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The map label for this gene is rpoD [H]

Identifier: 119899516

GI number: 119899516

Start: 3557120

End: 3559108

Strand: Direct

Name: rpoD [H]

Synonym: azo3227

Alternate gene names: 119899516

Gene position: 3557120-3559108 (Clockwise)

Preceding gene: 119899515

Following gene: 119899522

Centisome position: 81.29

GC content: 62.95

Gene sequence:

>1989_bases
ATGGCACGCGAAAAAGCCGCCAAAGATTCGCGCAAGGACACCCCCAAAGGACGAGCCTCCAAGGCCAAGGACAAGGCCGC
CCAGGTGGTCGATAGCCCCGAAGTGGCTCCGCTCGATGCCGAGGTACGTCGCACCCGCCTGAAAACGCTGATCACGCTCG
GCAAGGAACGGGGTTACCTGACCTATGCCGAGATCAGCGACCACCTCCCCGACGATGTGGCGGATGCGGAGCAGATCGAA
GGGATCATCGCCACCTTCAACAACATGGGCATCCAGGTCTTCGACGAGGCTCCGGCCGCCGAAGACCTGCTGATGTCCGA
CAACGTGGCCACCTCGGTGGACGAAGACGTCGCCGAGGAAGAAGCCGAGCAGGCCCTGTCGTCGGTGGACTCGGAGTTCG
GCCGTACCACGGACCCCGTGCGCATGTACATGCGCGAGATGGGCACCGTGGAACTGCTGACGCGCGAAGGCGAAATCGAG
ATCGCGAAGCGTATCGAGGACGGCCTCAAGCACATGGTGCAAGCGATCTCGGCCTGCCCCACGACCATCACCGAAATGCT
CGACACCGCCGATCGCGTGGCGCGCGACGAGGTCCGGATCGACGAGTTGGTGGATGGCCTGATCGACCCCAACGCCGCAT
CGGACGAAGCCGCGCTGTCGGAGGCCGATGAAGAGGTGACCGCAGCCGCCGATGAAGACGCCGACGGTGACGATGAAGAG
GAAGCTGATGGCGACGGCGATGGCGGTGAAAGCGCCAATGCCGCGTCCCTGCTGCAACTGAAGACCGACGCGCTGGCGCG
TTTCGCGGTGATCCGCGAGCATTACGAGCGGATGATGGCGGCGCTGGCCAAGAGCGGGTCGCAGGACATCGCCTACCTTG
CCGCGCAGCAGCAGATTTCCGACGAACTGCTCAACATCCGCTTCACCGCCAAGGCGATCGAACGCCTGTGCGACTCGGTG
CGCCACATGGTCGAGCAGGTCCGTACCCATGAGCGTCAGATTCTGCAACTGTGCGTGGATCGGGCCGGCATGCCGCGGCA
GCACTTCATCAAGGTGTTCCCCGGACAGGAAACCAGCATCGACTGGCTGAAGGACGAAATCGCCTCGGGCAAGAGCTACG
CCGAAGGTCTGATGCGGATTCATCCTGCCGTGCTCGAAGTGCAGCAGAAGCTGATCGATCTGCAGGATCGCATCGGCATT
CCGCTGAAGGAACTCAAGGACATCAACCGCCAGATGTCGACTGGCGAAGCCAAGATGCGCCGCGCCAAGCGCGAGATGAC
CGAGGCCAACCTGCGCCTGGTGATCTCGATCGCGAAGAAGTACACCAACCGCGGCCTGCAGTTCCTCGACCTGATCCAGG
AAGGCAACATCGGCCTGATGAAGGCGGTCGACAAGTTCGAATACCGCCGTGGCTACAAATTCTCCACCTATGCAACCTGG
TGGATCCGGCAGGCCATCACGCGGTCGATCGCCGACCAGGCGCGCACCATCCGCATCCCGGTGCACATGATCGAAACGAT
CAACAAGATGAACCGCATCAGCCGCCAGATCCTGCAGGAAACCGGCGCCGAGCCGGACCCCGCGACACTGGCCGAGAAGA
TGGAGATGCCCGAGGAGAAGATCCGCAAGATCATGAAGATCTCCAAGGAGCCGATCTCCATGGAGACGCCGATCGGCGAC
GACGACGACTCCCACCTGGGCGACTTCATTGAAGACACCGCAACGCTGGCACCGGCGGAGGCTGCCATGTACTCCGGCCT
GCGCGACGCCACCGCGGAGGTGCTTGACTCGCTGACCCCGCGCGAAGCCAAGGTGTTGCGCATGCGCTTCGGCATCGAGA
TGAACACCGACCATACGCTGGAAGAGGTCGGCAAGCAGTTCGACGTCACGCGCGAGCGCATCCGCCAGATCGAAGCCAAG
GCGCTGCGCAAGCTGCGTCATCCGAGCCGCTCCGAAAAGCTGCGCAGCTTCCTCGACAGCGACGCCTGA

Upstream 100 bases:

>100_bases
ATCCTGGAGCGCCGGAACCTCGCCAATGTAGGCAAAGTCTCAGATTTATAGTACAATTTCCTGTTTCCCATTCTCATCTG
CCCCAGATTCGAGGAGCGCC

Downstream 100 bases:

>100_bases
CCCCGGCCCGCTCCGCCGTCGCCGTGCAGCCCGCGTGGGCCATACGGCAGCGGCGGAAATGACGGGATGCTTCTTCCGGG
CGCAAGAATGCCTGTACCAT

Product: RNA polymerase sigma factor RpoD

Products: NA

Alternate protein names: Sigma-70 [H]

Number of amino acids: Translated: 662; Mature: 661

Protein sequence:

>662_residues
MAREKAAKDSRKDTPKGRASKAKDKAAQVVDSPEVAPLDAEVRRTRLKTLITLGKERGYLTYAEISDHLPDDVADAEQIE
GIIATFNNMGIQVFDEAPAAEDLLMSDNVATSVDEDVAEEEAEQALSSVDSEFGRTTDPVRMYMREMGTVELLTREGEIE
IAKRIEDGLKHMVQAISACPTTITEMLDTADRVARDEVRIDELVDGLIDPNAASDEAALSEADEEVTAAADEDADGDDEE
EADGDGDGGESANAASLLQLKTDALARFAVIREHYERMMAALAKSGSQDIAYLAAQQQISDELLNIRFTAKAIERLCDSV
RHMVEQVRTHERQILQLCVDRAGMPRQHFIKVFPGQETSIDWLKDEIASGKSYAEGLMRIHPAVLEVQQKLIDLQDRIGI
PLKELKDINRQMSTGEAKMRRAKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW
WIRQAITRSIADQARTIRIPVHMIETINKMNRISRQILQETGAEPDPATLAEKMEMPEEKIRKIMKISKEPISMETPIGD
DDDSHLGDFIEDTATLAPAEAAMYSGLRDATAEVLDSLTPREAKVLRMRFGIEMNTDHTLEEVGKQFDVTRERIRQIEAK
ALRKLRHPSRSEKLRSFLDSDA

Sequences:

>Translated_662_residues
MAREKAAKDSRKDTPKGRASKAKDKAAQVVDSPEVAPLDAEVRRTRLKTLITLGKERGYLTYAEISDHLPDDVADAEQIE
GIIATFNNMGIQVFDEAPAAEDLLMSDNVATSVDEDVAEEEAEQALSSVDSEFGRTTDPVRMYMREMGTVELLTREGEIE
IAKRIEDGLKHMVQAISACPTTITEMLDTADRVARDEVRIDELVDGLIDPNAASDEAALSEADEEVTAAADEDADGDDEE
EADGDGDGGESANAASLLQLKTDALARFAVIREHYERMMAALAKSGSQDIAYLAAQQQISDELLNIRFTAKAIERLCDSV
RHMVEQVRTHERQILQLCVDRAGMPRQHFIKVFPGQETSIDWLKDEIASGKSYAEGLMRIHPAVLEVQQKLIDLQDRIGI
PLKELKDINRQMSTGEAKMRRAKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW
WIRQAITRSIADQARTIRIPVHMIETINKMNRISRQILQETGAEPDPATLAEKMEMPEEKIRKIMKISKEPISMETPIGD
DDDSHLGDFIEDTATLAPAEAAMYSGLRDATAEVLDSLTPREAKVLRMRFGIEMNTDHTLEEVGKQFDVTRERIRQIEAK
ALRKLRHPSRSEKLRSFLDSDA
>Mature_661_residues
AREKAAKDSRKDTPKGRASKAKDKAAQVVDSPEVAPLDAEVRRTRLKTLITLGKERGYLTYAEISDHLPDDVADAEQIEG
IIATFNNMGIQVFDEAPAAEDLLMSDNVATSVDEDVAEEEAEQALSSVDSEFGRTTDPVRMYMREMGTVELLTREGEIEI
AKRIEDGLKHMVQAISACPTTITEMLDTADRVARDEVRIDELVDGLIDPNAASDEAALSEADEEVTAAADEDADGDDEEE
ADGDGDGGESANAASLLQLKTDALARFAVIREHYERMMAALAKSGSQDIAYLAAQQQISDELLNIRFTAKAIERLCDSVR
HMVEQVRTHERQILQLCVDRAGMPRQHFIKVFPGQETSIDWLKDEIASGKSYAEGLMRIHPAVLEVQQKLIDLQDRIGIP
LKELKDINRQMSTGEAKMRRAKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW
IRQAITRSIADQARTIRIPVHMIETINKMNRISRQILQETGAEPDPATLAEKMEMPEEKIRKIMKISKEPISMETPIGDD
DDSHLGDFIEDTATLAPAEAAMYSGLRDATAEVLDSLTPREAKVLRMRFGIEMNTDHTLEEVGKQFDVTRERIRQIEAKA
LRKLRHPSRSEKLRSFLDSDA

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=620, Percent_Identity=59.3548387096774, Blast_Score=693, Evalue=0.0,
Organism=Escherichia coli, GI1789098, Length=233, Percent_Identity=39.4849785407725, Blast_Score=200, Evalue=2e-52,
Organism=Escherichia coli, GI1789871, Length=242, Percent_Identity=27.2727272727273, Blast_Score=77, Evalue=5e-15,

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: 74195; Mature: 74064

Theoretical pI: Translated: 4.62; Mature: 4.62

Prosite motif: PS00715 SIGMA70_1 ; PS00716 SIGMA70_2

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.5 %Cys     (Translated Protein)
3.9 %Met     (Translated Protein)
4.4 %Cys+Met (Translated Protein)
0.5 %Cys     (Mature Protein)
3.8 %Met     (Mature Protein)
4.2 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MAREKAAKDSRKDTPKGRASKAKDKAAQVVDSPEVAPLDAEVRRTRLKTLITLGKERGYL
CCCCHHHCCCCCCCCCCCHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHCCCCCE
TYAEISDHLPDDVADAEQIEGIIATFNNMGIQVFDEAPAAEDLLMSDNVATSVDEDVAEE
EHHHHHHCCCCCCCCHHHHHHHHHHHHCCCEEEECCCCCHHHHHHCCCCHHHHHHHHHHH
EAEQALSSVDSEFGRTTDPVRMYMREMGTVELLTREGEIEIAKRIEDGLKHMVQAISACP
HHHHHHHHHHHHHCCCCHHHHHHHHHCCCHHHHHCCCCHHHHHHHHHHHHHHHHHHHHCH
TTITEMLDTADRVARDEVRIDELVDGLIDPNAASDEAALSEADEEVTAAADEDADGDDEE
HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHCCCCCCCCCCCC
EADGDGDGGESANAASLLQLKTDALARFAVIREHYERMMAALAKSGSQDIAYLAAQQQIS
CCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHH
DELLNIRFTAKAIERLCDSVRHMVEQVRTHERQILQLCVDRAGMPRQHFIKVFPGQETSI
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHEEECCCCCCHH
DWLKDEIASGKSYAEGLMRIHPAVLEVQQKLIDLQDRIGIPLKELKDINRQMSTGEAKMR
HHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHCCHHHHH
RAKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW
HHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHCCCCHHHHHHHHHHHHCCCCCHHHHHH
WIRQAITRSIADQARTIRIPVHMIETINKMNRISRQILQETGAEPDPATLAEKMEMPEEK
HHHHHHHHHHHHHHHEEEHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHCCCHHH
IRKIMKISKEPISMETPIGDDDDSHLGDFIEDTATLAPAEAAMYSGLRDATAEVLDSLTP
HHHHHHHCCCCCCCCCCCCCCCCHHHHHHHHHHHHCCHHHHHHHHCHHHHHHHHHHCCCC
REAKVLRMRFGIEMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEKLRSFLDS
HHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHCC
DA
CC
>Mature Secondary Structure 
AREKAAKDSRKDTPKGRASKAKDKAAQVVDSPEVAPLDAEVRRTRLKTLITLGKERGYL
CCCHHHCCCCCCCCCCCHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHCCCCCE
TYAEISDHLPDDVADAEQIEGIIATFNNMGIQVFDEAPAAEDLLMSDNVATSVDEDVAEE
EHHHHHHCCCCCCCCHHHHHHHHHHHHCCCEEEECCCCCHHHHHHCCCCHHHHHHHHHHH
EAEQALSSVDSEFGRTTDPVRMYMREMGTVELLTREGEIEIAKRIEDGLKHMVQAISACP
HHHHHHHHHHHHHCCCCHHHHHHHHHCCCHHHHHCCCCHHHHHHHHHHHHHHHHHHHHCH
TTITEMLDTADRVARDEVRIDELVDGLIDPNAASDEAALSEADEEVTAAADEDADGDDEE
HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHCCCCCCCCCCCC
EADGDGDGGESANAASLLQLKTDALARFAVIREHYERMMAALAKSGSQDIAYLAAQQQIS
CCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHH
DELLNIRFTAKAIERLCDSVRHMVEQVRTHERQILQLCVDRAGMPRQHFIKVFPGQETSI
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHEEECCCCCCHH
DWLKDEIASGKSYAEGLMRIHPAVLEVQQKLIDLQDRIGIPLKELKDINRQMSTGEAKMR
HHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHCCHHHHH
RAKREMTEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW
HHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHCCCCHHHHHHHHHHHHCCCCCHHHHHH
WIRQAITRSIADQARTIRIPVHMIETINKMNRISRQILQETGAEPDPATLAEKMEMPEEK
HHHHHHHHHHHHHHHEEEHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHCCCHHH
IRKIMKISKEPISMETPIGDDDDSHLGDFIEDTATLAPAEAAMYSGLRDATAEVLDSLTP
HHHHHHHCCCCCCCCCCCCCCCCHHHHHHHHHHHHCCHHHHHHHHCHHHHHHHHHHCCCC
REAKVLRMRFGIEMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEKLRSFLDS
HHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHCC
DA
CC

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: NA