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The map label for this gene is rpoD [H]

Identifier: 78357095

GI number: 78357095

Start: 2094872

End: 2096641

Strand: Reverse

Name: rpoD [H]

Synonym: Dde_2052

Alternate gene names: 78357095

Gene position: 2096641-2094872 (Counterclockwise)

Preceding gene: 78357096

Following gene: 78357094

Centisome position: 56.21

GC content: 51.53

Gene sequence:

>1770_bases
ATGGGCAACATTAAGGAAATCCAGCAAATCAAGACCCTGATTGCCAAAGGCAAGGTCGCGGGCTTTCTCACGTTTGAGGA
AGTTAACAAAGCTTTGCCGGCAGAGGTCAACACGCCTGAGCAGATTGAAGAAATCATCGGGATTTTCGATCAGCTTGATA
TTGCGATTGTCGATTCTGAAAAAGACGGCAAAAAAATAAGCGTTTCCCCTGCCGAGGCAGATGACGAAGGGGGTGACGGA
GGGCTGGAGCTGACCGATGAAGACGATCCTGCCGACTATTCTTCGCGCAGTACAGACCCTGTAAGGATGTACCTGCGGGA
AATGGGCGCTGTGCCGTTGCTCGACCGTGACGGTGAAGTGAACATTGCCAAGAAGATAGAGACCGGAGAGCAGGATGTTC
TGTACGCTCTGGTGGAAGTTCCCATCGCTGTGGAAGAGCTTATTTCCGTGGGCGAAGACCTGAAGGAAAACCGCATCAAA
CTTAAGGATGTGGTTAAAACCATCGAGGAAGACGACCCCAGCGAAGACGAGATGAACCAGCGGCAGCGGGTTATTTTGCT
GCTGGATGAAATCCAGTCTACATTCAAGAAAAAACGCAAGGTTTATCAGCGTCTTGACGAGTGCTGTACGCTTGAGCGCC
GCGTATATGGTATCCAGAAGGAAATTATCGCCTATAAAGAGGAGATAGTCTCCCGACTGCGCGACATCAAGCTGGAAAAA
ACGCTTATCGACCGTATTATAGAAACGGTTGAAGACTATGTGCGTCAGATGCATAACTGCCAGCGGGACCTTTCGGCATA
TATATTGTCCACCGGCAAGACCCAGACGGAAATGCGCGAGCTGTTCCGTCAGCTGGACGACCGCGAAATCAATCCGGTTG
TGGCGGCAGACAGCCTTAATCTGACGGTTGAAGAGCTGTTTTCATTCAAGGAAATGATCATGGGCAAAATGGAAATCCTG
AACAGGCTTCAGGAGAAATGCTGCCACAACGTGACTGACCTTGAAGAAGTGCTCTGGCGTATCAAGCGCGGAAACAGTCA
TGCCATGCGTGCCAAGCAGGAACTTATCCGTTCCAACCTGCGCCTTGTGGTGAGCATCGCCAAAAAATACACCAACCGCG
GTTTGCAGTTTCTTGACCTGATTCAGGAAGGGAACATCGGCCTGATGAAAGCTGTGGACAAGTTCGAGTATCAGCGCGGG
TACAAGTTTTCGACCTACGCCACGTGGTGGATCCGTCAGGCCATCACGCGCGCCATTGCAGATCAGGCGCGGACAATCCG
TATTCCTGTGCATATGATCGAAACCATCAACAAGCTGATCCGTACATCGCGTTATCTTGTTCAGGAACTCGGGCGTGACC
CCACACCTGAAGAAATCGCCGAACGTATGGATTACCCCATCGACAAGGTGAAAAAGGTTCTGAAAATTGCCAAGGAACCC
ATCTCCCTTGAAACGCCTATCGGCGATGAAGAAGATTCGAGCCTCGGTGATTTTATTGAAGACAAGAAAGCCGTTGCTCC
TGCCGAAGAAGTGGTCAACACCAAGCTGAGCGAGCAGATTGCCGCAGTGCTGGCTGATCTGACTCCCCGCGAAGAGCAGG
TGCTGCGTAAGCGCTTCGGCATCAACGAGAAGTCCGATCACACTCTTGAGGAGGTCGGAAAGCTGTTTAACGTGACACGA
GAGCGCATCAGGCAGATAGAAGCCAAGGCGCTGCGCAAGCTCAGGCATCCGGTAAGGAGCCAGACCCTGCGCTCGTACTA
CGAAAGCTAG

Upstream 100 bases:

>100_bases
AGGATGATGCTGGCGGCACTGAGACAGCTGAGCAGTGATGCAAATTCCGAAGCGGGTTTTGAGCTTCTTCGGGCCATGAA
AGATAATCTGGGGAGATCCG

Downstream 100 bases:

>100_bases
ACTTCAGGGCGGCTCCGCACGGGGCCGCCTTTTTGGTGTTTCATGCATAAAAAAGCCCTGCCGGTGAGCGTACCTGCCGC
GTATGCAGTGATGCGACTAT

Product: sigma-70 factor

Products: NA

Alternate protein names: Sigma-80 [H]

Number of amino acids: Translated: 589; Mature: 588

Protein sequence:

>589_residues
MGNIKEIQQIKTLIAKGKVAGFLTFEEVNKALPAEVNTPEQIEEIIGIFDQLDIAIVDSEKDGKKISVSPAEADDEGGDG
GLELTDEDDPADYSSRSTDPVRMYLREMGAVPLLDRDGEVNIAKKIETGEQDVLYALVEVPIAVEELISVGEDLKENRIK
LKDVVKTIEEDDPSEDEMNQRQRVILLLDEIQSTFKKKRKVYQRLDECCTLERRVYGIQKEIIAYKEEIVSRLRDIKLEK
TLIDRIIETVEDYVRQMHNCQRDLSAYILSTGKTQTEMRELFRQLDDREINPVVAADSLNLTVEELFSFKEMIMGKMEIL
NRLQEKCCHNVTDLEEVLWRIKRGNSHAMRAKQELIRSNLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYQRG
YKFSTYATWWIRQAITRAIADQARTIRIPVHMIETINKLIRTSRYLVQELGRDPTPEEIAERMDYPIDKVKKVLKIAKEP
ISLETPIGDEEDSSLGDFIEDKKAVAPAEEVVNTKLSEQIAAVLADLTPREEQVLRKRFGINEKSDHTLEEVGKLFNVTR
ERIRQIEAKALRKLRHPVRSQTLRSYYES

Sequences:

>Translated_589_residues
MGNIKEIQQIKTLIAKGKVAGFLTFEEVNKALPAEVNTPEQIEEIIGIFDQLDIAIVDSEKDGKKISVSPAEADDEGGDG
GLELTDEDDPADYSSRSTDPVRMYLREMGAVPLLDRDGEVNIAKKIETGEQDVLYALVEVPIAVEELISVGEDLKENRIK
LKDVVKTIEEDDPSEDEMNQRQRVILLLDEIQSTFKKKRKVYQRLDECCTLERRVYGIQKEIIAYKEEIVSRLRDIKLEK
TLIDRIIETVEDYVRQMHNCQRDLSAYILSTGKTQTEMRELFRQLDDREINPVVAADSLNLTVEELFSFKEMIMGKMEIL
NRLQEKCCHNVTDLEEVLWRIKRGNSHAMRAKQELIRSNLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYQRG
YKFSTYATWWIRQAITRAIADQARTIRIPVHMIETINKLIRTSRYLVQELGRDPTPEEIAERMDYPIDKVKKVLKIAKEP
ISLETPIGDEEDSSLGDFIEDKKAVAPAEEVVNTKLSEQIAAVLADLTPREEQVLRKRFGINEKSDHTLEEVGKLFNVTR
ERIRQIEAKALRKLRHPVRSQTLRSYYES
>Mature_588_residues
GNIKEIQQIKTLIAKGKVAGFLTFEEVNKALPAEVNTPEQIEEIIGIFDQLDIAIVDSEKDGKKISVSPAEADDEGGDGG
LELTDEDDPADYSSRSTDPVRMYLREMGAVPLLDRDGEVNIAKKIETGEQDVLYALVEVPIAVEELISVGEDLKENRIKL
KDVVKTIEEDDPSEDEMNQRQRVILLLDEIQSTFKKKRKVYQRLDECCTLERRVYGIQKEIIAYKEEIVSRLRDIKLEKT
LIDRIIETVEDYVRQMHNCQRDLSAYILSTGKTQTEMRELFRQLDDREINPVVAADSLNLTVEELFSFKEMIMGKMEILN
RLQEKCCHNVTDLEEVLWRIKRGNSHAMRAKQELIRSNLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYQRGY
KFSTYATWWIRQAITRAIADQARTIRIPVHMIETINKLIRTSRYLVQELGRDPTPEEIAERMDYPIDKVKKVLKIAKEPI
SLETPIGDEEDSSLGDFIEDKKAVAPAEEVVNTKLSEQIAAVLADLTPREEQVLRKRFGINEKSDHTLEEVGKLFNVTRE
RIRQIEAKALRKLRHPVRSQTLRSYYES

Specific function: Also required for extracellular A-signal production. The A-signal is the first in a series of extracellular signals that are required for myxspore differentiation in M.xanthus. It is thought to act as a cell-density signal during early development to ensu

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=607, Percent_Identity=43.32784184514, Blast_Score=441, Evalue=1e-125,
Organism=Escherichia coli, GI1789098, Length=249, Percent_Identity=42.9718875502008, Blast_Score=227, Evalue=2e-60,
Organism=Escherichia coli, GI1789871, Length=249, Percent_Identity=28.5140562248996, Blast_Score=89, Evalue=8e-19,
Organism=Escherichia coli, GI1788231, Length=229, Percent_Identity=26.6375545851528, 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: 67814; Mature: 67682

Theoretical pI: Translated: 4.94; Mature: 4.94

Prosite motif: PS00715 SIGMA70_1 ; PS00716 SIGMA70_2

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.8 %Cys     (Translated Protein)
2.2 %Met     (Translated Protein)
3.1 %Cys+Met (Translated Protein)
0.9 %Cys     (Mature Protein)
2.0 %Met     (Mature Protein)
2.9 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MGNIKEIQQIKTLIAKGKVAGFLTFEEVNKALPAEVNTPEQIEEIIGIFDQLDIAIVDSE
CCCHHHHHHHHHHHHHCCHHHEEEHHHHHHCCCCCCCCHHHHHHHHHHHHHCCEEEEECC
KDGKKISVSPAEADDEGGDGGLELTDEDDPADYSSRSTDPVRMYLREMGAVPLLDRDGEV
CCCCEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHCCCCCCCCCCCC
NIAKKIETGEQDVLYALVEVPIAVEELISVGEDLKENRIKLKDVVKTIEEDDPSEDEMNQ
CHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHH
RQRVILLLDEIQSTFKKKRKVYQRLDECCTLERRVYGIQKEIIAYKEEIVSRLRDIKLEK
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
TLIDRIIETVEDYVRQMHNCQRDLSAYILSTGKTQTEMRELFRQLDDREINPVVAADSLN
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCCCCCCEEECCCCC
LTVEELFSFKEMIMGKMEILNRLQEKCCHNVTDLEEVLWRIKRGNSHAMRAKQELIRSNL
CHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHH
RLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYQRGYKFSTYATWWIRQAITRAIA
HHHHHHHHHHHHCCHHHHHHHHCCCCHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHH
DQARTIRIPVHMIETINKLIRTSRYLVQELGRDPTPEEIAERMDYPIDKVKKVLKIAKEP
HCCCEEEHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHCCCCHHHHHHHHHHHCCC
ISLETPIGDEEDSSLGDFIEDKKAVAPAEEVVNTKLSEQIAAVLADLTPREEQVLRKRFG
CCCCCCCCCCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHCC
INEKSDHTLEEVGKLFNVTRERIRQIEAKALRKLRHPVRSQTLRSYYES
CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC
>Mature Secondary Structure 
GNIKEIQQIKTLIAKGKVAGFLTFEEVNKALPAEVNTPEQIEEIIGIFDQLDIAIVDSE
CCHHHHHHHHHHHHHCCHHHEEEHHHHHHCCCCCCCCHHHHHHHHHHHHHCCEEEEECC
KDGKKISVSPAEADDEGGDGGLELTDEDDPADYSSRSTDPVRMYLREMGAVPLLDRDGEV
CCCCEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHCCCCCCCCCCCC
NIAKKIETGEQDVLYALVEVPIAVEELISVGEDLKENRIKLKDVVKTIEEDDPSEDEMNQ
CHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHH
RQRVILLLDEIQSTFKKKRKVYQRLDECCTLERRVYGIQKEIIAYKEEIVSRLRDIKLEK
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
TLIDRIIETVEDYVRQMHNCQRDLSAYILSTGKTQTEMRELFRQLDDREINPVVAADSLN
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCCCCCCEEECCCCC
LTVEELFSFKEMIMGKMEILNRLQEKCCHNVTDLEEVLWRIKRGNSHAMRAKQELIRSNL
CHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCHHHHHHHHHHHHHHH
RLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYQRGYKFSTYATWWIRQAITRAIA
HHHHHHHHHHHHCCHHHHHHHHCCCCHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHH
DQARTIRIPVHMIETINKLIRTSRYLVQELGRDPTPEEIAERMDYPIDKVKKVLKIAKEP
HCCCEEEHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHCCCCHHHHHHHHHHHCCC
ISLETPIGDEEDSSLGDFIEDKKAVAPAEEVVNTKLSEQIAAVLADLTPREEQVLRKRFG
CCCCCCCCCCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHCC
INEKSDHTLEEVGKLFNVTRERIRQIEAKALRKLRHPVRSQTLRSYYES
CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC

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: 2104614 [H]