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The map label for this gene is rpoD [H]

Identifier: 158340491

GI number: 158340491

Start: 38716

End: 40809

Strand: Reverse

Name: rpoD [H]

Synonym: AM1_C0036

Alternate gene names: 158340491

Gene position: 40809-38716 (Counterclockwise)

Preceding gene: 158340492

Following gene: 158340490

Centisome position: 14.94

GC content: 50.96

Gene sequence:

>2094_bases
ATGACGACCACTACGATTGCTAGCCCCTTCTCAGACGGAATCCGTCTACCCGAATATCTCGTTCAGTTCTTGCACCGCTT
CCCCATCCCAGACCCAGAGCAAGAGCTAGACCTGATCCGCAAAGCTAAGCGAGGCCATGAGACCTCTTTGTCATGGCTGA
TGATCGGGCATGTTCGCTTGGTGGCGAAACTCGCCAAACAATACGCATGGACTTTGGATGATGCTCAAGACCTGATCCAA
GAGGGGATGTTAGGCATCCGTCATGCCGTGGGGAAATTCGACTCTACGAAAGGATGCAAGTTCTCCACCTATGCAAGAGG
CTGGATTCGCGGATATATCCGTAGATTCTGCTATAAAAACAGACCCAAGCAATTGAGATTGCCCGAGAAAAAACAAGTCC
ATCTCGATAGGGTTTACAGACTCCAAAACGAGTTTCCTGATGCCAACCTGGAAGAGATTGCCCGAAAAGCGAACCTAAAG
CTGGAATATATCGAGGATTTACTCTATTGGGGCCGTTCATTTCAAGAAATCCCAGACTGGCATGAATTTGTGATTGATGA
TGCGTCATTCTACACGGATGATGAAGAATATGACGAGTATTTTGATATTGAGCTTGAACCTGAGACAAAGACAAATCTCG
TCCTAATCAAAGCACCTCCACCTTTCATTCCACCGAAGTATCAAATCCCAATCCATCTCCTCAAGCAGTGGTTCCGGGTT
GGCTTGGCGCAGTTCGTGAATGCAGCCAAAGACCAACTGGAACATACTCGACTAGGATTTTCCCAAAGTTTCAGCAGATC
CTCCCCATCAACAGCACCAGAAGTAGGTCAGGAACGAGTAAACCTCAATACCTGGCCTGCTCCTCTTTCCTTCTGCTACG
AAAACAGCATTAATCCTTACGCTTATTCCCAGGCTCCCCCTGCTATAGAGTCTCTTTCTGCTAAAGCTATCAACTTAGTC
AAAGGAGTTATTGCCCATGCTCAGGAATCTCTTTTGGTTCTTTGTGGGGGTCGCAGTGACGGGTCTACTGATCGACCGGG
GCATCAACCTTCCCCAGCGGATCAGCGATGCCGTGGACTGGGAGAGCCTGGAACGACTGGGCGAGGACATCTGGGATTCT
GCCAAGCAGTAACCGAGTTTATTCACAGACCATTAGCGACGATATCTGATTGCCTTAGAGGATTTCCATCACGGGCTGGC
CCTGACACCAGCCAACAACCACAGCGAGGAGCTGTCTTTGATAGCAACCCTCCACCCCAGCAGATGCACTTGCCAAGGAA
AAACGCCATGTACAAAACCATTGCCGCCATGATCGCGGCCTGGTTGGGGCTGCTCATCTCCCCAGCCACAGCGGAAACCA
TTAAGATAGCGCCCGGTCATGGTCACCTGATTGACCTTACCGCAAGCGGGTGCCGGGTCTCCAAAGCCTATATGGGTACG
AGGGGAATCTTTGACCTGAGCTTGGATCGGCCCCAACCCCAAACCCAGAAGATTTACCTGACTTGGAAACCCAATACCCA
GGTGAAATCGACGAACTTAATCCAAGATTTAGTGGGCTGCAACCGCTCCTCAATGGAGTTAACGATCAATCGGTCTGACA
GTGCCCCCAGTACTGCCATCACTCGGATTGGAACACCCACCCCCATTGCTCATACCCCAGAGCAATCGCGAGTCTTCACA
GGTCGCCTGGGTCAACCACCTGAGAGGACTCGCGTTCATCAAGCTTCGACAGCGGTCCAGCCTTTGACCTTAAAGCCCCA
GGCTCAGACACTTCCCAAACCGAAGATCGTCAAACGTCCTCCTGTGCGACGAGTCCCCCTAACTCAGAAGGTAAAGCCTA
TCCCAACGGCTAACATACCCCTGACTAAAACTAATGTGTCCGATAGCCGTATCACTCCAGCGACCCTTTTGAGGGGTCTA
AACATCGCTAGAGCGTCAGGCAACCAGACGTATAGCTATCTCTCGGAAATGCATTGGCGAGTTAACGGCATGATTCGCCA
GATGCGTTGGGGAGCAAAGGCTGATGTGGCAGCAAAGCGGGCCAAAATCTCTCCTGACCAACTTCAGACCCTGCTCAACT
ACGCCCAGCAATAA

Upstream 100 bases:

>100_bases
CTCAGACGAACACTCCCCAACACCCAGCCACCTCAAGATTAACTTCCATCCCAAACCCTCTCGCTAATTCCAGTCACCCT
CTTGTAGGAGGTTTGACCCG

Downstream 100 bases:

>100_bases
CCCCTAGATCCATTGATCCATTAGAGGCAACTCCCATGAAACGACTCAAGATCCTTTACGAAAAAACCTCAAAACAGCCC
TGGTGGTTTGGCTATAGTGG

Product: RNA polymerase sigma-2 subunit

Products: NA

Alternate protein names: Sigma-A [H]

Number of amino acids: Translated: 697; Mature: 696

Protein sequence:

>697_residues
MTTTTIASPFSDGIRLPEYLVQFLHRFPIPDPEQELDLIRKAKRGHETSLSWLMIGHVRLVAKLAKQYAWTLDDAQDLIQ
EGMLGIRHAVGKFDSTKGCKFSTYARGWIRGYIRRFCYKNRPKQLRLPEKKQVHLDRVYRLQNEFPDANLEEIARKANLK
LEYIEDLLYWGRSFQEIPDWHEFVIDDASFYTDDEEYDEYFDIELEPETKTNLVLIKAPPPFIPPKYQIPIHLLKQWFRV
GLAQFVNAAKDQLEHTRLGFSQSFSRSSPSTAPEVGQERVNLNTWPAPLSFCYENSINPYAYSQAPPAIESLSAKAINLV
KGVIAHAQESLLVLCGGRSDGSTDRPGHQPSPADQRCRGLGEPGTTGRGHLGFCQAVTEFIHRPLATISDCLRGFPSRAG
PDTSQQPQRGAVFDSNPPPQQMHLPRKNAMYKTIAAMIAAWLGLLISPATAETIKIAPGHGHLIDLTASGCRVSKAYMGT
RGIFDLSLDRPQPQTQKIYLTWKPNTQVKSTNLIQDLVGCNRSSMELTINRSDSAPSTAITRIGTPTPIAHTPEQSRVFT
GRLGQPPERTRVHQASTAVQPLTLKPQAQTLPKPKIVKRPPVRRVPLTQKVKPIPTANIPLTKTNVSDSRITPATLLRGL
NIARASGNQTYSYLSEMHWRVNGMIRQMRWGAKADVAAKRAKISPDQLQTLLNYAQQ

Sequences:

>Translated_697_residues
MTTTTIASPFSDGIRLPEYLVQFLHRFPIPDPEQELDLIRKAKRGHETSLSWLMIGHVRLVAKLAKQYAWTLDDAQDLIQ
EGMLGIRHAVGKFDSTKGCKFSTYARGWIRGYIRRFCYKNRPKQLRLPEKKQVHLDRVYRLQNEFPDANLEEIARKANLK
LEYIEDLLYWGRSFQEIPDWHEFVIDDASFYTDDEEYDEYFDIELEPETKTNLVLIKAPPPFIPPKYQIPIHLLKQWFRV
GLAQFVNAAKDQLEHTRLGFSQSFSRSSPSTAPEVGQERVNLNTWPAPLSFCYENSINPYAYSQAPPAIESLSAKAINLV
KGVIAHAQESLLVLCGGRSDGSTDRPGHQPSPADQRCRGLGEPGTTGRGHLGFCQAVTEFIHRPLATISDCLRGFPSRAG
PDTSQQPQRGAVFDSNPPPQQMHLPRKNAMYKTIAAMIAAWLGLLISPATAETIKIAPGHGHLIDLTASGCRVSKAYMGT
RGIFDLSLDRPQPQTQKIYLTWKPNTQVKSTNLIQDLVGCNRSSMELTINRSDSAPSTAITRIGTPTPIAHTPEQSRVFT
GRLGQPPERTRVHQASTAVQPLTLKPQAQTLPKPKIVKRPPVRRVPLTQKVKPIPTANIPLTKTNVSDSRITPATLLRGL
NIARASGNQTYSYLSEMHWRVNGMIRQMRWGAKADVAAKRAKISPDQLQTLLNYAQQ
>Mature_696_residues
TTTTIASPFSDGIRLPEYLVQFLHRFPIPDPEQELDLIRKAKRGHETSLSWLMIGHVRLVAKLAKQYAWTLDDAQDLIQE
GMLGIRHAVGKFDSTKGCKFSTYARGWIRGYIRRFCYKNRPKQLRLPEKKQVHLDRVYRLQNEFPDANLEEIARKANLKL
EYIEDLLYWGRSFQEIPDWHEFVIDDASFYTDDEEYDEYFDIELEPETKTNLVLIKAPPPFIPPKYQIPIHLLKQWFRVG
LAQFVNAAKDQLEHTRLGFSQSFSRSSPSTAPEVGQERVNLNTWPAPLSFCYENSINPYAYSQAPPAIESLSAKAINLVK
GVIAHAQESLLVLCGGRSDGSTDRPGHQPSPADQRCRGLGEPGTTGRGHLGFCQAVTEFIHRPLATISDCLRGFPSRAGP
DTSQQPQRGAVFDSNPPPQQMHLPRKNAMYKTIAAMIAAWLGLLISPATAETIKIAPGHGHLIDLTASGCRVSKAYMGTR
GIFDLSLDRPQPQTQKIYLTWKPNTQVKSTNLIQDLVGCNRSSMELTINRSDSAPSTAITRIGTPTPIAHTPEQSRVFTG
RLGQPPERTRVHQASTAVQPLTLKPQAQTLPKPKIVKRPPVRRVPLTQKVKPIPTANIPLTKTNVSDSRITPATLLRGLN
IARASGNQTYSYLSEMHWRVNGMIRQMRWGAKADVAAKRAKISPDQLQTLLNYAQQ

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: Non_Essential [C]

Operon status: Not Known

Operon components: None

Similarity: Belongs to the sigma-70 factor family [H]

Homologues:

Organism=Escherichia coli, GI1789098, Length=101, Percent_Identity=40.5940594059406, Blast_Score=71, Evalue=2e-13,

Paralogues:

None

Copy number: <10 (log phase) 250 (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: 78251; Mature: 78120

Theoretical pI: Translated: 9.95; Mature: 9.95

Prosite motif: NA

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

1.3 %Cys     (Translated Protein)
1.6 %Met     (Translated Protein)
2.9 %Cys+Met (Translated Protein)
1.3 %Cys     (Mature Protein)
1.4 %Met     (Mature Protein)
2.7 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MTTTTIASPFSDGIRLPEYLVQFLHRFPIPDPEQELDLIRKAKRGHETSLSWLMIGHVRL
CCCCCCCCCCCCCCCCHHHHHHHHHHCCCCCCHHHHHHHHHHHCCCCCCHHHHHHHHHHH
VAKLAKQYAWTLDDAQDLIQEGMLGIRHAVGKFDSTKGCKFSTYARGWIRGYIRRFCYKN
HHHHHHHHHCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHCC
RPKQLRLPEKKQVHLDRVYRLQNEFPDANLEEIARKANLKLEYIEDLLYWGRSFQEIPDW
CCCCCCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHCCHHHHHHHHHHHCCHHHHCCCH
HEFVIDDASFYTDDEEYDEYFDIELEPETKTNLVLIKAPPPFIPPKYQIPIHLLKQWFRV
HHHHCCCCHHCCCCHHHHCEEEEEECCCCCCCEEEEECCCCCCCCCCCCHHHHHHHHHHH
GLAQFVNAAKDQLEHTRLGFSQSFSRSSPSTAPEVGQERVNLNTWPAPLSFCYENSINPY
HHHHHHHHHHHHHHHHHCCCHHHHCCCCCCCCHHHHHHHCCCCCCCCHHHHHHHCCCCCC
AYSQAPPAIESLSAKAINLVKGVIAHAQESLLVLCGGRSDGSTDRPGHQPSPADQRCRGL
EECCCCCHHHHHHHHHHHHHHHHHHHCCCCEEEEECCCCCCCCCCCCCCCCCHHHHHHCC
GEPGTTGRGHLGFCQAVTEFIHRPLATISDCLRGFPSRAGPDTSQQPQRGAVFDSNPPPQ
CCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCHH
QMHLPRKNAMYKTIAAMIAAWLGLLISPATAETIKIAPGHGHLIDLTASGCRVSKAYMGT
HCCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCEEEECCCCCCEEEEECCCCEEHHHHHCC
RGIFDLSLDRPQPQTQKIYLTWKPNTQVKSTNLIQDLVGCNRSSMELTINRSDSAPSTAI
CCEEEEECCCCCCCCEEEEEEECCCCCCCHHHHHHHHHCCCCCCEEEEEECCCCCCCHHH
TRIGTPTPIAHTPEQSRVFTGRLGQPPERTRVHQASTAVQPLTLKPQAQTLPKPKIVKRP
HCCCCCCCCCCCCCCCCEEECCCCCCHHHHHHHHHHHCCCCEEECCCHHCCCCCCCCCCC
PVRRVPLTQKVKPIPTANIPLTKTNVSDSRITPATLLRGLNIARASGNQTYSYLSEMHWR
CCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCHHHHHHCCHHEECCCCHHHHHHHHHHHH
VNGMIRQMRWGAKADVAAKRAKISPDQLQTLLNYAQQ
HHHHHHHHHCCCCHHHHHHHHCCCHHHHHHHHHHHCC
>Mature Secondary Structure 
TTTTIASPFSDGIRLPEYLVQFLHRFPIPDPEQELDLIRKAKRGHETSLSWLMIGHVRL
CCCCCCCCCCCCCCCHHHHHHHHHHCCCCCCHHHHHHHHHHHCCCCCCHHHHHHHHHHH
VAKLAKQYAWTLDDAQDLIQEGMLGIRHAVGKFDSTKGCKFSTYARGWIRGYIRRFCYKN
HHHHHHHHHCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHCC
RPKQLRLPEKKQVHLDRVYRLQNEFPDANLEEIARKANLKLEYIEDLLYWGRSFQEIPDW
CCCCCCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHCCHHHHHHHHHHHCCHHHHCCCH
HEFVIDDASFYTDDEEYDEYFDIELEPETKTNLVLIKAPPPFIPPKYQIPIHLLKQWFRV
HHHHCCCCHHCCCCHHHHCEEEEEECCCCCCCEEEEECCCCCCCCCCCCHHHHHHHHHHH
GLAQFVNAAKDQLEHTRLGFSQSFSRSSPSTAPEVGQERVNLNTWPAPLSFCYENSINPY
HHHHHHHHHHHHHHHHHCCCHHHHCCCCCCCCHHHHHHHCCCCCCCCHHHHHHHCCCCCC
AYSQAPPAIESLSAKAINLVKGVIAHAQESLLVLCGGRSDGSTDRPGHQPSPADQRCRGL
EECCCCCHHHHHHHHHHHHHHHHHHHCCCCEEEEECCCCCCCCCCCCCCCCCHHHHHHCC
GEPGTTGRGHLGFCQAVTEFIHRPLATISDCLRGFPSRAGPDTSQQPQRGAVFDSNPPPQ
CCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCHH
QMHLPRKNAMYKTIAAMIAAWLGLLISPATAETIKIAPGHGHLIDLTASGCRVSKAYMGT
HCCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCEEEECCCCCCEEEEECCCCEEHHHHHCC
RGIFDLSLDRPQPQTQKIYLTWKPNTQVKSTNLIQDLVGCNRSSMELTINRSDSAPSTAI
CCEEEEECCCCCCCCEEEEEEECCCCCCCHHHHHHHHHCCCCCCEEEEEECCCCCCCHHH
TRIGTPTPIAHTPEQSRVFTGRLGQPPERTRVHQASTAVQPLTLKPQAQTLPKPKIVKRP
HCCCCCCCCCCCCCCCCEEECCCCCCHHHHHHHHHHHCCCCEEECCCHHCCCCCCCCCCC
PVRRVPLTQKVKPIPTANIPLTKTNVSDSRITPATLLRGLNIARASGNQTYSYLSEMHWR
CCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCHHHHHHCCHHEECCCCHHHHHHHHHHHH
VNGMIRQMRWGAKADVAAKRAKISPDQLQTLLNYAQQ
HHHHHHHHHCCCCHHHHHHHHCCCHHHHHHHHHHHCC

PDB accession: NA

Resolution: NA

Structure class: Unstructured

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: 9045836; 10360571 [H]