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The map label for this gene is rpoD [H]

Identifier: 218927836

GI number: 218927836

Start: 699212

End: 701050

Strand: Reverse

Name: rpoD [H]

Synonym: YPO0643

Alternate gene names: 218927836

Gene position: 701050-699212 (Counterclockwise)

Preceding gene: 218927837

Following gene: 218927827

Centisome position: 15.06

GC content: 48.5

Gene sequence:

>1839_bases
ATGGAGCAAAACCCGCAGTCACAGCTGAAGCTACTTGTCACCCGAGGTAAGGAGCAAGGCTATCTGACCTATGCTGAGGT
CAATGACCATCTGCCGGAAGATATCGTCGATTCCGATCAGATCGAAGACATCATCCAGATGATTAATGACATGGGCATAC
AGGTACTAGAAGAAGCACCTGATGCTGATGATTTGATGCTGGCCGAAAACACCACGGATACCGATGATGATGCGGCTGAA
GCTGCTGCACAGGTGCTTTCCAGTGTTGAATCAGAAATCGGGCGAACCACCGACCCGGTGCGTATGTATATGCGCGAAAT
GGGTACCGTTGAGCTGTTGACACGCGAAGGCGAGATTGATATTGCCAAACGTATCGAAGACGGTATCAATCAGGTTCAGT
GTTCTGTTGCTGAATACCCTGAAGCGATCACTTATCTGTTGGAACAATATGATCGTGTTGAAGCGGGCGAATCTCGTTTA
TCTGACCTGATCACTGGCTTTGTTGATCCAAACGCCGAAGAAGATATTGCCCCAACAGCGACCCACGTTGGTTCTGAATT
ATCCACTGAAGAGATGGATGACGAAGATGAAGACGAGGATGAAGACGACGACGCAGAAGACGATAACAGCATCGATCCAG
AGTTGGCGCGCCAGAAATTCAGCGATTTGCGTGAGCAGTATGAAAACGCGCGTATGGAAATCAAGAAAAATGGCCGCAAT
CACGCGAATGCTGCCGCTGAAATTCTGAAGCTTTCTGAGGTGTTCAAGCAGTTCCGTCTAGTGCCGAAGCAGTTCGATTA
TCTGGTCAATAACATGCGTGCCATGATGGATCGCGTTCGTACTCAAGAACGTATCATCATGAAGCTGTGTGTTGAGCAGT
GCAAAATGCCGAAGAAAAATTTCGTTACGTTGTTTTCCAGCAATGAAACCAGCGACACCTGGTTTAATGCGGCAGTGGCG
ATGGGTAAACCTTGGTCTGAAAAACTGAAAGATGTCTCGGAAGATGTTCAACGCAGCTTGCAGAAACTGCGCCAGATCGA
AGAAGAAACCGGTCTGACCATCGAGCAAGTAAAAGACATCAACCGCCGTATGTCTATCGGTGAAGCGAAAGCGCGTCGTG
CCAAGAAAGAAATGGTTGAGGCTAACCTGCGTTTGGTTATCTCTATTGCCAAAAAATACACCAACCGTGGTTTGCAGTTC
CTTGATTTGATCCAGGAAGGCAACATTGGTCTGATGAAAGCAGTAGATAAGTTCGAATACCGTCGCGGTTATAAGTTCTC
AACTTACGCAACCTGGTGGATTCGTCAGGCTATTACTCGTTCGATTGCAGACCAGGCGCGCACTATCCGTATTCCAGTGC
ATATGATTGAGACCATTAACAAACTCAACCGTATCTCACGCCAAATGTTGCAAGAGATGGGCCGTGAGCCAACGCCAGAA
GAGTTGGCGGAACGGATGTTGATGCCGGAAGATAAGATCCGTAAAGTGCTGAAGATAGCTAAAGAGCCTATCTCCATGGA
AACCCCGATTGGTGATGACGAAGATTCACATCTGGGTGATTTCATTGAAGATACCACTCTGGAGCTACCGCTGGACTCTG
CAACTTCTGAGAGCCTGCGCTCTGCCACGCACGATGTGTTAGCTGGCCTAACAGCCCGTGAAGCGAAAGTTCTGCGTATG
CGTTTCGGTATCGATATGAACACTGACCACACGTTGGAAGAAGTGGGCAAACAGTTCGACGTCACCCGTGAACGTATTCG
TCAGATCGAGGCGAAGGCATTACGTAAACTGCGTCACCCAAGCCGTTCTGAAGTGCTGCGTAGCTTCCTCGACGATTAA

Upstream 100 bases:

>100_bases
TATAGCGGGCAGCGGCGACAAAAAAAGGCCCCAAATGTAATTGTTGGCGGTTTCGCCGACCGACACCAACCCAAATACTC
TGAAGTGTGGATACCGTCTT

Downstream 100 bases:

>100_bases
TTCGTTAGTGAAGTAATAAAAATCCCGGCATATTATTTGTGTCGGGATTTTTTTTCCTATAAACCAACCACGTCTACGCT
CTCCTCTCCCCTACCTCATC

Product: RNA polymerase sigma factor RpoD

Products: NA

Alternate protein names: Sigma-70 [H]

Number of amino acids: Translated: 612; Mature: 612

Protein sequence:

>612_residues
MEQNPQSQLKLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVLEEAPDADDLMLAENTTDTDDDAAE
AAAQVLSSVESEIGRTTDPVRMYMREMGTVELLTREGEIDIAKRIEDGINQVQCSVAEYPEAITYLLEQYDRVEAGESRL
SDLITGFVDPNAEEDIAPTATHVGSELSTEEMDDEDEDEDEDDDAEDDNSIDPELARQKFSDLREQYENARMEIKKNGRN
HANAAAEILKLSEVFKQFRLVPKQFDYLVNNMRAMMDRVRTQERIIMKLCVEQCKMPKKNFVTLFSSNETSDTWFNAAVA
MGKPWSEKLKDVSEDVQRSLQKLRQIEEETGLTIEQVKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQF
LDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPE
ELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSESLRSATHDVLAGLTAREAKVLRM
RFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFLDD

Sequences:

>Translated_612_residues
MEQNPQSQLKLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVLEEAPDADDLMLAENTTDTDDDAAE
AAAQVLSSVESEIGRTTDPVRMYMREMGTVELLTREGEIDIAKRIEDGINQVQCSVAEYPEAITYLLEQYDRVEAGESRL
SDLITGFVDPNAEEDIAPTATHVGSELSTEEMDDEDEDEDEDDDAEDDNSIDPELARQKFSDLREQYENARMEIKKNGRN
HANAAAEILKLSEVFKQFRLVPKQFDYLVNNMRAMMDRVRTQERIIMKLCVEQCKMPKKNFVTLFSSNETSDTWFNAAVA
MGKPWSEKLKDVSEDVQRSLQKLRQIEEETGLTIEQVKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQF
LDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPE
ELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSESLRSATHDVLAGLTAREAKVLRM
RFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFLDD
>Mature_612_residues
MEQNPQSQLKLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVLEEAPDADDLMLAENTTDTDDDAAE
AAAQVLSSVESEIGRTTDPVRMYMREMGTVELLTREGEIDIAKRIEDGINQVQCSVAEYPEAITYLLEQYDRVEAGESRL
SDLITGFVDPNAEEDIAPTATHVGSELSTEEMDDEDEDEDEDDDAEDDNSIDPELARQKFSDLREQYENARMEIKKNGRN
HANAAAEILKLSEVFKQFRLVPKQFDYLVNNMRAMMDRVRTQERIIMKLCVEQCKMPKKNFVTLFSSNETSDTWFNAAVA
MGKPWSEKLKDVSEDVQRSLQKLRQIEEETGLTIEQVKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQF
LDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPE
ELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSESLRSATHDVLAGLTAREAKVLRM
RFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFLDD

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=91.3821138211382, Blast_Score=1106, Evalue=0.0,
Organism=Escherichia coli, GI1789098, Length=247, Percent_Identity=42.1052631578947, Blast_Score=209, Evalue=3e-55,
Organism=Escherichia coli, GI1789871, Length=242, Percent_Identity=28.5123966942149, Blast_Score=89, Evalue=6e-19,
Organism=Escherichia coli, GI1788231, Length=202, Percent_Identity=28.7128712871287, Blast_Score=66, Evalue=7e-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: 70186; Mature: 70186

Theoretical pI: Translated: 4.44; Mature: 4.44

Prosite motif: PS00715 SIGMA70_1 ; PS00716 SIGMA70_2

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.5 %Cys     (Translated Protein)
4.2 %Met     (Translated Protein)
4.7 %Cys+Met (Translated Protein)
0.5 %Cys     (Mature Protein)
4.2 %Met     (Mature Protein)
4.7 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MEQNPQSQLKLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVLEEAP
CCCCHHHHHHHHHHCCCCCCCEEEECCCCCCCHHHCCHHHHHHHHHHHHHHHHHHHHHCC
DADDLMLAENTTDTDDDAAEAAAQVLSSVESEIGRTTDPVRMYMREMGTVELLTREGEID
CCCCEEEECCCCCCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHCCCHHHHHCCCCHH
IAKRIEDGINQVQCSVAEYPEAITYLLEQYDRVEAGESRLSDLITGFVDPNAEEDIAPTA
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCHH
THVGSELSTEEMDDEDEDEDEDDDAEDDNSIDPELARQKFSDLREQYENARMEIKKNGRN
HHHCCCCCHHHCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCC
HANAAAEILKLSEVFKQFRLVPKQFDYLVNNMRAMMDRVRTQERIIMKLCVEQCKMPKKN
HHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCC
FVTLFSSNETSDTWFNAAVAMGKPWSEKLKDVSEDVQRSLQKLRQIEEETGLTIEQVKDI
EEEEECCCCCCHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHH
NRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEY
HHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHCCCCHHHHHHHHHHH
RRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPE
HCCCCCHHHHHHHHHHHHHHHHHHHHHEEEHHHHHHHHHHHHHHHHHHHHHHHCCCCCHH
ELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSESLR
HHHHHHCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHCCCEECCCCCCHHHHHH
SATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHP
HHHHHHHHCCHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC
SRSEVLRSFLDD
CHHHHHHHHHCC
>Mature Secondary Structure
MEQNPQSQLKLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVLEEAP
CCCCHHHHHHHHHHCCCCCCCEEEECCCCCCCHHHCCHHHHHHHHHHHHHHHHHHHHHCC
DADDLMLAENTTDTDDDAAEAAAQVLSSVESEIGRTTDPVRMYMREMGTVELLTREGEID
CCCCEEEECCCCCCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHCCCHHHHHCCCCHH
IAKRIEDGINQVQCSVAEYPEAITYLLEQYDRVEAGESRLSDLITGFVDPNAEEDIAPTA
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCHH
THVGSELSTEEMDDEDEDEDEDDDAEDDNSIDPELARQKFSDLREQYENARMEIKKNGRN
HHHCCCCCHHHCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCC
HANAAAEILKLSEVFKQFRLVPKQFDYLVNNMRAMMDRVRTQERIIMKLCVEQCKMPKKN
HHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCC
FVTLFSSNETSDTWFNAAVAMGKPWSEKLKDVSEDVQRSLQKLRQIEEETGLTIEQVKDI
EEEEECCCCCCHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHH
NRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEY
HHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHCCCCHHHHHHHHHHH
RRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPE
HCCCCCHHHHHHHHHHHHHHHHHHHHHEEEHHHHHHHHHHHHHHHHHHHHHHHCCCCCHH
ELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSESLR
HHHHHHCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHCCCEECCCCCCHHHHHH
SATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHP
HHHHHHHHCCHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC
SRSEVLRSFLDD
CHHHHHHHHHCC

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: 11677608; 12644504 [H]