Click here to switch to the map view.

The map label for this gene is rpoD [H]

Identifier: 218884674

GI number: 218884674

Start: 1265446

End: 1266288

Strand: Reverse

Name: rpoD [H]

Synonym: DKAM_1363

Alternate gene names: 218884674

Gene position: 1266288-1265446 (Counterclockwise)

Preceding gene: 218884675

Following gene: 218884673

Centisome position: 92.75

GC content: 42.47

Gene sequence:

>843_bases
TTGCATATTGATATACTTGAGAAAACCCCCTCTACTATTAAGCTATATTTAAGGGATGTGCCATTACACCTCGTTAACTC
GCTGAGAAGAACAATACTATCGGAAGTCCCTACAATGGCTGTGGACTACGTGGCTATAACGGAAAACTCAAGTGTCTTCT
ATGATGAATACATATCGCATAGGCTTGGATTAATACCATTAAAAAGCAATGAAGCATTGAACAAGTATAAGCCTCCCGAG
GAGTGTGCAGAGGCCGGTGATAGAGGAATATTCTCGCAGGATTGCTTCGTAACCCTAAGGCTGGAGGCAAGCGGGCCTGA
GAAGGATGTTTTAACAGTGTATAGTAGAGACCTTGTTAGCAGTGACCCAGATGTTGTACCAGTCTACGGTGAAATACCGA
TATTGAAGCTTATCAAGGATCAGAGCATAAGGCTTGAGGCATATGCCAGGCTTGGAAGGGGAAAGGAGCATATAAAATGG
AGCCCAGTCTCCACCGCTGCGCATAAATATGTTCCAGCGATAACCATCGATAGTGAGAAATGTAAGGGGGCCGAGTGTTC
TAGATGTGTTAATGCATGCCCGAAGAATATATTTGAGGCAGGCAACAACTCGGTAAGGGTTAAAGAGGATAAAATACTTG
AATGTACATTCTGCAGGCTATGTGAAAACATATGCCCCACCCAAGCCGTGAAGGTATCATGGAGGGAGAACGAGTATATA
TTATATCTAGAGCTAACAGGAGCTCTGAATGCTAGAAATATTTTAATAGAGGCAATAAACATTCTAAGTAGAAAACTAGA
TGCTTTCATAGATGAGTTGAGAAGGAATGGTGTCGCTGTATGA

Upstream 100 bases:

>100_bases
GAATAGAGGATGTGACACCAATACCACATGATACCACAAGAAGGCCTGGCGGTAGGAGAGGTAGGAGGCTATAGAAGGGC
AGAAACGGGTGTTTTCCAGC

Downstream 100 bases:

>100_bases
GCAGGCTGAGGAAAACAAATATAGTTTTAAGGAAAGTGATAGAGGAGTTGAGGAAGCAAGCCTCTATAAATAACGCACCA
ATATGGAGTAGTATAGCTGA

Product: DNA-directed RNA polymerase subunit D

Products: NA

Alternate protein names: NA

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

Protein sequence:

>280_residues
MHIDILEKTPSTIKLYLRDVPLHLVNSLRRTILSEVPTMAVDYVAITENSSVFYDEYISHRLGLIPLKSNEALNKYKPPE
ECAEAGDRGIFSQDCFVTLRLEASGPEKDVLTVYSRDLVSSDPDVVPVYGEIPILKLIKDQSIRLEAYARLGRGKEHIKW
SPVSTAAHKYVPAITIDSEKCKGAECSRCVNACPKNIFEAGNNSVRVKEDKILECTFCRLCENICPTQAVKVSWRENEYI
LYLELTGALNARNILIEAINILSRKLDAFIDELRRNGVAV

Sequences:

>Translated_280_residues
MHIDILEKTPSTIKLYLRDVPLHLVNSLRRTILSEVPTMAVDYVAITENSSVFYDEYISHRLGLIPLKSNEALNKYKPPE
ECAEAGDRGIFSQDCFVTLRLEASGPEKDVLTVYSRDLVSSDPDVVPVYGEIPILKLIKDQSIRLEAYARLGRGKEHIKW
SPVSTAAHKYVPAITIDSEKCKGAECSRCVNACPKNIFEAGNNSVRVKEDKILECTFCRLCENICPTQAVKVSWRENEYI
LYLELTGALNARNILIEAINILSRKLDAFIDELRRNGVAV
>Mature_280_residues
MHIDILEKTPSTIKLYLRDVPLHLVNSLRRTILSEVPTMAVDYVAITENSSVFYDEYISHRLGLIPLKSNEALNKYKPPE
ECAEAGDRGIFSQDCFVTLRLEASGPEKDVLTVYSRDLVSSDPDVVPVYGEIPILKLIKDQSIRLEAYARLGRGKEHIKW
SPVSTAAHKYVPAITIDSEKCKGAECSRCVNACPKNIFEAGNNSVRVKEDKILECTFCRLCENICPTQAVKVSWRENEYI
LYLELTGALNARNILIEAINILSRKLDAFIDELRRNGVAV

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=184, Percent_Identity=38.5869565217391, Blast_Score=124, Evalue=1e-28,
Organism=Homo sapiens, GI42560246, Length=293, Percent_Identity=30.0341296928328, Blast_Score=103, Evalue=2e-22,
Organism=Homo sapiens, GI4759046, Length=269, Percent_Identity=28.6245353159851, Blast_Score=86, Evalue=5e-17,
Organism=Caenorhabditis elegans, GI86560996, Length=288, Percent_Identity=31.9444444444444, Blast_Score=116, Evalue=1e-26,
Organism=Saccharomyces cerevisiae, GI6322168, Length=185, Percent_Identity=34.0540540540541, Blast_Score=101, Evalue=2e-22,
Organism=Saccharomyces cerevisiae, GI6325367, Length=273, Percent_Identity=28.9377289377289, Blast_Score=95, Evalue=2e-20,
Organism=Drosophila melanogaster, GI17137650, Length=292, Percent_Identity=29.4520547945205, Blast_Score=119, Evalue=3e-27,
Organism=Drosophila melanogaster, GI20129237, Length=292, Percent_Identity=27.0547945205479, Blast_Score=102, Evalue=4e-22,

Paralogues:

None

Copy number: NA

Swissprot (AC and ID): NA

Other databases:

- InterPro:   IPR017900
- 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: 31516; Mature: 31516

Theoretical pI: Translated: 6.36; Mature: 6.36

Prosite motif: PS00446 RNA_POL_D_30KD ; PS00198 4FE4S_FERREDOXIN

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

3.6 %Cys     (Translated Protein)
0.7 %Met     (Translated Protein)
4.3 %Cys+Met (Translated Protein)
3.6 %Cys     (Mature Protein)
0.7 %Met     (Mature Protein)
4.3 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MHIDILEKTPSTIKLYLRDVPLHLVNSLRRTILSEVPTMAVDYVAITENSSVFYDEYISH
CCEECCCCCCCCEEEHHHHCCHHHHHHHHHHHHHHCCHHHEEEEEEECCCCCHHHHHHHH
RLGLIPLKSNEALNKYKPPEECAEAGDRGIFSQDCFVTLRLEASGPEKDVLTVYSRDLVS
HCCEEEECCCCCHHCCCCHHHHHHCCCCCCCCCCCEEEEEEECCCCCCHHHHHHHHHHHC
SDPDVVPVYGEIPILKLIKDQSIRLEAYARLGRGKEHIKWSPVSTAAHKYVPAITIDSEK
CCCCEEEEECCCCCEEECCCCCCHHHHHHHHCCCCCCEEECCCHHHHHHCCCEEEECCCC
CKGAECSRCVNACPKNIFEAGNNSVRVKEDKILECTFCRLCENICPTQAVKVSWRENEYI
CCCCHHHHHHHHCHHHHHHCCCCCEEEECCCHHHHHHHHHHHHCCCCCEEEEEEECCCEE
LYLELTGALNARNILIEAINILSRKLDAFIDELRRNGVAV
EEEEECCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCC
>Mature Secondary Structure
MHIDILEKTPSTIKLYLRDVPLHLVNSLRRTILSEVPTMAVDYVAITENSSVFYDEYISH
CCEECCCCCCCCEEEHHHHCCHHHHHHHHHHHHHHCCHHHEEEEEEECCCCCHHHHHHHH
RLGLIPLKSNEALNKYKPPEECAEAGDRGIFSQDCFVTLRLEASGPEKDVLTVYSRDLVS
HCCEEEECCCCCHHCCCCHHHHHHCCCCCCCCCCCEEEEEEECCCCCCHHHHHHHHHHHC
SDPDVVPVYGEIPILKLIKDQSIRLEAYARLGRGKEHIKWSPVSTAAHKYVPAITIDSEK
CCCCEEEEECCCCCEEECCCCCCHHHHHHHHCCCCCCEEECCCHHHHHHCCCEEEECCCC
CKGAECSRCVNACPKNIFEAGNNSVRVKEDKILECTFCRLCENICPTQAVKVSWRENEYI
CCCCHHHHHHHHCHHHHHHCCCCCEEEECCCHHHHHHHHHHHHCCCCCEEEEEEECCCEE
LYLELTGALNARNILIEAINILSRKLDAFIDELRRNGVAV
EEEEECCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCC

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: 11572479 [H]