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The map label for this gene is rpoD [H]

Identifier: 59712861

GI number: 59712861

Start: 2528339

End: 2530180

Strand: Direct

Name: rpoD [H]

Synonym: VF_2254

Alternate gene names: 59712861

Gene position: 2528339-2530180 (Clockwise)

Preceding gene: 172087762

Following gene: 59712862

Centisome position: 87.26

GC content: 41.53

Gene sequence:

>1842_bases
ATGGATCAAAATCCGCAGTCACAGCTAAAATTACTTGTAATCAAAGGCAAGGAACAAGGCTACCTGACCTACGCAGAAGT
TAACGATCACCTACCAGAAGAGATTGTCGATTCTGAGCAGGTTGAAGATATTATCCAAATGATCAATGACATGGGTATCA
AAGTGGTAGAAACCGCTCCTGATGCTGATGACATGTCATTAAATGATGATGATGCCGTAACTGATGAAGATGCAGCAGAA
GCCGCTGCAGCAGCACTATCAAGTGTAGAAAGTGAAATTGGCCGTACAACTGACCCAGTACGTATGTACATGCGTGAAAT
GGGCACAGTTGAACTTCTTACTCGTGAAGGCGAAATTGACATCGCTAAACGTATTGAAGAAGGTATCAACGAAGTTCAGT
GTTCTGTTGCTGAATTCCCTGGCGCTATTTCATACTTACTAGAACAGTTTGACAAAGTACAAACTGAAGAAATTCGTTTA
ACTGACATTATTTCAGGATTTGTTGATCCAAATGATGACGGTTCGTCTGCACCAACAGCAACTCATATCGGTTCTGAATT
AAGCGAATCTGAGCTTGATGATGAAGATGATGAAGATGCAGAAGGTGAAACGGAAGAAGAAGAAGATGCAGGTATCGACC
CTGAACTTGCTCTAGAGAAATTCACAGAGCTTCGAACTTCTTACCACAACATGCAATTAGCATTTGAAGAATTTGGTCGC
GATGATGCAAAATCACGCGAAGCGATTGGTGAATTAACGGATATTTTCCGTGAGTTTAAACTGATCCCTAAACAATTCGA
CTACCTAGTAAAAGAAATGCGTGATGGTATGGATCGTGTTCGTACACAAGAGCGCCTAATTATGCGTATGTGTGTTGAAT
ACGGAAAAATGCCTAAGAAATCATTCATTGCACTGTTCACAGGTAATGAATCTTCTGATGAGTGGTTCAATGAAATTATG
GCTTCAGATAAGCCATATGTTGAGCGTCTACAACGTTACGAAGAAGATATTCGCCGCTCTATCGCAAAACTAGATAGCAT
CGAAAAAGAAACAGGTTTACCTGTAGAGAATATTAAAGACATCAGCCGTCGTATGTCTATCGGTGAAGCAAAAGCTCGCC
GTGCGAAAAAAGAGATGGTTGAAGCAAACTTACGTCTTGTAATCTCTATTGCTAAAAAATACACAAACCGTGGTCTTCAA
TTCCTAGATCTTATCCAAGAGGGTAACATTGGTCTAATGAAGGCAGTAGATAAGTTTGAATACCGCCGTGGTTACAAATT
CTCTACTTACGCTACATGGTGGATCCGTCAAGCTATCACTCGTTCGATTGCTGACCAAGCACGTACGATCCGTATTCCAG
TACACATGATCGAAACGATCAATAAACTGAATCGTATCTCGCGTCAAATGCTACAAGAAATGGGCCGTGAACCACTACCT
GAAGAGCTTGCTGAACGCATGCAAATGCCAGAAGACAAGATCCGTAAGGTTCTGAAGATCGCTAAAGAGCCTATCTCAAT
GGAAACACCAATCGGTGATGATGAAGATTCGCACCTAGGTGATTTCATCGAGGATAACACGCTTGAACTACCAGTGGACT
CAGCTACATCAACTAGCTTGAAGTTTGCTACAAATGATGTTCTTGCAGGTTTAACTCCTCGTGAAGCAAAAGTGCTTCGT
ATGCGTTTTGGTATCGACATGAATACTGACCATACTCTAGAAGAAGTGGGTAAACAATTTGATGTAACACGTGAGCGTAT
TCGTCAAATCGAAGCAAAAGCGCTTCGTAAACTGCGTCACCCAAGTCGTTCTGAAGTATTACGTAGCTTCTTAGACGAAT
AA

Upstream 100 bases:

>100_bases
GAACCCAAATTGTCGTCATCAATGAAAAAATTTGTTATTATTAGTGGTTTGCATATCGCATACTAATTCCGTCACACAGA
CCAGAAGTAGGATACCGTCT

Downstream 100 bases:

>100_bases
TTAAACACGATTATTTGTTAATAGAATCAAAAAGGTGGGCTTAGGTTCACCTTTTTTCGATCTGAACGCATATTTTCAAT
CAACTGATTAAAAAGCAGAC

Product: RNA polymerase sigma factor RpoD

Products: NA

Alternate protein names: Sigma-70 [H]

Number of amino acids: Translated: 613; Mature: 613

Protein sequence:

>613_residues
MDQNPQSQLKLLVIKGKEQGYLTYAEVNDHLPEEIVDSEQVEDIIQMINDMGIKVVETAPDADDMSLNDDDAVTDEDAAE
AAAAALSSVESEIGRTTDPVRMYMREMGTVELLTREGEIDIAKRIEEGINEVQCSVAEFPGAISYLLEQFDKVQTEEIRL
TDIISGFVDPNDDGSSAPTATHIGSELSESELDDEDDEDAEGETEEEEDAGIDPELALEKFTELRTSYHNMQLAFEEFGR
DDAKSREAIGELTDIFREFKLIPKQFDYLVKEMRDGMDRVRTQERLIMRMCVEYGKMPKKSFIALFTGNESSDEWFNEIM
ASDKPYVERLQRYEEDIRRSIAKLDSIEKETGLPVENIKDISRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQ
FLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPLP
EELAERMQMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDNTLELPVDSATSTSLKFATNDVLAGLTPREAKVLR
MRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFLDE

Sequences:

>Translated_613_residues
MDQNPQSQLKLLVIKGKEQGYLTYAEVNDHLPEEIVDSEQVEDIIQMINDMGIKVVETAPDADDMSLNDDDAVTDEDAAE
AAAAALSSVESEIGRTTDPVRMYMREMGTVELLTREGEIDIAKRIEEGINEVQCSVAEFPGAISYLLEQFDKVQTEEIRL
TDIISGFVDPNDDGSSAPTATHIGSELSESELDDEDDEDAEGETEEEEDAGIDPELALEKFTELRTSYHNMQLAFEEFGR
DDAKSREAIGELTDIFREFKLIPKQFDYLVKEMRDGMDRVRTQERLIMRMCVEYGKMPKKSFIALFTGNESSDEWFNEIM
ASDKPYVERLQRYEEDIRRSIAKLDSIEKETGLPVENIKDISRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQ
FLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPLP
EELAERMQMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDNTLELPVDSATSTSLKFATNDVLAGLTPREAKVLR
MRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFLDE
>Mature_613_residues
MDQNPQSQLKLLVIKGKEQGYLTYAEVNDHLPEEIVDSEQVEDIIQMINDMGIKVVETAPDADDMSLNDDDAVTDEDAAE
AAAAALSSVESEIGRTTDPVRMYMREMGTVELLTREGEIDIAKRIEEGINEVQCSVAEFPGAISYLLEQFDKVQTEEIRL
TDIISGFVDPNDDGSSAPTATHIGSELSESELDDEDDEDAEGETEEEEDAGIDPELALEKFTELRTSYHNMQLAFEEFGR
DDAKSREAIGELTDIFREFKLIPKQFDYLVKEMRDGMDRVRTQERLIMRMCVEYGKMPKKSFIALFTGNESSDEWFNEIM
ASDKPYVERLQRYEEDIRRSIAKLDSIEKETGLPVENIKDISRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQ
FLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPLP
EELAERMQMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDNTLELPVDSATSTSLKFATNDVLAGLTPREAKVLR
MRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFLDE

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=78.0487804878049, Blast_Score=941, Evalue=0.0,
Organism=Escherichia coli, GI1789098, Length=239, Percent_Identity=42.2594142259414, Blast_Score=206, Evalue=4e-54,
Organism=Escherichia coli, GI1789871, Length=241, Percent_Identity=28.2157676348548, Blast_Score=90, Evalue=4e-19,
Organism=Escherichia coli, GI1788231, Length=202, Percent_Identity=26.7326732673267, Blast_Score=62, Evalue=8e-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: 70144; Mature: 70144

Theoretical pI: Translated: 4.36; Mature: 4.36

Prosite motif: PS00715 SIGMA70_1 ; PS00716 SIGMA70_2

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.3 %Cys     (Translated Protein)
4.1 %Met     (Translated Protein)
4.4 %Cys+Met (Translated Protein)
0.3 %Cys     (Mature Protein)
4.1 %Met     (Mature Protein)
4.4 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MDQNPQSQLKLLVIKGKEQGYLTYAEVNDHLPEEIVDSEQVEDIIQMINDMGIKVVETAP
CCCCCCCCEEEEEEECCCCCCEEEEHHHHCCCHHHHCHHHHHHHHHHHHHCCCEEEECCC
DADDMSLNDDDAVTDEDAAEAAAAALSSVESEIGRTTDPVRMYMREMGTVELLTREGEID
CCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHCCCCEEECCCCCHH
IAKRIEEGINEVQCSVAEFPGAISYLLEQFDKVQTEEIRLTDIISGFVDPNDDGSSAPTA
HHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCH
THIGSELSESELDDEDDEDAEGETEEEEDAGIDPELALEKFTELRTSYHNMQLAFEEFGR
HHHCCHHHHHCCCCCCCCCCCCCCCCHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCC
DDAKSREAIGELTDIFREFKLIPKQFDYLVKEMRDGMDRVRTQERLIMRMCVEYGKMPKK
CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCC
SFIALFTGNESSDEWFNEIMASDKPYVERLQRYEEDIRRSIAKLDSIEKETGLPVENIKD
CEEEEEECCCCCHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHH
ISRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFE
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHCCCCHHHHHHHHHH
YRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPLP
HHCCCCCHHHHHHHHHHHHHHHHHHHHHEEEHHHHHHHHHHHHHHHHHHHHHHHCCCCCC
EELAERMQMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDNTLELPVDSATSTSL
HHHHHHHCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHCCCCEECCCCCCCCCCE
KFATNDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRH
EEHHHHHHHCCCCHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC
PSRSEVLRSFLDE
CCHHHHHHHHHCC
>Mature Secondary Structure
MDQNPQSQLKLLVIKGKEQGYLTYAEVNDHLPEEIVDSEQVEDIIQMINDMGIKVVETAP
CCCCCCCCEEEEEEECCCCCCEEEEHHHHCCCHHHHCHHHHHHHHHHHHHCCCEEEECCC
DADDMSLNDDDAVTDEDAAEAAAAALSSVESEIGRTTDPVRMYMREMGTVELLTREGEID
CCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHCCCCEEECCCCCHH
IAKRIEEGINEVQCSVAEFPGAISYLLEQFDKVQTEEIRLTDIISGFVDPNDDGSSAPTA
HHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCH
THIGSELSESELDDEDDEDAEGETEEEEDAGIDPELALEKFTELRTSYHNMQLAFEEFGR
HHHCCHHHHHCCCCCCCCCCCCCCCCHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCC
DDAKSREAIGELTDIFREFKLIPKQFDYLVKEMRDGMDRVRTQERLIMRMCVEYGKMPKK
CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCC
SFIALFTGNESSDEWFNEIMASDKPYVERLQRYEEDIRRSIAKLDSIEKETGLPVENIKD
CEEEEEECCCCCHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHH
ISRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFE
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHCCCCHHHHHHHHHH
YRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPLP
HHCCCCCHHHHHHHHHHHHHHHHHHHHHEEEHHHHHHHHHHHHHHHHHHHHHHHCCCCCC
EELAERMQMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDNTLELPVDSATSTSL
HHHHHHHCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHCCCCEECCCCCCCCCCE
KFATNDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRH
EEHHHHHHHCCCCHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC
PSRSEVLRSFLDE
CCHHHHHHHHHCC

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]