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The map label for this gene is rpoD2 [H]

Identifier: 78780107

GI number: 78780107

Start: 1609076

End: 1610110

Strand: Reverse

Name: rpoD2 [H]

Synonym: PMT9312_1722

Alternate gene names: 78780107

Gene position: 1610110-1609076 (Counterclockwise)

Preceding gene: 78780108

Following gene: 78780105

Centisome position: 94.2

GC content: 36.04

Gene sequence:

>1035_bases
ATGGTATTGTTTACAAAACAACATTCAATTTTCATGTCTTCTGAAACATTAAGTGAGAATAAATTAGCAACAATATCAAG
TTTAAAGGCTAGTAATGATGTTGACCTTGTTAGATCTTATTTAAGAGATATAGGTAGAGTTCCTCTATTATCTCACGAGC
AAGAAATTACTCTTGGTAGGCAAGTCCAAGAATATATGCAAGTTGAAAGAGCAGAATTGGAAATTATTGAATTAACAGGA
GATAAGCCAAGTATTGAGGAATTATCTAGCAAATTAAATTTATCAATTCCAATAATCAAGAAACGATTGCGAGCTGGACA
AAGGGCTAAAGAAAGAATGGTTGCCGCTAATTTAAGGTTGGTAGTAAGTGTTGCAAAAAAATATACTAAAAGAAATATGG
AATTATTAGATTTAATCCAGGAGGGAACTATAGGGCTTGTAAGGGGTGTAGAAAAATTTGATCCAGCTAGAGGCTACAAG
TTTTCAACATATGCATACTGGTGGATTAGACAAGGCATTACTAGAGCGATAGCTGAAAAAAGTAGGGCAATAAGGCTTCC
AATTCACATAACTGAAATGTTGAATAAGTTGAAAAAAGGTCAAAGAGAGTTGAGTCAAGAAATGTCTAGAACTCCAACAG
TGAGTGAACTTGCTAAATACGTAGAGCTTCCTGAAGAAGATGTTAAAGATTTGATGTGCAAAGCTGGACAGCCAGTTAGT
CTGGAAACAAAAGTTGGCGATGGTGAAGACACTGTCTTATTAGATTTACTAGCAGGCGGCGAGGATTTGCCAGACGAGCA
AATAGAGATGGATTGTATGAGAGGCGATCTTCATTCTCTTTTGCATCAATTACCAGACCTGCAATGTAGAGTTTTAAGAA
TGAGATATGGAATGGATGGTGATGAGCCAATGTCTCTTACAGGTATAGGAAGAGTACTAGGAATAAGTAGGGATAGAGTA
AGAAACCTAGAACGAGATGGATTAAGAGGTTTGAGAAGACTTAGTGATAATGTAGAAGCCTATTTTGTTTCCTGA

Upstream 100 bases:

>100_bases
CAAAATGGCTATTAAGCCTTTCGTTGATTTAAAATCAACTAGGTATTTATTCTCATTTTTGTAAATTTGTGGATTTTTTT
GTTTAACTTTACAATTCTTA

Downstream 100 bases:

>100_bases
AGAAATTCACATATTAACTTATTGGTTTCTTCAGGTTTTTCATCATGGGGACAATGACCAGCATCTTTAATAATATCTAA
TCTTTTGATATTCCTGAATT

Product: type II alternative sigma-70 family RNA polymerase sigma factor

Products: NA

Alternate protein names: NA

Number of amino acids: Translated: 344; Mature: 344

Protein sequence:

>344_residues
MVLFTKQHSIFMSSETLSENKLATISSLKASNDVDLVRSYLRDIGRVPLLSHEQEITLGRQVQEYMQVERAELEIIELTG
DKPSIEELSSKLNLSIPIIKKRLRAGQRAKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPARGYK
FSTYAYWWIRQGITRAIAEKSRAIRLPIHITEMLNKLKKGQRELSQEMSRTPTVSELAKYVELPEEDVKDLMCKAGQPVS
LETKVGDGEDTVLLDLLAGGEDLPDEQIEMDCMRGDLHSLLHQLPDLQCRVLRMRYGMDGDEPMSLTGIGRVLGISRDRV
RNLERDGLRGLRRLSDNVEAYFVS

Sequences:

>Translated_344_residues
MVLFTKQHSIFMSSETLSENKLATISSLKASNDVDLVRSYLRDIGRVPLLSHEQEITLGRQVQEYMQVERAELEIIELTG
DKPSIEELSSKLNLSIPIIKKRLRAGQRAKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPARGYK
FSTYAYWWIRQGITRAIAEKSRAIRLPIHITEMLNKLKKGQRELSQEMSRTPTVSELAKYVELPEEDVKDLMCKAGQPVS
LETKVGDGEDTVLLDLLAGGEDLPDEQIEMDCMRGDLHSLLHQLPDLQCRVLRMRYGMDGDEPMSLTGIGRVLGISRDRV
RNLERDGLRGLRRLSDNVEAYFVS
>Mature_344_residues
MVLFTKQHSIFMSSETLSENKLATISSLKASNDVDLVRSYLRDIGRVPLLSHEQEITLGRQVQEYMQVERAELEIIELTG
DKPSIEELSSKLNLSIPIIKKRLRAGQRAKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPARGYK
FSTYAYWWIRQGITRAIAEKSRAIRLPIHITEMLNKLKKGQRELSQEMSRTPTVSELAKYVELPEEDVKDLMCKAGQPVS
LETKVGDGEDTVLLDLLAGGEDLPDEQIEMDCMRGDLHSLLHQLPDLQCRVLRMRYGMDGDEPMSLTGIGRVLGISRDRV
RNLERDGLRGLRRLSDNVEAYFVS

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=242, Percent_Identity=45.0413223140496, Blast_Score=224, Evalue=6e-60,
Organism=Escherichia coli, GI1789098, Length=333, Percent_Identity=36.3363363363363, Blast_Score=196, Evalue=1e-51,
Organism=Escherichia coli, GI1789871, Length=249, Percent_Identity=24.0963855421687, Blast_Score=66, Evalue=4e-12,

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: 39100; Mature: 39100

Theoretical pI: Translated: 7.55; Mature: 7.55

Prosite motif: PS00715 SIGMA70_1

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.9 %Cys     (Translated Protein)
3.8 %Met     (Translated Protein)
4.7 %Cys+Met (Translated Protein)
0.9 %Cys     (Mature Protein)
3.8 %Met     (Mature Protein)
4.7 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MVLFTKQHSIFMSSETLSENKLATISSLKASNDVDLVRSYLRDIGRVPLLSHEQEITLGR
CEEEECCCCEEEECCCCCCCCHHHHHHHCCCCCHHHHHHHHHHHCCCCCCCCCHHHHHHH
QVQEYMQVERAELEIIELTGDKPSIEELSSKLNLSIPIIKKRLRAGQRAKERMVAANLRL
HHHHHHHHHHHHEEEEEECCCCCCHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
VVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPARGYKFSTYAYWWIRQGITRAIAEK
HHHHHHHHHHCCHHHHHHHHHCCHHHHHCHHHCCCCCCCEEHHHHHHHHHHHHHHHHHHC
SRAIRLPIHITEMLNKLKKGQRELSQEMSRTPTVSELAKYVELPEEDVKDLMCKAGQPVS
CCEEECCCHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHCCHHHHHHHHHCCCCCCE
LETKVGDGEDTVLLDLLAGGEDLPDEQIEMDCMRGDLHSLLHQLPDLQCRVLRMRYGMDG
EEECCCCCCCCEEEEEECCCCCCCHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHCCCC
DEPMSLTGIGRVLGISRDRVRNLERDGLRGLRRLSDNVEAYFVS
CCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHHHCCCCEEEEEC
>Mature Secondary Structure
MVLFTKQHSIFMSSETLSENKLATISSLKASNDVDLVRSYLRDIGRVPLLSHEQEITLGR
CEEEECCCCEEEECCCCCCCCHHHHHHHCCCCCHHHHHHHHHHHCCCCCCCCCHHHHHHH
QVQEYMQVERAELEIIELTGDKPSIEELSSKLNLSIPIIKKRLRAGQRAKERMVAANLRL
HHHHHHHHHHHHEEEEEECCCCCCHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
VVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPARGYKFSTYAYWWIRQGITRAIAEK
HHHHHHHHHHCCHHHHHHHHHCCHHHHHCHHHCCCCCCCEEHHHHHHHHHHHHHHHHHHC
SRAIRLPIHITEMLNKLKKGQRELSQEMSRTPTVSELAKYVELPEEDVKDLMCKAGQPVS
CCEEECCCHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHCCHHHHHHHHHCCCCCCE
LETKVGDGEDTVLLDLLAGGEDLPDEQIEMDCMRGDLHSLLHQLPDLQCRVLRMRYGMDG
EEECCCCCCCCEEEEEECCCCCCCHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHCCCC
DEPMSLTGIGRVLGISRDRVRNLERDGLRGLRRLSDNVEAYFVS
CCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHHHCCCCEEEEEC

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]