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The map label for this gene is rpoD

Identifier: 227828307

GI number: 227828307

Start: 1879908

End: 1880705

Strand: Direct

Name: rpoD

Synonym: M1425_2048

Alternate gene names: 227828307

Gene position: 1879908-1880705 (Clockwise)

Preceding gene: 227828306

Following gene: 227828308

Centisome position: 72.06

GC content: 34.84

Gene sequence:

>798_bases
ATGTCAATTAATTTACTTCATAAGGATGATAAAAGGATAGATCTAGTTTTTGAGGGTTATCCTTTAGAATTTGTAAATGC
AATTAGGAGAGCGGCGATGCTTTATGTTCCAGTAATGTCTATTGACGATGTATATTTCATAGAGAATAACAGTCCTTTAT
ACGATGAGATATTGGCACATAGGTTGGCTTTAATACCATTTACTTCAGAGGAAGCTTTAGATACGTATAGATGGCCAGAA
GAATGTATCGAATGTACTGAAAACTGTGAAAAATGTTATACTAAGATTTACATTGAAGCGGAAGCATTGAATGAGCCTAA
GATGCTATACTCTAAAGATATAAAATCAGAGGATCCATCAATAGTTCCAATATCTGGAGACATACCAATCGTGCTATTAG
GTGCTAATCAAAAGATATCACTCGAGGCTAGGTTAAGATTAGGCTACGGAAAAGAGCACGCTAAGTTTATACCAGTTTCT
TTGGCAATAGTTAGATATTATCCGAAAGTTGAGATACTAGGAAATTGTGAAAAAGCAGCTACTGTTTGCCCAGAGGGGGT
ATTTGAATTAAAAGATGGTAAACTCTCAGTAAAGAACGAGTTGGCTTGTACCCTGTGTGAAGAGTGTTTAAGATATTGCA
ATGGCTTAATTAGAATTTCGTCTATAGAGGATAAATATATTCTGGAGCTAGAAAGTGTTGGATCTCTTAAGCCAGAGAGA
ATTTTATTAGAGGCTGGTAAAAGCATTATTAGAAAGATTGAAGAATTAGAGAAGAAGCTAGTAGAGGTGATTAAATGA

Upstream 100 bases:

>100_bases
GATTCATTATAGGAAGGATTGAAGACGTGACGCCTATTCCTCATGATACTATAAGGAGACCCGGTGGAAGAAGAGGAAGA
AGAGTATAGGCGGCTTATAC

Downstream 100 bases:

>100_bases
AGGTAACTGGTAGTACGAATATAATGGTTAGAAAGCTTATCAGAAATTTGGAAAAGTCTAAGAAACCATTGTGGAGAAAA
GTAGCTGAAGAGTTATCGGC

Product: RNA polymerase insert

Products: NA

Alternate protein names: NA

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

Protein sequence:

>265_residues
MSINLLHKDDKRIDLVFEGYPLEFVNAIRRAAMLYVPVMSIDDVYFIENNSPLYDEILAHRLALIPFTSEEALDTYRWPE
ECIECTENCEKCYTKIYIEAEALNEPKMLYSKDIKSEDPSIVPISGDIPIVLLGANQKISLEARLRLGYGKEHAKFIPVS
LAIVRYYPKVEILGNCEKAATVCPEGVFELKDGKLSVKNELACTLCEECLRYCNGLIRISSIEDKYILELESVGSLKPER
ILLEAGKSIIRKIEELEKKLVEVIK

Sequences:

>Translated_265_residues
MSINLLHKDDKRIDLVFEGYPLEFVNAIRRAAMLYVPVMSIDDVYFIENNSPLYDEILAHRLALIPFTSEEALDTYRWPE
ECIECTENCEKCYTKIYIEAEALNEPKMLYSKDIKSEDPSIVPISGDIPIVLLGANQKISLEARLRLGYGKEHAKFIPVS
LAIVRYYPKVEILGNCEKAATVCPEGVFELKDGKLSVKNELACTLCEECLRYCNGLIRISSIEDKYILELESVGSLKPER
ILLEAGKSIIRKIEELEKKLVEVIK
>Mature_264_residues
SINLLHKDDKRIDLVFEGYPLEFVNAIRRAAMLYVPVMSIDDVYFIENNSPLYDEILAHRLALIPFTSEEALDTYRWPEE
CIECTENCEKCYTKIYIEAEALNEPKMLYSKDIKSEDPSIVPISGDIPIVLLGANQKISLEARLRLGYGKEHAKFIPVSL
AIVRYYPKVEILGNCEKAATVCPEGVFELKDGKLSVKNELACTLCEECLRYCNGLIRISSIEDKYILELESVGSLKPERI
LLEAGKSIIRKIEELEKKLVEVIK

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

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

Homologues:

Organism=Homo sapiens, GI14702171, Length=271, Percent_Identity=26.9372693726937, Blast_Score=103, Evalue=2e-22,
Organism=Homo sapiens, GI42560246, Length=289, Percent_Identity=29.0657439446367, Blast_Score=95, Evalue=7e-20,
Organism=Homo sapiens, GI4759046, Length=258, Percent_Identity=28.6821705426357, Blast_Score=80, Evalue=2e-15,
Organism=Caenorhabditis elegans, GI86560996, Length=279, Percent_Identity=25.8064516129032, Blast_Score=85, Evalue=4e-17,
Organism=Caenorhabditis elegans, GI25155095, Length=316, Percent_Identity=26.2658227848101, Blast_Score=80, Evalue=1e-15,
Organism=Saccharomyces cerevisiae, GI6325367, Length=269, Percent_Identity=29.368029739777, Blast_Score=102, Evalue=4e-23,
Organism=Saccharomyces cerevisiae, GI6322168, Length=168, Percent_Identity=28.5714285714286, Blast_Score=69, Evalue=8e-13,
Organism=Drosophila melanogaster, GI17137650, Length=276, Percent_Identity=23.9130434782609, Blast_Score=92, Evalue=4e-19,

Paralogues:

None

Copy number: NA

Swissprot (AC and ID): RPOD_SULIA (C3N054)

Other databases:

- EMBL:   CP001401
- RefSeq:   YP_002844039.1
- GeneID:   7811945
- GenomeReviews:   CP001401_GR
- KEGG:   sim:M1627_2128
- OMA:   FHVETDG
- ProtClustDB:   PRK00783
- HAMAP:   MF_00320
- InterPro:   IPR001514
- InterPro:   IPR011261
- InterPro:   IPR011262
- InterPro:   IPR009025
- InterPro:   IPR011263
- InterPro:   IPR022842
- Gene3D:   G3DSA:2.170.120.12
- SMART:   SM00662

Pfam domain/function: PF01000 RNA_pol_A_bac; PF01193 RNA_pol_L; SSF56553 RNAP_insert; SSF55257 RNAP_RBP11-like

EC number: =2.7.7.6

Molecular weight: Translated: 30185; Mature: 30053

Theoretical pI: Translated: 4.72; Mature: 4.72

Prosite motif: PS00446 RNA_POL_D_30KD

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

3.8 %Cys     (Translated Protein)
1.5 %Met     (Translated Protein)
5.3 %Cys+Met (Translated Protein)
3.8 %Cys     (Mature Protein)
1.1 %Met     (Mature Protein)
4.9 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MSINLLHKDDKRIDLVFEGYPLEFVNAIRRAAMLYVPVMSIDDVYFIENNSPLYDEILAH
CEEEEEECCCCEEEEEECCCCHHHHHHHHHHHHHEEEEECCCCEEEEECCCCHHHHHHHH
RLALIPFTSEEALDTYRWPEECIECTENCEKCYTKIYIEAEALNEPKMLYSKDIKSEDPS
HHHEECCCCHHHHHHCCCHHHHHHHHHHHHHHHHEEEEEECCCCCCHHHHHCCCCCCCCC
IVPISGDIPIVLLGANQKISLEARLRLGYGKEHAKFIPVSLAIVRYYPKVEILGNCEKAA
EEEECCCCCEEEECCCCEEEEEEEEEECCCCCCCEEEHHEEEEEHHCCCEEEECCCHHHH
TVCPEGVFELKDGKLSVKNELACTLCEECLRYCNGLIRISSIEDKYILELESVGSLKPER
HCCCCCCEEECCCCEEHHHHHHHHHHHHHHHHHCCEEEEECCCCCEEEEEHHCCCCCHHH
ILLEAGKSIIRKIEELEKKLVEVIK
HHHHHHHHHHHHHHHHHHHHHHHHC
>Mature Secondary Structure 
SINLLHKDDKRIDLVFEGYPLEFVNAIRRAAMLYVPVMSIDDVYFIENNSPLYDEILAH
EEEEEECCCCEEEEEECCCCHHHHHHHHHHHHHEEEEECCCCEEEEECCCCHHHHHHHH
RLALIPFTSEEALDTYRWPEECIECTENCEKCYTKIYIEAEALNEPKMLYSKDIKSEDPS
HHHEECCCCHHHHHHCCCHHHHHHHHHHHHHHHHEEEEEECCCCCCHHHHHCCCCCCCCC
IVPISGDIPIVLLGANQKISLEARLRLGYGKEHAKFIPVSLAIVRYYPKVEILGNCEKAA
EEEECCCCCEEEECCCCEEEEEEEEEECCCCCCCEEEHHEEEEEHHCCCEEEECCCHHHH
TVCPEGVFELKDGKLSVKNELACTLCEECLRYCNGLIRISSIEDKYILELESVGSLKPER
HCCCCCCEEECCCCEEHHHHHHHHHHHHHHHHHCCEEEEECCCCCEEEEEHHCCCCCHHH
ILLEAGKSIIRKIEELEKKLVEVIK
HHHHHHHHHHHHHHHHHHHHHHHHC

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