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The map label for this gene is rpoD [H]

Identifier: 15893252

GI number: 15893252

Start: 1232012

End: 1233916

Strand: Reverse

Name: rpoD [H]

Synonym: RC1329

Alternate gene names: 15893252

Gene position: 1233916-1232012 (Counterclockwise)

Preceding gene: 15893253

Following gene: 15893251

Centisome position: 97.25

GC content: 33.28

Gene sequence:

>1905_bases
ATGAGCAATAGCAATATAGACAATGATCTAGATAAAATAGATAGTTTACTTAAAAAAGCTAAATCTAAAAAGATACCGGT
CACTTATGATGATATAAACAACGCTCTTCCTCTTAATAAAAATCCTTCAATAAGACAATTAGAGGAAGCTATATTAAAAT
TTTCCGATGCAGGAGTAGATATTTTAGAATCTAATGAAGATGATGAAATTAAGCTTGATATCGGAATGGATGAAGAATTT
AAGCTATCTACCAATGTTGATAATGAACCTGAGGATGAGGTAGAAGAAGAAAATATAGGTACTACCGATGATCCTGTAAG
ATTATATCTTAAGGATATGGGGGGAGTCGATCTTTTAACTCGTGAACATGAAGTAGAAATAGCAAAAAGGATTGAGGAAG
GACATAAAACAATGATTGCTTCCTTATGTAGAAGCCCTATTGCTATGCGTTGTTTTATAGTATGGTATGAAGATTTAGTT
AATGAAAAAATGTTACTACGTGATCTGATAGATTTAGAAGCTAACATGTTACATGACGAAACACCCGAAAATGATGAAGA
AAATAGTAGTGAGACCGAAGGAGAAGAGCATGAGGATAATCACTTATCTATGTCTAGAGTAGAAACGCAGATATTACCTA
ATATTATAGAGCGTATGAAAAAGATTGCTTTTATCTGCGAAGAGCTACTCATTGAAGCTAAAAAATGTTATGAGAAATCT
TTTGAGCCGAAGGTTTTACAAAATAGCAAAAAATATAATAATTTGGAATTATTAATAAATGAAGTTTCGGAAATACATTT
TAATTCTAAAAGAACGGAAGAAATTTTAGGTAAGATGTATGGAATAAATCGTGATTTAATTAATAAAGAAACAGCTTTTT
TAAAACTTGCTGAAAAATATGGAGTAACTCGCCAAAATTTCCTTGATGAATATATAGGATCGGTTATCAATGCAGCATGG
AAAGAAAAAATGCTGAAAAATAAAAAAGTCGCTTGGAAAGAGTTAATGACTAAAGAATCGGATTATATAGATCAAATGAT
TGCTGAATTATCGGTTATAGAATCTAAAACCGGTCTTTTAGTTAATGATTTTAAAAAACTAGTGAATACTATACAAAAAA
GCGAGAGACAAACGCTACAAGCAAAAAAAGATATGATAGAAGCGAATTTACGTTTAGTTATATCTATTGCTAAAAAATAC
GCTAATAGAGGATTGCAGTTTTTAGATTTAATTCAAGAAGGTAATATAGGACTTATGAAAGCGGTGGATAAATTTGAATA
TCGCCGTGGTTATAAATTCTCTACCTATGCTACGTGGTGGATTAGACAAGCTATAACAAGAGCTATTGCCGATCAAGCAA
GGACTATACGTATTCCTGTGCATATGATTGAAACAATTAATAAGATACTACGTACTTCAAGACAAATGCTTAATGAACTC
GGATACGAACCAACAGCAACGGAAATCGCTAACCGTCTTTCAATGCCGCTTGATAAAGTGCGTAAAGTCATGAAAATAGC
TAAAGAACCTATAAGTCTTGAGAATCCCGTAGGTGATGATAGTGACGGCGGTCAATTAGGCGATTTTATCGAAGATAAGA
ATGCAGTAGCACCGATTGATGCGGCAATTCAGTCAAATTTACGAGAAGTTACCACTAGAGTACTTGCAACCCTTACGCCT
CGTGAAGAAAGAGTGCTTAGAATGCGTTTCGGTATAGGTATGAATACTGACCATACATTAGAAGAAGTAGGGCAGCAATT
TAAAGTAACTAGAGAACGTATAAGACAAATCGAGTCAAAAGCTTTAAGAAAGTTACAACATCCTATTAGATCCAAAAAAC
TTAATAGCTTTAGAAGCGGAGGAAAGCGTGGTGACGGTAATTCATCGGATTTACTAGAAGCATGA

Upstream 100 bases:

>100_bases
TTGCAAATGAACTGCAAGTTTTAAACGAATCTTTTATTAATCACACGATAACTTAATTATTTCAAACTTCTTTTAAAAGA
AAAAAGCATATAGGTATTTA

Downstream 100 bases:

>100_bases
TAATACTTATACTATCATCCCGTGATTTGGGATCTCAGGACACGGGCTGTGATACAAGATCCCGTGGTCAAGCCACGGGA
TGACAGTGGGCTATTATGTA

Product: RNA polymerase sigma factor RpoD

Products: NA

Alternate protein names: Sigma-70 [H]

Number of amino acids: Translated: 634; Mature: 633

Protein sequence:

>634_residues
MSNSNIDNDLDKIDSLLKKAKSKKIPVTYDDINNALPLNKNPSIRQLEEAILKFSDAGVDILESNEDDEIKLDIGMDEEF
KLSTNVDNEPEDEVEEENIGTTDDPVRLYLKDMGGVDLLTREHEVEIAKRIEEGHKTMIASLCRSPIAMRCFIVWYEDLV
NEKMLLRDLIDLEANMLHDETPENDEENSSETEGEEHEDNHLSMSRVETQILPNIIERMKKIAFICEELLIEAKKCYEKS
FEPKVLQNSKKYNNLELLINEVSEIHFNSKRTEEILGKMYGINRDLINKETAFLKLAEKYGVTRQNFLDEYIGSVINAAW
KEKMLKNKKVAWKELMTKESDYIDQMIAELSVIESKTGLLVNDFKKLVNTIQKSERQTLQAKKDMIEANLRLVISIAKKY
ANRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRAIADQARTIRIPVHMIETINKILRTSRQMLNEL
GYEPTATEIANRLSMPLDKVRKVMKIAKEPISLENPVGDDSDGGQLGDFIEDKNAVAPIDAAIQSNLREVTTRVLATLTP
REERVLRMRFGIGMNTDHTLEEVGQQFKVTRERIRQIESKALRKLQHPIRSKKLNSFRSGGKRGDGNSSDLLEA

Sequences:

>Translated_634_residues
MSNSNIDNDLDKIDSLLKKAKSKKIPVTYDDINNALPLNKNPSIRQLEEAILKFSDAGVDILESNEDDEIKLDIGMDEEF
KLSTNVDNEPEDEVEEENIGTTDDPVRLYLKDMGGVDLLTREHEVEIAKRIEEGHKTMIASLCRSPIAMRCFIVWYEDLV
NEKMLLRDLIDLEANMLHDETPENDEENSSETEGEEHEDNHLSMSRVETQILPNIIERMKKIAFICEELLIEAKKCYEKS
FEPKVLQNSKKYNNLELLINEVSEIHFNSKRTEEILGKMYGINRDLINKETAFLKLAEKYGVTRQNFLDEYIGSVINAAW
KEKMLKNKKVAWKELMTKESDYIDQMIAELSVIESKTGLLVNDFKKLVNTIQKSERQTLQAKKDMIEANLRLVISIAKKY
ANRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRAIADQARTIRIPVHMIETINKILRTSRQMLNEL
GYEPTATEIANRLSMPLDKVRKVMKIAKEPISLENPVGDDSDGGQLGDFIEDKNAVAPIDAAIQSNLREVTTRVLATLTP
REERVLRMRFGIGMNTDHTLEEVGQQFKVTRERIRQIESKALRKLQHPIRSKKLNSFRSGGKRGDGNSSDLLEA
>Mature_633_residues
SNSNIDNDLDKIDSLLKKAKSKKIPVTYDDINNALPLNKNPSIRQLEEAILKFSDAGVDILESNEDDEIKLDIGMDEEFK
LSTNVDNEPEDEVEEENIGTTDDPVRLYLKDMGGVDLLTREHEVEIAKRIEEGHKTMIASLCRSPIAMRCFIVWYEDLVN
EKMLLRDLIDLEANMLHDETPENDEENSSETEGEEHEDNHLSMSRVETQILPNIIERMKKIAFICEELLIEAKKCYEKSF
EPKVLQNSKKYNNLELLINEVSEIHFNSKRTEEILGKMYGINRDLINKETAFLKLAEKYGVTRQNFLDEYIGSVINAAWK
EKMLKNKKVAWKELMTKESDYIDQMIAELSVIESKTGLLVNDFKKLVNTIQKSERQTLQAKKDMIEANLRLVISIAKKYA
NRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRAIADQARTIRIPVHMIETINKILRTSRQMLNELG
YEPTATEIANRLSMPLDKVRKVMKIAKEPISLENPVGDDSDGGQLGDFIEDKNAVAPIDAAIQSNLREVTTRVLATLTPR
EERVLRMRFGIGMNTDHTLEEVGQQFKVTRERIRQIESKALRKLQHPIRSKKLNSFRSGGKRGDGNSSDLLEA

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=604, Percent_Identity=44.8675496688742, Blast_Score=444, Evalue=1e-126,
Organism=Escherichia coli, GI1789098, Length=244, Percent_Identity=42.2131147540984, Blast_Score=218, Evalue=8e-58,
Organism=Escherichia coli, GI1789871, Length=249, Percent_Identity=27.710843373494, Blast_Score=85, Evalue=1e-17,
Organism=Escherichia coli, GI1788231, Length=199, Percent_Identity=27.1356783919598, Blast_Score=73, Evalue=6e-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:   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: 72832; Mature: 72701

Theoretical pI: Translated: 5.13; Mature: 5.13

Prosite motif: PS00715 SIGMA70_1 ; PS00716 SIGMA70_2 ; PS00867 CPSASE_2

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.6 %Cys     (Translated Protein)
3.3 %Met     (Translated Protein)
3.9 %Cys+Met (Translated Protein)
0.6 %Cys     (Mature Protein)
3.2 %Met     (Mature Protein)
3.8 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MSNSNIDNDLDKIDSLLKKAKSKKIPVTYDDINNALPLNKNPSIRQLEEAILKFSDAGVD
CCCCCCCHHHHHHHHHHHHHHCCCCCEEHHCCCCCCCCCCCCCHHHHHHHHHHHHCCCCC
ILESNEDDEIKLDIGMDEEFKLSTNVDNEPEDEVEEENIGTTDDPVRLYLKDMGGVDLLT
CCCCCCCCCEEEEECCCCCEEEECCCCCCCHHHHHHCCCCCCCCHHHHHHHHCCCCHHHH
REHEVEIAKRIEEGHKTMIASLCRSPIAMRCFIVWYEDLVNEKMLLRDLIDLEANMLHDE
HHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC
TPENDEENSSETEGEEHEDNHLSMSRVETQILPNIIERMKKIAFICEELLIEAKKCYEKS
CCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC
FEPKVLQNSKKYNNLELLINEVSEIHFNSKRTEEILGKMYGINRDLINKETAFLKLAEKY
CCCHHHHCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHH
GVTRQNFLDEYIGSVINAAWKEKMLKNKKVAWKELMTKESDYIDQMIAELSVIESKTGLL
CCHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHCCHHHHHHHHHHHHHHHHCCCHH
VNDFKKLVNTIQKSERQTLQAKKDMIEANLRLVISIAKKYANRGLQFLDLIQEGNIGLMK
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHCCCCHHHH
AVDKFEYRRGYKFSTYATWWIRQAITRAIADQARTIRIPVHMIETINKILRTSRQMLNEL
HHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHCCCEEEHHHHHHHHHHHHHHHHHHHHHHC
GYEPTATEIANRLSMPLDKVRKVMKIAKEPISLENPVGDDSDGGQLGDFIEDKNAVAPID
CCCCCHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHHCCCCCCHHH
AAIQSNLREVTTRVLATLTPREERVLRMRFGIGMNTDHTLEEVGQQFKVTRERIRQIESK
HHHHHHHHHHHHHHHHHCCCHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHH
ALRKLQHPIRSKKLNSFRSGGKRGDGNSSDLLEA
HHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCC
>Mature Secondary Structure 
SNSNIDNDLDKIDSLLKKAKSKKIPVTYDDINNALPLNKNPSIRQLEEAILKFSDAGVD
CCCCCCHHHHHHHHHHHHHHCCCCCEEHHCCCCCCCCCCCCCHHHHHHHHHHHHCCCCC
ILESNEDDEIKLDIGMDEEFKLSTNVDNEPEDEVEEENIGTTDDPVRLYLKDMGGVDLLT
CCCCCCCCCEEEEECCCCCEEEECCCCCCCHHHHHHCCCCCCCCHHHHHHHHCCCCHHHH
REHEVEIAKRIEEGHKTMIASLCRSPIAMRCFIVWYEDLVNEKMLLRDLIDLEANMLHDE
HHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC
TPENDEENSSETEGEEHEDNHLSMSRVETQILPNIIERMKKIAFICEELLIEAKKCYEKS
CCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC
FEPKVLQNSKKYNNLELLINEVSEIHFNSKRTEEILGKMYGINRDLINKETAFLKLAEKY
CCCHHHHCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHH
GVTRQNFLDEYIGSVINAAWKEKMLKNKKVAWKELMTKESDYIDQMIAELSVIESKTGLL
CCHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHCCHHHHHHHHHHHHHHHHCCCHH
VNDFKKLVNTIQKSERQTLQAKKDMIEANLRLVISIAKKYANRGLQFLDLIQEGNIGLMK
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHCCCCHHHH
AVDKFEYRRGYKFSTYATWWIRQAITRAIADQARTIRIPVHMIETINKILRTSRQMLNEL
HHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHCCCEEEHHHHHHHHHHHHHHHHHHHHHHC
GYEPTATEIANRLSMPLDKVRKVMKIAKEPISLENPVGDDSDGGQLGDFIEDKNAVAPID
CCCCCHHHHHHHHCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHHCCCCCCHHH
AAIQSNLREVTTRVLATLTPREERVLRMRFGIGMNTDHTLEEVGQQFKVTRERIRQIESK
HHHHHHHHHHHHHHHHHCCCHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHH
ALRKLQHPIRSKKLNSFRSGGKRGDGNSSDLLEA
HHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCC

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