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The map label for this gene is rpoD [H]

Identifier: 21228260

GI number: 21228260

Start: 2559485

End: 2560285

Strand: Direct

Name: rpoD [H]

Synonym: MM_2158

Alternate gene names: 21228260

Gene position: 2559485-2560285 (Clockwise)

Preceding gene: 21228259

Following gene: 21228262

Centisome position: 62.48

GC content: 49.56

Gene sequence:

>801_bases
ATGACGATGGAAGTAGACATTCTGGAGTTATCGGACAGATCTGCAAAGTTTGTGCTGTCCCGGGTAAGCATGGCTTTTGC
TAACGGCGTACGGCGTGCCATGATCGCCGATGTACCCACTCTTGCAATCGAGTATGTAAACCTTTACGACAATACCTCCG
TGCTCTATGATGAACAGCTGGCTCTCCGTCTCTCCTTAATCCCGCTTGTAACGGATATAGAGACGTATATGCCTCAGGCT
GAGTGTGAGGTCTGCGGAGGAGAAGGCTGCCCTGCCTGCGAGGTCTCCTTAACCCTCAGTGCAGAAGGTCCTGGTACCGT
TTATTCGCGTGACCTTATCTCTTCTGATCCCAAGATCCAGCCGGCAGATCCTAATATCCCGATTGTTGAGCTGAAAAAGG
GACAGAAGCTCGTGCTCGAGGCTATTGCCCATATGGGCTACGGCAGAGACAGCGTAAAATGGCAGGCAGGCGTTGCCTGT
GGCTACAAGAACGTACCTGTTATAACCATTGAGAACTGCGATGCCTGCGGACACTGTGCGGCAGAATGCCCTAAAGGCAT
TATCCGGGTTGAAGAAGCAGGAGCAAGGATTGCTGAGGACGACCTTATAAAATGTTCCCTCTGCAGGCTCTGTGAACAGG
TATGTGACATTAACGCTATAAAAGTGGACTTCTACGAAAACGCTTTTGTTTTTACCATGGAGTCCGATGGTTCATATACT
GCTAAAGACCTTACCATTAATGCCGCAAACGTCATTAAAGGTAAAGCCGAGGAACTTCTGGCAATTCTGGACCAGCTCTG
A

Upstream 100 bases:

>100_bases
CCGTCCAAAAGGCGGAAGGCGTGTATAATAAAAATTGTTCAGAGAATTCTTCAAAATTCTCTTTTTTTAATGTGTTCAAA
ATTCAGGGGAATTAAGGTAT

Downstream 100 bases:

>100_bases
ACCCCTGGTTAAACCAGAGAGTTCAAACCGATTTTTTCGGAGCCTATTTTCTGGTTCCGGAAAACTCTCTGCACAGAGGA
TTTTCTTTACATGATTACTT

Product: DNA-directed RNA polymerase subunit D

Products: NA

Alternate protein names: NA

Number of amino acids: Translated: 266; Mature: 265

Protein sequence:

>266_residues
MTMEVDILELSDRSAKFVLSRVSMAFANGVRRAMIADVPTLAIEYVNLYDNTSVLYDEQLALRLSLIPLVTDIETYMPQA
ECEVCGGEGCPACEVSLTLSAEGPGTVYSRDLISSDPKIQPADPNIPIVELKKGQKLVLEAIAHMGYGRDSVKWQAGVAC
GYKNVPVITIENCDACGHCAAECPKGIIRVEEAGARIAEDDLIKCSLCRLCEQVCDINAIKVDFYENAFVFTMESDGSYT
AKDLTINAANVIKGKAEELLAILDQL

Sequences:

>Translated_266_residues
MTMEVDILELSDRSAKFVLSRVSMAFANGVRRAMIADVPTLAIEYVNLYDNTSVLYDEQLALRLSLIPLVTDIETYMPQA
ECEVCGGEGCPACEVSLTLSAEGPGTVYSRDLISSDPKIQPADPNIPIVELKKGQKLVLEAIAHMGYGRDSVKWQAGVAC
GYKNVPVITIENCDACGHCAAECPKGIIRVEEAGARIAEDDLIKCSLCRLCEQVCDINAIKVDFYENAFVFTMESDGSYT
AKDLTINAANVIKGKAEELLAILDQL
>Mature_265_residues
TMEVDILELSDRSAKFVLSRVSMAFANGVRRAMIADVPTLAIEYVNLYDNTSVLYDEQLALRLSLIPLVTDIETYMPQAE
CEVCGGEGCPACEVSLTLSAEGPGTVYSRDLISSDPKIQPADPNIPIVELKKGQKLVLEAIAHMGYGRDSVKWQAGVACG
YKNVPVITIENCDACGHCAAECPKGIIRVEEAGARIAEDDLIKCSLCRLCEQVCDINAIKVDFYENAFVFTMESDGSYTA
KDLTINAANVIKGKAEELLAILDQL

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=178, Percent_Identity=41.0112359550562, Blast_Score=119, Evalue=3e-27,
Organism=Caenorhabditis elegans, GI86560996, Length=289, Percent_Identity=26.9896193771626, Blast_Score=93, Evalue=1e-19,
Organism=Saccharomyces cerevisiae, GI6325367, Length=295, Percent_Identity=29.4915254237288, Blast_Score=112, Evalue=6e-26,
Organism=Saccharomyces cerevisiae, GI6322168, Length=186, Percent_Identity=38.1720430107527, Blast_Score=101, Evalue=2e-22,
Organism=Drosophila melanogaster, GI17137650, Length=284, Percent_Identity=30.9859154929577, Blast_Score=109, Evalue=2e-24,

Paralogues:

None

Copy number: NA

Swissprot (AC and ID): NA

Other databases:

- InterPro:   IPR017896
- 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: 28897; Mature: 28765

Theoretical pI: Translated: 4.24; Mature: 4.24

Prosite motif: PS00446 RNA_POL_D_30KD ; PS00198 4FE4S_FERREDOXIN

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

4.9 %Cys     (Translated Protein)
2.6 %Met     (Translated Protein)
7.5 %Cys+Met (Translated Protein)
4.9 %Cys     (Mature Protein)
2.3 %Met     (Mature Protein)
7.2 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MTMEVDILELSDRSAKFVLSRVSMAFANGVRRAMIADVPTLAIEYVNLYDNTSVLYDEQL
CCEEEEEEECCCCHHHHHHHHHHHHHHHHHHHHHHHCCCHHEEEEEEECCCCEEEECHHH
ALRLSLIPLVTDIETYMPQAECEVCGGEGCPACEVSLTLSAEGPGTVYSRDLISSDPKIQ
EEEEEHHHHHHHHHHHCCCCCEEEECCCCCCEEEEEEEEECCCCCCEEEHHHHCCCCCCC
PADPNIPIVELKKGQKLVLEAIAHMGYGRDSVKWQAGVACGYKNVPVITIENCDACGHCA
CCCCCCCEEEECCCCHHHHHHHHHCCCCCCCCEEEECEEECCCCCCEEEEECCCCCCCHH
AECPKGIIRVEEAGARIAEDDLIKCSLCRLCEQVCDINAIKVDFYENAFVFTMESDGSYT
HHCCCCEEEEECCCCCCCCCHHHHHHHHHHHHHHHCCCEEEEEEECCEEEEEEECCCCEE
AKDLTINAANVIKGKAEELLAILDQL
EEEEEEEHHHHHCCCHHHHHHHHHCC
>Mature Secondary Structure 
TMEVDILELSDRSAKFVLSRVSMAFANGVRRAMIADVPTLAIEYVNLYDNTSVLYDEQL
CEEEEEEECCCCHHHHHHHHHHHHHHHHHHHHHHHCCCHHEEEEEEECCCCEEEECHHH
ALRLSLIPLVTDIETYMPQAECEVCGGEGCPACEVSLTLSAEGPGTVYSRDLISSDPKIQ
EEEEEHHHHHHHHHHHCCCCCEEEECCCCCCEEEEEEEEECCCCCCEEEHHHHCCCCCCC
PADPNIPIVELKKGQKLVLEAIAHMGYGRDSVKWQAGVACGYKNVPVITIENCDACGHCA
CCCCCCCEEEECCCCHHHHHHHHHCCCCCCCCEEEECEEECCCCCCEEEEECCCCCCCHH
AECPKGIIRVEEAGARIAEDDLIKCSLCRLCEQVCDINAIKVDFYENAFVFTMESDGSYT
HHCCCCEEEEECCCCCCCCCHHHHHHHHHHHHHHHCCCEEEEEEECCEEEEEEECCCCEE
AKDLTINAANVIKGKAEELLAILDQL
EEEEEEEHHHHHCCCHHHHHHHHHCC

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: 11932238 [H]