Click here to switch to the map view.

The map label for this gene is rpoD [H]

Identifier: 170078618

GI number: 170078618

Start: 2091756

End: 2092883

Strand: Direct

Name: rpoD [H]

Synonym: SYNPCC7002_A2014

Alternate gene names: 170078618

Gene position: 2091756-2092883 (Clockwise)

Preceding gene: 170078615

Following gene: 170078619

Centisome position: 69.54

GC content: 50.44

Gene sequence:

>1128_bases
ATGACCCAAGCGACGAACCCCGTACTGGATCAGACTCGGAATGAGGGTGATATTGATTACAGTGCCCTTGCGGAAGCGCA
AATTAAAGAAGGTACCGACTATGTAGAACTTACCCTCCCCACGAAAAAAAGTCGGAAAGCAAAAACCAGTCGTCGTAAGG
AAACTGCCACCAAGAAAAAACCCTACACCGAAGACTCGATTCGGATTTACCTCCAAGAAATTGGCCGGATTCGTCTGCTG
CGGGCTGAAGAAGAAATTGAGCTGGCCCGGAAAATTGCTGATTTGCTCGAACTAGAGCGGATGCGGGAACAACTCACCGA
GCATGAGTCTCGCGTTCCTACGGACAAAGAGTGGGCCGAAGCCGCTGGGATGCCCCTCAAAGATTTTCGGCGTCGCTTGT
TCCATGGTCGCCGTGCCAAAGACAAAATGGTGCAATCAAACCTCCGTCTGGTGGTCTCTATTGCGAAAAAATATATGAAC
CGCGGCCTTTCGTTTCAGGACTTGATCCAAGAGGGTTCTTTGGGTCTGATCCGTGCCGCCGAAAAGTTTGACCACGAAAA
AGGTTATAAGTTCTCTACCTACGCGACCTGGTGGATTCGTCAGGCTATTACGCGGGCGATCGCCGATCAATCCCGGACCA
TTCGTCTGCCTGTTCACCTCTACGAAACCATTTCCCGCATCAAAAAAACCACCAAGATTCTTTCCCAAGAATTAGGCCGC
AAACCCACCGAGGAAGAGATTGCTGAGCGCATGGAAATGACCATCGAAAAACTGCGCTTCATCGCCAAGTCTGCCCAGTT
ACCGATTTCCCTCGAAACGCCGATTGGTAAAGAAGAAGATTCTCGCTTGGGTGACTTCATCGAAGCCGATGGGGAAACTC
CAGAAGATCAAGTCTCCAAGAGCCTCCTGCGGGAAGATCTAGAAAACGTGCTTGATACCCTCAGTGCCCGTGAGCGTGAT
GTTCTCCGTCTCCGTTATGGCTTGGATGATGGCCGCATGAAAACCCTCGAAGAAATTGGCCAAATTTTTAACGTAACCCG
TGAACGGATTCGCCAGATCGAAGCAAAAGCGCTGCGTAAACTGCGTCACCCGAACCGCAACAGCATCCTGAAAGAATATA
TCCGCTAG

Upstream 100 bases:

>100_bases
GTAGGGAAAACCTCGACTTCGACAGAATCATTCTGTTTGCTAGAAGTCTCCATTGAATGTCCATTTAGTTGCTTTTTTAA
ACGAACAAGAGGAAATAGGC

Downstream 100 bases:

>100_bases
GCCATATTCAGCCTCAATCTTTAAAAGCTGAATACTGAGAACATAAAATTTTAGAATTACCCTGCCAGTCGGTGGGGTTT
TTTATTGCTCAATTTTCCCG

Product: RNA polymerase sigma factor

Products: NA

Alternate protein names: Sigma-A [H]

Number of amino acids: Translated: 375; Mature: 374

Protein sequence:

>375_residues
MTQATNPVLDQTRNEGDIDYSALAEAQIKEGTDYVELTLPTKKSRKAKTSRRKETATKKKPYTEDSIRIYLQEIGRIRLL
RAEEEIELARKIADLLELERMREQLTEHESRVPTDKEWAEAAGMPLKDFRRRLFHGRRAKDKMVQSNLRLVVSIAKKYMN
RGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKILSQELGR
KPTEEEIAERMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEADGETPEDQVSKSLLREDLENVLDTLSARERD
VLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLRHPNRNSILKEYIR

Sequences:

>Translated_375_residues
MTQATNPVLDQTRNEGDIDYSALAEAQIKEGTDYVELTLPTKKSRKAKTSRRKETATKKKPYTEDSIRIYLQEIGRIRLL
RAEEEIELARKIADLLELERMREQLTEHESRVPTDKEWAEAAGMPLKDFRRRLFHGRRAKDKMVQSNLRLVVSIAKKYMN
RGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKILSQELGR
KPTEEEIAERMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEADGETPEDQVSKSLLREDLENVLDTLSARERD
VLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLRHPNRNSILKEYIR
>Mature_374_residues
TQATNPVLDQTRNEGDIDYSALAEAQIKEGTDYVELTLPTKKSRKAKTSRRKETATKKKPYTEDSIRIYLQEIGRIRLLR
AEEEIELARKIADLLELERMREQLTEHESRVPTDKEWAEAAGMPLKDFRRRLFHGRRAKDKMVQSNLRLVVSIAKKYMNR
GLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKILSQELGRK
PTEEEIAERMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEADGETPEDQVSKSLLREDLENVLDTLSARERDV
LRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLRHPNRNSILKEYIR

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=254, Percent_Identity=58.6614173228346, Blast_Score=301, Evalue=5e-83,
Organism=Escherichia coli, GI1789098, Length=236, Percent_Identity=44.0677966101695, Blast_Score=199, Evalue=3e-52,
Organism=Escherichia coli, GI1789871, Length=249, Percent_Identity=29.718875502008, Blast_Score=89, Evalue=4e-19,
Organism=Escherichia coli, GI1788231, Length=206, Percent_Identity=31.0679611650485, Blast_Score=76, Evalue=3e-15,

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:   IPR012760
- 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: 43741; Mature: 43610

Theoretical pI: Translated: 9.95; Mature: 9.95

Prosite motif: PS00715 SIGMA70_1 ; PS00716 SIGMA70_2

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.0 %Cys     (Translated Protein)
2.1 %Met     (Translated Protein)
2.1 %Cys+Met (Translated Protein)
0.0 %Cys     (Mature Protein)
1.9 %Met     (Mature Protein)
1.9 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MTQATNPVLDQTRNEGDIDYSALAEAQIKEGTDYVELTLPTKKSRKAKTSRRKETATKKK
CCCCCCCHHHHCCCCCCCCHHHHHHHHHHCCCCEEEEECCCCHHHHHHHHHHHHHHHHCC
PYTEDSIRIYLQEIGRIRLLRAEEEIELARKIADLLELERMREQLTEHESRVPTDKEWAE
CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHH
AAGMPLKDFRRRLFHGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAA
HCCCCHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHCCCCHHHHHH
EKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKILSQELGR
HHHHHHCCCCCHHHHHHHHHHHHHHHHHCCCCEEEEHHHHHHHHHHHHHHHHHHHHHHCC
KPTEEEIAERMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEADGETPEDQVSK
CCCHHHHHHHHHHHHHHHHHHHHHCCCCEEECCCCCCCCHHHHHHHHHCCCCCCHHHHHH
SLLREDLENVLDTLSARERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRK
HHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
LRHPNRNSILKEYIR
HHCCCHHHHHHHHHC
>Mature Secondary Structure 
TQATNPVLDQTRNEGDIDYSALAEAQIKEGTDYVELTLPTKKSRKAKTSRRKETATKKK
CCCCCCHHHHCCCCCCCCHHHHHHHHHHCCCCEEEEECCCCHHHHHHHHHHHHHHHHCC
PYTEDSIRIYLQEIGRIRLLRAEEEIELARKIADLLELERMREQLTEHESRVPTDKEWAE
CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHH
AAGMPLKDFRRRLFHGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAA
HCCCCHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHCCCCHHHHHH
EKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKILSQELGR
HHHHHHCCCCCHHHHHHHHHHHHHHHHHCCCCEEEEHHHHHHHHHHHHHHHHHHHHHHCC
KPTEEEIAERMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEADGETPEDQVSK
CCCHHHHHHHHHHHHHHHHHHHHHCCCCEEECCCCCCCCHHHHHHHHHCCCCCCHHHHHH
SLLREDLENVLDTLSARERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRK
HHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
LRHPNRNSILKEYIR
HHCCCHHHHHHHHHC

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: 1901566; 11759840 [H]