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The map label for this gene is rpoD [H]

Identifier: 167622943

GI number: 167622943

Start: 1234698

End: 1236545

Strand: Reverse

Name: rpoD [H]

Synonym: Shal_1004

Alternate gene names: 167622943

Gene position: 1236545-1234698 (Counterclockwise)

Preceding gene: 167622944

Following gene: 167622942

Centisome position: 23.66

GC content: 45.02

Gene sequence:

>1848_bases
ATGATATCTATGGATCATACTCCGCAGTCGCAACTTAAATTGTTGCTCGCCAAAGGTAAAGAGCAAGGTTACTTAACCTA
TGCAGAAGTGAACGATCACTTACCTGCAGACATGGTCGATTCTGACCAGATTGAAGATATTATCCAGATGATCAATGACA
TGGGTATTCGAGTCTATGAACAGGCTCCGGATGCTGATGAAATCATGATGTCTGAAGACAGCACCGATGATGATGCTGCA
GAAGAAGCTGCTGCTGCACTTGCAACAGTAGAAGCTGAATTAGGTCGTACCACCGATCCAGTACGTATGTATATGCGTGA
AATGGGTACCGTTGAACTTCTAACACGTGAAGGCGAGATTGTTATCGCTAAGCGTATCGAAGAAGGGATCAACACGGTTC
AAGCATCTGTTGCGGAATATCCGCAAGCGATTGCGATGATCCTAGAGCAGTTCGACCGTTACGAAGCTGAAGAAGTTAGA
CTATCTGACATTATCTCAGGTTTCGTCGATCCAAATGCAGAAGATGTCGCTCCAACGGCAACTCACGTTGGTTCAGATTT
ATCTGATGATGATTTGGATGACGAAGATGATGACGATGATGACGATGATGATGACGAAGAAGAGGAAGGTCCAAAGGGGC
CGGATCCTGAAGAAGCTAAAGAGAAATTCACTACGCTTCGCGTCGCTCATGAAAATGCATTAAGAATCATTGCAGACAAA
GGCCGTGGTCACCCAGAGTCGACTGTAGCGCTATTTGAAATTGGCGAGATCTTCAAAGAGTTCCGTTTGATGCCTAAGCA
GTTTGACCGCTTAGTTAAAAACATGCGCTCTATGATGGACAAAGTCCGTGTTCAAGAACGTTTGATCATGAAGCTTTGTG
TTGAACAAGCCAAAATGCCGAAGAAAAACTTCGTCAAAGTTTATACTAGCAACGAAAGCAGCATCGAATGGTTCAACGAA
GAACTTGCTTCAGGCAAGCCATACGCTGAAGGATTAAAGGTTGTTTCGTTCGATGTACAGCGTTGTCGTGCAAAGCTTGA
TGCGATCGAGACTGAAACTGGTCTAGCTATTGGCGCAATCAAAGATATCAACCGTCGTATGTCCATCGGTGAAGCGAAAG
CTCGTCGTGCAAAGAAAGAGATGGTTGAAGCGAACTTACGTCTAGTAATTTCTATCGCGAAAAAGTATACCAACCGTGGT
CTACAGTTCTTGGATCTTATCCAGGAAGGTAACATCGGTCTGATGAAAGCGGTAGATAAGTTTGAATACCGTCGTGGTTA
TAAGTTCTCGACTTATGCAACTTGGTGGATCCGTCAGGCGATCACTCGCTCTATTGCTGACCAAGCAAGAACGATCCGTA
TTCCAGTACATATGATAGAGACTATCAACAAGCTTAACCGTATCTCTCGCCAAATGTTGCAAGAGATGGGTCGTGAACCT
TCTCCAGAAGAGTTGGCTGAGCGCATGTTAATGCCTGAAGATAAGATCCGTAAGGTACTTAAGATCGCTAAAGAGCCTAT
CTCAATGGAAACCCCTATTGGTGACGATGAAGATTCGCACTTAGGTGACTTTATTGAAGATACGACGCTTGAGCTACCTC
TGGACTCTGCGACAGGCGAAAGCTTGAAGAACGCAACTCACGAAGTACTAGCCGGTCTAACGGCTCGAGAAGCGAAAGTT
CTGCGTATGCGTTTCGGTATCGATATGAATACTGACCACACGCTAGAAGAGGTTGGTAAGCAGTTTGACGTAACACGTGA
ACGTATTCGTCAGATTGAAGCTAAAGCGCTACGTAAGTTGCGCCACCCTTCTCGCTCAGAGATCTTGAAGTCTTTCCTAG
ACGAATAG

Upstream 100 bases:

>100_bases
AAAGTAAACACTTGGACTAGCACAGAGAAGCACCGAAGGCTATAATTGACGACTTGCGCGGCTGTTTTTTGCCCGTCGTT
TTAACTGTTTCCCAACTTGG

Downstream 100 bases:

>100_bases
TAAATAGACGAGCAATCGTTATTGAAATACTCGATTTCAAACAGAAAGCTGCCCAAGGGCAGTTTTTTTTTGCTCAAATG
AAACAAGCACTAAGCCAGAT

Product: RNA polymerase sigma 70 subunit RpoD

Products: NA

Alternate protein names: Sigma-70 [H]

Number of amino acids: Translated: 615; Mature: 615

Protein sequence:

>615_residues
MISMDHTPQSQLKLLLAKGKEQGYLTYAEVNDHLPADMVDSDQIEDIIQMINDMGIRVYEQAPDADEIMMSEDSTDDDAA
EEAAAALATVEAELGRTTDPVRMYMREMGTVELLTREGEIVIAKRIEEGINTVQASVAEYPQAIAMILEQFDRYEAEEVR
LSDIISGFVDPNAEDVAPTATHVGSDLSDDDLDDEDDDDDDDDDDEEEEGPKGPDPEEAKEKFTTLRVAHENALRIIADK
GRGHPESTVALFEIGEIFKEFRLMPKQFDRLVKNMRSMMDKVRVQERLIMKLCVEQAKMPKKNFVKVYTSNESSIEWFNE
ELASGKPYAEGLKVVSFDVQRCRAKLDAIETETGLAIGAIKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRG
LQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREP
SPEELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATGESLKNATHEVLAGLTAREAKV
LRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEILKSFLDE

Sequences:

>Translated_615_residues
MISMDHTPQSQLKLLLAKGKEQGYLTYAEVNDHLPADMVDSDQIEDIIQMINDMGIRVYEQAPDADEIMMSEDSTDDDAA
EEAAAALATVEAELGRTTDPVRMYMREMGTVELLTREGEIVIAKRIEEGINTVQASVAEYPQAIAMILEQFDRYEAEEVR
LSDIISGFVDPNAEDVAPTATHVGSDLSDDDLDDEDDDDDDDDDDEEEEGPKGPDPEEAKEKFTTLRVAHENALRIIADK
GRGHPESTVALFEIGEIFKEFRLMPKQFDRLVKNMRSMMDKVRVQERLIMKLCVEQAKMPKKNFVKVYTSNESSIEWFNE
ELASGKPYAEGLKVVSFDVQRCRAKLDAIETETGLAIGAIKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRG
LQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREP
SPEELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATGESLKNATHEVLAGLTAREAKV
LRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEILKSFLDE
>Mature_615_residues
MISMDHTPQSQLKLLLAKGKEQGYLTYAEVNDHLPADMVDSDQIEDIIQMINDMGIRVYEQAPDADEIMMSEDSTDDDAA
EEAAAALATVEAELGRTTDPVRMYMREMGTVELLTREGEIVIAKRIEEGINTVQASVAEYPQAIAMILEQFDRYEAEEVR
LSDIISGFVDPNAEDVAPTATHVGSDLSDDDLDDEDDDDDDDDDDEEEEGPKGPDPEEAKEKFTTLRVAHENALRIIADK
GRGHPESTVALFEIGEIFKEFRLMPKQFDRLVKNMRSMMDKVRVQERLIMKLCVEQAKMPKKNFVKVYTSNESSIEWFNE
ELASGKPYAEGLKVVSFDVQRCRAKLDAIETETGLAIGAIKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRG
LQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREP
SPEELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATGESLKNATHEVLAGLTAREAKV
LRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEILKSFLDE

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=613, Percent_Identity=77.8140293637847, Blast_Score=936, Evalue=0.0,
Organism=Escherichia coli, GI1789098, Length=237, Percent_Identity=43.4599156118143, Blast_Score=210, Evalue=2e-55,
Organism=Escherichia coli, GI1789871, Length=242, Percent_Identity=28.5123966942149, Blast_Score=91, Evalue=2e-19,
Organism=Escherichia coli, GI1788231, Length=202, Percent_Identity=27.7227722772277, Blast_Score=65, Evalue=2e-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: 69884; Mature: 69884

Theoretical pI: Translated: 4.50; Mature: 4.50

Prosite motif: PS00715 SIGMA70_1 ; PS00716 SIGMA70_2

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.3 %Cys     (Translated Protein)
4.6 %Met     (Translated Protein)
4.9 %Cys+Met (Translated Protein)
0.3 %Cys     (Mature Protein)
4.6 %Met     (Mature Protein)
4.9 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MISMDHTPQSQLKLLLAKGKEQGYLTYAEVNDHLPADMVDSDQIEDIIQMINDMGIRVYE
CCCCCCCCHHHHHHHHHCCCCCCCEEEEECCCCCCCCCCCHHHHHHHHHHHHHCCCEEEE
QAPDADEIMMSEDSTDDDAAEEAAAALATVEAELGRTTDPVRMYMREMGTVELLTREGEI
CCCCHHHHEECCCCCCCHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHCCCCEEEECCCCE
VIAKRIEEGINTVQASVAEYPQAIAMILEQFDRYEAEEVRLSDIISGFVDPNAEDVAPTA
EEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCCCCCCH
THVGSDLSDDDLDDEDDDDDDDDDDEEEEGPKGPDPEEAKEKFTTLRVAHENALRIIADK
HHCCCCCCCCCCCCCCCCCCCCCCCCHHCCCCCCCHHHHHHHHHHHHHHHHCCCEEEECC
GRGHPESTVALFEIGEIFKEFRLMPKQFDRLVKNMRSMMDKVRVQERLIMKLCVEQAKMP
CCCCCHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC
KKNFVKVYTSNESSIEWFNEELASGKPYAEGLKVVSFDVQRCRAKLDAIETETGLAIGAI
CCCEEEEEECCCCHHHHHHHHHHCCCCHHHCCHHHHHHHHHHHHHHHHHHHHCCCCHHHH
KDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDK
HHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHCCCCHHHHHHHH
FEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREP
HHHHCCCCCHHHHHHHHHHHHHHHHHHHHHEEEEHHHHHHHHHHHHHHHHHHHHHHCCCC
SPEELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATGE
CHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHCCCEECCCCCCCCH
SLKNATHEVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKL
HHHHHHHHHHHCCHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
RHPSRSEILKSFLDE
CCCCHHHHHHHHHCC
>Mature Secondary Structure
MISMDHTPQSQLKLLLAKGKEQGYLTYAEVNDHLPADMVDSDQIEDIIQMINDMGIRVYE
CCCCCCCCHHHHHHHHHCCCCCCCEEEEECCCCCCCCCCCHHHHHHHHHHHHHCCCEEEE
QAPDADEIMMSEDSTDDDAAEEAAAALATVEAELGRTTDPVRMYMREMGTVELLTREGEI
CCCCHHHHEECCCCCCCHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHCCCCEEEECCCCE
VIAKRIEEGINTVQASVAEYPQAIAMILEQFDRYEAEEVRLSDIISGFVDPNAEDVAPTA
EEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCCCCCCCH
THVGSDLSDDDLDDEDDDDDDDDDDEEEEGPKGPDPEEAKEKFTTLRVAHENALRIIADK
HHCCCCCCCCCCCCCCCCCCCCCCCCHHCCCCCCCHHHHHHHHHHHHHHHHCCCEEEECC
GRGHPESTVALFEIGEIFKEFRLMPKQFDRLVKNMRSMMDKVRVQERLIMKLCVEQAKMP
CCCCCHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC
KKNFVKVYTSNESSIEWFNEELASGKPYAEGLKVVSFDVQRCRAKLDAIETETGLAIGAI
CCCEEEEEECCCCHHHHHHHHHHCCCCHHHCCHHHHHHHHHHHHHHHHHHHHCCCCHHHH
KDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDK
HHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHCCCCHHHHHHHH
FEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREP
HHHHCCCCCHHHHHHHHHHHHHHHHHHHHHEEEEHHHHHHHHHHHHHHHHHHHHHHCCCC
SPEELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATGE
CHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHCCCEECCCCCCCCH
SLKNATHEVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKL
HHHHHHHHHHHCCHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
RHPSRSEILKSFLDE
CCCCHHHHHHHHHCC

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: 11272828 [H]