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The map label for this gene is rpoD [H]

Identifier: 209696105

GI number: 209696105

Start: 2919125

End: 2920957

Strand: Direct

Name: rpoD [H]

Synonym: VSAL_I2697

Alternate gene names: 209696105

Gene position: 2919125-2920957 (Clockwise)

Preceding gene: 209696104

Following gene: 209696106

Centisome position: 87.79

GC content: 40.43

Gene sequence:

>1833_bases
ATGGATCAAAATCCGCAGTCACAGCTAAAATTACTTGTAATTAAAGGCAAGGAACAAGGCTATCTGACCTACGCAGAAGT
TAACGATCACCTACCAGAAGAAATTGTAGATTCTGAGCAGGTTGAAGATATTATTCAAATGATCAATGACATGGGTATCA
AAGTGGTTGAAACCGCTCCTGATGCCGATGATATGTCATTGAATGATGATGATGCCGTAACTGATGAAGATGCAGCAGAA
GCCGCTGCAGCCGCACTATCAAGTGTTGAAAGTGAAATTGGCCGTACTACGGACCCAGTTCGTATGTATATGCGTGAAAT
GGGTACCGTTGAACTTCTTACTCGTGAAGGCGAAATCGACATCGCTAAACGTATTGAAGAAGGCATCAATGAGGTTCAGT
GTTCTGTTGCTGAATTCCCAGGCGCTATTTCATACTTACTAGAACAGTTTGATAAAGTTCAAGCCGAAGAAATTCGCTTA
ACTGACATCATCTCTGGTTTTGTTGATCCTAATGATGACGGTTCAGCGGCACCAACTGCGACTCATATCGGCTCAGAATT
GAGCGAATCAGATCTTGCTGATGAAGATAAAGAAGCAAAAGATGATGAGGAAGAAGATGTAGGTATCGATCCAGAGCTTG
CTTTGGAAAAATTCACTCAACTTCGTACTTCTTATCATAACATGCAACTTGCTTTCGAAGAGCATGGTCGTGATAACGGA
AAAGCTCGTGAAGCAATCGGTGAACTCACTGATGTATTCCGTGAATTCAAACTGATCCCTAAACAATTTGATTTTCTTGT
TCGTGAAATGCGTGGCAGCATGGATCGTGTTCGTACACAAGAACGCTTAATTATGCGTATGTGTGTTGAATACGGGAAAA
TGCCTAAGAAGTCATTTATTGCTCTGTTCTCAGGCAATGAAGCTTCTGACGAATGGTTTAACGAAATTCTTGCGTCAGAT
AAGCCATACGTAGAACGCCTAAAGCGTTACGAAGAAGACATTCGCCGTTCAATTAAGAAAATTAACAGCATTGTTAAAGA
AACAGGTTTACCAGTTGTAAATATCAAAGACATCAGCCGTCGTATGTCTATCGGTGAAGCGAAAGCTCGTCGTGCGAAAA
AAGAAATGGTTGAAGCAAACTTACGTCTTGTTATCTCAATTGCAAAAAAATACACAAACCGTGGTTTACAATTCTTGGAT
CTTATTCAAGAAGGTAACATTGGTCTAATGAAAGCCGTTGATAAATTTGAATACCGTCGTGGTTATAAGTTCTCAACTTA
TGCGACATGGTGGATCCGTCAAGCTATCACTCGTTCAATTGCCGACCAAGCACGTACTATTCGTATTCCTGTACACATGA
TTGAAACGATCAATAAATTGAATCGTATTTCACGTCAAATGCTACAAGAAATGGGTCGCGAACCATTACCTGAAGAACTT
GCTGAACGCATGCAAATGCCAGAAGACAAGATCCGTAAGGTTTTGAAAATTGCAAAAGAACCTATTTCAATGGAAACACC
AATTGGTGATGATGAAGATTCGCACCTAGGTGATTTCATCGAGGATAATACCCTTGAACTTCCTGTTGATTCTGCAACTT
CAACCAGTTTGAAATTTGCAACTAACGATGTTCTTGCTGGTTTAACACCTCGTGAAGCAAAAGTACTTCGTATGCGTTTC
GGTATTGATATGAATACTGACCATACGCTAGAAGAAGTGGGCAAGCAATTTGACGTAACACGTGAACGTATTCGTCAAAT
CGAAGCAAAAGCGCTTCGTAAATTGCGTCATCCAAGTCGTTCTGAAGTATTACGTAGTTTCTTAGACGAATAA

Upstream 100 bases:

>100_bases
TAGAATCCCGACATCGTCATCAATAAAAAAATTTGTTATTATTTGTGGTTTGCATTTCGCATACTAATTCTGTCACACAG
ACCAAAAGTAGGAACCGTCT

Downstream 100 bases:

>100_bases
TAATTACGATTATTCATCAATAGAATCAAAAAGGTGGGCTTAGGCTCACCTTTTTTCGATCTAAATCCATATTTTTGACT
AACTGATTAAAAAGCAAACG

Product: RNA polymerase sigma factor RpoD

Products: NA

Alternate protein names: Sigma-70 [H]

Number of amino acids: Translated: 610; Mature: 610

Protein sequence:

>610_residues
MDQNPQSQLKLLVIKGKEQGYLTYAEVNDHLPEEIVDSEQVEDIIQMINDMGIKVVETAPDADDMSLNDDDAVTDEDAAE
AAAAALSSVESEIGRTTDPVRMYMREMGTVELLTREGEIDIAKRIEEGINEVQCSVAEFPGAISYLLEQFDKVQAEEIRL
TDIISGFVDPNDDGSAAPTATHIGSELSESDLADEDKEAKDDEEEDVGIDPELALEKFTQLRTSYHNMQLAFEEHGRDNG
KAREAIGELTDVFREFKLIPKQFDFLVREMRGSMDRVRTQERLIMRMCVEYGKMPKKSFIALFSGNEASDEWFNEILASD
KPYVERLKRYEEDIRRSIKKINSIVKETGLPVVNIKDISRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLD
LIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPLPEEL
AERMQMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDNTLELPVDSATSTSLKFATNDVLAGLTPREAKVLRMRF
GIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFLDE

Sequences:

>Translated_610_residues
MDQNPQSQLKLLVIKGKEQGYLTYAEVNDHLPEEIVDSEQVEDIIQMINDMGIKVVETAPDADDMSLNDDDAVTDEDAAE
AAAAALSSVESEIGRTTDPVRMYMREMGTVELLTREGEIDIAKRIEEGINEVQCSVAEFPGAISYLLEQFDKVQAEEIRL
TDIISGFVDPNDDGSAAPTATHIGSELSESDLADEDKEAKDDEEEDVGIDPELALEKFTQLRTSYHNMQLAFEEHGRDNG
KAREAIGELTDVFREFKLIPKQFDFLVREMRGSMDRVRTQERLIMRMCVEYGKMPKKSFIALFSGNEASDEWFNEILASD
KPYVERLKRYEEDIRRSIKKINSIVKETGLPVVNIKDISRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLD
LIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPLPEEL
AERMQMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDNTLELPVDSATSTSLKFATNDVLAGLTPREAKVLRMRF
GIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFLDE
>Mature_610_residues
MDQNPQSQLKLLVIKGKEQGYLTYAEVNDHLPEEIVDSEQVEDIIQMINDMGIKVVETAPDADDMSLNDDDAVTDEDAAE
AAAAALSSVESEIGRTTDPVRMYMREMGTVELLTREGEIDIAKRIEEGINEVQCSVAEFPGAISYLLEQFDKVQAEEIRL
TDIISGFVDPNDDGSAAPTATHIGSELSESDLADEDKEAKDDEEEDVGIDPELALEKFTQLRTSYHNMQLAFEEHGRDNG
KAREAIGELTDVFREFKLIPKQFDFLVREMRGSMDRVRTQERLIMRMCVEYGKMPKKSFIALFSGNEASDEWFNEILASD
KPYVERLKRYEEDIRRSIKKINSIVKETGLPVVNIKDISRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLD
LIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPLPEEL
AERMQMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDNTLELPVDSATSTSLKFATNDVLAGLTPREAKVLRMRF
GIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFLDE

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=615, Percent_Identity=77.0731707317073, Blast_Score=935, Evalue=0.0,
Organism=Escherichia coli, GI1789098, Length=239, Percent_Identity=42.2594142259414, Blast_Score=206, Evalue=3e-54,
Organism=Escherichia coli, GI1789871, Length=241, Percent_Identity=28.2157676348548, Blast_Score=90, Evalue=3e-19,
Organism=Escherichia coli, GI1788231, Length=202, Percent_Identity=26.7326732673267, Blast_Score=63, Evalue=7e-11,

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: 69655; Mature: 69655

Theoretical pI: Translated: 4.58; Mature: 4.58

Prosite motif: PS00715 SIGMA70_1 ; PS00716 SIGMA70_2

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.3 %Cys     (Translated Protein)
3.9 %Met     (Translated Protein)
4.3 %Cys+Met (Translated Protein)
0.3 %Cys     (Mature Protein)
3.9 %Met     (Mature Protein)
4.3 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MDQNPQSQLKLLVIKGKEQGYLTYAEVNDHLPEEIVDSEQVEDIIQMINDMGIKVVETAP
CCCCCCCCEEEEEEECCCCCCEEEEHHCCCCCHHHHCHHHHHHHHHHHHHCCCEEEECCC
DADDMSLNDDDAVTDEDAAEAAAAALSSVESEIGRTTDPVRMYMREMGTVELLTREGEID
CCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHCCCCEEECCCCCHH
IAKRIEEGINEVQCSVAEFPGAISYLLEQFDKVQAEEIRLTDIISGFVDPNDDGSAAPTA
HHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCH
THIGSELSESDLADEDKEAKDDEEEDVGIDPELALEKFTQLRTSYHNMQLAFEEHGRDNG
HHHHHHHHHHCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHEEHHHCCCCCC
KAREAIGELTDVFREFKLIPKQFDFLVREMRGSMDRVRTQERLIMRMCVEYGKMPKKSFI
HHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHEE
ALFSGNEASDEWFNEILASDKPYVERLKRYEEDIRRSIKKINSIVKETGLPVVNIKDISR
EEECCCCCCHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCEEEHHHHHH
RMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRR
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHCCCCHHHHHHHHHHHHC
GYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPLPEEL
CCCCHHHHHHHHHHHHHHHHHHHHHEEEHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHH
AERMQMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDNTLELPVDSATSTSLKFA
HHHHCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHCCCCEECCCCCCCCCCEEEH
TNDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSR
HHHHHHCCCCHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCH
SEVLRSFLDE
HHHHHHHHCC
>Mature Secondary Structure
MDQNPQSQLKLLVIKGKEQGYLTYAEVNDHLPEEIVDSEQVEDIIQMINDMGIKVVETAP
CCCCCCCCEEEEEEECCCCCCEEEEHHCCCCCHHHHCHHHHHHHHHHHHHCCCEEEECCC
DADDMSLNDDDAVTDEDAAEAAAAALSSVESEIGRTTDPVRMYMREMGTVELLTREGEID
CCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHCCCCEEECCCCCHH
IAKRIEEGINEVQCSVAEFPGAISYLLEQFDKVQAEEIRLTDIISGFVDPNDDGSAAPTA
HHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCH
THIGSELSESDLADEDKEAKDDEEEDVGIDPELALEKFTQLRTSYHNMQLAFEEHGRDNG
HHHHHHHHHHCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHEEHHHCCCCCC
KAREAIGELTDVFREFKLIPKQFDFLVREMRGSMDRVRTQERLIMRMCVEYGKMPKKSFI
HHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHEE
ALFSGNEASDEWFNEILASDKPYVERLKRYEEDIRRSIKKINSIVKETGLPVVNIKDISR
EEECCCCCCHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCEEEHHHHHH
RMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRR
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHCCCCHHHHHHHHHHHHC
GYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPLPEEL
CCCCHHHHHHHHHHHHHHHHHHHHHEEEHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHH
AERMQMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDNTLELPVDSATSTSLKFA
HHHHCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHCCCCEECCCCCCCCCCEEEH
TNDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSR
HHHHHHCCCCHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCH
SEVLRSFLDE
HHHHHHHHCC

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: 11677608; 12644504 [H]