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The map label for this gene is rpoD [H]

Identifier: 218708434

GI number: 218708434

Start: 402827

End: 404671

Strand: Reverse

Name: rpoD [H]

Synonym: VS_0397

Alternate gene names: 218708434

Gene position: 404671-402827 (Counterclockwise)

Preceding gene: 218708435

Following gene: 218708433

Centisome position: 12.27

GC content: 45.2

Gene sequence:

>1845_bases
ATGGATCAAAATCCGCAGTCACAGCTTAAATTACTTGTTATTAAAGGCAAGGAACAAGGCTATCTGACCTACGCCGAAGT
AAACGACCACCTACCTGCAGAAATCGTGGATTCTGAACAGGTAGAAGACATCATTCAAATGATCAACGACATGGGTATCA
AGGTAGTAGAAACTGCACCTGACGCTGATGATCTAGCACTTAATGATGACGATGCCAATATAGATGAAGATGCAGCTGAA
GCTGCTGCTGCTGCGCTTTCAAGCGTAGAAAGCGAGATTGGCCGTACAACTGACCCAGTTCGTATGTACATGCGTGAAAT
GGGTACAGTTGAACTACTGACTCGTGAAGGCGAAATCGACATTGCGAAGCGTATTGAAGATGGTATCAATACTGTTCAAT
TATCTGTAGCTGAGTACCCAGGCACTATTCCATACATCTTGGAACAGTTTGACCGCGTACTCGCTGAAGAGATTCGTTTA
ACAGATCTAATCAATGGCTTTGTTGACCCAGACGACGATGGCACAGCTGCGCCAACGGCGACTCACATCGGTTCAGAACT
TGCTAAAACTGATCTAGAAGACGAAGACAAAGAAGAAGCAGAAGACGACGAGGAAGAAGAAGAGGAAGATACAGGTATTG
ATCCTGAGCTTGCTCTTGAGAAGTTCACAGCACTTCGTACTAGCTACCAAAACCGTCAACTCGCAATCAATGAATACGGT
CATGAAAGCCCGAAAGCAACACTTGCAACGACAATGATGCAAGACGTATTCAAAGAGTTCCGTCTAACGCCAAAACAGTT
CGATTACCTAGTAAACGAACTGCGTACTTCAATGGATCGCGTACGTACTCAAGAACGCCTAATCATGCGTCAAACGGTTG
AGTACGGCAAAATGCCGAAGAAATCTTTCATTGCTCTATTTACTGGTAATGAATCTAGCGAAGCATGGTTGGACGAAGTT
CTTGCTTCAGACAAACCATACGCTGAAAAGATCAAACGTAACGAACACGACATCCGTCGTTCTATCCAAAAGCTGGATAT
AATCGAACGTGAAACGTCTCTTACTGTTCAAAGCATTAAAGATATCAGCCGTCGTATGTCTATCGGTGAAGCGAAAGCTC
GTCGTGCTAAGAAAGAGATGGTTGAAGCGAACTTACGTCTAGTAATCTCGATTGCTAAGAAGTACACAAACCGTGGTCTA
CAATTCCTGGATCTAATCCAAGAAGGTAACATCGGTCTGATGAAAGCAGTAGATAAGTTTGAATACCGTCGTGGTTACAA
GTTCTCTACTTACGCTACGTGGTGGATCCGTCAAGCAATCACTCGTTCGATTGCCGACCAAGCTCGTACTATCCGTATTC
CGGTTCACATGATCGAAACGATCAACAAACTAAACCGTATCTCTCGTCAAATGCTACAAGAGATGGGTCGTGAACCACTT
CCGGAAGAGTTGGCTGAGCGCATGCAAATGCCTGAAGACAAGATCCGTAAAGTACTGAAAATCGCTAAAGAGCCTATCTC
AATGGAGACACCAATCGGTGACGACGAAGATTCGCATCTAGGTGATTTCATCGAGGATACAACGCTAGAATTGCCTTTAG
ACTCTGCAACGGCAACAAGCCTACGCGGCGCAACTAAAGACGTTCTTGCAGGCCTAACGCCTCGTGAAGCGAAAGTACTG
CGTATGCGTTTCGGTATCGATATGAACACTGACCACACTCTTGAAGAGGTTGGTAAGCAGTTCGACGTAACTCGTGAACG
TATCCGTCAGATCGAAGCAAAAGCACTGCGTAAACTTCGTCACCCAAGCCGCTCAGAAACTCTGCGTAGCTTCCTAGACG
AGTAA

Upstream 100 bases:

>100_bases
ACCCTGTTTGATTAGTCAGCATTTAATAAATTTGTTAACATAATTGGTTTGCATTTGAGAATGCAACGTCCTTCACCAGA
CCTGAAGTTGGATATCATCT

Downstream 100 bases:

>100_bases
TTACACACTTTAGTGTGGTTAGCTTTTAAGCATAAAATAAAAAAGGTGAGCGTTGGCTCACCTTTTTTGTGCCTATATGA
TTTAAGTGGCTAAGATGTAA

Product: RNA polymerase sigma factor RpoD

Products: NA

Alternate protein names: Sigma-70 [H]

Number of amino acids: Translated: 614; Mature: 614

Protein sequence:

>614_residues
MDQNPQSQLKLLVIKGKEQGYLTYAEVNDHLPAEIVDSEQVEDIIQMINDMGIKVVETAPDADDLALNDDDANIDEDAAE
AAAAALSSVESEIGRTTDPVRMYMREMGTVELLTREGEIDIAKRIEDGINTVQLSVAEYPGTIPYILEQFDRVLAEEIRL
TDLINGFVDPDDDGTAAPTATHIGSELAKTDLEDEDKEEAEDDEEEEEEDTGIDPELALEKFTALRTSYQNRQLAINEYG
HESPKATLATTMMQDVFKEFRLTPKQFDYLVNELRTSMDRVRTQERLIMRQTVEYGKMPKKSFIALFTGNESSEAWLDEV
LASDKPYAEKIKRNEHDIRRSIQKLDIIERETSLTVQSIKDISRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGL
QFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPL
PEELAERMQMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATATSLRGATKDVLAGLTPREAKVL
RMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSETLRSFLDE

Sequences:

>Translated_614_residues
MDQNPQSQLKLLVIKGKEQGYLTYAEVNDHLPAEIVDSEQVEDIIQMINDMGIKVVETAPDADDLALNDDDANIDEDAAE
AAAAALSSVESEIGRTTDPVRMYMREMGTVELLTREGEIDIAKRIEDGINTVQLSVAEYPGTIPYILEQFDRVLAEEIRL
TDLINGFVDPDDDGTAAPTATHIGSELAKTDLEDEDKEEAEDDEEEEEEDTGIDPELALEKFTALRTSYQNRQLAINEYG
HESPKATLATTMMQDVFKEFRLTPKQFDYLVNELRTSMDRVRTQERLIMRQTVEYGKMPKKSFIALFTGNESSEAWLDEV
LASDKPYAEKIKRNEHDIRRSIQKLDIIERETSLTVQSIKDISRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGL
QFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPL
PEELAERMQMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATATSLRGATKDVLAGLTPREAKVL
RMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSETLRSFLDE
>Mature_614_residues
MDQNPQSQLKLLVIKGKEQGYLTYAEVNDHLPAEIVDSEQVEDIIQMINDMGIKVVETAPDADDLALNDDDANIDEDAAE
AAAAALSSVESEIGRTTDPVRMYMREMGTVELLTREGEIDIAKRIEDGINTVQLSVAEYPGTIPYILEQFDRVLAEEIRL
TDLINGFVDPDDDGTAAPTATHIGSELAKTDLEDEDKEEAEDDEEEEEEDTGIDPELALEKFTALRTSYQNRQLAINEYG
HESPKATLATTMMQDVFKEFRLTPKQFDYLVNELRTSMDRVRTQERLIMRQTVEYGKMPKKSFIALFTGNESSEAWLDEV
LASDKPYAEKIKRNEHDIRRSIQKLDIIERETSLTVQSIKDISRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGL
QFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPL
PEELAERMQMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATATSLRGATKDVLAGLTPREAKVL
RMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSETLRSFLDE

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=77.2357723577236, Blast_Score=916, Evalue=0.0,
Organism=Escherichia coli, GI1789098, Length=247, Percent_Identity=40.8906882591093, Blast_Score=205, Evalue=8e-54,
Organism=Escherichia coli, GI1789871, Length=241, Percent_Identity=28.6307053941909, Blast_Score=90, Evalue=4e-19,
Organism=Escherichia coli, GI1788231, Length=202, Percent_Identity=27.7227722772277, Blast_Score=64, Evalue=3e-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: 70080; Mature: 70080

Theoretical pI: Translated: 4.51; Mature: 4.51

Prosite motif: PS00715 SIGMA70_1 ; PS00716 SIGMA70_2

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.0 %Cys     (Translated Protein)
3.6 %Met     (Translated Protein)
3.6 %Cys+Met (Translated Protein)
0.0 %Cys     (Mature Protein)
3.6 %Met     (Mature Protein)
3.6 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MDQNPQSQLKLLVIKGKEQGYLTYAEVNDHLPAEIVDSEQVEDIIQMINDMGIKVVETAP
CCCCCCCCEEEEEEECCCCCCEEEEECCCCCCHHHCCHHHHHHHHHHHHHCCCEEEECCC
DADDLALNDDDANIDEDAAEAAAAALSSVESEIGRTTDPVRMYMREMGTVELLTREGEID
CCCCCEECCCCCCCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHCCCCEEEECCCCHH
IAKRIEDGINTVQLSVAEYPGTIPYILEQFDRVLAEEIRLTDLINGFVDPDDDGTAAPTA
HHHHHHCCCCEEEEEHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCHH
THIGSELAKTDLEDEDKEEAEDDEEEEEEDTGIDPELALEKFTALRTSYQNRQLAINEYG
HHHHHHHHHCCCCCCCHHHCCCCHHHHHHHCCCCHHHHHHHHHHHHHHHCCCCEEHHHCC
HESPKATLATTMMQDVFKEFRLTPKQFDYLVNELRTSMDRVRTQERLIMRQTVEYGKMPK
CCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCC
KSFIALFTGNESSEAWLDEVLASDKPYAEKIKRNEHDIRRSIQKLDIIERETSLTVQSIK
CCEEEEEECCCCHHHHHHHHHHCCCCHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHH
DISRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKF
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHCCCCHHHHHHHHH
EYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPL
HHHCCCCCHHHHHHHHHHHHHHHHHHHHHEEECHHHHHHHHHHHHHHHHHHHHHHCCCCC
PEELAERMQMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATATS
CHHHHHHHCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHCCCEECCCCCHHHHH
LRGATKDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLR
HCCCHHHHHHCCCCCHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
HPSRSETLRSFLDE
CCCHHHHHHHHHCC
>Mature Secondary Structure
MDQNPQSQLKLLVIKGKEQGYLTYAEVNDHLPAEIVDSEQVEDIIQMINDMGIKVVETAP
CCCCCCCCEEEEEEECCCCCCEEEEECCCCCCHHHCCHHHHHHHHHHHHHCCCEEEECCC
DADDLALNDDDANIDEDAAEAAAAALSSVESEIGRTTDPVRMYMREMGTVELLTREGEID
CCCCCEECCCCCCCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHCCCCEEEECCCCHH
IAKRIEDGINTVQLSVAEYPGTIPYILEQFDRVLAEEIRLTDLINGFVDPDDDGTAAPTA
HHHHHHCCCCEEEEEHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCHH
THIGSELAKTDLEDEDKEEAEDDEEEEEEDTGIDPELALEKFTALRTSYQNRQLAINEYG
HHHHHHHHHCCCCCCCHHHCCCCHHHHHHHCCCCHHHHHHHHHHHHHHHCCCCEEHHHCC
HESPKATLATTMMQDVFKEFRLTPKQFDYLVNELRTSMDRVRTQERLIMRQTVEYGKMPK
CCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCC
KSFIALFTGNESSEAWLDEVLASDKPYAEKIKRNEHDIRRSIQKLDIIERETSLTVQSIK
CCEEEEEECCCCHHHHHHHHHHCCCCHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHH
DISRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKF
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHCCCCHHHHHHHHH
EYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPL
HHHCCCCCHHHHHHHHHHHHHHHHHHHHHEEECHHHHHHHHHHHHHHHHHHHHHHCCCCC
PEELAERMQMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATATS
CHHHHHHHCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHCCCEECCCCCHHHHH
LRGATKDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLR
HCCCHHHHHHCCCCCHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
HPSRSETLRSFLDE
CCCHHHHHHHHHCC

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]