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The map label for this gene is rpoD [H]

Identifier: 15603106

GI number: 15603106

Start: 1432575

End: 1434443

Strand: Direct

Name: rpoD [H]

Synonym: PM1241

Alternate gene names: 15603106

Gene position: 1432575-1434443 (Clockwise)

Preceding gene: 15603105

Following gene: 15603108

Centisome position: 63.46

GC content: 40.82

Gene sequence:

>1869_bases
ATGGATCAAAATCCACAATCTCAATTGAAATTGTTAATCGCACAAGGCAAAGAACAAGGTTATCTTACTTACGCAGAGGT
CAATGACCACTTGCCAGAAGAACTTGTTGATGCTGAACAAATTGAAGATATTATTCAGATGATCAATGACATGGGGATTC
AAGTACTTGAAAGTGCACCTGATGCTGATGATCTGATGTTAAATGAAACGATTGCTGATGAAGATGCGGTTGAAGAAGCG
ACGCAAGTATTATCAAGCGTTGAAGCAGAAATTGGACGTACAACCGATCCTGTGCGCATGTATATGCGTGAAATGGGCAG
TGTTGAACTACTTACCCGCGAAGGCGAAATCGACATTGCAAAACGCATTGAAGAAGGGATTAATGAAGTTCAAAGTGCGA
TTGCCTTTTACCCAGAAGCAATTTCTTATCTACTTGATCAATACGCATTAGTCGAAGAAGGTGGCGTCCGTTTAGCTGAC
TTAATCACTGGCTTTGTTGATCCAAATGCGATGACAGAAAGCGATGTTGCAGAAATTGAAGACACTTTTGATGAAGACGA
AGACAGCGATTCTGTAAGTGCTACGCTCAATGAAGAAGAGGAAGAGGAAGAAGAAAGCGAAGAAGAAAGCACGACAGACG
ATAGCGATTCAGACAATTCCATCGATCCAGAAGTGGCGCGTGAGAAGTTTCTAGAACTCAAGACACAACACGCCAAAGCG
GTTGCGATGATCGAAAAACACGGTCGCACCAGCAAAAAATCAAAAGATCAAATCCAAGCCTTAGCAGATGTCTTTACCCA
ATTCCGTTTAGTGCCAAAACAATTTGATACGCTAGTCAATTTAATGAGCAATATGATGAAATCGGTTCGTTTACAAGAGC
GTAGCATTCAAAAAATTGTGGTAGATAAGGCCAAAATGCCAAAAGAGCAATTCCAAAAAGTCTTTATTGGGCATGAAAAC
AAAGATACTTGGTTAGTTAAAGCACTATCATCAGGCAAAACTTGGTCTGAAAAATTAGCGAAACATGAAGAAGAAATTCG
TTATTACATTGATAATATTCTGGAAATTGAACGTCAAACCAATTTAACCGTTTCGCAAATCCGCGAAGTCTGTGAACGGA
TTTCTGCCGGCGAACTCAAAGCGCGCCGTGCGAAAAAAGAAATGGTGGAAGCCAACTTACGTCTTGTGATTTCTATCGCT
AAAAAATACACGAACCGAGGCTTACAATTCTTAGACTTAATCCAAGAAGGAAACATTGGTCTTATGAAAGCAGTGGATAA
ATTCGAATACCGTCGTGGTTACAAATTCTCCACTTATGCGACTTGGTGGATCCGCCAAGCGATCACACGCTCTATTGCAG
ACCAAGCAAGAACGATTCGTATCCCTGTACATATGATTGAAACGATTAATAAATTAAATCGCATTTCACGTCAAATGCTA
CAAGAAATGGGGCGTGAGGCATCTCCAGAAGAGTTAGCAGAACGTATGGGAATGCCAGAAGATAAAATCCGTAAGGTCTT
GAAAATTGCCAAAGAGCCGATTTCTATGGAAACGCCTATTGGTGATGACGATGATTCACATTTAGGTGATTTTATCGAAG
ACTCAACTCTTGAGTTACCATTAGACTCTGCCACAGCACAAAGCTTGAAAGTGGCGACACACGAAGTATTAGAAGGGCTA
ACCCCACGTGAAGCGAAAGTACTCCGTATGCGCTTTGGTATTGATATGAACACAGATCATACTTTAGAAGAAGTAGGTAA
ACAATTTGATGTCACACGTGAACGTATTCGTCAAATCGAAGCAAAAGCCTTACGTAAATTACGTCACCCTAGCCGCTCTG
AAACTTTGCGTAGTTTCTTAGACGAATAA

Upstream 100 bases:

>100_bases
AGTGAAAAAACAACAAAAGGCATAGTTAATCTAGCATAACAGTGATAAAATCAGGCGTATTTTATCTTCATAACTACTCA
AGCAAGGCGGATATTACATT

Downstream 100 bases:

>100_bases
TGGAAACCAAGAGAAACGCATCTCATTTATTCCCAGTCTATTCAATCAAAGCCACTCGTCAGCGAGTGGCTTTTCATTTA
AGTACATAATGTGAATTATA

Product: RNA polymerase sigma factor RpoD

Products: NA

Alternate protein names: Sigma-70 [H]

Number of amino acids: Translated: 622; Mature: 622

Protein sequence:

>622_residues
MDQNPQSQLKLLIAQGKEQGYLTYAEVNDHLPEELVDAEQIEDIIQMINDMGIQVLESAPDADDLMLNETIADEDAVEEA
TQVLSSVEAEIGRTTDPVRMYMREMGSVELLTREGEIDIAKRIEEGINEVQSAIAFYPEAISYLLDQYALVEEGGVRLAD
LITGFVDPNAMTESDVAEIEDTFDEDEDSDSVSATLNEEEEEEEESEEESTTDDSDSDNSIDPEVAREKFLELKTQHAKA
VAMIEKHGRTSKKSKDQIQALADVFTQFRLVPKQFDTLVNLMSNMMKSVRLQERSIQKIVVDKAKMPKEQFQKVFIGHEN
KDTWLVKALSSGKTWSEKLAKHEEEIRYYIDNILEIERQTNLTVSQIREVCERISAGELKARRAKKEMVEANLRLVISIA
KKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQML
QEMGREASPEELAERMGMPEDKIRKVLKIAKEPISMETPIGDDDDSHLGDFIEDSTLELPLDSATAQSLKVATHEVLEGL
TPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSETLRSFLDE

Sequences:

>Translated_622_residues
MDQNPQSQLKLLIAQGKEQGYLTYAEVNDHLPEELVDAEQIEDIIQMINDMGIQVLESAPDADDLMLNETIADEDAVEEA
TQVLSSVEAEIGRTTDPVRMYMREMGSVELLTREGEIDIAKRIEEGINEVQSAIAFYPEAISYLLDQYALVEEGGVRLAD
LITGFVDPNAMTESDVAEIEDTFDEDEDSDSVSATLNEEEEEEEESEEESTTDDSDSDNSIDPEVAREKFLELKTQHAKA
VAMIEKHGRTSKKSKDQIQALADVFTQFRLVPKQFDTLVNLMSNMMKSVRLQERSIQKIVVDKAKMPKEQFQKVFIGHEN
KDTWLVKALSSGKTWSEKLAKHEEEIRYYIDNILEIERQTNLTVSQIREVCERISAGELKARRAKKEMVEANLRLVISIA
KKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQML
QEMGREASPEELAERMGMPEDKIRKVLKIAKEPISMETPIGDDDDSHLGDFIEDSTLELPLDSATAQSLKVATHEVLEGL
TPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSETLRSFLDE
>Mature_622_residues
MDQNPQSQLKLLIAQGKEQGYLTYAEVNDHLPEELVDAEQIEDIIQMINDMGIQVLESAPDADDLMLNETIADEDAVEEA
TQVLSSVEAEIGRTTDPVRMYMREMGSVELLTREGEIDIAKRIEEGINEVQSAIAFYPEAISYLLDQYALVEEGGVRLAD
LITGFVDPNAMTESDVAEIEDTFDEDEDSDSVSATLNEEEEEEEESEEESTTDDSDSDNSIDPEVAREKFLELKTQHAKA
VAMIEKHGRTSKKSKDQIQALADVFTQFRLVPKQFDTLVNLMSNMMKSVRLQERSIQKIVVDKAKMPKEQFQKVFIGHEN
KDTWLVKALSSGKTWSEKLAKHEEEIRYYIDNILEIERQTNLTVSQIREVCERISAGELKARRAKKEMVEANLRLVISIA
KKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQML
QEMGREASPEELAERMGMPEDKIRKVLKIAKEPISMETPIGDDDDSHLGDFIEDSTLELPLDSATAQSLKVATHEVLEGL
TPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSETLRSFLDE

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=624, Percent_Identity=72.4358974358974, Blast_Score=875, Evalue=0.0,
Organism=Escherichia coli, GI1789098, Length=243, Percent_Identity=41.5637860082305, Blast_Score=204, Evalue=1e-53,
Organism=Escherichia coli, GI1789871, Length=265, Percent_Identity=28.3018867924528, Blast_Score=92, Evalue=1e-19,
Organism=Escherichia coli, GI1788231, Length=212, Percent_Identity=29.2452830188679, Blast_Score=72, Evalue=1e-13,

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: 71085; Mature: 71085

Theoretical pI: Translated: 4.43; Mature: 4.43

Prosite motif: PS00715 SIGMA70_1 ; PS00716 SIGMA70_2

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.2 %Cys     (Translated Protein)
3.7 %Met     (Translated Protein)
3.9 %Cys+Met (Translated Protein)
0.2 %Cys     (Mature Protein)
3.7 %Met     (Mature Protein)
3.9 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MDQNPQSQLKLLIAQGKEQGYLTYAEVNDHLPEELVDAEQIEDIIQMINDMGIQVLESAP
CCCCHHHHHHHHHHCCCCCCCEEEEHHHHCCCHHHHCHHHHHHHHHHHHHHHHHHHHCCC
DADDLMLNETIADEDAVEEATQVLSSVEAEIGRTTDPVRMYMREMGSVELLTREGEIDIA
CHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHCCCEEEEECCCCHHHH
KRIEEGINEVQSAIAFYPEAISYLLDQYALVEEGGVRLADLITGFVDPNAMTESDVAEIE
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHCCCCCCCHHHHHHHH
DTFDEDEDSDSVSATLNEEEEEEEESEEESTTDDSDSDNSIDPEVAREKFLELKTQHAKA
HHCCCCCCCCCCEECCCCHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHH
VAMIEKHGRTSKKSKDQIQALADVFTQFRLVPKQFDTLVNLMSNMMKSVRLQERSIQKIV
HHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
VDKAKMPKEQFQKVFIGHENKDTWLVKALSSGKTWSEKLAKHEEEIRYYIDNILEIERQT
HHHHHCCHHHHHHHHCCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHC
NLTVSQIREVCERISAGELKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIG
CCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHCCCCH
LMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQML
HHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHEEEHHHHHHHHHHHHHHHHHHHH
QEMGREASPEELAERMGMPEDKIRKVLKIAKEPISMETPIGDDDDSHLGDFIEDSTLELP
HHHCCCCCHHHHHHHCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHCCCCCCCC
LDSATAQSLKVATHEVLEGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIE
CCHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHH
AKALRKLRHPSRSETLRSFLDE
HHHHHHHHCCCHHHHHHHHHCC
>Mature Secondary Structure
MDQNPQSQLKLLIAQGKEQGYLTYAEVNDHLPEELVDAEQIEDIIQMINDMGIQVLESAP
CCCCHHHHHHHHHHCCCCCCCEEEEHHHHCCCHHHHCHHHHHHHHHHHHHHHHHHHHCCC
DADDLMLNETIADEDAVEEATQVLSSVEAEIGRTTDPVRMYMREMGSVELLTREGEIDIA
CHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHCCCEEEEECCCCHHHH
KRIEEGINEVQSAIAFYPEAISYLLDQYALVEEGGVRLADLITGFVDPNAMTESDVAEIE
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHCCCCCCCHHHHHHHH
DTFDEDEDSDSVSATLNEEEEEEEESEEESTTDDSDSDNSIDPEVAREKFLELKTQHAKA
HHCCCCCCCCCCEECCCCHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHH
VAMIEKHGRTSKKSKDQIQALADVFTQFRLVPKQFDTLVNLMSNMMKSVRLQERSIQKIV
HHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
VDKAKMPKEQFQKVFIGHENKDTWLVKALSSGKTWSEKLAKHEEEIRYYIDNILEIERQT
HHHHHCCHHHHHHHHCCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHC
NLTVSQIREVCERISAGELKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIG
CCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHCCCCH
LMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQML
HHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHEEEHHHHHHHHHHHHHHHHHHHH
QEMGREASPEELAERMGMPEDKIRKVLKIAKEPISMETPIGDDDDSHLGDFIEDSTLELP
HHHCCCCCHHHHHHHCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHCCCCCCCC
LDSATAQSLKVATHEVLEGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIE
CCHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHH
AKALRKLRHPSRSETLRSFLDE
HHHHHHHHCCCHHHHHHHHHCC

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: 11677608; 12644504 [H]