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The map label for this gene is rpoD [H]

Identifier: 117921525

GI number: 117921525

Start: 3699560

End: 3701419

Strand: Direct

Name: rpoD [H]

Synonym: Shewana3_3087

Alternate gene names: 117921525

Gene position: 3699560-3701419 (Clockwise)

Preceding gene: 117921524

Following gene: 117921527

Centisome position: 74.4

GC content: 48.39

Gene sequence:

>1860_bases
ATGATATCTATGGATCATACTCCGCAGTCGCAACTCAAGCTGTTGCTTGCCAAAGGTAAAGAGCAAGGTTACTTAACCTA
TGCAGAAGTGAACGATCACTTACCTGCAGACATGGTCGATTCTGACCAGATCGAAGATATTATCCAGATGATAAATGACA
TGGGTATTCGGGTGTTCGAAGAAGCACCAGATGCCGATGACATGATGATGTCGGAAGACAACACAGACGAAGATGCAGCG
GAAGAAGCCGCAGCCGCCCTTGCCACAGTAGAAAGTGAGCTAGGCCGCACCACAGACCCAGTGCGTATGTACATGCGCGA
AATGGGTACCGTTGAACTGCTTACCCGTGAAGGCGAAATCGTTATCGCCAAACGCATCGAAGAAGGCATCAACACAGTTC
AAAGCTCTGTCGCCGAATACCCACAAGCGATCGCCATGATCCTTGAGCAGTACGACCAGTACGAAGCCGACGAACTGCGC
CTGTCTGATATTATCTCTGGATTTGTTAACCCGGACGAAGAAGACCTAGGTCCAACCGCGACTCATATCGGTTCTGAATT
ATCGGAAGAAGATCTCGATGATGAAGATGACGATGAAGACGACGAAGACGAAGACGGTGATGGCGAAGGCGATGACGATG
GCAACAAGGGACCCGATCCTGAAGAAGCGCGTGAACGCTTTAGCCAATTAAGAACCGCCTACGAAAACGCGCTTAAGATC
ATCGATGCCAAAGGTCGTGAACACCCAGAATCGATTCAAGCACTGTTTGAAATCGGCGAGATTTTCAAAGAGTTCCGCCT
CGTACCTAAGCAATTCGACCGCTTAGTGAAAAGCATGCGTTCTATGATGGACCGAGTGCGCGTTCAAGAGCGTCTACTGA
TGAAGCTCTGTGTCGAACAGGCCAAAATGCCGAAGAAGAACTTTGTTAAATTCTTCACCGGTAACGAAACCAATCTCGAT
TGGTTCGATGCAGAAAAGAACTCAACTAAGCCTTATGCCGAAGGCTTAAGAATGGTTGAAGAAGACGTTCAGCGTTGCCG
TAGCAAGCTGGCCGCCATCGAAGAAGAAACCGGCTTAGTGATTGCCGCCATTAAAGATATCAACCGTCGTATGTCAATCG
GTGAAGCCAAGGCTCGCCGTGCGAAGAAAGAAATGGTTGAAGCAAACTTACGTCTGGTAATTTCTATCGCGAAGAAATAC
ACCAACCGTGGTCTGCAATTCTTGGACCTTATCCAAGAAGGTAACATAGGTCTGATGAAGGCCGTTGATAAGTTCGAATA
CCGTCGTGGTTACAAGTTCTCGACCTATGCGACTTGGTGGATCCGTCAGGCTATCACCCGCTCAATCGCGGACCAAGCCC
GTACGATCCGTATTCCAGTACATATGATCGAAACCATCAACAAGCTGAACCGTATCTCTCGTCAAATGCTGCAGGAAATG
GGTCGTGAACCCTCACCTGAAGAACTGGCAGAGCGTATGATGATGCCGGAAGATAAGATCCGTAAGGTACTGAAAATCGC
TAAAGAACCTATCTCCATGGAAACCCCAATCGGTGACGATGAAGATTCGCATTTAGGTGATTTTATCGAGGATACTACCC
TCGAATTACCACTGGACAGCGCCACCAGCGAAAGCCTGAAGAGCGCCACCCATGAGGTTTTAGCAGGCTTAACAGCCCGT
GAAGCGAAAGTACTGCGTATGCGTTTTGGTATCGATATGAATACCGACCACACGCTAGAAGAAGTGGGTAAACAATTTGA
CGTAACCCGTGAGCGTATCCGTCAAATCGAGGCGAAAGCCCTACGTAAACTGCGCCACCCTTCACGTTCGGAAATCTTAA
AGTCGTTCTTAGACGAATAG

Upstream 100 bases:

>100_bases
CAGTGACTAGCACAGGTAAGTGCACATGGCTATAATTGACGATTTGCGCGGCACTTAGCACAAGCTAACTGTCCGTCGTT
GTAACAGTTTCCCAACTTGG

Downstream 100 bases:

>100_bases
TCAACCGAAGCATCGATTCTAAGCCCCGCCTAGCGGGGCTTTTTATTGCCCAATTAACATCCCTTAAAATTCCCCCTGAA
TAGCCATTGCTAAGCTCTCT

Product: RNA polymerase, sigma 70 subunit, RpoD

Products: NA

Alternate protein names: Sigma-70 [H]

Number of amino acids: Translated: 619; Mature: 619

Protein sequence:

>619_residues
MISMDHTPQSQLKLLLAKGKEQGYLTYAEVNDHLPADMVDSDQIEDIIQMINDMGIRVFEEAPDADDMMMSEDNTDEDAA
EEAAAALATVESELGRTTDPVRMYMREMGTVELLTREGEIVIAKRIEEGINTVQSSVAEYPQAIAMILEQYDQYEADELR
LSDIISGFVNPDEEDLGPTATHIGSELSEEDLDDEDDDEDDEDEDGDGEGDDDGNKGPDPEEARERFSQLRTAYENALKI
IDAKGREHPESIQALFEIGEIFKEFRLVPKQFDRLVKSMRSMMDRVRVQERLLMKLCVEQAKMPKKNFVKFFTGNETNLD
WFDAEKNSTKPYAEGLRMVEEDVQRCRSKLAAIEEETGLVIAAIKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKY
TNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEM
GREPSPEELAERMMMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSESLKSATHEVLAGLTAR
EAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEILKSFLDE

Sequences:

>Translated_619_residues
MISMDHTPQSQLKLLLAKGKEQGYLTYAEVNDHLPADMVDSDQIEDIIQMINDMGIRVFEEAPDADDMMMSEDNTDEDAA
EEAAAALATVESELGRTTDPVRMYMREMGTVELLTREGEIVIAKRIEEGINTVQSSVAEYPQAIAMILEQYDQYEADELR
LSDIISGFVNPDEEDLGPTATHIGSELSEEDLDDEDDDEDDEDEDGDGEGDDDGNKGPDPEEARERFSQLRTAYENALKI
IDAKGREHPESIQALFEIGEIFKEFRLVPKQFDRLVKSMRSMMDRVRVQERLLMKLCVEQAKMPKKNFVKFFTGNETNLD
WFDAEKNSTKPYAEGLRMVEEDVQRCRSKLAAIEEETGLVIAAIKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKY
TNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEM
GREPSPEELAERMMMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSESLKSATHEVLAGLTAR
EAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEILKSFLDE
>Mature_619_residues
MISMDHTPQSQLKLLLAKGKEQGYLTYAEVNDHLPADMVDSDQIEDIIQMINDMGIRVFEEAPDADDMMMSEDNTDEDAA
EEAAAALATVESELGRTTDPVRMYMREMGTVELLTREGEIVIAKRIEEGINTVQSSVAEYPQAIAMILEQYDQYEADELR
LSDIISGFVNPDEEDLGPTATHIGSELSEEDLDDEDDDEDDEDEDGDGEGDDDGNKGPDPEEARERFSQLRTAYENALKI
IDAKGREHPESIQALFEIGEIFKEFRLVPKQFDRLVKSMRSMMDRVRVQERLLMKLCVEQAKMPKKNFVKFFTGNETNLD
WFDAEKNSTKPYAEGLRMVEEDVQRCRSKLAAIEEETGLVIAAIKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKY
TNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEM
GREPSPEELAERMMMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATSESLKSATHEVLAGLTAR
EAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEILKSFLDE

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=617, Percent_Identity=78.1199351701783, Blast_Score=945, Evalue=0.0,
Organism=Escherichia coli, GI1789098, Length=237, Percent_Identity=43.4599156118143, Blast_Score=211, Evalue=1e-55,
Organism=Escherichia coli, GI1789871, Length=242, Percent_Identity=28.099173553719, Blast_Score=89, Evalue=1e-18,
Organism=Escherichia coli, GI1788231, Length=202, Percent_Identity=27.7227722772277, Blast_Score=65, Evalue=1e-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: 70724; Mature: 70724

Theoretical pI: Translated: 4.41; Mature: 4.41

Prosite motif: PS00715 SIGMA70_1 ; PS00716 SIGMA70_2

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.3 %Cys     (Translated Protein)
4.8 %Met     (Translated Protein)
5.2 %Cys+Met (Translated Protein)
0.3 %Cys     (Mature Protein)
4.8 %Met     (Mature Protein)
5.2 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MISMDHTPQSQLKLLLAKGKEQGYLTYAEVNDHLPADMVDSDQIEDIIQMINDMGIRVFE
CCCCCCCCHHHHHHHHHCCCCCCCEEEEECCCCCCCCCCCHHHHHHHHHHHHHCCCEEEC
EAPDADDMMMSEDNTDEDAAEEAAAALATVESELGRTTDPVRMYMREMGTVELLTREGEI
CCCCHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHCCCCEEEECCCCE
VIAKRIEEGINTVQSSVAEYPQAIAMILEQYDQYEADELRLSDIISGFVNPDEEDLGPTA
EEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHCCCCCHHHCCCHH
THIGSELSEEDLDDEDDDEDDEDEDGDGEGDDDGNKGPDPEEARERFSQLRTAYENALKI
HHHHHHCCHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHH
IDAKGREHPESIQALFEIGEIFKEFRLVPKQFDRLVKSMRSMMDRVRVQERLLMKLCVEQ
HHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
AKMPKKNFVKFFTGNETNLDWFDAEKNSTKPYAEGLRMVEEDVQRCRSKLAAIEEETGLV
HHCCHHHHHEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCEE
IAAIKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMK
EHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHCCCCHHHH
AVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEM
HHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHEEEHHHHHHHHHHHHHHHHHHHHHHH
GREPSPEELAERMMMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDS
CCCCCHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHCCCEECCCCC
ATSESLKSATHEVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKA
CHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHH
LRKLRHPSRSEILKSFLDE
HHHHCCCCHHHHHHHHHCC
>Mature Secondary Structure
MISMDHTPQSQLKLLLAKGKEQGYLTYAEVNDHLPADMVDSDQIEDIIQMINDMGIRVFE
CCCCCCCCHHHHHHHHHCCCCCCCEEEEECCCCCCCCCCCHHHHHHHHHHHHHCCCEEEC
EAPDADDMMMSEDNTDEDAAEEAAAALATVESELGRTTDPVRMYMREMGTVELLTREGEI
CCCCHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHCCCCEEEECCCCE
VIAKRIEEGINTVQSSVAEYPQAIAMILEQYDQYEADELRLSDIISGFVNPDEEDLGPTA
EEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHCCCCCHHHCCCHH
THIGSELSEEDLDDEDDDEDDEDEDGDGEGDDDGNKGPDPEEARERFSQLRTAYENALKI
HHHHHHCCHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHH
IDAKGREHPESIQALFEIGEIFKEFRLVPKQFDRLVKSMRSMMDRVRVQERLLMKLCVEQ
HHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
AKMPKKNFVKFFTGNETNLDWFDAEKNSTKPYAEGLRMVEEDVQRCRSKLAAIEEETGLV
HHCCHHHHHEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCEE
IAAIKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMK
EHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHCCCCHHHH
AVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEM
HHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHEEEHHHHHHHHHHHHHHHHHHHHHHH
GREPSPEELAERMMMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDS
CCCCCHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHCCCEECCCCC
ATSESLKSATHEVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKA
CHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHH
LRKLRHPSRSEILKSFLDE
HHHHCCCCHHHHHHHHHCC

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: 11272828 [H]