Click here to switch to the map view.

The map label for this gene is rpoD [H]

Identifier: 78222633

GI number: 78222633

Start: 1588651

End: 1589631

Strand: Direct

Name: rpoD [H]

Synonym: Gmet_1421

Alternate gene names: 78222633

Gene position: 1588651-1589631 (Clockwise)

Preceding gene: 78222632

Following gene: 78222634

Centisome position: 39.74

GC content: 50.15

Gene sequence:

>981_bases
ATGGATGATTTTCTCGAAAAGGAAGCCGTTGAACCTGAAGAACATGCCGAGCGGCAACCTGACGATTTTCTGGAGCCGGA
ACCGACTTCTTTTGAATATGAGGAAGCGGAGGAAGAGGAAGAACAGGAGGAAGAGATAAAAGTCGTCGAGGTGGAACACT
TTGACGACGCGATCAAGCTTTACCTCCGGGAGATACAGAGAACAACCCTTCTTACGGCCGATGAAGAAAAGGTTCTTGCC
AGCCGGATTGCAAAGGGCGACAAAGCCGCCCGCGATAAGATGATAGAGTCCAATCTGCGTCTCGTGGTCAAGATAGCCAA
GCGGTATATCAATCGCGGGCTCCCGTTCCTTGATCTCATCGAAGAGGGGAACATGGGGCTCATCAAGGCAGTCGAGCGCT
TCAAACTGTCCAAAGAGTGTCGTTTTTCCACCTATGCCACCTGGTGGATACGCCAGTCCATTGAGCGGGCACTGGTGAAT
CAGTCGCGTACCATAAGGCTTCCGGTACACGTCTCCGATGACATCAACAAGATGCTCAAAATCACCCGCGAGTTAGTCAA
TCGGTTCAACCGTGAACCGACGGTCAAAGAAGTGGCAACCGAGATGAATGTCAACTCGGCATACATTCGGCGACTCATGG
TTCTACTCAAAAAAACCTATTCTATTGAACGGCCCATGGGAGAGAACAGCGATTATTTCCTTATCGACACCATTGAGGAT
ACCTCGTCGGTTTCACCGGCGGTGCTGCTTGAAGATCTGAACAAGTATGAGATTGTCTCCAAATGGTTTGCGTCGCTCTC
AGAGAACGAGCAGAAGATTCTTACCCTGCGTTTCGGGCTTGAAGACAAGGAACCTCAGACCCTTGACACGATCGGGCGGA
GCTTTGGGGTTACCCGTGAGCGAATTCGCCAGATAGAGGCGAAATCTCTCGAAAAGCTCAGAAAATACATCGATAACAGT
GATGGAAGTGCAATCGAGTGA

Upstream 100 bases:

>100_bases
GAAAATGTAACAGGATGCAGATTCGTTAAACTGGTGGGCAAATACGGATGGGGTACTGAAGAGTAAGCGGCTAAATCTGC
TTTGCTGAACGGGGAAGAAC

Downstream 100 bases:

>100_bases
TTGATTTTGAATTCTGTGGAGGGTAGGGAATGGATGAACTCAAAAATATAATACGTGACATACCCGATTTCCCCAAAAAA
GGGATTGTCTTTAAGGATAT

Product: sigma 28 (flagella/sporulation)

Products: NA

Alternate protein names: Sigma-42 [H]

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

Protein sequence:

>326_residues
MDDFLEKEAVEPEEHAERQPDDFLEPEPTSFEYEEAEEEEEQEEEIKVVEVEHFDDAIKLYLREIQRTTLLTADEEKVLA
SRIAKGDKAARDKMIESNLRLVVKIAKRYINRGLPFLDLIEEGNMGLIKAVERFKLSKECRFSTYATWWIRQSIERALVN
QSRTIRLPVHVSDDINKMLKITRELVNRFNREPTVKEVATEMNVNSAYIRRLMVLLKKTYSIERPMGENSDYFLIDTIED
TSSVSPAVLLEDLNKYEIVSKWFASLSENEQKILTLRFGLEDKEPQTLDTIGRSFGVTRERIRQIEAKSLEKLRKYIDNS
DGSAIE

Sequences:

>Translated_326_residues
MDDFLEKEAVEPEEHAERQPDDFLEPEPTSFEYEEAEEEEEQEEEIKVVEVEHFDDAIKLYLREIQRTTLLTADEEKVLA
SRIAKGDKAARDKMIESNLRLVVKIAKRYINRGLPFLDLIEEGNMGLIKAVERFKLSKECRFSTYATWWIRQSIERALVN
QSRTIRLPVHVSDDINKMLKITRELVNRFNREPTVKEVATEMNVNSAYIRRLMVLLKKTYSIERPMGENSDYFLIDTIED
TSSVSPAVLLEDLNKYEIVSKWFASLSENEQKILTLRFGLEDKEPQTLDTIGRSFGVTRERIRQIEAKSLEKLRKYIDNS
DGSAIE
>Mature_326_residues
MDDFLEKEAVEPEEHAERQPDDFLEPEPTSFEYEEAEEEEEQEEEIKVVEVEHFDDAIKLYLREIQRTTLLTADEEKVLA
SRIAKGDKAARDKMIESNLRLVVKIAKRYINRGLPFLDLIEEGNMGLIKAVERFKLSKECRFSTYATWWIRQSIERALVN
QSRTIRLPVHVSDDINKMLKITRELVNRFNREPTVKEVATEMNVNSAYIRRLMVLLKKTYSIERPMGENSDYFLIDTIED
TSSVSPAVLLEDLNKYEIVSKWFASLSENEQKILTLRFGLEDKEPQTLDTIGRSFGVTRERIRQIEAKSLEKLRKYIDNS
DGSAIE

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: Non_Essential [C]

Operon status: Not Known

Operon components: None

Similarity: Belongs to the sigma-70 factor family [H]

Homologues:

Organism=Escherichia coli, GI1789098, Length=300, Percent_Identity=43.3333333333333, Blast_Score=249, Evalue=1e-67,
Organism=Escherichia coli, GI1789448, Length=258, Percent_Identity=45.3488372093023, Blast_Score=221, Evalue=5e-59,
Organism=Escherichia coli, GI1789871, Length=275, Percent_Identity=30.1818181818182, Blast_Score=104, Evalue=7e-24,

Paralogues:

None

Copy number: <10 (log phase) 250 (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: 38076; Mature: 38076

Theoretical pI: Translated: 4.63; Mature: 4.63

Prosite motif: PS00715 SIGMA70_1

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.3 %Cys     (Translated Protein)
2.1 %Met     (Translated Protein)
2.5 %Cys+Met (Translated Protein)
0.3 %Cys     (Mature Protein)
2.1 %Met     (Mature Protein)
2.5 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MDDFLEKEAVEPEEHAERQPDDFLEPEPTSFEYEEAEEEEEQEEEIKVVEVEHFDDAIKL
CCCHHHHHCCCCHHHHCCCCCCCCCCCCCCCCCHHHHHHHHHHHHEEEEEHHHHHHHHHH
YLREIQRTTLLTADEEKVLASRIAKGDKAARDKMIESNLRLVVKIAKRYINRGLPFLDLI
HHHHHHHHHHCCCCHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHH
EEGNMGLIKAVERFKLSKECRFSTYATWWIRQSIERALVNQSRTIRLPVHVSDDINKMLK
HCCCCHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHCCCCEEEEEEECCHHHHHHHH
ITRELVNRFNREPTVKEVATEMNVNSAYIRRLMVLLKKTYSIERPMGENSDYFLIDTIED
HHHHHHHHHCCCCHHHHHHHHCCCCHHHHHHHHHHHHHHHHHCCCCCCCCCEEEEEECCC
TSSVSPAVLLEDLNKYEIVSKWFASLSENEQKILTLRFGLEDKEPQTLDTIGRSFGVTRE
CCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEEEECCCCCCCHHHHHHHHHHCCCHH
RIRQIEAKSLEKLRKYIDNSDGSAIE
HHHHHHHHHHHHHHHHHCCCCCCCCC
>Mature Secondary Structure
MDDFLEKEAVEPEEHAERQPDDFLEPEPTSFEYEEAEEEEEQEEEIKVVEVEHFDDAIKL
CCCHHHHHCCCCHHHHCCCCCCCCCCCCCCCCCHHHHHHHHHHHHEEEEEHHHHHHHHHH
YLREIQRTTLLTADEEKVLASRIAKGDKAARDKMIESNLRLVVKIAKRYINRGLPFLDLI
HHHHHHHHHHCCCCHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHH
EEGNMGLIKAVERFKLSKECRFSTYATWWIRQSIERALVNQSRTIRLPVHVSDDINKMLK
HCCCCHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHCCCCEEEEEEECCHHHHHHHH
ITRELVNRFNREPTVKEVATEMNVNSAYIRRLMVLLKKTYSIERPMGENSDYFLIDTIED
HHHHHHHHHCCCCHHHHHHHHCCCCHHHHHHHHHHHHHHHHHCCCCCCCCCEEEEEECCC
TSSVSPAVLLEDLNKYEIVSKWFASLSENEQKILTLRFGLEDKEPQTLDTIGRSFGVTRE
CCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEEEECCCCCCCHHHHHHHHHHCCCHH
RIRQIEAKSLEKLRKYIDNSDGSAIE
HHHHHHHHHHHHHHHHHCCCCCCCCC

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: 8914262; 12663927 [H]