Click here to switch to the map view.

The map label for this gene is rpoD [H]

Identifier: 220932077

GI number: 220932077

Start: 1333523

End: 1334599

Strand: Reverse

Name: rpoD [H]

Synonym: Hore_12400

Alternate gene names: 220932077

Gene position: 1334599-1333523 (Counterclockwise)

Preceding gene: 220932078

Following gene: 220932076

Centisome position: 51.77

GC content: 40.48

Gene sequence:

>1077_bases
ATGGGTAAAAATTTCAATCCAGACAAAGTTAAAGAAGTTAAGGAATTAATTAAAAAAGGTAAAGAAGAAGGCTATTTGAC
CTATGAAGAAATTATGGATTCTCTGGAAGAGATAGAACTCTCCTCTGAAGATATTGAGAAGATATATGAACTCTTTAACG
AGATGAATATAGATGTAGTTGATGATGTGGATGAAGTTGATGATGATAAAGGAGATGATGACCTGGAGTTATCTATACCG
GAAGGGGTTGGAATTGATGACCCAGTAAGGATGTATTTAAAAGAAATTGGAAAAGTACCACTTCTTACTGCTGAAGAAGA
GGTTGATCTGGCAAAAAGAATTGAACAGGGCGACGAACAGGCTAAAAGGGAATTGGTTGAAGCTAATCTAAGACTGGTTG
TTAGTATTGCTAAAAAGTATGTGGGAAGAGGTATGTCTTTCCTTGATTTGATTCAGGAAGGAAATATGGGTCTTATTAAG
GCTGTTGAAAAATTTGATTATCGTAAAGGATATAAATTTAGCACTTATGCTACCTGGTGGATTCGCCAGGCTATAACCCG
TGCTATTGCTGACCAGGCCCGTACTATACGTATCCCGGTGCATATGGTAGAAACAATTAATAAATTGATCAGGGTATCAA
GACAATTACTCCAGGAAAAGGGGCGTGAGCCTACTCCTGAGGAGATTGGTGAAGAAATGGGAATGCCGGCCGAAAAAGTC
CGGGAAATTTTAAAGATTGCCCAGGAACCGGTCTCCCTGGAAACACCTATTGGTGAAGAAGAGGATAGTCATCTTGGTGA
TTTTATTGAGGATGAAGATGCCCCAGCACCTGCCTCAGCTGCTTCATTTACTCTTTTAAGGGAACAGCTCGATGATGTGC
TGGATACACTAACAGATAGAGAAAAAAGGGTTCTTGAACTACGTTTTGGTCTGGAGGATGGCCGTCCCCGGACTCTAGAG
GAAGTTGGAAAAGAATTTGGGGTTACCAGAGAAAGAATCAGGCAGATTGAGGCCAAGGCTTTAAGGAAACTCCGGCATCC
AAGCCGTAGTAAAAAACTCAAAGATTACCTTGAGTAA

Upstream 100 bases:

>100_bases
ATAAAAAACTTCAGGAAAATAACCTTAATGTCAATAGATTAAATAAATTACTGATTAATTTTCAGAAGTTGTCAGGGAAT
CACAGAAAGGAGGGATTGTA

Downstream 100 bases:

>100_bases
TATAAAACTTATACAATATAAAAAATAGAGTATTGACGAGATATAGCAAGATATAATGAGATATGTTTGCATAAATAAAT
CAGAATAAACTTCACTATAA

Product: RpoD subfamily RNA polymerase sigma-70 subunit

Products: NA

Alternate protein names: NA

Number of amino acids: Translated: 358; Mature: 357

Protein sequence:

>358_residues
MGKNFNPDKVKEVKELIKKGKEEGYLTYEEIMDSLEEIELSSEDIEKIYELFNEMNIDVVDDVDEVDDDKGDDDLELSIP
EGVGIDDPVRMYLKEIGKVPLLTAEEEVDLAKRIEQGDEQAKRELVEANLRLVVSIAKKYVGRGMSFLDLIQEGNMGLIK
AVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQEKGREPTPEEIGEEMGMPAEKV
REILKIAQEPVSLETPIGEEEDSHLGDFIEDEDAPAPASAASFTLLREQLDDVLDTLTDREKRVLELRFGLEDGRPRTLE
EVGKEFGVTRERIRQIEAKALRKLRHPSRSKKLKDYLE

Sequences:

>Translated_358_residues
MGKNFNPDKVKEVKELIKKGKEEGYLTYEEIMDSLEEIELSSEDIEKIYELFNEMNIDVVDDVDEVDDDKGDDDLELSIP
EGVGIDDPVRMYLKEIGKVPLLTAEEEVDLAKRIEQGDEQAKRELVEANLRLVVSIAKKYVGRGMSFLDLIQEGNMGLIK
AVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQEKGREPTPEEIGEEMGMPAEKV
REILKIAQEPVSLETPIGEEEDSHLGDFIEDEDAPAPASAASFTLLREQLDDVLDTLTDREKRVLELRFGLEDGRPRTLE
EVGKEFGVTRERIRQIEAKALRKLRHPSRSKKLKDYLE
>Mature_357_residues
GKNFNPDKVKEVKELIKKGKEEGYLTYEEIMDSLEEIELSSEDIEKIYELFNEMNIDVVDDVDEVDDDKGDDDLELSIPE
GVGIDDPVRMYLKEIGKVPLLTAEEEVDLAKRIEQGDEQAKRELVEANLRLVVSIAKKYVGRGMSFLDLIQEGNMGLIKA
VEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQEKGREPTPEEIGEEMGMPAEKVR
EILKIAQEPVSLETPIGEEEDSHLGDFIEDEDAPAPASAASFTLLREQLDDVLDTLTDREKRVLELRFGLEDGRPRTLEE
VGKEFGVTRERIRQIEAKALRKLRHPSRSKKLKDYLE

Specific function: Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released. This may be 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=269, Percent_Identity=65.4275092936803, Blast_Score=359, Evalue=1e-100,
Organism=Escherichia coli, GI1789098, Length=322, Percent_Identity=41.6149068322981, Blast_Score=252, Evalue=3e-68,
Organism=Escherichia coli, GI1789871, Length=272, Percent_Identity=29.4117647058824, Blast_Score=117, Evalue=1e-27,
Organism=Escherichia coli, GI1788231, Length=202, Percent_Identity=30.1980198019802, Blast_Score=72, Evalue=8e-14,

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:   IPR007127
- InterPro:   IPR013325
- InterPro:   IPR013324
- InterPro:   IPR012760
- InterPro:   IPR011991 [H]

Pfam domain/function: PF03979 Sigma70_r1_1; PF00140 Sigma70_r1_2; PF04542 Sigma70_r2; PF04539 Sigma70_r3; PF04545 Sigma70_r4 [H]

EC number: NA

Molecular weight: Translated: 41108; Mature: 40977

Theoretical pI: Translated: 4.44; Mature: 4.44

Prosite motif: PS00715 SIGMA70_1 ; PS00716 SIGMA70_2

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.0 %Cys     (Translated Protein)
2.5 %Met     (Translated Protein)
2.5 %Cys+Met (Translated Protein)
0.0 %Cys     (Mature Protein)
2.2 %Met     (Mature Protein)
2.2 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MGKNFNPDKVKEVKELIKKGKEEGYLTYEEIMDSLEEIELSSEDIEKIYELFNEMNIDVV
CCCCCCHHHHHHHHHHHHCCCCCCCEEHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCHH
DDVDEVDDDKGDDDLELSIPEGVGIDDPVRMYLKEIGKVPLLTAEEEVDLAKRIEQGDEQ
CCHHHHCCCCCCCCEEEECCCCCCCCHHHHHHHHHHCCCCCCCCHHHHHHHHHHHCCHHH
AKRELVEANLRLVVSIAKKYVGRGMSFLDLIQEGNMGLIKAVEKFDYRKGYKFSTYATWW
HHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHCCHHHHHHHHHHHHHCCCCCHHHHHHH
IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQEKGREPTPEEIGEEMGMPAEKV
HHHHHHHHHHHHHCEEEHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHCCCHHHH
REILKIAQEPVSLETPIGEEEDSHLGDFIEDEDAPAPASAASFTLLREQLDDVLDTLTDR
HHHHHHHHCCCCCCCCCCCCCCHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHH
EKRVLELRFGLEDGRPRTLEEVGKEFGVTRERIRQIEAKALRKLRHPSRSKKLKDYLE
HHHHHHHHHCCCCCCCCHHHHHHHHHCCHHHHHHHHHHHHHHHHHCCHHHHHHHHHCC
>Mature Secondary Structure 
GKNFNPDKVKEVKELIKKGKEEGYLTYEEIMDSLEEIELSSEDIEKIYELFNEMNIDVV
CCCCCHHHHHHHHHHHHCCCCCCCEEHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCCHH
DDVDEVDDDKGDDDLELSIPEGVGIDDPVRMYLKEIGKVPLLTAEEEVDLAKRIEQGDEQ
CCHHHHCCCCCCCCEEEECCCCCCCCHHHHHHHHHHCCCCCCCCHHHHHHHHHHHCCHHH
AKRELVEANLRLVVSIAKKYVGRGMSFLDLIQEGNMGLIKAVEKFDYRKGYKFSTYATWW
HHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHCCHHHHHHHHHHHHHCCCCCHHHHHHH
IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQEKGREPTPEEIGEEMGMPAEKV
HHHHHHHHHHHHHCEEEHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHCCCHHHH
REILKIAQEPVSLETPIGEEEDSHLGDFIEDEDAPAPASAASFTLLREQLDDVLDTLTDR
HHHHHHHHCCCCCCCCCCCCCCHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHH
EKRVLELRFGLEDGRPRTLEEVGKEFGVTRERIRQIEAKALRKLRHPSRSKKLKDYLE
HHHHHHHHHCCCCCCCCHHHHHHHHHCCHHHHHHHHHHHHHHHHHCCHHHHHHHHHCC

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: 1923759 [H]