Click here to switch to the map view.

The map label for this gene is rpoD [H]

Identifier: 158335492

GI number: 158335492

Start: 2343821

End: 2344804

Strand: Direct

Name: rpoD [H]

Synonym: AM1_2340

Alternate gene names: 158335492

Gene position: 2343821-2344804 (Clockwise)

Preceding gene: 158335488

Following gene: 158335493

Centisome position: 36.04

GC content: 50.41

Gene sequence:

>984_bases
ATGTCCAATACCAAAACTAAGCAACAAGCTATCTCTGTGTCCCCGACAACAGATATGGTTCGTACCTATCTCCATGAGAT
CGGTCGAGTCCCGTTGTTGACCCATGAGGAAGAAATCGTTTTTGGTAAGCAAGTACAGGCCATGATGGCGCTTTTAGACT
TGCAGAAAACTGTAATGGATGAATTAGGGCGTGAACCTTCCTTAGAGGAGTGGGCAGAGAAAGCCAATCTTAGTCCCTCA
CAGTTGGAGCTGTCCCTGCACCAAGGACAGCAAGCCAAGCAAAAAATGATTGAAGCCAACTTGAGGCTGGTCGTGTCCGT
TGCCAAGAAGTACCAAAAGCGAAACCTAGAACTGCTAGACCTAATCCAAGAAGGCACCTTGGGATTAGAGCGCGGGGTTG
AAAAGTTTGATCCAACCCGAGGCTATAAGTTTTCAACCTATGCCTACTGGTGGATTCGACAGGCGATCACCCGTGCGATC
GCACAACAGGCTCGCACCATCCGACTGCCCATTCACATCACCGAAAAGCTCAACAAGATCAAGAAAGCTCAGCGTGAGCT
ATCGCAAAAGCTGGGGCGCAGTGCCACTCCTGCTGAAATTGCAGAAGCCTTAGAATTAGAGCCTAGCCAAATTCGAGATT
ATCTCACCATTGCTCGTCAGCCTATTTCCCTAGACCTGAGAGTGGGGGACAATCAGGACACTGAGTTGCGAGATCTACTG
GAAGATGATGGGCAATCTCCTGAGCAGTTCACGACCACTGAGGCCCTGCGGGATGATGTAAATCAATTGCTCAAAGAGCT
AACTCCCCAGCAACGGGATGTTCTAATGCTCCGGTTCGGCCTCAACAACGGTAAAGAGCTGTCTCTTGCCAAAGTCGGCC
AACAATTAAGCCTCAGCCGCGAGCGCGTTCGTCAGCTAGAACGGCAAGCCCTAGACTATCTGCGCCGTCGCAAAGGCGAA
GTGCGGGAGTATATCGCTAGCTAG

Upstream 100 bases:

>100_bases
GCCATATCGATTATTAGCATCTTGCATCATTCACTATCTAATTTGAAGTTTGATAGTCTTCATGCCAACATCACCTTCTT
AAAGGGGGTAGCTCAAGTCC

Downstream 100 bases:

>100_bases
TCTGCCTATTTCATTACTTACCCTAAAGCGCCAGTGCATCATCTGCATTGGCGCTTTACTGTATAAATCTGCCACTGGAG
ACAACACCAGGGGGACGCGG

Product: RNA polymerase sigma factor

Products: NA

Alternate protein names: NA

Number of amino acids: Translated: 327; Mature: 326

Protein sequence:

>327_residues
MSNTKTKQQAISVSPTTDMVRTYLHEIGRVPLLTHEEEIVFGKQVQAMMALLDLQKTVMDELGREPSLEEWAEKANLSPS
QLELSLHQGQQAKQKMIEANLRLVVSVAKKYQKRNLELLDLIQEGTLGLERGVEKFDPTRGYKFSTYAYWWIRQAITRAI
AQQARTIRLPIHITEKLNKIKKAQRELSQKLGRSATPAEIAEALELEPSQIRDYLTIARQPISLDLRVGDNQDTELRDLL
EDDGQSPEQFTTTEALRDDVNQLLKELTPQQRDVLMLRFGLNNGKELSLAKVGQQLSLSRERVRQLERQALDYLRRRKGE
VREYIAS

Sequences:

>Translated_327_residues
MSNTKTKQQAISVSPTTDMVRTYLHEIGRVPLLTHEEEIVFGKQVQAMMALLDLQKTVMDELGREPSLEEWAEKANLSPS
QLELSLHQGQQAKQKMIEANLRLVVSVAKKYQKRNLELLDLIQEGTLGLERGVEKFDPTRGYKFSTYAYWWIRQAITRAI
AQQARTIRLPIHITEKLNKIKKAQRELSQKLGRSATPAEIAEALELEPSQIRDYLTIARQPISLDLRVGDNQDTELRDLL
EDDGQSPEQFTTTEALRDDVNQLLKELTPQQRDVLMLRFGLNNGKELSLAKVGQQLSLSRERVRQLERQALDYLRRRKGE
VREYIAS
>Mature_326_residues
SNTKTKQQAISVSPTTDMVRTYLHEIGRVPLLTHEEEIVFGKQVQAMMALLDLQKTVMDELGREPSLEEWAEKANLSPSQ
LELSLHQGQQAKQKMIEANLRLVVSVAKKYQKRNLELLDLIQEGTLGLERGVEKFDPTRGYKFSTYAYWWIRQAITRAIA
QQARTIRLPIHITEKLNKIKKAQRELSQKLGRSATPAEIAEALELEPSQIRDYLTIARQPISLDLRVGDNQDTELRDLLE
DDGQSPEQFTTTEALRDDVNQLLKELTPQQRDVLMLRFGLNNGKELSLAKVGQQLSLSRERVRQLERQALDYLRRRKGEV
REYIAS

Specific function: Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released. This sigma factor is a component of the biological clock pathway that affects the circadian expression of a subset of ge

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=229, Percent_Identity=48.9082969432314, Blast_Score=235, Evalue=3e-63,
Organism=Escherichia coli, GI1789098, Length=299, Percent_Identity=39.7993311036789, Blast_Score=201, Evalue=5e-53,
Organism=Escherichia coli, GI1788231, Length=241, Percent_Identity=30.2904564315353, Blast_Score=73, Evalue=3e-14,
Organism=Escherichia coli, GI1789871, Length=253, Percent_Identity=24.901185770751, Blast_Score=72, Evalue=3e-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:   IPR013325
- InterPro:   IPR013324
- InterPro:   IPR017848
- InterPro:   IPR011991 [H]

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

EC number: NA

Molecular weight: Translated: 37601; Mature: 37469

Theoretical pI: Translated: 9.13; Mature: 9.13

Prosite motif: PS00715 SIGMA70_1 ; PS00867 CPSASE_2

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.0 %Cys     (Translated Protein)
2.1 %Met     (Translated Protein)
2.1 %Cys+Met (Translated Protein)
0.0 %Cys     (Mature Protein)
1.8 %Met     (Mature Protein)
1.8 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MSNTKTKQQAISVSPTTDMVRTYLHEIGRVPLLTHEEEIVFGKQVQAMMALLDLQKTVMD
CCCCCCHHHHCCCCCHHHHHHHHHHHHCCCCCEECCHHHHHHHHHHHHHHHHHHHHHHHH
ELGREPSLEEWAEKANLSPSQLELSLHQGQQAKQKMIEANLRLVVSVAKKYQKRNLELLD
HHCCCCCHHHHHHHCCCCHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHH
LIQEGTLGLERGVEKFDPTRGYKFSTYAYWWIRQAITRAIAQQARTIRLPIHITEKLNKI
HHHHCCCCHHHCHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHEEEECCHHHHHHHHH
KKAQRELSQKLGRSATPAEIAEALELEPSQIRDYLTIARQPISLDLRVGDNQDTELRDLL
HHHHHHHHHHHCCCCCHHHHHHHHCCCHHHHHHHHHHHCCCCEEEEEECCCCCHHHHHHH
EDDGQSPEQFTTTEALRDDVNQLLKELTPQQRDVLMLRFGLNNGKELSLAKVGQQLSLSR
HCCCCCCHHHHHHHHHHHHHHHHHHHHCCCHHCEEEEEECCCCCCCHHHHHHHHHHHHHH
ERVRQLERQALDYLRRRKGEVREYIAS
HHHHHHHHHHHHHHHHHHHHHHHHHCC
>Mature Secondary Structure 
SNTKTKQQAISVSPTTDMVRTYLHEIGRVPLLTHEEEIVFGKQVQAMMALLDLQKTVMD
CCCCCHHHHCCCCCHHHHHHHHHHHHCCCCCEECCHHHHHHHHHHHHHHHHHHHHHHHH
ELGREPSLEEWAEKANLSPSQLELSLHQGQQAKQKMIEANLRLVVSVAKKYQKRNLELLD
HHCCCCCHHHHHHHCCCCHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHH
LIQEGTLGLERGVEKFDPTRGYKFSTYAYWWIRQAITRAIAQQARTIRLPIHITEKLNKI
HHHHCCCCHHHCHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHEEEECCHHHHHHHHH
KKAQRELSQKLGRSATPAEIAEALELEPSQIRDYLTIARQPISLDLRVGDNQDTELRDLL
HHHHHHHHHHHCCCCCHHHHHHHHCCCHHHHHHHHHHHCCCCEEEEEECCCCCHHHHHHH
EDDGQSPEQFTTTEALRDDVNQLLKELTPQQRDVLMLRFGLNNGKELSLAKVGQQLSLSR
HCCCCCCHHHHHHHHHHHHHHHHHHHHCCCHHCEEEEEECCCCCCCHHHHHHHHHHHHHH
ERVRQLERQALDYLRRRKGEVREYIAS
HHHHHHHHHHHHHHHHHHHHHHHHHCC

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: 10.0

TargetDB status: NA

Availability: NA

References: 8665856; 1368828 [H]