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The map label for this gene is rpoD

Identifier: 161936260

GI number: 161936260

Start: 74727

End: 76196

Strand: Direct

Name: rpoD

Synonym: mhp063

Alternate gene names: 161936260

Gene position: 74727-76196 (Clockwise)

Preceding gene: 54020012

Following gene: 54020014

Centisome position: 8.37

GC content: 32.31

Gene sequence:

>1470_bases
ATGACAGAAAATAAAGAACTTTTCCCCCAAAAAGAGGATTTTATTCCAATTTCTAATATTAATCAAAATAGTTCTGAATA
TGAGTTTATTATCGAGAAATTAGAACAAAAATTAGAACAAAAACACCAAAAGATAGGAAAAAATAGTTCTAATTTAGATA
ATTTTTCTATTTTTTTAAGTCACGATGAAATTTATAAATATATTGAAAAGTGAAATCTTGCAATTGAAGAAGAAAAACTT
GATGATTTTTTTCAAACTTTAATACAAAGAAAAATAATTGCTGATGAAGTCGATAAAGAGGATCTTGAAAATGTTTCAAG
TTTTGATTTTGCCGAGCAAATTAATAATAAAAAATCTGTTAGAGATAAAAAAAATAAAAAATATAGTCAAGATTTTGATC
AGTCACTAATAAACTTAGATGATCAAAATTTCGATATTAATCATAACGAGGAAGATGATAATTCTGAGCTAAATCTAGGA
CAATCAGTCGATGATTCCTTAAAAATTCAGGAAATTGACGACCTGGATTATATAACAGAAAATAGTCCAAATCAATACCA
CAAACCAAAAGTTTATAGTGATGAAGTTTACCTTAACAAACTGACCGATACAAGTGATATGATAAAATGGTATATGCGTT
GGATCGGAAAATATGGAAAACTTTTAACGGCTGAAGAAGAAAGAGAACTTGCAAAAAAAATGAAAATCAAAGGCCGGATT
GGAAAAAAAGCGCGTGATACCTTAATAAAACGGAATTTACGTTTGGTGGTTAACAGTGCAAAACGCTATAAAAACCGCGG
TCTTGGATTTATCGATCTAATCTCAGAGGGAAACCTCGGTATTATTAAAGCAGTTGCAAAATATGACTATACCCGTGGAT
TTAAATTCTCAACTTATGCAACCTGATGAATCCGCCAAGCGATTACAAGGGCGGTTGCCGACCAAGCCCGGCTCATTCGA
ATTCCGGTTCATATGGTCGAGACAATCAATAAAATTAATAAGGTAGAAAGGGAATTGCAACAAGAAAAAGGACTTAATCC
AACAGCCGAAGAAATTTCAGAACGTTTAGGTGGCGAATTTAGCCCTGATAAAATACGGTATATTAAAAAAATCAATATTG
ATCCAATTTCACTAGATAAAGCAATTGGGAAAGAGGAAGATAGTTCTTTTTCTGATTTTATCAAGGATGAGAATATGATT
TCCCCAGTAGATTATGCAATTCGTGAGGAAAAAGCGAAAGTTTTGTTGGAAATGATCGATTCAACACTTGATTATGATGA
AAGAGATTTTATCAAAAGACGTTATGGGGTCGGAACAAACGATGAAGGAATTCCTTATCAGGCACATAGTTTTGAAGAGC
TTGCGGCGATGCGTCGAGTAACAAAAGAGAGGGTTAGGCAAATTGAGGCAAAAATTCTAAAAAAATTAAGAACCCCACAT
CGCCGCCTATCATTAAGGGATTTTAATTAA

Upstream 100 bases:

>100_bases
CAAAAAACCCGTAAAAAAAGCTAAAACAAATTCAGTTAAGAAAAAACTAACTAAAATTATCCCAGTTAAAGAACCTGATA
ATATAGATTTACCTAAAAAA

Downstream 100 bases:

>100_bases
AAAGTAATGAAAACAAAGGAAGTTGGCGATTTTCTCCTTGAAAAATTTCCACTACAAAATTGTCAAAATTGGGATAAGTG
TGGCTGACAATTTCTTTTTG

Product: RNA polymerase sigma factor

Products: NA

Alternate protein names: Sigma-42 [H]

Number of amino acids: Translated: 489; Mature: 488

Protein sequence:

>489_residues
MTENKELFPQKEDFIPISNINQNSSEYEFIIEKLEQKLEQKHQKIGKNSSNLDNFSIFLSHDEIYKYIEKWNLAIEEEKL
DDFFQTLIQRKIIADEVDKEDLENVSSFDFAEQINNKKSVRDKKNKKYSQDFDQSLINLDDQNFDINHNEEDDNSELNLG
QSVDDSLKIQEIDDLDYITENSPNQYHKPKVYSDEVYLNKLTDTSDMIKWYMRWIGKYGKLLTAEEERELAKKMKIKGRI
GKKARDTLIKRNLRLVVNSAKRYKNRGLGFIDLISEGNLGIIKAVAKYDYTRGFKFSTYATWWIRQAITRAVADQARLIR
IPVHMVETINKINKVERELQQEKGLNPTAEEISERLGGEFSPDKIRYIKKINIDPISLDKAIGKEEDSSFSDFIKDENMI
SPVDYAIREEKAKVLLEMIDSTLDYDERDFIKRRYGVGTNDEGIPYQAHSFEELAAMRRVTKERVRQIEAKILKKLRTPH
RRLSLRDFN

Sequences:

>Translated_489_residues
MTENKELFPQKEDFIPISNINQNSSEYEFIIEKLEQKLEQKHQKIGKNSSNLDNFSIFLSHDEIYKYIEK*NLAIEEEKL
DDFFQTLIQRKIIADEVDKEDLENVSSFDFAEQINNKKSVRDKKNKKYSQDFDQSLINLDDQNFDINHNEEDDNSELNLG
QSVDDSLKIQEIDDLDYITENSPNQYHKPKVYSDEVYLNKLTDTSDMIKWYMRWIGKYGKLLTAEEERELAKKMKIKGRI
GKKARDTLIKRNLRLVVNSAKRYKNRGLGFIDLISEGNLGIIKAVAKYDYTRGFKFSTYAT**IRQAITRAVADQARLIR
IPVHMVETINKINKVERELQQEKGLNPTAEEISERLGGEFSPDKIRYIKKINIDPISLDKAIGKEEDSSFSDFIKDENMI
SPVDYAIREEKAKVLLEMIDSTLDYDERDFIKRRYGVGTNDEGIPYQAHSFEELAAMRRVTKERVRQIEAKILKKLRTPH
RRLSLRDFN
>Mature_488_residues
TENKELFPQKEDFIPISNINQNSSEYEFIIEKLEQKLEQKHQKIGKNSSNLDNFSIFLSHDEIYKYIEK*NLAIEEEKLD
DFFQTLIQRKIIADEVDKEDLENVSSFDFAEQINNKKSVRDKKNKKYSQDFDQSLINLDDQNFDINHNEEDDNSELNLGQ
SVDDSLKIQEIDDLDYITENSPNQYHKPKVYSDEVYLNKLTDTSDMIKWYMRWIGKYGKLLTAEEERELAKKMKIKGRIG
KKARDTLIKRNLRLVVNSAKRYKNRGLGFIDLISEGNLGIIKAVAKYDYTRGFKFSTYAT**IRQAITRAVADQARLIRI
PVHMVETINKINKVERELQQEKGLNPTAEEISERLGGEFSPDKIRYIKKINIDPISLDKAIGKEEDSSFSDFIKDENMIS
PVDYAIREEKAKVLLEMIDSTLDYDERDFIKRRYGVGTNDEGIPYQAHSFEELAAMRRVTKERVRQIEAKILKKLRTPHR
RLSLRDFN

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=268, Percent_Identity=46.2686567164179, Blast_Score=232, Evalue=3e-62,
Organism=Escherichia coli, GI1789098, Length=276, Percent_Identity=38.4057971014493, Blast_Score=170, Evalue=2e-43,
Organism=Escherichia coli, GI1789871, Length=272, Percent_Identity=27.5735294117647, Blast_Score=75, Evalue=1e-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:   IPR013325
- InterPro:   IPR013324
- InterPro:   IPR012760
- 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: 56934; Mature: 56803

Theoretical pI: Translated: 5.85; Mature: 5.85

Prosite motif: PS00716 SIGMA70_2

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.0 %Cys     (Translated Protein)
1.6 %Met     (Translated Protein)
1.6 %Cys+Met (Translated Protein)
0.0 %Cys     (Mature Protein)
1.4 %Met     (Mature Protein)
1.4 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MTENKELFPQKEDFIPISNINQNSSEYEFIIEKLEQKLEQKHQKIGKNSSNLDNFSIFLS
CCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCEEEEEC
HDEIYKYIEKNLAIEEEKLDDFFQTLIQRKIIADEVDKEDLENVSSFDFAEQINNKKSVR
HHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHCCHHHHH
DKKNKKYSQDFDQSLINLDDQNFDINHNEEDDNSELNLGQSVDDSLKIQEIDDLDYITEN
HHHCCHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEECCCCHHHCCC
SPNQYHKPKVYSDEVYLNKLTDTSDMIKWYMRWIGKYGKLLTAEEERELAKKMKIKGRIG
CCCCCCCCCCCCCHHHHHHHCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHCC
KKARDTLIKRNLRLVVNSAKRYKNRGLGFIDLISEGNLGIIKAVAKYDYTRGFKFSTYAT
HHHHHHHHHHHHHHHHHHHHHHHHCCCCEEEEECCCCCHHHHHHHHHHHHCCCCHHHHHH
IRQAITRAVADQARLIRIPVHMVETINKINKVERELQQEKGLNPTAEEISERLGGEFSPD
HHHHHHHHHHHHHHEEEHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHCCCCCHH
KIRYIKKINIDPISLDKAIGKEEDSSFSDFIKDENMISPVDYAIREEKAKVLLEMIDSTL
HHHHHHHCCCCCCHHHHHHCCCCCCCHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHC
DYDERDFIKRRYGVGTNDEGIPYQAHSFEELAAMRRVTKERVRQIEAKILKKLRTPHRRL
CCCHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHC
SLRDFN
CCCCCC
>Mature Secondary Structure 
TENKELFPQKEDFIPISNINQNSSEYEFIIEKLEQKLEQKHQKIGKNSSNLDNFSIFLS
CCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCEEEEEC
HDEIYKYIEKNLAIEEEKLDDFFQTLIQRKIIADEVDKEDLENVSSFDFAEQINNKKSVR
HHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHCCHHHHH
DKKNKKYSQDFDQSLINLDDQNFDINHNEEDDNSELNLGQSVDDSLKIQEIDDLDYITEN
HHHCCHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEECCCCHHHCCC
SPNQYHKPKVYSDEVYLNKLTDTSDMIKWYMRWIGKYGKLLTAEEERELAKKMKIKGRIG
CCCCCCCCCCCCCHHHHHHHCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHCC
KKARDTLIKRNLRLVVNSAKRYKNRGLGFIDLISEGNLGIIKAVAKYDYTRGFKFSTYAT
HHHHHHHHHHHHHHHHHHHHHHHHCCCCEEEEECCCCCHHHHHHHHHHHHCCCCHHHHHH
IRQAITRAVADQARLIRIPVHMVETINKINKVERELQQEKGLNPTAEEISERLGGEFSPD
HHHHHHHHHHHHHHEEEHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHCCCCCHH
KIRYIKKINIDPISLDKAIGKEEDSSFSDFIKDENMISPVDYAIREEKAKVLLEMIDSTL
HHHHHHHCCCCCCHHHHHHCCCCCCCHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHC
DYDERDFIKRRYGVGTNDEGIPYQAHSFEELAAMRRVTKERVRQIEAKILKKLRTPHRRL
CCCHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHC
SLRDFN
CCCCCC

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: 7503808; 11337471 [H]