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The map label for this gene is rpoD [H]

Identifier: 78221616

GI number: 78221616

Start: 437164

End: 438903

Strand: Direct

Name: rpoD [H]

Synonym: Gmet_0395

Alternate gene names: 78221616

Gene position: 437164-438903 (Clockwise)

Preceding gene: 78221615

Following gene: 78221617

Centisome position: 10.94

GC content: 58.79

Gene sequence:

>1740_bases
ATGGCCAAGAAAAGTTCGGACGAAGTTAAGCAGCAGCTGGTGGACATCGGCAAGGAGAAGGGATTCCTTACCTATGACGA
AGTCAACGACGTGCTGCCTCCCGACTTCTCAACGGAGCAGATTGACGATGTAATGAGCATGTTCGGTGAGATGGACATCG
ACCTCGTCGATTCATCGCAGAAGGTCAAAATCCCCAAGATGAAGCTCGACCTCGAAGAGGAAGAGGAGATGGAGGGGGAG
CAGGAGGAGATGGAGTACGAGCCGGGGGTCCTGGGGCGCACGAGCGATCCGGTCCGGATGTACCTGCGGGAAATGGGTTC
CGTGTCGCTTCTCACGCGCGAAGGTGAGGTTGAGATCGCCAAGCGGATCGAGGAAGGGGAACGCGACATCGCCCGTGTCA
TCCTTACCACTCCCATTACCGTCAAGGAGATAATCGCCCTTGGCGACAAACTCCGCAAGTTCCAGATAAGCGCGGCCGAG
ATCAGCAAGGAAGTTGAAGAAGAGGAACTGGAAGAGGACGAGGAAGACGTCCAGGCCAATCGCGTCCTCTCCATTATCGA
TGAGATCCGGGATCTTGACGTGAGGATGGAGGCCATTGCCGAAGAGCTCGACGCTGAGGGCGCTGCTGCGAAACGCCAAA
AAGAGCTCCACGCCGAACAGCACGAGATCAGGGAAAAGTTCGCCGATCTCGTGAAGTCCCTTCGGCTCAAGGACCGCCAC
ATCACCAAGATTGCCCAGCGCCTCAAGGAACTTTCGGGCAAAGTGGAAGCCATTCTGACAGAGATTGCGGCGGTTGAAAC
CGAAGCAGGCATCAACGGCGAACGCCTCAAGGAGATTGTTGCCAAGGGCGACGAAAAGGCCAAGGGGCTCAAGGTAAACC
TTGAGGATGCCCAAAAGCTCGACAAGAAGATCCGCGCCGCTGAGAAAAAGCTCAAGAAGCTGGAGCACGAGTCGGGCTTC
AAGGCCCAGGAACTTTCCGACGCCCTCCACGCCATCGACCGGGGCGAGGCCAAGGCGAAGCTGGCCAAGTCCGAGCTGGT
TGAAGCGAACCTCCGGCTGGTGGTTTCCATCGCCAAGAAGTATACGAACCGGGGCCTCCAGTTCCTGGACCTGATCCAGG
AGGGGAACATCGGTCTCATGAAGGCGGTGGACAAGTTCGAGTACCAGCGGGGGTACAAGTTCTCCACCTACGCCACCTGG
TGGATTCGTCAGGCCATCACCCGCGCCATCGCCGACCAGGCGAGGACCATCCGGATTCCGGTCCACATGATCGAGACCAT
CAATAAGCTGATCCGGACCAGCCGCCAACTGGTGCAGGAAATCGGCCGGGAGCCGTCGCCCGAGGAAATCGCCGAGCGGA
TGAATCTCCCCCTCGACAAGGTACGCAAGGTTCTCAAGATCGCCAAAGAACCCATCTCCCTCGAAACCCCCATCGGGGAG
GAGGAAGATTCGCATCTAGGGGATTTCATTGAGGACAAGGGGGTCGTTTCGCCCCTAGAGGCGGTCATCAAGGCCAACCT
CTCGGAGCAGACCTCCCGGGTCCTCTCCACCCTCACCCCCCGGGAGGAGAAGGTGCTCCGGATGCGCTTCGGCATTGGCG
AGAAGAGCGACCACACCCTGGAGGAAGTGGGGCAGGATTTCGAGGTTACCCGCGAGCGGATCCGGCAGATCGAGGCCAAG
GCCCTGCGGAAACTCCGGCACCCGAGCCGGGCCAAGAAGCTCAAGAGCTTCGTGGAATAG

Upstream 100 bases:

>100_bases
ATAGTCCTCGCTACCGGGATCTCCTGGCTGAGATTGATGCCTTGCGAAACCGTAAATCGCAGTTATCTTAATAAGAACAG
CGTGCAATGAGGTGAATTTG

Downstream 100 bases:

>100_bases
CGCCCGCGAATCCCAACCATGAAAGCCGCGTCGGTATCCGGCGCGGCTTTCGCATTGCTGGACCATTCGTAGTGTGAGGA
GCTATGGCTAAGGAGAGCAA

Product: RNA polymerase sigma factor RpoD-like

Products: NA

Alternate protein names: Sigma-80 [H]

Number of amino acids: Translated: 579; Mature: 578

Protein sequence:

>579_residues
MAKKSSDEVKQQLVDIGKEKGFLTYDEVNDVLPPDFSTEQIDDVMSMFGEMDIDLVDSSQKVKIPKMKLDLEEEEEMEGE
QEEMEYEPGVLGRTSDPVRMYLREMGSVSLLTREGEVEIAKRIEEGERDIARVILTTPITVKEIIALGDKLRKFQISAAE
ISKEVEEEELEEDEEDVQANRVLSIIDEIRDLDVRMEAIAEELDAEGAAAKRQKELHAEQHEIREKFADLVKSLRLKDRH
ITKIAQRLKELSGKVEAILTEIAAVETEAGINGERLKEIVAKGDEKAKGLKVNLEDAQKLDKKIRAAEKKLKKLEHESGF
KAQELSDALHAIDRGEAKAKLAKSELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYQRGYKFSTYATW
WIRQAITRAIADQARTIRIPVHMIETINKLIRTSRQLVQEIGREPSPEEIAERMNLPLDKVRKVLKIAKEPISLETPIGE
EEDSHLGDFIEDKGVVSPLEAVIKANLSEQTSRVLSTLTPREEKVLRMRFGIGEKSDHTLEEVGQDFEVTRERIRQIEAK
ALRKLRHPSRAKKLKSFVE

Sequences:

>Translated_579_residues
MAKKSSDEVKQQLVDIGKEKGFLTYDEVNDVLPPDFSTEQIDDVMSMFGEMDIDLVDSSQKVKIPKMKLDLEEEEEMEGE
QEEMEYEPGVLGRTSDPVRMYLREMGSVSLLTREGEVEIAKRIEEGERDIARVILTTPITVKEIIALGDKLRKFQISAAE
ISKEVEEEELEEDEEDVQANRVLSIIDEIRDLDVRMEAIAEELDAEGAAAKRQKELHAEQHEIREKFADLVKSLRLKDRH
ITKIAQRLKELSGKVEAILTEIAAVETEAGINGERLKEIVAKGDEKAKGLKVNLEDAQKLDKKIRAAEKKLKKLEHESGF
KAQELSDALHAIDRGEAKAKLAKSELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYQRGYKFSTYATW
WIRQAITRAIADQARTIRIPVHMIETINKLIRTSRQLVQEIGREPSPEEIAERMNLPLDKVRKVLKIAKEPISLETPIGE
EEDSHLGDFIEDKGVVSPLEAVIKANLSEQTSRVLSTLTPREEKVLRMRFGIGEKSDHTLEEVGQDFEVTRERIRQIEAK
ALRKLRHPSRAKKLKSFVE
>Mature_578_residues
AKKSSDEVKQQLVDIGKEKGFLTYDEVNDVLPPDFSTEQIDDVMSMFGEMDIDLVDSSQKVKIPKMKLDLEEEEEMEGEQ
EEMEYEPGVLGRTSDPVRMYLREMGSVSLLTREGEVEIAKRIEEGERDIARVILTTPITVKEIIALGDKLRKFQISAAEI
SKEVEEEELEEDEEDVQANRVLSIIDEIRDLDVRMEAIAEELDAEGAAAKRQKELHAEQHEIREKFADLVKSLRLKDRHI
TKIAQRLKELSGKVEAILTEIAAVETEAGINGERLKEIVAKGDEKAKGLKVNLEDAQKLDKKIRAAEKKLKKLEHESGFK
AQELSDALHAIDRGEAKAKLAKSELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYQRGYKFSTYATWW
IRQAITRAIADQARTIRIPVHMIETINKLIRTSRQLVQEIGREPSPEEIAERMNLPLDKVRKVLKIAKEPISLETPIGEE
EDSHLGDFIEDKGVVSPLEAVIKANLSEQTSRVLSTLTPREEKVLRMRFGIGEKSDHTLEEVGQDFEVTRERIRQIEAKA
LRKLRHPSRAKKLKSFVE

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=285, Percent_Identity=69.1228070175439, Blast_Score=408, Evalue=1e-115,
Organism=Escherichia coli, GI1789098, Length=225, Percent_Identity=44, Blast_Score=213, Evalue=3e-56,
Organism=Escherichia coli, GI1789871, Length=246, Percent_Identity=28.4552845528455, Blast_Score=87, Evalue=3e-18,
Organism=Escherichia coli, GI1788231, Length=202, Percent_Identity=29.2079207920792, Blast_Score=77, Evalue=2e-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:   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: 65917; Mature: 65786

Theoretical pI: Translated: 4.96; Mature: 4.96

Prosite motif: PS00715 SIGMA70_1 ; PS00716 SIGMA70_2

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.0 %Cys     (Translated Protein)
2.4 %Met     (Translated Protein)
2.4 %Cys+Met (Translated Protein)
0.0 %Cys     (Mature Protein)
2.2 %Met     (Mature Protein)
2.2 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MAKKSSDEVKQQLVDIGKEKGFLTYDEVNDVLPPDFSTEQIDDVMSMFGEMDIDLVDSSQ
CCCCCHHHHHHHHHHHHHCCCCEEHHHHCCCCCCCCCHHHHHHHHHHHCCCCCEEECCCC
KVKIPKMKLDLEEEEEMEGEQEEMEYEPGVLGRTSDPVRMYLREMGSVSLLTREGEVEIA
CEECCCCCCCCCCHHHCCCCHHHHCCCCCCCCCCCCHHHHHHHHCCCEEEEECCCHHHHH
KRIEEGERDIARVILTTPITVKEIIALGDKLRKFQISAAEISKEVEEEELEEDEEDVQAN
HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHH
RVLSIIDEIRDLDVRMEAIAEELDAEGAAAKRQKELHAEQHEIREKFADLVKSLRLKDRH
HHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
ITKIAQRLKELSGKVEAILTEIAAVETEAGINGERLKEIVAKGDEKAKGLKVNLEDAQKL
HHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHCCCCCCCCCEECHHHHHHH
DKKIRAAEKKLKKLEHESGFKAQELSDALHAIDRGEAKAKLAKSELVEANLRLVVSIAKK
HHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHH
YTNRGLQFLDLIQEGNIGLMKAVDKFEYQRGYKFSTYATWWIRQAITRAIADQARTIRIP
HHHCCHHHHHHHHCCCCHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHCCCEEEHH
VHMIETINKLIRTSRQLVQEIGREPSPEEIAERMNLPLDKVRKVLKIAKEPISLETPIGE
HHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCCCCC
EEDSHLGDFIEDKGVVSPLEAVIKANLSEQTSRVLSTLTPREEKVLRMRFGIGEKSDHTL
CCCHHHHHHHHCCCCHHHHHHHHHHCCHHHHHHHHHHCCCHHHHHHHHHHCCCCCCCCHH
EEVGQDFEVTRERIRQIEAKALRKLRHPSRAKKLKSFVE
HHHCCCHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHCC
>Mature Secondary Structure 
AKKSSDEVKQQLVDIGKEKGFLTYDEVNDVLPPDFSTEQIDDVMSMFGEMDIDLVDSSQ
CCCCHHHHHHHHHHHHHCCCCEEHHHHCCCCCCCCCHHHHHHHHHHHCCCCCEEECCCC
KVKIPKMKLDLEEEEEMEGEQEEMEYEPGVLGRTSDPVRMYLREMGSVSLLTREGEVEIA
CEECCCCCCCCCCHHHCCCCHHHHCCCCCCCCCCCCHHHHHHHHCCCEEEEECCCHHHHH
KRIEEGERDIARVILTTPITVKEIIALGDKLRKFQISAAEISKEVEEEELEEDEEDVQAN
HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHH
RVLSIIDEIRDLDVRMEAIAEELDAEGAAAKRQKELHAEQHEIREKFADLVKSLRLKDRH
HHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
ITKIAQRLKELSGKVEAILTEIAAVETEAGINGERLKEIVAKGDEKAKGLKVNLEDAQKL
HHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHCCCCCCCCCEECHHHHHHH
DKKIRAAEKKLKKLEHESGFKAQELSDALHAIDRGEAKAKLAKSELVEANLRLVVSIAKK
HHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHH
YTNRGLQFLDLIQEGNIGLMKAVDKFEYQRGYKFSTYATWWIRQAITRAIADQARTIRIP
HHHCCHHHHHHHHCCCCHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHCCCEEEHH
VHMIETINKLIRTSRQLVQEIGREPSPEEIAERMNLPLDKVRKVLKIAKEPISLETPIGE
HHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCCCCC
EEDSHLGDFIEDKGVVSPLEAVIKANLSEQTSRVLSTLTPREEKVLRMRFGIGEKSDHTL
CCCHHHHHHHHCCCCHHHHHHHHHHCCHHHHHHHHHHCCCHHHHHHHHHHCCCCCCCCHH
EEVGQDFEVTRERIRQIEAKALRKLRHPSRAKKLKSFVE
HHHCCCHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHCC

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]