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The map label for this gene is rpoD [H]

Identifier: 15897038

GI number: 15897038

Start: 57588

End: 58385

Strand: Reverse

Name: rpoD [H]

Synonym: SSO0071

Alternate gene names: 15897038

Gene position: 58385-57588 (Counterclockwise)

Preceding gene: 15897039

Following gene: 15897037

Centisome position: 1.95

GC content: 35.71

Gene sequence:

>798_bases
ATGTCAATCAACCTACTTCATAAGGACGATACGAGAATAGATCTAGTTTTTGAGGGTTATCCTTTAGAATTTGTGAATGC
AATTAGGAGAGCATCGATGCTTTATGTGCCAATTATGGCTGTCGACGACGTATATTTTATTGAGAATAATAGTCCTTTAT
ATGATGAGATTTTAGCACATAGGTTGGCTTTAATACCCTTTATGTCAGAGGAAGCTTTAGATACATATAGATGGCCAGAA
GAATGTATCGAATGTACTGAAAATTGTGAAAAATGCTATACTAAAATTTACATCGAAGCGGAGGCGCCGAACGAACCTAG
GATGATATACTCTAAAGATATAAAGTCGGAAGACCCATCAGTGGTTCCAATATCTGGGGATATACCGATTGTGTTATTAG
GTACAAATCAAAAGATATCGCTTGAGGCTAGGTTAAGATTAGGATACGGAAAAGAACACGCTAAGTTTATACCAGTTTCT
TTATCAGTAGTTAGATATTATCCGAAAGTTGAGATATTAGCAAACTGTGAGAAAGCAGTTAATGTTTGTCCAGAGGGTGT
ATTTGAATTAAAGGATGGTAAGCTCTCAGTAAAGAATGAACTCTCCTGCACCTTATGTGAAGAGTGTTTGAGATACTGTA
ATGGTTCAATTAGAATTTCCTTCGTAGAAGATAAATATATTCTTGAGATCGAGAGTGTTGGATCGCTTAAGCCAGAGAGA
ATTTTATTAGAGGCTGGTAAAAGCATTATAAGAAAGATTGAAGAATTAGAGAAGAAACTGGTAGAGGTGGTTAAATGA

Upstream 100 bases:

>100_bases
GATTCATTATAGGAAGGATTGAGGATGTTACACCTATACCTCATGATACCATAAGGAGACCTGGCGGAAGAAGAGGAAGA
AGAGTATAGGCGGCTTATGC

Downstream 100 bases:

>100_bases
AAGTAACTGGTAGTACAAATATAACTGTTAGAAAGCTTATCAGAAATTTAGAAAAATCCAAAAAACCGTTGTGGAGAAAA
GTAGCTGAAGAGTTATCGAT

Product: DNA-directed RNA polymerase, subunit D (rpoD)

Products: NA

Alternate protein names: NA

Number of amino acids: Translated: 265; Mature: 264

Protein sequence:

>265_residues
MSINLLHKDDTRIDLVFEGYPLEFVNAIRRASMLYVPIMAVDDVYFIENNSPLYDEILAHRLALIPFMSEEALDTYRWPE
ECIECTENCEKCYTKIYIEAEAPNEPRMIYSKDIKSEDPSVVPISGDIPIVLLGTNQKISLEARLRLGYGKEHAKFIPVS
LSVVRYYPKVEILANCEKAVNVCPEGVFELKDGKLSVKNELSCTLCEECLRYCNGSIRISFVEDKYILEIESVGSLKPER
ILLEAGKSIIRKIEELEKKLVEVVK

Sequences:

>Translated_265_residues
MSINLLHKDDTRIDLVFEGYPLEFVNAIRRASMLYVPIMAVDDVYFIENNSPLYDEILAHRLALIPFMSEEALDTYRWPE
ECIECTENCEKCYTKIYIEAEAPNEPRMIYSKDIKSEDPSVVPISGDIPIVLLGTNQKISLEARLRLGYGKEHAKFIPVS
LSVVRYYPKVEILANCEKAVNVCPEGVFELKDGKLSVKNELSCTLCEECLRYCNGSIRISFVEDKYILEIESVGSLKPER
ILLEAGKSIIRKIEELEKKLVEVVK
>Mature_264_residues
SINLLHKDDTRIDLVFEGYPLEFVNAIRRASMLYVPIMAVDDVYFIENNSPLYDEILAHRLALIPFMSEEALDTYRWPEE
CIECTENCEKCYTKIYIEAEAPNEPRMIYSKDIKSEDPSVVPISGDIPIVLLGTNQKISLEARLRLGYGKEHAKFIPVSL
SVVRYYPKVEILANCEKAVNVCPEGVFELKDGKLSVKNELSCTLCEECLRYCNGSIRISFVEDKYILEIESVGSLKPERI
LLEAGKSIIRKIEELEKKLVEVVK

Specific function: DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates [H]

COG id: COG0202

COG function: function code K; DNA-directed RNA polymerase, alpha subunit/40 kD subunit

Gene ontology:

Cell location: Cytoplasmic

Metaboloic importance: NA

Operon status: Not Known

Operon components: None

Similarity: Belongs to the archaeal rpoD/eukaryotic RPB3 RNA polymerase subunit family [H]

Homologues:

Organism=Homo sapiens, GI14702171, Length=271, Percent_Identity=27.6752767527675, Blast_Score=107, Evalue=1e-23,
Organism=Homo sapiens, GI42560246, Length=287, Percent_Identity=29.616724738676, Blast_Score=93, Evalue=3e-19,
Organism=Homo sapiens, GI4759046, Length=262, Percent_Identity=29.0076335877863, Blast_Score=78, Evalue=1e-14,
Organism=Caenorhabditis elegans, GI86560996, Length=279, Percent_Identity=26.5232974910394, Blast_Score=87, Evalue=1e-17,
Organism=Caenorhabditis elegans, GI25155095, Length=321, Percent_Identity=24.9221183800623, Blast_Score=76, Evalue=2e-14,
Organism=Saccharomyces cerevisiae, GI6325367, Length=267, Percent_Identity=30.3370786516854, Blast_Score=100, Evalue=2e-22,
Organism=Saccharomyces cerevisiae, GI6322168, Length=265, Percent_Identity=24.5283018867925, Blast_Score=70, Evalue=3e-13,
Organism=Drosophila melanogaster, GI17137650, Length=276, Percent_Identity=24.6376811594203, Blast_Score=97, Evalue=1e-20,
Organism=Drosophila melanogaster, GI20129237, Length=297, Percent_Identity=28.2828282828283, Blast_Score=94, Evalue=9e-20,

Paralogues:

None

Copy number: NA

Swissprot (AC and ID): NA

Other databases:

- InterPro:   IPR001514
- InterPro:   IPR011261
- InterPro:   IPR011262
- InterPro:   IPR009025
- InterPro:   IPR011263
- InterPro:   IPR022842 [H]

Pfam domain/function: PF01000 RNA_pol_A_bac; PF01193 RNA_pol_L [H]

EC number: =2.7.7.6 [H]

Molecular weight: Translated: 30295; Mature: 30163

Theoretical pI: Translated: 4.66; Mature: 4.66

Prosite motif: PS00446 RNA_POL_D_30KD

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

3.8 %Cys     (Translated Protein)
1.9 %Met     (Translated Protein)
5.7 %Cys+Met (Translated Protein)
3.8 %Cys     (Mature Protein)
1.5 %Met     (Mature Protein)
5.3 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MSINLLHKDDTRIDLVFEGYPLEFVNAIRRASMLYVPIMAVDDVYFIENNSPLYDEILAH
CEEEEEECCCCEEEEEECCCCHHHHHHHHHHHEEEEEEEEECEEEEEECCCCHHHHHHHH
RLALIPFMSEEALDTYRWPEECIECTENCEKCYTKIYIEAEAPNEPRMIYSKDIKSEDPS
HHHHCCCCCHHHHHHCCCHHHHHHHHHHHHHHEEEEEEEECCCCCCCEEEECCCCCCCCC
VVPISGDIPIVLLGTNQKISLEARLRLGYGKEHAKFIPVSLSVVRYYPKVEILANCEKAV
EEEECCCCCEEEEECCCEEEEEEEEEECCCCCCCEEEEEEEEEEHHCCCHHEECCCHHHH
NVCPEGVFELKDGKLSVKNELSCTLCEECLRYCNGSIRISFVEDKYILEIESVGSLKPER
HCCCCCCEEECCCCEECCCCCCHHHHHHHHHHCCCCEEEEEECCEEEEEEECCCCCCHHH
ILLEAGKSIIRKIEELEKKLVEVVK
HHHHHHHHHHHHHHHHHHHHHHHCC
>Mature Secondary Structure 
SINLLHKDDTRIDLVFEGYPLEFVNAIRRASMLYVPIMAVDDVYFIENNSPLYDEILAH
EEEEEECCCCEEEEEECCCCHHHHHHHHHHHEEEEEEEEECEEEEEECCCCHHHHHHHH
RLALIPFMSEEALDTYRWPEECIECTENCEKCYTKIYIEAEAPNEPRMIYSKDIKSEDPS
HHHHCCCCCHHHHHHCCCHHHHHHHHHHHHHHEEEEEEEECCCCCCCEEEECCCCCCCCC
VVPISGDIPIVLLGTNQKISLEARLRLGYGKEHAKFIPVSLSVVRYYPKVEILANCEKAV
EEEECCCCCEEEEECCCEEEEEEEEEECCCCCCCEEEEEEEEEEHHCCCHHEECCCHHHH
NVCPEGVFELKDGKLSVKNELSCTLCEECLRYCNGSIRISFVEDKYILEIESVGSLKPER
HCCCCCCEEECCCCEECCCCCCHHHHHHHHHHCCCCEEEEEECCEEEEEEECCCCCCHHH
ILLEAGKSIIRKIEELEKKLVEVVK
HHHHHHHHHHHHHHHHHHHHHHHCC

PDB accession: NA

Resolution: NA

Structure class: Alpha Beta

Cofactors: NA

Metal ions: NA

Kcat value (1/min): NA

Specific activity: NA

Km value (mM): NA

Substrates: NA

Specific reaction: NA

General reaction: NA

Inhibitor: NA

Structure determination priority: 10.0

TargetDB status: NA

Availability: NA

References: NA