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The map label for this gene is rpoD [H]

Identifier: 84622216

GI number: 84622216

Start: 610937

End: 612811

Strand: Direct

Name: rpoD [H]

Synonym: XOO_0559

Alternate gene names: 84622216

Gene position: 610937-612811 (Clockwise)

Preceding gene: 84622215

Following gene: 84622217

Centisome position: 12.37

GC content: 60.85

Gene sequence:

>1875_bases
ATGGCCAACGAACGTCCTGCCCAGCAATCCGACATCAAGCTACTGATCAGCAAGGGCCTGGAACAGGGCTATCTGACCTA
CGCCGAAGTCAATGACCATCTGCCCGACGACCTCGTCGACCCGGAGCAGATCGAAGACATCATCAGCATGATCAACGGCA
TGGGCATCGATGTCCATGAAGTTGCACCCGATGCCGAAACCCTCTTGCTCAACGATGGCAACACCGGCAACCGCGAGGTT
GACGACACCGCCGCCGAAGAAGCTGCCGCCGCGCTGACCGCGCTCGACACCGAAGGTGGCCGCACCACCGACCCGGTGCG
CATGTACATGCGCGAAATGGGCACCGTCGAGCTGCTGACCCGCGAAGGCGAAATCGCCATCGCCAAGCGCATCGAAGAAG
GCCTGAGCCAGGTCCAGGCAGCATTGGGCGTGTTCCCGCTGTCGACCGAAATGCTGCTGGCCGATTACGAAGCGCACAAG
GAAGGCAAGAAGCGTCTGGCCGAGATCGTGGTCGGCTTCAACGACCTGATCGAAGAAGCCGACGCCGCCGCCGCCGCGCT
GGCTGCCGCTGGTCCCGTCGCTGTCGACGAGGATGCGCTGGATGAAGACGACGACGAAGACGGCGATGACGCCGCCGCCG
AAGAAGAGGTCGGCCCGACCGGTCCGGACCCGGTTGAAGTCGCCACGCGCATGCAGAACCTGGCCAACGAATACGCCAAG
TTCAAGAAGGTCTATGCCAAGAACGGCGCCGAGCACAAGCTGGTGGTCAAGGCGCGCGAAGACATGGCCGCCATCTTCAC
CACGCTCAAGCTGCCGCTGCCGCTGACCGACGCGCTGGTCACCCAGCTGCGTGGCGTGGTCAACGGCATCAAGGACCACG
AGCGCAAGGTGCTGCACCTGGCCACCACCGTGGCCCGCATGCCGCGCAAGGATTTCATCCGCTCCTGGGAAGGCAATCAG
ACCAACCTAGAATGGGTGGAAGATGCACTCAAGCGCAAGCAGAAGTGGTCGTCGGCGCTGCGCGACGTCAAGGATCAGAT
CATCTCCGAGCAGCAGGGCTCGATGGAGATGGAAAAGGCCAGCTATCTGACGCTGGGCGAGATCAAAGAGATCAGCCGTG
CGATGGCCTATGGCGAAGCCAAGGCGCGCAAGGCCAAGAAGGAAATGGTCGAAGCCAACCTGCGTCTGGTGATCTCGATT
GCCAAGAAGTACACCAACCGCGGCCTGCAGTTCCTCGACCTGATCCAGGAAGGCAACATCGGCCTGATGAAGGCCGTGGA
CAAGTTCGAATACCGTCGCGGTTACAAGTTCTCGACGTATGCAACGTGGTGGATCCGTCAGGCCATCACCCGTTCGATCG
CCGATCAGGCGCGCACCATCCGTATCCCGGTGCACATGATCGAAACGATCAACAAGCTGAACCGCATTTCCCGCCAGATG
CTCCAGCAGTTTGGCCGCGAGGCGACGCCGGAGGAATTGGCCAAGGAAATGGACATGCCCGAGGACAAGATTCGCAAGGT
GATGAAAATCGCCAAGGAGCCGATCTCGATGGAAACCCCGATCGGCGACGACGAGGATTCGCATCTGGGCGACTTCATCG
AGGACACCAATGTGGAGTCCCCGATCGACAACACCACCAACATCAATCTCTCCGAGACGGTGCGTGACGTGTTGGCCGGC
CTCACCCCGCGCGAGGCCAAGGTGCTGCGCATGCGCTTCGGTATCGATATGAACACCGATCACACGTTGGAAGAGGTCGG
TAAGCAGTTCGATGTCACCCGCGAGCGGATTCGTCAGATAGAGGCCAAGGCATTGCGCAAGCTGCGTCACCCGAGCCGCT
CGGAACAGCTGCGCTCGTTCCTGGATATCGACTGA

Upstream 100 bases:

>100_bases
CGTCCACCAGCGGTCCCGTCTTGAATCCGGCAGACCGGGCTTCACGCTGGTATAATGATAGGTTCTCTTTCCAATCTCAA
AGCCGGTGGCGCGAGCACTC

Downstream 100 bases:

>100_bases
TACCTCAGTCGTACCCGTGCAGTGATCACAAAGCAGCCCCGCTCATGCGGGGCTGTTGTGTTGTGGCCCAGGCAGTTGGC
TATGCTTGGCCCTAGGCTGC

Product: RNA polymerase sigma factor RpoD

Products: NA

Alternate protein names: Sigma-70 [H]

Number of amino acids: Translated: 624; Mature: 623

Protein sequence:

>624_residues
MANERPAQQSDIKLLISKGLEQGYLTYAEVNDHLPDDLVDPEQIEDIISMINGMGIDVHEVAPDAETLLLNDGNTGNREV
DDTAAEEAAAALTALDTEGGRTTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLSQVQAALGVFPLSTEMLLADYEAHK
EGKKRLAEIVVGFNDLIEEADAAAAALAAAGPVAVDEDALDEDDDEDGDDAAAEEEVGPTGPDPVEVATRMQNLANEYAK
FKKVYAKNGAEHKLVVKAREDMAAIFTTLKLPLPLTDALVTQLRGVVNGIKDHERKVLHLATTVARMPRKDFIRSWEGNQ
TNLEWVEDALKRKQKWSSALRDVKDQIISEQQGSMEMEKASYLTLGEIKEISRAMAYGEAKARKAKKEMVEANLRLVISI
AKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQM
LQQFGREATPEELAKEMDMPEDKIRKVMKIAKEPISMETPIGDDEDSHLGDFIEDTNVESPIDNTTNINLSETVRDVLAG
LTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEQLRSFLDID

Sequences:

>Translated_624_residues
MANERPAQQSDIKLLISKGLEQGYLTYAEVNDHLPDDLVDPEQIEDIISMINGMGIDVHEVAPDAETLLLNDGNTGNREV
DDTAAEEAAAALTALDTEGGRTTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLSQVQAALGVFPLSTEMLLADYEAHK
EGKKRLAEIVVGFNDLIEEADAAAAALAAAGPVAVDEDALDEDDDEDGDDAAAEEEVGPTGPDPVEVATRMQNLANEYAK
FKKVYAKNGAEHKLVVKAREDMAAIFTTLKLPLPLTDALVTQLRGVVNGIKDHERKVLHLATTVARMPRKDFIRSWEGNQ
TNLEWVEDALKRKQKWSSALRDVKDQIISEQQGSMEMEKASYLTLGEIKEISRAMAYGEAKARKAKKEMVEANLRLVISI
AKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQM
LQQFGREATPEELAKEMDMPEDKIRKVMKIAKEPISMETPIGDDEDSHLGDFIEDTNVESPIDNTTNINLSETVRDVLAG
LTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEQLRSFLDID
>Mature_623_residues
ANERPAQQSDIKLLISKGLEQGYLTYAEVNDHLPDDLVDPEQIEDIISMINGMGIDVHEVAPDAETLLLNDGNTGNREVD
DTAAEEAAAALTALDTEGGRTTDPVRMYMREMGTVELLTREGEIAIAKRIEEGLSQVQAALGVFPLSTEMLLADYEAHKE
GKKRLAEIVVGFNDLIEEADAAAAALAAAGPVAVDEDALDEDDDEDGDDAAAEEEVGPTGPDPVEVATRMQNLANEYAKF
KKVYAKNGAEHKLVVKAREDMAAIFTTLKLPLPLTDALVTQLRGVVNGIKDHERKVLHLATTVARMPRKDFIRSWEGNQT
NLEWVEDALKRKQKWSSALRDVKDQIISEQQGSMEMEKASYLTLGEIKEISRAMAYGEAKARKAKKEMVEANLRLVISIA
KKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQML
QQFGREATPEELAKEMDMPEDKIRKVMKIAKEPISMETPIGDDEDSHLGDFIEDTNVESPIDNTTNINLSETVRDVLAGL
TPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEQLRSFLDID

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=614, Percent_Identity=59.4462540716612, Blast_Score=684, Evalue=0.0,
Organism=Escherichia coli, GI1789098, Length=284, Percent_Identity=38.0281690140845, Blast_Score=209, Evalue=4e-55,
Organism=Escherichia coli, GI1789871, Length=242, Percent_Identity=29.3388429752066, Blast_Score=100, Evalue=3e-22,
Organism=Escherichia coli, GI1788231, Length=202, Percent_Identity=27.2277227722772, Blast_Score=67, Evalue=4e-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: 69972; Mature: 69841

Theoretical pI: Translated: 4.64; Mature: 4.64

Prosite motif: PS00715 SIGMA70_1 ; PS00716 SIGMA70_2

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.0 %Cys     (Translated Protein)
3.7 %Met     (Translated Protein)
3.7 %Cys+Met (Translated Protein)
0.0 %Cys     (Mature Protein)
3.5 %Met     (Mature Protein)
3.5 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MANERPAQQSDIKLLISKGLEQGYLTYAEVNDHLPDDLVDPEQIEDIISMINGMGIDVHE
CCCCCCCCHHHHHHHHHHCCHHCCEEEEHHCCCCCCCCCCHHHHHHHHHHHHCCCCCHHH
VAPDAETLLLNDGNTGNREVDDTAAEEAAAALTALDTEGGRTTDPVRMYMREMGTVELLT
CCCCCCEEEEECCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHCCCCEEEE
REGEIAIAKRIEEGLSQVQAALGVFPLSTEMLLADYEAHKEGKKRLAEIVVGFNDLIEEA
CCCCHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
DAAAAALAAAGPVAVDEDALDEDDDEDGDDAAAEEEVGPTGPDPVEVATRMQNLANEYAK
HHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCHHCCCCCCCCHHHHHHHHHHHHHHHHH
FKKVYAKNGAEHKLVVKAREDMAAIFTTLKLPLPLTDALVTQLRGVVNGIKDHERKVLHL
HHHHHHCCCCCCEEEEEHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
ATTVARMPRKDFIRSWEGNQTNLEWVEDALKRKQKWSSALRDVKDQIISEQQGSMEMEKA
HHHHHHCCHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHH
SYLTLGEIKEISRAMAYGEAKARKAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNI
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHCCCC
GLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQM
HHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHEEECHHHHHHHHHHHHHHHHHH
LQQFGREATPEELAKEMDMPEDKIRKVMKIAKEPISMETPIGDDEDSHLGDFIEDTNVES
HHHHCCCCCHHHHHHHCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHCCCCCC
PIDNTTNINLSETVRDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQI
CCCCCCCCCHHHHHHHHHHCCCCCHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHH
EAKALRKLRHPSRSEQLRSFLDID
HHHHHHHHHCCCHHHHHHHHHCCC
>Mature Secondary Structure 
ANERPAQQSDIKLLISKGLEQGYLTYAEVNDHLPDDLVDPEQIEDIISMINGMGIDVHE
CCCCCCCHHHHHHHHHHCCHHCCEEEEHHCCCCCCCCCCHHHHHHHHHHHHCCCCCHHH
VAPDAETLLLNDGNTGNREVDDTAAEEAAAALTALDTEGGRTTDPVRMYMREMGTVELLT
CCCCCCEEEEECCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHCCCCEEEE
REGEIAIAKRIEEGLSQVQAALGVFPLSTEMLLADYEAHKEGKKRLAEIVVGFNDLIEEA
CCCCHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
DAAAAALAAAGPVAVDEDALDEDDDEDGDDAAAEEEVGPTGPDPVEVATRMQNLANEYAK
HHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCHHCCCCCCCCHHHHHHHHHHHHHHHHH
FKKVYAKNGAEHKLVVKAREDMAAIFTTLKLPLPLTDALVTQLRGVVNGIKDHERKVLHL
HHHHHHCCCCCCEEEEEHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
ATTVARMPRKDFIRSWEGNQTNLEWVEDALKRKQKWSSALRDVKDQIISEQQGSMEMEKA
HHHHHHCCHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHH
SYLTLGEIKEISRAMAYGEAKARKAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNI
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHCCCC
GLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQM
HHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHEEECHHHHHHHHHHHHHHHHHH
LQQFGREATPEELAKEMDMPEDKIRKVMKIAKEPISMETPIGDDEDSHLGDFIEDTNVES
HHHHCCCCCHHHHHHHCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHCCCCCC
PIDNTTNINLSETVRDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQI
CCCCCCCCCHHHHHHHHHHCCCCCHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHH
EAKALRKLRHPSRSEQLRSFLDID
HHHHHHHHHCCCHHHHHHHHHCCC

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]