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The map label for this gene is rpoD [H]

Identifier: 124027415

GI number: 124027415

Start: 512790

End: 513635

Strand: Direct

Name: rpoD [H]

Synonym: Hbut_0530

Alternate gene names: 124027415

Gene position: 512790-513635 (Clockwise)

Preceding gene: 124027414

Following gene: 124027416

Centisome position: 30.76

GC content: 54.37

Gene sequence:

>846_bases
TTGGCGAGGCTGTGCATACTAGATAAGGATAGGCTGACGATTCGACTCTACGTTGAGGGGTTCGGGCTCCCACTAGTAAA
TGCTATACGCAGGGCAGCCTATTCCGATGTGCCGGTAATGGCTGTAGATGTTGTCGAGGTGTTTGAAAACAACACCGTGC
TCTACGATGAGATTATAGCTCACCGCTTAGGCCTAATACCCCTAACCAGCAAGGAGGCGCTACAGAAGTACAAGAGGCCT
GAGGAGTGCGAGAAAGCTGAGCTGGGCGACCCCAGCTGTTACGTGGTTCTACGCCTCGAAGTTGAGACAGGGCCGCGAGA
GGAGCGCATAGTGTACAGCGGCGACCTCGAGACCAGTGACCCCGATGTACGCCCTGTCTACGATAATATGCCGATAGTGG
TTATGGCCCCTGATCAGAGGCTGAGGCTGCAGGCATACGCGAGACTGGGTTATGGCCGAGAGCATGCCAAGTGGATGCCA
GTTAGCGTTGCTGCCCACCGTTACCTCCCAATACTAGAGTTTAACCTCGACGAGATGAGCGATGAGTGCATCCGCTGTAT
AGAGTCGGGCTATCCCGAGCTAGCGGCAAAGATAAGGGAGATGCGCAGCGGCAGCATAGCTGTGGTCGAGGACGTGAACA
CGTCTGGGCTATACTGGTGTGTACAGAGAAGATGTGGTGGCAAAGGCGTAAAGCTAGTCTACGACGATAAACGATTCATA
CTGAAGATAGAGTCTACCGGCGCCCTCCCACCAGAGGATATTGTGCGGGAGGCTGCTAGAGCTATTGTGAGGAAGGCTGA
AAACCTACTCTCCCAGCTAGCTGAGCTACGCCGGGAGCAAGGTTAG

Upstream 100 bases:

>100_bases
TGCTCCGCCTACCCGGTTTTGTCACGGCCTCCCCTCTGTGGGGCTGCATGCAGGAATATAACTTGGCTTGGGCTGACTTG
CTGCGCTAGGGAGCTGCGTC

Downstream 100 bases:

>100_bases
GGTGAGCAGCGGTGCAGACCACGAAGAGGACGGGGCCAACAAACATACTCGTAAGAATGACGATACGTAAGCTACGCAGT
GCAGCCCACAGAAACAAGGC

Product: DNA-directed RNA polymerase subunit D

Products: NA

Alternate protein names: NA

Number of amino acids: Translated: 281; Mature: 280

Protein sequence:

>281_residues
MARLCILDKDRLTIRLYVEGFGLPLVNAIRRAAYSDVPVMAVDVVEVFENNTVLYDEIIAHRLGLIPLTSKEALQKYKRP
EECEKAELGDPSCYVVLRLEVETGPREERIVYSGDLETSDPDVRPVYDNMPIVVMAPDQRLRLQAYARLGYGREHAKWMP
VSVAAHRYLPILEFNLDEMSDECIRCIESGYPELAAKIREMRSGSIAVVEDVNTSGLYWCVQRRCGGKGVKLVYDDKRFI
LKIESTGALPPEDIVREAARAIVRKAENLLSQLAELRREQG

Sequences:

>Translated_281_residues
MARLCILDKDRLTIRLYVEGFGLPLVNAIRRAAYSDVPVMAVDVVEVFENNTVLYDEIIAHRLGLIPLTSKEALQKYKRP
EECEKAELGDPSCYVVLRLEVETGPREERIVYSGDLETSDPDVRPVYDNMPIVVMAPDQRLRLQAYARLGYGREHAKWMP
VSVAAHRYLPILEFNLDEMSDECIRCIESGYPELAAKIREMRSGSIAVVEDVNTSGLYWCVQRRCGGKGVKLVYDDKRFI
LKIESTGALPPEDIVREAARAIVRKAENLLSQLAELRREQG
>Mature_280_residues
ARLCILDKDRLTIRLYVEGFGLPLVNAIRRAAYSDVPVMAVDVVEVFENNTVLYDEIIAHRLGLIPLTSKEALQKYKRPE
ECEKAELGDPSCYVVLRLEVETGPREERIVYSGDLETSDPDVRPVYDNMPIVVMAPDQRLRLQAYARLGYGREHAKWMPV
SVAAHRYLPILEFNLDEMSDECIRCIESGYPELAAKIREMRSGSIAVVEDVNTSGLYWCVQRRCGGKGVKLVYDDKRFIL
KIESTGALPPEDIVREAARAIVRKAENLLSQLAELRREQG

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=277, Percent_Identity=32.8519855595668, Blast_Score=125, Evalue=4e-29,
Organism=Homo sapiens, GI42560246, Length=299, Percent_Identity=29.0969899665552, Blast_Score=109, Evalue=3e-24,
Organism=Caenorhabditis elegans, GI25155095, Length=304, Percent_Identity=28.2894736842105, Blast_Score=115, Evalue=2e-26,
Organism=Caenorhabditis elegans, GI86560996, Length=283, Percent_Identity=29.3286219081272, Blast_Score=97, Evalue=8e-21,
Organism=Saccharomyces cerevisiae, GI6325367, Length=271, Percent_Identity=30.9963099630996, Blast_Score=94, Evalue=2e-20,
Organism=Saccharomyces cerevisiae, GI6322168, Length=290, Percent_Identity=25.5172413793103, Blast_Score=85, Evalue=1e-17,
Organism=Drosophila melanogaster, GI17137650, Length=278, Percent_Identity=29.136690647482, Blast_Score=116, Evalue=2e-26,
Organism=Drosophila melanogaster, GI20129237, Length=274, Percent_Identity=27.7372262773723, Blast_Score=99, Evalue=4e-21,

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: 31886; Mature: 31755

Theoretical pI: Translated: 5.16; Mature: 5.16

Prosite motif: PS00446 RNA_POL_D_30KD

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

2.5 %Cys     (Translated Protein)
2.5 %Met     (Translated Protein)
5.0 %Cys+Met (Translated Protein)
2.5 %Cys     (Mature Protein)
2.1 %Met     (Mature Protein)
4.6 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MARLCILDKDRLTIRLYVEGFGLPLVNAIRRAAYSDVPVMAVDVVEVFENNTVLYDEIIA
CCEEEEECCCCEEEEEEEECCCCHHHHHHHHHHCCCCCCHHHHHHHHHCCCCEEHHHHHH
HRLGLIPLTSKEALQKYKRPEECEKAELGDPSCYVVLRLEVETGPREERIVYSGDLETSD
HHHCCCCCCCHHHHHHCCCCCHHHHCCCCCCCEEEEEEEEECCCCCCCEEEEECCCCCCC
PDVRPVYDNMPIVVMAPDQRLRLQAYARLGYGREHAKWMPVSVAAHRYLPILEFNLDEMS
CCCCEECCCCCEEEECCCCHHHHHHHHHHCCCCCCCEECCHHHHHHHCCEEEEECHHHHH
DECIRCIESGYPELAAKIREMRSGSIAVVEDVNTSGLYWCVQRRCGGKGVKLVYDDKRFI
HHHHHHHHCCCHHHHHHHHHHCCCCEEEEEECCCCCHHEEEHHHCCCCCEEEEEECCEEE
LKIESTGALPPEDIVREAARAIVRKAENLLSQLAELRREQG
EEEECCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC
>Mature Secondary Structure 
ARLCILDKDRLTIRLYVEGFGLPLVNAIRRAAYSDVPVMAVDVVEVFENNTVLYDEIIA
CEEEEECCCCEEEEEEEECCCCHHHHHHHHHHCCCCCCHHHHHHHHHCCCCEEHHHHHH
HRLGLIPLTSKEALQKYKRPEECEKAELGDPSCYVVLRLEVETGPREERIVYSGDLETSD
HHHCCCCCCCHHHHHHCCCCCHHHHCCCCCCCEEEEEEEEECCCCCCCEEEEECCCCCCC
PDVRPVYDNMPIVVMAPDQRLRLQAYARLGYGREHAKWMPVSVAAHRYLPILEFNLDEMS
CCCCEECCCCCEEEECCCCHHHHHHHHHHCCCCCCCEECCHHHHHHHCCEEEEECHHHHH
DECIRCIESGYPELAAKIREMRSGSIAVVEDVNTSGLYWCVQRRCGGKGVKLVYDDKRFI
HHHHHHHHCCCHHHHHHHHHHCCCCEEEEEECCCCCHHEEEHHHCCCCCEEEEEECCEEE
LKIESTGALPPEDIVREAARAIVRKAENLLSQLAELRREQG
EEEECCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC

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: 10382966 [H]