Click here to switch to the map view.

The map label for this gene is rpoD [H]

Identifier: 190571452

GI number: 190571452

Start: 1131692

End: 1133593

Strand: Direct

Name: rpoD [H]

Synonym: WPa_1065

Alternate gene names: 190571452

Gene position: 1131692-1133593 (Clockwise)

Preceding gene: 190571451

Following gene: 190571454

Centisome position: 76.34

GC content: 33.18

Gene sequence:

>1902_bases
ATGATGTCAACTATTAATGGTACGGAAGATAGGAAAAAGATCATCAAAGATCTTGTAACCAAAAGTATAAGAAAGGGCGG
TTTTATCACTTTTGATGATATAAATGATAAGTTGTCAGATGAAAATTTTTCAACTGATTTTATAGATGATACTATAGCTT
TATTGCAAGACTCTGGAATTAACATACTCGAAAGTAGTGAAGATGAGGAAGAAGCTCCTTCTAATAATGATGGTAATAAG
CTTGATGATGATGAGACATCGTTGAATACTACTACAACTTTAGTGCAAAACGATGATCCAGTAAGGATTTATTTACAGGA
TATGAGCTCTGTAAAGCTTTTGTCACGAGCAGATGAAATTAAGATAGCAAAAAAAATTGAATCTGAAAAGCATAACATGT
TACGTGCAATAATTGAAACATCAGTGGCATTCAAAATAATCAAAACATGGCGTGATGATTTAAGTGGTGGAACTTTTTTA
CTGAGAGAAATTATAAATCTGGATGCAATTTATAACTCTGATTTCAATATGGTAGACAAAGAAGAAAGTGAAGCTGAAGA
TGTTAGAGATTGTGTTAATGATGAGGAAAAAGGTAATGATGAAAAGGGAAATGAGAGTGAAGACATAAGTTCAGCTAACT
TAAATATTTCTGTTCTTGAAATGGAAAGTGATTTATTGCCAAAGGTTATCACGGCATTGGATGAGATCATTGCTTTAACA
AATGAAGCATTGGTATTGAAAAAAAATTCTAAAGATTTCTCTAATGAGCTAGAAAATTTATATAATCAAATATGGTCTGT
AGCATTACAAATTCAGTTTAGTGATGCTGCTATTACCAGAATTACACAAAAACTTTACGAAATAAATAGACTAATCACGT
TTGAAGAAGCTAATCTTATTACTGAAGCTAGAAAGTACGATATTGATAGAGAAAGTTTTTATAATGTTTATGATGATGTG
CTTTTAGAGCACGAGTTTAGTGAAATAAGTTTTCTCAAGATTAATGAAAATCAATCTCTTTTTACAGGTGAATTAAAAAA
TAAATTCTTAAGGTTTATAAACGATAGCTATGAGTATATAGCTAGTGCCTTAAGCAATATTAAGAGTTATGTACAAGGAG
ATAGAGTTCAGGAGTTTAAGAAGGTAATCAAGAGAATACAGAAACATGAACAAGAAGTCTCTCAAGCAAAGCAAGAAATG
ATTAAGGCTAATTTAAGGCTGGTGGTTTCGATTGCTAAAAAGTATTCAAAAAGAGGCCTTGATCTGCTTGATTTGATACA
AGAAGGTAATATTGGTCTTATGAAGGCTGTGGATAAGTTTGATTACAAACGTGGGTATAAATTTTCGACTTATGGTACTT
GGTGGGTAAAACAATCAATCACTAGGGCAATACCTGAACAGTCTAAAGTAGTTAGAATACCAGTACATATGGTGGAAATT
ATCAGTAAAATCAACAAAGCATTAAGAAAGATGACTCATGAAATGGGTAGAGAGCCTACATTAGAGGAATTGAGTATAGA
ATTGGCGATGCCGCTAGAAAGAATACGCAAAGTTATGAAGATAGCAAGAGATCCGGTAAGTCTTGAAGCTCCAACAGGAA
AGGATGATAGTAGTACCTTCGGTGATTGTATAGAAGATAAGCGAGTTTCTAAACCAGAGGATGCTGCAATACTTGCCGAC
TTGCGTGGTATTACGACCAATGTTCTTGCAACTTTAACACCAAAAGAAGAAAGAATTCTAAGGATGCGCTTTGGCCTTGG
TAAAGATGGAAAGGAGCATACCTTAGAAGAAGTAGGAAAAATTTTTAATGTTACACGTGAAAGAATTAGGCAAATAGAGG
CAAAAGCACTACGTAAGTTGAAACATCCAAGCCGTGCTAAAAAACTTAGAGGTTTCTTTTAA

Upstream 100 bases:

>100_bases
ATGAAGTAGCAAGTAACTATAAATTAAGAATAAAACTATAAGCTTGCTAATTGTAAGTTTATTTGATAAATAAGAAATAA
AATTATAAACTGTAAAGGTA

Downstream 100 bases:

>100_bases
GGCAGAAGGGCTGCTCAAAAAATAGGTAAAATTCAGCCAAAGTTCTATAATTTCACCCTATTTTTCTTTTTTTATAGGCT
TTATAGAGCAGTATGATTAG

Product: RNA polymerase sigma factor RpoD

Products: NA

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

Number of amino acids: Translated: 633; Mature: 633

Protein sequence:

>633_residues
MMSTINGTEDRKKIIKDLVTKSIRKGGFITFDDINDKLSDENFSTDFIDDTIALLQDSGINILESSEDEEEAPSNNDGNK
LDDDETSLNTTTTLVQNDDPVRIYLQDMSSVKLLSRADEIKIAKKIESEKHNMLRAIIETSVAFKIIKTWRDDLSGGTFL
LREIINLDAIYNSDFNMVDKEESEAEDVRDCVNDEEKGNDEKGNESEDISSANLNISVLEMESDLLPKVITALDEIIALT
NEALVLKKNSKDFSNELENLYNQIWSVALQIQFSDAAITRITQKLYEINRLITFEEANLITEARKYDIDRESFYNVYDDV
LLEHEFSEISFLKINENQSLFTGELKNKFLRFINDSYEYIASALSNIKSYVQGDRVQEFKKVIKRIQKHEQEVSQAKQEM
IKANLRLVVSIAKKYSKRGLDLLDLIQEGNIGLMKAVDKFDYKRGYKFSTYGTWWVKQSITRAIPEQSKVVRIPVHMVEI
ISKINKALRKMTHEMGREPTLEELSIELAMPLERIRKVMKIARDPVSLEAPTGKDDSSTFGDCIEDKRVSKPEDAAILAD
LRGITTNVLATLTPKEERILRMRFGLGKDGKEHTLEEVGKIFNVTRERIRQIEAKALRKLKHPSRAKKLRGFF

Sequences:

>Translated_633_residues
MMSTINGTEDRKKIIKDLVTKSIRKGGFITFDDINDKLSDENFSTDFIDDTIALLQDSGINILESSEDEEEAPSNNDGNK
LDDDETSLNTTTTLVQNDDPVRIYLQDMSSVKLLSRADEIKIAKKIESEKHNMLRAIIETSVAFKIIKTWRDDLSGGTFL
LREIINLDAIYNSDFNMVDKEESEAEDVRDCVNDEEKGNDEKGNESEDISSANLNISVLEMESDLLPKVITALDEIIALT
NEALVLKKNSKDFSNELENLYNQIWSVALQIQFSDAAITRITQKLYEINRLITFEEANLITEARKYDIDRESFYNVYDDV
LLEHEFSEISFLKINENQSLFTGELKNKFLRFINDSYEYIASALSNIKSYVQGDRVQEFKKVIKRIQKHEQEVSQAKQEM
IKANLRLVVSIAKKYSKRGLDLLDLIQEGNIGLMKAVDKFDYKRGYKFSTYGTWWVKQSITRAIPEQSKVVRIPVHMVEI
ISKINKALRKMTHEMGREPTLEELSIELAMPLERIRKVMKIARDPVSLEAPTGKDDSSTFGDCIEDKRVSKPEDAAILAD
LRGITTNVLATLTPKEERILRMRFGLGKDGKEHTLEEVGKIFNVTRERIRQIEAKALRKLKHPSRAKKLRGFF
>Mature_633_residues
MMSTINGTEDRKKIIKDLVTKSIRKGGFITFDDINDKLSDENFSTDFIDDTIALLQDSGINILESSEDEEEAPSNNDGNK
LDDDETSLNTTTTLVQNDDPVRIYLQDMSSVKLLSRADEIKIAKKIESEKHNMLRAIIETSVAFKIIKTWRDDLSGGTFL
LREIINLDAIYNSDFNMVDKEESEAEDVRDCVNDEEKGNDEKGNESEDISSANLNISVLEMESDLLPKVITALDEIIALT
NEALVLKKNSKDFSNELENLYNQIWSVALQIQFSDAAITRITQKLYEINRLITFEEANLITEARKYDIDRESFYNVYDDV
LLEHEFSEISFLKINENQSLFTGELKNKFLRFINDSYEYIASALSNIKSYVQGDRVQEFKKVIKRIQKHEQEVSQAKQEM
IKANLRLVVSIAKKYSKRGLDLLDLIQEGNIGLMKAVDKFDYKRGYKFSTYGTWWVKQSITRAIPEQSKVVRIPVHMVEI
ISKINKALRKMTHEMGREPTLEELSIELAMPLERIRKVMKIARDPVSLEAPTGKDDSSTFGDCIEDKRVSKPEDAAILAD
LRGITTNVLATLTPKEERILRMRFGLGKDGKEHTLEEVGKIFNVTRERIRQIEAKALRKLKHPSRAKKLRGFF

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=283, Percent_Identity=55.1236749116608, Blast_Score=325, Evalue=5e-90,
Organism=Escherichia coli, GI1789098, Length=227, Percent_Identity=39.647577092511, Blast_Score=192, Evalue=7e-50,
Organism=Escherichia coli, GI1789871, Length=244, Percent_Identity=30.327868852459, Blast_Score=92, Evalue=1e-19,

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: 72531; Mature: 72531

Theoretical pI: Translated: 4.98; Mature: 4.98

Prosite motif: PS00715 SIGMA70_1 ; PS00716 SIGMA70_2

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.3 %Cys     (Translated Protein)
2.2 %Met     (Translated Protein)
2.5 %Cys+Met (Translated Protein)
0.3 %Cys     (Mature Protein)
2.2 %Met     (Mature Protein)
2.5 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MMSTINGTEDRKKIIKDLVTKSIRKGGFITFDDINDKLSDENFSTDFIDDTIALLQDSGI
CCCCCCCCHHHHHHHHHHHHHHHHCCCCEEECCCCCCCCCCCCCCHHHHHHHHHHHCCCC
NILESSEDEEEAPSNNDGNKLDDDETSLNTTTTLVQNDDPVRIYLQDMSSVKLLSRADEI
CCCCCCCCHHCCCCCCCCCCCCCCCCCCCCEEEEEECCCCEEEEEHHHHHHHHHHHHHHH
KIAKKIESEKHNMLRAIIETSVAFKIIKTWRDDLSGGTFLLREIINLDAIYNSDFNMVDK
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCCCCCCC
EESEAEDVRDCVNDEEKGNDEKGNESEDISSANLNISVLEMESDLLPKVITALDEIIALT
CHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCEEEEECCHHHHHHHHHHHHHHHHHC
NEALVLKKNSKDFSNELENLYNQIWSVALQIQFSDAAITRITQKLYEINRLITFEEANLI
CCEEEEECCCCHHHHHHHHHHHHHHHHHEEEEECHHHHHHHHHHHHHHHHHEEEHHHHHH
TEARKYDIDRESFYNVYDDVLLEHEFSEISFLKINENQSLFTGELKNKFLRFINDSYEYI
HHHHHCCCCHHHHHHHHHHHHHHHCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHH
ASALSNIKSYVQGDRVQEFKKVIKRIQKHEQEVSQAKQEMIKANLRLVVSIAKKYSKRGL
HHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC
DLLDLIQEGNIGLMKAVDKFDYKRGYKFSTYGTWWVKQSITRAIPEQSKVVRIPVHMVEI
HHHHHHHCCCCHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHCCCCCCEEECHHHHHHH
ISKINKALRKMTHEMGREPTLEELSIELAMPLERIRKVMKIARDPVSLEAPTGKDDSSTF
HHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCHH
GDCIEDKRVSKPEDAAILADLRGITTNVLATLTPKEERILRMRFGLGKDGKEHTLEEVGK
HHHHHHCCCCCCCHHHHHHHHHHHHHHHHEECCCHHHHHHHHHHCCCCCCHHHHHHHHHH
IFNVTRERIRQIEAKALRKLKHPSRAKKLRGFF
HHHHHHHHHHHHHHHHHHHHCCCHHHHHHCCCC
>Mature Secondary Structure
MMSTINGTEDRKKIIKDLVTKSIRKGGFITFDDINDKLSDENFSTDFIDDTIALLQDSGI
CCCCCCCCHHHHHHHHHHHHHHHHCCCCEEECCCCCCCCCCCCCCHHHHHHHHHHHCCCC
NILESSEDEEEAPSNNDGNKLDDDETSLNTTTTLVQNDDPVRIYLQDMSSVKLLSRADEI
CCCCCCCCHHCCCCCCCCCCCCCCCCCCCCEEEEEECCCCEEEEEHHHHHHHHHHHHHHH
KIAKKIESEKHNMLRAIIETSVAFKIIKTWRDDLSGGTFLLREIINLDAIYNSDFNMVDK
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCCCCCCC
EESEAEDVRDCVNDEEKGNDEKGNESEDISSANLNISVLEMESDLLPKVITALDEIIALT
CHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCEEEEECCHHHHHHHHHHHHHHHHHC
NEALVLKKNSKDFSNELENLYNQIWSVALQIQFSDAAITRITQKLYEINRLITFEEANLI
CCEEEEECCCCHHHHHHHHHHHHHHHHHEEEEECHHHHHHHHHHHHHHHHHEEEHHHHHH
TEARKYDIDRESFYNVYDDVLLEHEFSEISFLKINENQSLFTGELKNKFLRFINDSYEYI
HHHHHCCCCHHHHHHHHHHHHHHHCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHH
ASALSNIKSYVQGDRVQEFKKVIKRIQKHEQEVSQAKQEMIKANLRLVVSIAKKYSKRGL
HHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC
DLLDLIQEGNIGLMKAVDKFDYKRGYKFSTYGTWWVKQSITRAIPEQSKVVRIPVHMVEI
HHHHHHHCCCCHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHCCCCCCEEECHHHHHHH
ISKINKALRKMTHEMGREPTLEELSIELAMPLERIRKVMKIARDPVSLEAPTGKDDSSTF
HHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCHH
GDCIEDKRVSKPEDAAILADLRGITTNVLATLTPKEERILRMRFGLGKDGKEHTLEEVGK
HHHHHHCCCCCCCHHHHHHHHHHHHHHHHEECCCHHHHHHHHHHCCCCCCHHHHHHHHHH
IFNVTRERIRQIEAKALRKLKHPSRAKKLRGFF
HHHHHHHHHHHHHHHHHHHHCCCHHHHHHCCCC

PDB accession: NA

Resolution: NA

Structure class: Unstructured

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]