNALVTTAKRELTDRTDD
HHHHHHHHHHHHCCCEEECCCCCCCCCHHHHCCCCCCHHHHCCCHHHHHHHHHHHCCCCC
PVRMYLREMGAVELLSREGEIAIAKRIEAGRETMIAGLCESPLTFQALIIWREELKEQRI
HHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHH
LLREIIDLEMTYAGPEAKQAPVIERSEVQKVKEEKSSSAMRDMENIARDIGVEEDDEEDD
HHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCC
DVNLSLAAMENELCPQVMGTLDFIAETYVKLRKLQDQHVESSLAERKEGALSPSQRKKCI
CCCEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHH
QLKSELVQAVKSLSLNQNRIESLVEQLYDINKRLIHNEGKLKRIANNYGVGHEEFLKEYQ
HHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHCCCCHHHHHHHHC
GRELDADWINYIATLSGRGWKEFSKREAKEIKTLRSEIQNLAQETAISIGEFRRIVTQVQ
CCCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
KGERESTIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYK
HCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHCCCCHHHHHHHHHHHHCCCC
FSTYATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQILHEIGRDPTPEELSSK
CHHHHHHHHHHHHHHHHHHHHHEEEHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHH
LSMPLEKVRKVLKIAKEPISLETPVGDEDDSHLGDFIEDRNALLPIDAAIQANLRDTTTR
HCCCHHHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHHCCCCEECCHHHHHCCCHHHHHH
VLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRK
HHHHCCCHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHH
LRSFLDS
HHHHHCC
>Mature Secondary Structure 
ATKVKQKDNTEVTTQASVDSPLLDFSDDAIKKMVKIAKKNGYVTMDELNAVLPPDEVTS
CCCCCCCCCCCEEEECCCCCCCCCCCHHHHHHHHHHHHCCCCEEHHHCCCCCCCHHHHH
EQIEDTLAMFSEMGINVVDDEGEAENYEEEVRVEGGDLVEATSNALVTTAKRELTDRTDD
HHHHHHHHHHHHCCCEEECCCCCCCCCHHHHCCCCCCHHHHCCCHHHHHHHHHHHCCCCC
PVRMYLREMGAVELLSREGEIAIAKRIEAGRETMIAGLCESPLTFQALIIWREELKEQRI
HHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHH
LLREIIDLEMTYAGPEAKQAPVIERSEVQKVKEEKSSSAMRDMENIARDIGVEEDDEEDD
HHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCC
DVNLSLAAMENELCPQVMGTLDFIAETYVKLRKLQDQHVESSLAERKEGALSPSQRKKCI
CCCEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHH
QLKSELVQAVKSLSLNQNRIESLVEQLYDINKRLIHNEGKLKRIANNYGVGHEEFLKEYQ
HHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHCCCCHHHHHHHHC
GRELDADWINYIATLSGRGWKEFSKREAKEIKTLRSEIQNLAQETAISIGEFRRIVTQVQ
CCCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
KGERESTIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYK
HCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHCCCCHHHHHHHHHHHHCCCC
FSTYATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQILHEIGRDPTPEELSSK
CHHHHHHHHHHHHHHHHHHHHHEEEHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHH
LSMPLEKVRKVLKIAKEPISLETPVGDEDDSHLGDFIEDRNALLPIDAAIQANLRDTTTR
HCCCHHHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHHCCCCEECCHHHHHCCCHHHHHH
VLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRK
HHHHCCCHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHH
LRSFLDS
HHHHHCC

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]