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The map label for this gene is rpoD [H]

Identifier: 78049468

GI number: 78049468

Start: 4490897

End: 4492774

Strand: Reverse

Name: rpoD [H]

Synonym: XCV3912

Alternate gene names: 78049468

Gene position: 4492774-4490897 (Counterclockwise)

Preceding gene: 78049469

Following gene: 78049467

Centisome position: 86.76

GC content: 61.18

Gene sequence:

>1878_bases
ATGGCCAACGAACGTCCTGCCCAGCAATCCGACATCAAGCTACTGATCAGCAAGGGCCTGGAACAGGGCTATCTGACCTA
CGCCGAAGTCAATGACCATCTGCCCGACGACCTCGTCGACCCGGAGCAGATCGAAGACATCATCAGCATGATCAACGGCA
TGGGCATCGATGTCCATGAAGTTGCACCCGATGCCGAAACCCTGTTGCTCAACGATGGCAACACCGGCAACCGCGAGGTT
GACGACACCGCCGCCGAAGAAGCTGCCGCCGCGCTGACCGCGCTGGACACCGAAGGTGGCCGCACCACCGACCCGGTGCG
CATGTACATGCGCGAAATGGGCACGGTCGAGCTGCTGACCCGCGAAGGCGAAATCGCCATCGCCAAGCGCATCGAAGAAG
GCCTCAGCCAGGTCCAGGCCGCATTGGGCGTGTTCCCGCTGTCGACCGAAATGCTGCTGGCCGATTACGAAGCGCACAAG
GAAGGCAAGAAGCGTCTGGCCGAGATCGTGGTTGGCTTCAACGACCTGATCGAAGAAGCCGATGCAGCCGCTGCTGCGCT
CGCCGCGGCCGGCCCGGTCGCCGTGTCCGACGATGAAGCGGTCGACGAAGACGACGACGAAGACGGCGATGACGAGGCCG
CCGAAGAAGAGGCCGGCCCGACCGGTCCGGATCCGGTGGAAGTGGCCACGCGCATGGAGAACCTGGCCAACGAATACGCC
AAGTTCAAGAAGGCCTATGCCAAGAACGGCGCCGAGCACAAGCTGGTGGTCAAGGCCCGCGAAGACATGGCCGCCATCTT
CACCACGCTCAAGCTGCCGCTGCCGCTGACCGACGCGCTGGTCACCCAGCTGCGTGGCGTGGTCAATGGCATCAAGGATC
ACGAGCGCAAGGTGCTGCACCTGGCCACCACGGTGGCACGCATGCCGCGCAAGGACTTCATCCGCTCCTGGGAAGGCAAT
CAGACCAACCTGGAATGGGTGGAAGACGCACTCAAGCGCAAGCAGAAGTGGTCGTCGGCGCTGCGCGACGTCAAGGACCA
GATCATCTCCGAGCAGCAGGGCTCGATCGAGATGGAAAAGGCCAACTACCTGACCCTGGGCGAGATCAAGGAAATCAGCC
GTGCGATGGCCTATGGCGAAGCCAAGGCGCGCAAGGCCAAGAAGGAAATGGTCGAGGCCAACCTGCGCCTGGTGATCTCC
ATCGCCAAGAAGTACACCAACCGCGGCCTGCAGTTCCTGGACCTGATCCAGGAAGGCAACATCGGCCTGATGAAGGCCGT
GGACAAGTTCGAATACCGTCGCGGTTACAAGTTCTCGACGTATGCCACGTGGTGGATCCGTCAGGCCATCACCCGTTCGA
TCGCCGATCAGGCGCGCACCATCCGTATCCCGGTGCACATGATCGAAACGATCAACAAGTTGAACCGCATTTCCCGTCAG
ATGCTCCAGCAGTTCGGCCGCGAGGCCACGCCGGAGGAACTGGCCAAGGAAATGGACATGCCCGAGGACAAGATCCGCAA
GGTGATGAAAATCGCCAAGGAGCCGATCTCGATGGAAACCCCGATCGGCGACGACGAGGATTCGCATCTGGGCGACTTCA
TCGAGGACACCAATGTGGAGTCCCCGATCGACAACACCACCAACATCAATCTCTCCGAAACGGTGCGTGACGTGTTGGCC
GGTCTCACCCCGCGCGAGGCGAAGGTGCTGCGCATGCGCTTCGGTATCGACATGAACACCGATCACACGCTGGAAGAGGT
CGGTAAGCAGTTCGACGTCACCCGTGAGCGGATTCGTCAGATAGAGGCCAAGGCGTTGCGCAAGCTGCGTCACCCGAGCC
GTTCGGAACAGCTGCGCTCGTTTCTGGATATCGACTGA

Upstream 100 bases:

>100_bases
CGTCCACCAGCGGTCCCGTCTTGAATCCGGCAGACCGGGCTTCACGCTGGTATAATGCTAGGTTCTCTTTCCAATCTCAA
AGCCGGTGGCGCGAGCACTC

Downstream 100 bases:

>100_bases
TGCCGCGGTCGTAACCGTGCAGTGATCACACAGCAGCCCCGCTCATGCGGGGCTGCTGCGTTATGGCGCAGGCAGTTGGC
TATGCTTGGTAGCGGGCAGC

Product: RNA polymerase sigma factor RpoD

Products: NA

Alternate protein names: Sigma-70 [H]

Number of amino acids: Translated: 625; Mature: 624

Protein sequence:

>625_residues
MANERPAQQSDIKLLISKGLEQGYLTYAEVNDHLPDDLVDPEQIEDIISMINGMGIDVHEVAPDAETLLLNDGNTGNREV
DDTAAEEAAAALTALDTEGGRTTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLSQVQAALGVFPLSTEMLLADYEAHK
EGKKRLAEIVVGFNDLIEEADAAAAALAAAGPVAVSDDEAVDEDDDEDGDDEAAEEEAGPTGPDPVEVATRMENLANEYA
KFKKAYAKNGAEHKLVVKAREDMAAIFTTLKLPLPLTDALVTQLRGVVNGIKDHERKVLHLATTVARMPRKDFIRSWEGN
QTNLEWVEDALKRKQKWSSALRDVKDQIISEQQGSIEMEKANYLTLGEIKEISRAMAYGEAKARKAKKEMVEANLRLVIS
IAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQ
MLQQFGREATPEELAKEMDMPEDKIRKVMKIAKEPISMETPIGDDEDSHLGDFIEDTNVESPIDNTTNINLSETVRDVLA
GLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEQLRSFLDID

Sequences:

>Translated_625_residues
MANERPAQQSDIKLLISKGLEQGYLTYAEVNDHLPDDLVDPEQIEDIISMINGMGIDVHEVAPDAETLLLNDGNTGNREV
DDTAAEEAAAALTALDTEGGRTTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLSQVQAALGVFPLSTEMLLADYEAHK
EGKKRLAEIVVGFNDLIEEADAAAAALAAAGPVAVSDDEAVDEDDDEDGDDEAAEEEAGPTGPDPVEVATRMENLANEYA
KFKKAYAKNGAEHKLVVKAREDMAAIFTTLKLPLPLTDALVTQLRGVVNGIKDHERKVLHLATTVARMPRKDFIRSWEGN
QTNLEWVEDALKRKQKWSSALRDVKDQIISEQQGSIEMEKANYLTLGEIKEISRAMAYGEAKARKAKKEMVEANLRLVIS
IAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQ
MLQQFGREATPEELAKEMDMPEDKIRKVMKIAKEPISMETPIGDDEDSHLGDFIEDTNVESPIDNTTNINLSETVRDVLA
GLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEQLRSFLDID
>Mature_624_residues
ANERPAQQSDIKLLISKGLEQGYLTYAEVNDHLPDDLVDPEQIEDIISMINGMGIDVHEVAPDAETLLLNDGNTGNREVD
DTAAEEAAAALTALDTEGGRTTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLSQVQAALGVFPLSTEMLLADYEAHKE
GKKRLAEIVVGFNDLIEEADAAAAALAAAGPVAVSDDEAVDEDDDEDGDDEAAEEEAGPTGPDPVEVATRMENLANEYAK
FKKAYAKNGAEHKLVVKAREDMAAIFTTLKLPLPLTDALVTQLRGVVNGIKDHERKVLHLATTVARMPRKDFIRSWEGNQ
TNLEWVEDALKRKQKWSSALRDVKDQIISEQQGSIEMEKANYLTLGEIKEISRAMAYGEAKARKAKKEMVEANLRLVISI
AKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQM
LQQFGREATPEELAKEMDMPEDKIRKVMKIAKEPISMETPIGDDEDSHLGDFIEDTNVESPIDNTTNINLSETVRDVLAG
LTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEQLRSFLDID

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=59.349593495935, Blast_Score=681, Evalue=0.0,
Organism=Escherichia coli, GI1789098, Length=233, Percent_Identity=40.7725321888412, Blast_Score=208, Evalue=1e-54,
Organism=Escherichia coli, GI1789871, Length=241, Percent_Identity=29.4605809128631, Blast_Score=100, Evalue=3e-22,
Organism=Escherichia coli, GI1788231, Length=202, Percent_Identity=27.2277227722772, Blast_Score=67, Evalue=5e-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: 70057; Mature: 69926

Theoretical pI: Translated: 4.61; Mature: 4.61

Prosite motif: PS00715 SIGMA70_1 ; PS00716 SIGMA70_2

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.0 %Cys     (Translated Protein)
3.5 %Met     (Translated Protein)
3.5 %Cys+Met (Translated Protein)
0.0 %Cys     (Mature Protein)
3.4 %Met     (Mature Protein)
3.4 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MANERPAQQSDIKLLISKGLEQGYLTYAEVNDHLPDDLVDPEQIEDIISMINGMGIDVHE
CCCCCCCCHHHHHHHHHHCCHHCCEEEEHHCCCCCCCCCCHHHHHHHHHHHHCCCCCHHH
VAPDAETLLLNDGNTGNREVDDTAAEEAAAALTALDTEGGRTTDPVRMYMREMGTVELLT
CCCCCCEEEEECCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHCCCCEEEE
REGEIAIAKRIEEGLSQVQAALGVFPLSTEMLLADYEAHKEGKKRLAEIVVGFNDLIEEA
CCCCHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
DAAAAALAAAGPVAVSDDEAVDEDDDEDGDDEAAEEEAGPTGPDPVEVATRMENLANEYA
HHHHHHHHHCCCCEECCCCCCCCCCCCCCCCHHHHHCCCCCCCCHHHHHHHHHHHHHHHH
KFKKAYAKNGAEHKLVVKAREDMAAIFTTLKLPLPLTDALVTQLRGVVNGIKDHERKVLH
HHHHHHHCCCCCCEEEEEHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
LATTVARMPRKDFIRSWEGNQTNLEWVEDALKRKQKWSSALRDVKDQIISEQQGSIEMEK
HHHHHHHCCHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCEEECC
ANYLTLGEIKEISRAMAYGEAKARKAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGN
CCCEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHCCC
IGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQ
CHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHEEECHHHHHHHHHHHHHHHHH
MLQQFGREATPEELAKEMDMPEDKIRKVMKIAKEPISMETPIGDDEDSHLGDFIEDTNVE
HHHHHCCCCCHHHHHHHCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHCCCCC
SPIDNTTNINLSETVRDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQ
CCCCCCCCCCHHHHHHHHHHCCCCCHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHH
IEAKALRKLRHPSRSEQLRSFLDID
HHHHHHHHHHCCCHHHHHHHHHCCC
>Mature Secondary Structure 
ANERPAQQSDIKLLISKGLEQGYLTYAEVNDHLPDDLVDPEQIEDIISMINGMGIDVHE
CCCCCCCHHHHHHHHHHCCHHCCEEEEHHCCCCCCCCCCHHHHHHHHHHHHCCCCCHHH
VAPDAETLLLNDGNTGNREVDDTAAEEAAAALTALDTEGGRTTDPVRMYMREMGTVELLT
CCCCCCEEEEECCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHCCCCEEEE
REGEIAIAKRIEEGLSQVQAALGVFPLSTEMLLADYEAHKEGKKRLAEIVVGFNDLIEEA
CCCCHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
DAAAAALAAAGPVAVSDDEAVDEDDDEDGDDEAAEEEAGPTGPDPVEVATRMENLANEYA
HHHHHHHHHCCCCEECCCCCCCCCCCCCCCCHHHHHCCCCCCCCHHHHHHHHHHHHHHHH
KFKKAYAKNGAEHKLVVKAREDMAAIFTTLKLPLPLTDALVTQLRGVVNGIKDHERKVLH
HHHHHHHCCCCCCEEEEEHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
LATTVARMPRKDFIRSWEGNQTNLEWVEDALKRKQKWSSALRDVKDQIISEQQGSIEMEK
HHHHHHHCCHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCEEECC
ANYLTLGEIKEISRAMAYGEAKARKAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGN
CCCEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHCCC
IGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQ
CHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHEEECHHHHHHHHHHHHHHHHH
MLQQFGREATPEELAKEMDMPEDKIRKVMKIAKEPISMETPIGDDEDSHLGDFIEDTNVE
HHHHHCCCCCHHHHHHHCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHCCCCC
SPIDNTTNINLSETVRDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQ
CCCCCCCCCCHHHHHHHHHHCCCCCHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHH
IEAKALRKLRHPSRSEQLRSFLDID
HHHHHHHHHHCCCHHHHHHHHHCCC

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: 12024217 [H]