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The map label for this gene is rpoD [H]

Identifier: 39998179

GI number: 39998179

Start: 3394412

End: 3396145

Strand: Reverse

Name: rpoD [H]

Synonym: GSU3089

Alternate gene names: 39998179

Gene position: 3396145-3394412 (Counterclockwise)

Preceding gene: 39998180

Following gene: 39998178

Centisome position: 89.04

GC content: 57.84

Gene sequence:

>1734_bases
ATGGCCAAGAAAAGCACGGACGAAGTCAAGCAACTCATCGACCTGGGAAAGGAAAAGGGATTCCTCACCTATGATGAGGT
AAACGACCTTCTTCCTCCCGATATTTCATCCGAGCAGATCGACGACGTAATGAGCATGTTCGGTGAGATGGATATTGACA
TCGTCGATTCGGCCCAGAAGGTAAAAATCCCCAAGATGAAACTCGACCTGGAGGAAGAGGAAGAGATTGAAGGGGAACAG
GAAGACTTCGAGTACGAGCCGGGCGCTCTGGGAAGGACAAGCGATCCGGTACGGATGTATCTGCGCGAGATGGGATCGGT
GTCGCTACTCACCCGCGAGGGTGAGGTGGAAATTGCCAAGCGTATTGAGGAGGGCGAGCGGGATATCGCCGGCGTCATCC
TCAATACCCCCATCACGGTGAAGGAGATCATCGCACTTGGCGAGAAGCTCCTGAGGGGGCAGGTCAGCGCCGCCGAGATC
AGCAAGGAGGTGGAGGAAGAGGAGCTGGAGGAGGATGAAGAGGATGTGCAGAAGACCCGTCTTCTTGCCCAGGTGGAGGA
AATTGCCGCCGTCGATGTCCGCCTTGCTGCCCTGAATGCCGAGCTGGAGGAGGAATCCCTTTCCGCCTCCCGTCGGCAGG
AGTTGCTCGCTGAACGGCAGGAGTTGAAGGAAAAGCTTGCCGAGATGGTTACCTCCCTGCGTCTCAAGGATCGGCACATA
GCCAAGATCGCCCAGCGGCTCAAGGAGTTGTCGGCCAAGGTTGATACCATTATGGCGGAGATTGCCGCCATTGAGAAGGA
GGCGGGAGTCTCCGCCGACACCCTCAAGGAGATTGCCGCCAGCGAAGCTGTGGGAAAGGGGATCAAGCTTTCTCTGGAAG
ATGCTCAGAAGCACGAGAAGAAGGTGCGCTCAGCTGAGAAGAAACTGAAGAAGGTTGAGGAAGAGTCCGGGTTCAAGGCC
CGTGAGCTTTCCGACGCCCTCAGGGCCATCGATCGGGGTGAAGCCAAGTCGAAGCTGGCCAAGTCGGAACTGGTGGAGGC
GAACCTGCGGCTCGTGGTATCCATTGCCAAGAAGTACACCAACCGGGGGCTCCAGTTTCTCGACCTCATTCAGGAGGGGA
ACATCGGTCTCATGAAGGCGGTGGACAAGTTTGAGTACCAGCGCGGGTACAAGTTCTCGACGTACGCCACTTGGTGGATT
CGACAGGCCATTACCCGAGCTATCGCCGACCAGGCCCGCACCATCCGGATTCCGGTCCATATGATCGAGACCATCAACAA
GCTGATCCGGACCAGTCGCCAACTGGTGCAGGAAATCGGTCGTGAGCCGTCGCCGGAGGAAATCGCCGAACGGATGAATC
TCCCCCTCGACAAGGTACGCAAGGTCCTCAAGATCGCCAAGGAGCCCATCTCACTCGAAACTCCCATCGGGGAAGAGGAA
GATTCACACCTGGGGGATTTCATCGAAGACAAGGGTGTGGTTTCGCCTCTGGAGGCGGTCATCAAGGCCAACCTTTCGGA
GCAGACCGCCCGCGTGCTTGCCACCCTCACCCCCCGGGAGGAAAAAGTTCTGCGGATGCGTTTCGGCATCGGCGAGAAGA
GCGATCATACCCTTGAGGAGGTGGGGCAGGACTTCGAGGTGACCCGGGAGCGGATTCGTCAGATCGAGGCCAAGGCCCTG
CGCAAGCTCCGCCATCCGAGCCGGGCCAAGAAACTCCGCAGCTTCGTGGAATAG

Upstream 100 bases:

>100_bases
TACCCCCCGGTACCGGGAGCTGCTTGCCGAAATAGAGGCCTTGCGAAACAGGAAATCGCAGTTATCTTAAAGAGACCATG
TGTGCAATGAGGTGAACTTG

Downstream 100 bases:

>100_bases
CCGGCCTGCGCCGGAAAAACCAGAGGCCGCGCCGGTCAGACCCGACGCGGCCTCGCTGTTTTTGTGCCGAGCCGTCCGAC
CCTGACCGGCGGCACCGGGG

Product: RNA polymerase sigma factor RpoD

Products: NA

Alternate protein names: Sigma-80 [H]

Number of amino acids: Translated: 577; Mature: 576

Protein sequence:

>577_residues
MAKKSTDEVKQLIDLGKEKGFLTYDEVNDLLPPDISSEQIDDVMSMFGEMDIDIVDSAQKVKIPKMKLDLEEEEEIEGEQ
EDFEYEPGALGRTSDPVRMYLREMGSVSLLTREGEVEIAKRIEEGERDIAGVILNTPITVKEIIALGEKLLRGQVSAAEI
SKEVEEEELEEDEEDVQKTRLLAQVEEIAAVDVRLAALNAELEEESLSASRRQELLAERQELKEKLAEMVTSLRLKDRHI
AKIAQRLKELSAKVDTIMAEIAAIEKEAGVSADTLKEIAASEAVGKGIKLSLEDAQKHEKKVRSAEKKLKKVEEESGFKA
RELSDALRAIDRGEAKSKLAKSELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYQRGYKFSTYATWWI
RQAITRAIADQARTIRIPVHMIETINKLIRTSRQLVQEIGREPSPEEIAERMNLPLDKVRKVLKIAKEPISLETPIGEEE
DSHLGDFIEDKGVVSPLEAVIKANLSEQTARVLATLTPREEKVLRMRFGIGEKSDHTLEEVGQDFEVTRERIRQIEAKAL
RKLRHPSRAKKLRSFVE

Sequences:

>Translated_577_residues
MAKKSTDEVKQLIDLGKEKGFLTYDEVNDLLPPDISSEQIDDVMSMFGEMDIDIVDSAQKVKIPKMKLDLEEEEEIEGEQ
EDFEYEPGALGRTSDPVRMYLREMGSVSLLTREGEVEIAKRIEEGERDIAGVILNTPITVKEIIALGEKLLRGQVSAAEI
SKEVEEEELEEDEEDVQKTRLLAQVEEIAAVDVRLAALNAELEEESLSASRRQELLAERQELKEKLAEMVTSLRLKDRHI
AKIAQRLKELSAKVDTIMAEIAAIEKEAGVSADTLKEIAASEAVGKGIKLSLEDAQKHEKKVRSAEKKLKKVEEESGFKA
RELSDALRAIDRGEAKSKLAKSELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYQRGYKFSTYATWWI
RQAITRAIADQARTIRIPVHMIETINKLIRTSRQLVQEIGREPSPEEIAERMNLPLDKVRKVLKIAKEPISLETPIGEEE
DSHLGDFIEDKGVVSPLEAVIKANLSEQTARVLATLTPREEKVLRMRFGIGEKSDHTLEEVGQDFEVTRERIRQIEAKAL
RKLRHPSRAKKLRSFVE
>Mature_576_residues
AKKSTDEVKQLIDLGKEKGFLTYDEVNDLLPPDISSEQIDDVMSMFGEMDIDIVDSAQKVKIPKMKLDLEEEEEIEGEQE
DFEYEPGALGRTSDPVRMYLREMGSVSLLTREGEVEIAKRIEEGERDIAGVILNTPITVKEIIALGEKLLRGQVSAAEIS
KEVEEEELEEDEEDVQKTRLLAQVEEIAAVDVRLAALNAELEEESLSASRRQELLAERQELKEKLAEMVTSLRLKDRHIA
KIAQRLKELSAKVDTIMAEIAAIEKEAGVSADTLKEIAASEAVGKGIKLSLEDAQKHEKKVRSAEKKLKKVEEESGFKAR
ELSDALRAIDRGEAKSKLAKSELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYQRGYKFSTYATWWIR
QAITRAIADQARTIRIPVHMIETINKLIRTSRQLVQEIGREPSPEEIAERMNLPLDKVRKVLKIAKEPISLETPIGEEED
SHLGDFIEDKGVVSPLEAVIKANLSEQTARVLATLTPREEKVLRMRFGIGEKSDHTLEEVGQDFEVTRERIRQIEAKALR
KLRHPSRAKKLRSFVE

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=618, Percent_Identity=47.5728155339806, Blast_Score=494, Evalue=1e-141,
Organism=Escherichia coli, GI1789098, Length=256, Percent_Identity=42.578125, Blast_Score=216, Evalue=4e-57,
Organism=Escherichia coli, GI1789871, Length=246, Percent_Identity=28.8617886178862, Blast_Score=88, Evalue=2e-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: 65224; Mature: 65092

Theoretical pI: Translated: 4.82; Mature: 4.82

Prosite motif: PS00715 SIGMA70_1 ; PS00716 SIGMA70_2

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.0 %Cys     (Translated Protein)
2.3 %Met     (Translated Protein)
2.3 %Cys+Met (Translated Protein)
0.0 %Cys     (Mature Protein)
2.1 %Met     (Mature Protein)
2.1 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MAKKSTDEVKQLIDLGKEKGFLTYDEVNDLLPPDISSEQIDDVMSMFGEMDIDIVDSAQK
CCCCCHHHHHHHHHCCCCCCCEEHHHHHCCCCCCCCHHHHHHHHHHHCCCCCHHHCCHHH
VKIPKMKLDLEEEEEIEGEQEDFEYEPGALGRTSDPVRMYLREMGSVSLLTREGEVEIAK
CCCCCCCCCCCCHHHCCCCCCCCCCCCCCCCCCCHHHHHHHHHCCCEEEEECCCHHHHHH
RIEEGERDIAGVILNTPITVKEIIALGEKLLRGQVSAAEISKEVEEEELEEDEEDVQKTR
HHHHCCHHHHHHHCCCCCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHCHHHHHHHHH
LLAQVEEIAAVDVRLAALNAELEEESLSASRRQELLAERQELKEKLAEMVTSLRLKDRHI
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
AKIAQRLKELSAKVDTIMAEIAAIEKEAGVSADTLKEIAASEAVGKGIKLSLEDAQKHEK
HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCCEEEHHHHHHHHH
KVRSAEKKLKKVEEESGFKARELSDALRAIDRGEAKSKLAKSELVEANLRLVVSIAKKYT
HHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
NRGLQFLDLIQEGNIGLMKAVDKFEYQRGYKFSTYATWWIRQAITRAIADQARTIRIPVH
HCCHHHHHHHHCCCCHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHCCCEEEHHHH
MIETINKLIRTSRQLVQEIGREPSPEEIAERMNLPLDKVRKVLKIAKEPISLETPIGEEE
HHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCCCCCCC
DSHLGDFIEDKGVVSPLEAVIKANLSEQTARVLATLTPREEKVLRMRFGIGEKSDHTLEE
CHHHHHHHHCCCCHHHHHHHHHCCCHHHHHHHHHHCCCHHHHHHHHHHCCCCCCCCHHHH
VGQDFEVTRERIRQIEAKALRKLRHPSRAKKLRSFVE
HCCCHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHCC
>Mature Secondary Structure 
AKKSTDEVKQLIDLGKEKGFLTYDEVNDLLPPDISSEQIDDVMSMFGEMDIDIVDSAQK
CCCCHHHHHHHHHCCCCCCCEEHHHHHCCCCCCCCHHHHHHHHHHHCCCCCHHHCCHHH
VKIPKMKLDLEEEEEIEGEQEDFEYEPGALGRTSDPVRMYLREMGSVSLLTREGEVEIAK
CCCCCCCCCCCCHHHCCCCCCCCCCCCCCCCCCCHHHHHHHHHCCCEEEEECCCHHHHHH
RIEEGERDIAGVILNTPITVKEIIALGEKLLRGQVSAAEISKEVEEEELEEDEEDVQKTR
HHHHCCHHHHHHHCCCCCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHCHHHHHHHHH
LLAQVEEIAAVDVRLAALNAELEEESLSASRRQELLAERQELKEKLAEMVTSLRLKDRHI
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
AKIAQRLKELSAKVDTIMAEIAAIEKEAGVSADTLKEIAASEAVGKGIKLSLEDAQKHEK
HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCCEEEHHHHHHHHH
KVRSAEKKLKKVEEESGFKARELSDALRAIDRGEAKSKLAKSELVEANLRLVVSIAKKYT
HHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
NRGLQFLDLIQEGNIGLMKAVDKFEYQRGYKFSTYATWWIRQAITRAIADQARTIRIPVH
HCCHHHHHHHHCCCCHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHCCCEEEHHHH
MIETINKLIRTSRQLVQEIGREPSPEEIAERMNLPLDKVRKVLKIAKEPISLETPIGEEE
HHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCCCCCCC
DSHLGDFIEDKGVVSPLEAVIKANLSEQTARVLATLTPREEKVLRMRFGIGEKSDHTLEE
CHHHHHHHHCCCCHHHHHHHHHCCCHHHHHHHHHHCCCHHHHHHHHHHCCCCCCCCHHHH
VGQDFEVTRERIRQIEAKALRKLRHPSRAKKLRSFVE
HCCCHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHCC

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]