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The map label for this gene is rpoD

Identifier: 88608313

GI number: 88608313

Start: 254613

End: 256475

Strand: Reverse

Name: rpoD

Synonym: NSE_0312

Alternate gene names: 88608313

Gene position: 256475-254613 (Counterclockwise)

Preceding gene: 88608467

Following gene: 88608660

Centisome position: 29.86

GC content: 40.9

Gene sequence:

>1863_bases
ATGACAAAAGGTTACAGTTCTAAGTTTCATCAAGTTGTTAAAGCACTGATCACTAAAGGAGTAAAAAGAGGTTTCGTCAC
GTATGGTGAGTTGAGTGACTCATTTTCAGATGAGGATTTTGAAAATTTAAATTGCATAGAAGAAGCAATAAGCAAACTGG
AGGAATCCGGAATAGGTATCCTAGAAAAGGATGAGGAAGACGAGCTCAGTGAAGAAGTCAAGGAAGAAGATGAAGAAGAG
GACGAAGCCGCTGACATATTAGGTCACACGGACGATCCAGTAAGGCTATATCTTCGTGAAATGAGCTACGTCAAGCTCCT
TTCTAGAGATGATGAAGTAGAAATAGCAAAGGCCATTGTAGCAGAAAAATTTGAGTCGCTTTCCGCGGTTTTACTCTTCC
CTTCAGTACTGAAGAGTATAGTAAATCTCGGAACAAAACTGAGAGAATGCACAATCTCGTTGCGTGAAGTAATAGAATCA
GACTCAGGATTAAAGAGTGAACTTACTGAGGAAACAGGCAAAGGAGACGACCTCTTTGAAGGCATGGATGGCAAACCAGA
AGAAGGAAACCAGATGTCTGACGAGGAGCTTATGGAGAAGGTCTTAGATATCTTTGGTGAGCTCGAAACAATAATCACAT
CCGCGCTCGATAAAGCGAAAGAAGGACAGATGGTAAAAATTGTAGATGGCGAGGTGATACTCGACCCAGAATATCGAGAA
CTGCACACTCTTGCAGTAAACCACTTAAACCAAGTGAAGCTCAACCCAAAGCTTCTTGCTGAGTTTTTCGAGAACACTCG
AAAAAAGAACGAGCTTATTCTCGAAAAGAAAAAGGTACTCCTCACATTCTTAGAAGAACATGGCTTAGATAGAACGGTCC
TCATCAAAGGTAAAGTACACATCCTGGATGCTGTGGTCCTATCAGAACTTCTGAAGGAACACAATATTTGCGACACACAT
TTCTCTCTTGAAGAATTTCTCTCTCCAATTAGAGAGCTGGAAAAAAATGAAGGAATGGACTATAGAAGTATCAGCTTTCT
AACCAGAAAGGTTGCTACTCACCTAGATAATGCGAATGCAGCAAAACATAGAATGGTAGAAGCTAATTTGAGGTTAGTGA
TCTCAATTGCTAAGAAGTACACTAATAGAGGTATGCCATTCCCCGATCTGATTCAAGAAGGAAATATCGGTCTGATGAAA
GCAGTAGATAAATTTGATCATAGAAGGGGGCATAAATTCTCTACATACGCAACTTGGTGGTGCAGACAGGCTATAACCCG
CGCTATAGCAGATTGTGGAAGCATAGTGAGAAAACCTGTACACATACACGAGACTGCAAATAAGGTAATGCGGACTAGAA
GGAGACTGTACAACCTCAATGGTAGAGAGCCTACTGTCGAGGAGATTGCAAATCTACTTAAAATTTCTCCGGATAAGGTT
AAGAAGTCGCTCAAAGTGAATCAAGATCCGATAAGTCTGGAATCACCAGTGGGCGATGACAGTAATAGTGGTTCTTTTGG
CGACTTTATAGAGGATAAGAATGCGGTAAGCCAAGTGGACGTAGTCCTCTCAAAAAACTTGAGGAAAGTTCTGGATGAAG
CGCTCGCAATGCTCTCCCCAAGGGAAGAAAAAATCCTGAGGTATAGGTTTGGACTATGCAACAGTGTACACAGTCCCGAA
GATGAACACTATTTGAAGTCTCTAAAAATTGACCTAAACAGAGGAACAAATCTCACTCTCGAACAAGTCGGGATACTGTA
CAATGTAACAAGGGAAAGAATCAGACAAATTGAGTCTAAGTCGTTAAGAAAAATGAGAAGTCCAAGCCGATCTATAAAAT
TACGGACTTTCCTTAAATACTAA

Upstream 100 bases:

>100_bases
GGTATTCTTCTTGATTTTTGCAATTTTTTAGTCTTCACCAATATTTCCGTCCTACTTGCACTTTCTTATTTGCGTGGGGA
ACGTTTTGTGTTTATAGCAT

Downstream 100 bases:

>100_bases
GAGTTGTGTACCTATTACTGGCTTTACTTTTAGCTACTTTTCTTGTTCTGATTATCGGAGTTTTATCCATGCTTTCGGGC
AACAAAAAATCGGGAAATAC

Product: RNA polymerase sigma factor RpoD

Products: NA

Alternate protein names: Sigma-70 [H]

Number of amino acids: Translated: 620; Mature: 619

Protein sequence:

>620_residues
MTKGYSSKFHQVVKALITKGVKRGFVTYGELSDSFSDEDFENLNCIEEAISKLEESGIGILEKDEEDELSEEVKEEDEEE
DEAADILGHTDDPVRLYLREMSYVKLLSRDDEVEIAKAIVAEKFESLSAVLLFPSVLKSIVNLGTKLRECTISLREVIES
DSGLKSELTEETGKGDDLFEGMDGKPEEGNQMSDEELMEKVLDIFGELETIITSALDKAKEGQMVKIVDGEVILDPEYRE
LHTLAVNHLNQVKLNPKLLAEFFENTRKKNELILEKKKVLLTFLEEHGLDRTVLIKGKVHILDAVVLSELLKEHNICDTH
FSLEEFLSPIRELEKNEGMDYRSISFLTRKVATHLDNANAAKHRMVEANLRLVISIAKKYTNRGMPFPDLIQEGNIGLMK
AVDKFDHRRGHKFSTYATWWCRQAITRAIADCGSIVRKPVHIHETANKVMRTRRRLYNLNGREPTVEEIANLLKISPDKV
KKSLKVNQDPISLESPVGDDSNSGSFGDFIEDKNAVSQVDVVLSKNLRKVLDEALAMLSPREEKILRYRFGLCNSVHSPE
DEHYLKSLKIDLNRGTNLTLEQVGILYNVTRERIRQIESKSLRKMRSPSRSIKLRTFLKY

Sequences:

>Translated_620_residues
MTKGYSSKFHQVVKALITKGVKRGFVTYGELSDSFSDEDFENLNCIEEAISKLEESGIGILEKDEEDELSEEVKEEDEEE
DEAADILGHTDDPVRLYLREMSYVKLLSRDDEVEIAKAIVAEKFESLSAVLLFPSVLKSIVNLGTKLRECTISLREVIES
DSGLKSELTEETGKGDDLFEGMDGKPEEGNQMSDEELMEKVLDIFGELETIITSALDKAKEGQMVKIVDGEVILDPEYRE
LHTLAVNHLNQVKLNPKLLAEFFENTRKKNELILEKKKVLLTFLEEHGLDRTVLIKGKVHILDAVVLSELLKEHNICDTH
FSLEEFLSPIRELEKNEGMDYRSISFLTRKVATHLDNANAAKHRMVEANLRLVISIAKKYTNRGMPFPDLIQEGNIGLMK
AVDKFDHRRGHKFSTYATWWCRQAITRAIADCGSIVRKPVHIHETANKVMRTRRRLYNLNGREPTVEEIANLLKISPDKV
KKSLKVNQDPISLESPVGDDSNSGSFGDFIEDKNAVSQVDVVLSKNLRKVLDEALAMLSPREEKILRYRFGLCNSVHSPE
DEHYLKSLKIDLNRGTNLTLEQVGILYNVTRERIRQIESKSLRKMRSPSRSIKLRTFLKY
>Mature_619_residues
TKGYSSKFHQVVKALITKGVKRGFVTYGELSDSFSDEDFENLNCIEEAISKLEESGIGILEKDEEDELSEEVKEEDEEED
EAADILGHTDDPVRLYLREMSYVKLLSRDDEVEIAKAIVAEKFESLSAVLLFPSVLKSIVNLGTKLRECTISLREVIESD
SGLKSELTEETGKGDDLFEGMDGKPEEGNQMSDEELMEKVLDIFGELETIITSALDKAKEGQMVKIVDGEVILDPEYREL
HTLAVNHLNQVKLNPKLLAEFFENTRKKNELILEKKKVLLTFLEEHGLDRTVLIKGKVHILDAVVLSELLKEHNICDTHF
SLEEFLSPIRELEKNEGMDYRSISFLTRKVATHLDNANAAKHRMVEANLRLVISIAKKYTNRGMPFPDLIQEGNIGLMKA
VDKFDHRRGHKFSTYATWWCRQAITRAIADCGSIVRKPVHIHETANKVMRTRRRLYNLNGREPTVEEIANLLKISPDKVK
KSLKVNQDPISLESPVGDDSNSGSFGDFIEDKNAVSQVDVVLSKNLRKVLDEALAMLSPREEKILRYRFGLCNSVHSPED
EHYLKSLKIDLNRGTNLTLEQVGILYNVTRERIRQIESKSLRKMRSPSRSIKLRTFLKY

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=292, Percent_Identity=51.3698630136986, Blast_Score=288, Evalue=1e-78,
Organism=Escherichia coli, GI1789098, Length=247, Percent_Identity=38.0566801619433, Blast_Score=173, Evalue=2e-44,
Organism=Escherichia coli, GI1789871, Length=265, Percent_Identity=27.9245283018868, Blast_Score=80, Evalue=3e-16,

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:   IPR007631
- InterPro:   IPR007127
- InterPro:   IPR013325
- InterPro:   IPR013324
- InterPro:   IPR012760
- InterPro:   IPR011991 [H]

Pfam domain/function: PF04546 Sigma70_ner; PF03979 Sigma70_r1_1; PF00140 Sigma70_r1_2; PF04542 Sigma70_r2; PF04539 Sigma70_r3; PF04545 Sigma70_r4 [H]

EC number: NA

Molecular weight: Translated: 70638; Mature: 70506

Theoretical pI: Translated: 5.44; Mature: 5.44

Prosite motif: PS00715 SIGMA70_1 ; PS00716 SIGMA70_2

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

1.0 %Cys     (Translated Protein)
2.1 %Met     (Translated Protein)
3.1 %Cys+Met (Translated Protein)
1.0 %Cys     (Mature Protein)
1.9 %Met     (Mature Protein)
2.9 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MTKGYSSKFHQVVKALITKGVKRGFVTYGELSDSFSDEDFENLNCIEEAISKLEESGIGI
CCCCCHHHHHHHHHHHHHHHHHHCCCEECCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCC
LEKDEEDELSEEVKEEDEEEDEAADILGHTDDPVRLYLREMSYVKLLSRDDEVEIAKAIV
CCCCCHHHHHHHHHHCCCHHHHHHHHCCCCCCHHHHHHHHHHHHHHHCCCCHHHHHHHHH
AEKFESLSAVLLFPSVLKSIVNLGTKLRECTISLREVIESDSGLKSELTEETGKGDDLFE
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHCCCCCHHHC
GMDGKPEEGNQMSDEELMEKVLDIFGELETIITSALDKAKEGQMVKIVDGEVILDPEYRE
CCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCEEEEECCEEEECCCHHH
LHTLAVNHLNQVKLNPKLLAEFFENTRKKNELILEKKKVLLTFLEEHGLDRTVLIKGKVH
HHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEECHHH
ILDAVVLSELLKEHNICDTHFSLEEFLSPIRELEKNEGMDYRSISFLTRKVATHLDNANA
HHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHCCCCCH
AKHRMVEANLRLVISIAKKYTNRGMPFPDLIQEGNIGLMKAVDKFDHRRGHKFSTYATWW
HHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHCCCCHHHHHHHHHHHHCCCCCHHHHHHH
CRQAITRAIADCGSIVRKPVHIHETANKVMRTRRRLYNLNGREPTVEEIANLLKISPDKV
HHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHCCCHHHH
KKSLKVNQDPISLESPVGDDSNSGSFGDFIEDKNAVSQVDVVLSKNLRKVLDEALAMLSP
HHHHCCCCCCCCCCCCCCCCCCCCCCCHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHCC
REEKILRYRFGLCNSVHSPEDEHYLKSLKIDLNRGTNLTLEQVGILYNVTRERIRQIESK
HHHHHHHHHHHHHCCCCCCCHHHHHHHHHEEECCCCCCHHHHHHHHHHHHHHHHHHHHHH
SLRKMRSPSRSIKLRTFLKY
HHHHHHCCCCCEEHHHHHCC
>Mature Secondary Structure 
TKGYSSKFHQVVKALITKGVKRGFVTYGELSDSFSDEDFENLNCIEEAISKLEESGIGI
CCCCHHHHHHHHHHHHHHHHHHCCCEECCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCC
LEKDEEDELSEEVKEEDEEEDEAADILGHTDDPVRLYLREMSYVKLLSRDDEVEIAKAIV
CCCCCHHHHHHHHHHCCCHHHHHHHHCCCCCCHHHHHHHHHHHHHHHCCCCHHHHHHHHH
AEKFESLSAVLLFPSVLKSIVNLGTKLRECTISLREVIESDSGLKSELTEETGKGDDLFE
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHCCCCCHHHC
GMDGKPEEGNQMSDEELMEKVLDIFGELETIITSALDKAKEGQMVKIVDGEVILDPEYRE
CCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCEEEEECCEEEECCCHHH
LHTLAVNHLNQVKLNPKLLAEFFENTRKKNELILEKKKVLLTFLEEHGLDRTVLIKGKVH
HHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEECHHH
ILDAVVLSELLKEHNICDTHFSLEEFLSPIRELEKNEGMDYRSISFLTRKVATHLDNANA
HHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHCCCCCH
AKHRMVEANLRLVISIAKKYTNRGMPFPDLIQEGNIGLMKAVDKFDHRRGHKFSTYATWW
HHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHCCCCHHHHHHHHHHHHCCCCCHHHHHHH
CRQAITRAIADCGSIVRKPVHIHETANKVMRTRRRLYNLNGREPTVEEIANLLKISPDKV
HHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHCCCHHHH
KKSLKVNQDPISLESPVGDDSNSGSFGDFIEDKNAVSQVDVVLSKNLRKVLDEALAMLSP
HHHHCCCCCCCCCCCCCCCCCCCCCCCHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHCC
REEKILRYRFGLCNSVHSPEDEHYLKSLKIDLNRGTNLTLEQVGILYNVTRERIRQIESK
HHHHHHHHHHHHHCCCCCCCHHHHHHHHHEEECCCCCCHHHHHHHHHHHHHHHHHHHHHH
SLRKMRSPSRSIKLRTFLKY
HHHHHHCCCCCEEHHHHHCC

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: NA