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The map label for this gene is rpoD

Identifier: 18978019

GI number: 18978019

Start: 1534790

End: 1535575

Strand: Reverse

Name: rpoD

Synonym: PF1647

Alternate gene names: 18978019

Gene position: 1535575-1534790 (Counterclockwise)

Preceding gene: 18978020

Following gene: 18978018

Centisome position: 80.47

GC content: 38.8

Gene sequence:

>786_bases
ATGGCCGGAATTGAAGTTCAGATTCTTGAAAAAAAGGAAGATTCTATTAAGTTTGTCTTAAAGGGGGTTCATGTTTCGTT
TGCAAATGCACTAAGAAGGACAATTTTAGGGGAAGTCCCAACATTTGCAGTTGATGAAGTAGAATTTTATGAAAACGACT
CAGCACTTTTTGATGAAATCATTGCCCACAGATTAGCAATGATTCCACTAACTACTCCAGTTGATAGGTTTGAGTTGGAC
GCATTAGAACTTGATGATTACACGGTAACTCTCTCTCTAGAAGCTGAAGGCCCAGGGATTGTATATTCAGGTGATTTAAA
GAGTGATGATCCGGATGTAAAACCTGTAAATCCAAACATTCCAATTGTAAAGCTCGCTGAGGGACAAAGACTTGTATTTA
ATGCCTATGCCAAGCTTGGTAGAGGAAAGGATCATGCTAAGTGGCAACCTGGATTTGTGTATTACAAGTACTACACTATC
GTTCATATCAGCAAGTCAATCCCCGAATGGAAGGAGCTGAAAAAACTTGCAAAGAAAAGGGGTCTTCCTGTGGAAGAAAC
TGAGGAAGAAGTACTAGTGACAACAATAAAACCTTTCTACATACCAAAGGATTTCGAAGAGTATGAAGGTAAGGAAATCT
GGGAGGAGATAGTGCCAAATACTTACATATTTACAGTTGAAACAAACGGAGAGCTCCCCGTAGAGGAAATAGTATCCATA
GCTCTTAAAATCTTGATGAGAAAGGCCGATAGGTTTATAAGTGAACTTCAAAAATTGACCTCTTGA

Upstream 100 bases:

>100_bases
GGATGTTACTCCAATACCACACGATGGTACTAGGCCAAAGGGTGGTAGAAGAGGTAGGCGTGTCTGATCTTTTCAACTTT
ATTTTTGTGGAGGAGGGGAA

Downstream 100 bases:

>100_bases
TCCCTGCGGGGGTTGCCGAGCCTGGTCAAAGGCGCGGGATTCAGGGTCCCGTCCCGTAGGGGTTCCGGGGTTCAAATCCC
CGCCCCCGCACCAGTATTTA

Product: DNA-directed RNA polymerase subunit D

Products: NA

Alternate protein names: NA

Number of amino acids: Translated: 261; Mature: 260

Protein sequence:

>261_residues
MAGIEVQILEKKEDSIKFVLKGVHVSFANALRRTILGEVPTFAVDEVEFYENDSALFDEIIAHRLAMIPLTTPVDRFELD
ALELDDYTVTLSLEAEGPGIVYSGDLKSDDPDVKPVNPNIPIVKLAEGQRLVFNAYAKLGRGKDHAKWQPGFVYYKYYTI
VHISKSIPEWKELKKLAKKRGLPVEETEEEVLVTTIKPFYIPKDFEEYEGKEIWEEIVPNTYIFTVETNGELPVEEIVSI
ALKILMRKADRFISELQKLTS

Sequences:

>Translated_261_residues
MAGIEVQILEKKEDSIKFVLKGVHVSFANALRRTILGEVPTFAVDEVEFYENDSALFDEIIAHRLAMIPLTTPVDRFELD
ALELDDYTVTLSLEAEGPGIVYSGDLKSDDPDVKPVNPNIPIVKLAEGQRLVFNAYAKLGRGKDHAKWQPGFVYYKYYTI
VHISKSIPEWKELKKLAKKRGLPVEETEEEVLVTTIKPFYIPKDFEEYEGKEIWEEIVPNTYIFTVETNGELPVEEIVSI
ALKILMRKADRFISELQKLTS
>Mature_260_residues
AGIEVQILEKKEDSIKFVLKGVHVSFANALRRTILGEVPTFAVDEVEFYENDSALFDEIIAHRLAMIPLTTPVDRFELDA
LELDDYTVTLSLEAEGPGIVYSGDLKSDDPDVKPVNPNIPIVKLAEGQRLVFNAYAKLGRGKDHAKWQPGFVYYKYYTIV
HISKSIPEWKELKKLAKKRGLPVEETEEEVLVTTIKPFYIPKDFEEYEGKEIWEEIVPNTYIFTVETNGELPVEEIVSIA
LKILMRKADRFISELQKLTS

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, GI42560246, Length=294, Percent_Identity=28.2312925170068, Blast_Score=99, Evalue=5e-21,
Organism=Homo sapiens, GI14702171, Length=285, Percent_Identity=31.5789473684211, Blast_Score=97, Evalue=1e-20,
Organism=Homo sapiens, GI4759046, Length=291, Percent_Identity=26.4604810996564, Blast_Score=77, Evalue=2e-14,
Organism=Caenorhabditis elegans, GI86560996, Length=279, Percent_Identity=31.1827956989247, Blast_Score=102, Evalue=2e-22,
Organism=Saccharomyces cerevisiae, GI6322168, Length=288, Percent_Identity=29.5138888888889, Blast_Score=100, Evalue=2e-22,
Organism=Saccharomyces cerevisiae, GI6325367, Length=288, Percent_Identity=27.7777777777778, Blast_Score=93, Evalue=5e-20,
Organism=Drosophila melanogaster, GI17137650, Length=282, Percent_Identity=32.9787234042553, Blast_Score=119, Evalue=2e-27,
Organism=Drosophila melanogaster, GI20129237, Length=293, Percent_Identity=25.5972696245734, Blast_Score=81, Evalue=9e-16,

Paralogues:

None

Copy number: NA

Swissprot (AC and ID): RPOD_PYRFU (Q8U0E4)

Other databases:

- EMBL:   AE009950
- RefSeq:   NP_579376.1
- ProteinModelPortal:   Q8U0E4
- SMR:   Q8U0E4
- EnsemblBacteria:   EBPYRT00000005534
- GeneID:   1469524
- GenomeReviews:   AE009950_GR
- KEGG:   pfu:PF1647
- NMPDR:   fig|186497.1.peg.1695
- GeneTree:   EBGT00050000023268
- HOGENOM:   HBG539019
- OMA:   ILMRKSD
- ProtClustDB:   PRK00783
- BRENDA:   2.7.7.6
- 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: 29782; Mature: 29650

Theoretical pI: Translated: 4.60; Mature: 4.60

Prosite motif: PS00446 RNA_POL_D_30KD

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.0 %Cys     (Translated Protein)
1.1 %Met     (Translated Protein)
1.1 %Cys+Met (Translated Protein)
0.0 %Cys     (Mature Protein)
0.8 %Met     (Mature Protein)
0.8 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MAGIEVQILEKKEDSIKFVLKGVHVSFANALRRTILGEVPTFAVDEVEFYENDSALFDEI
CCCCEEEEECCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCCEECCCCEECCCHHHHHHH
IAHRLAMIPLTTPVDRFELDALELDDYTVTLSLEAEGPGIVYSGDLKSDDPDVKPVNPNI
HHHHHHHCCCCCCCCHHEECEEEECCEEEEEEEECCCCCEEEECCCCCCCCCCCCCCCCC
PIVKLAEGQRLVFNAYAKLGRGKDHAKWQPGFVYYKYYTIVHISKSIPEWKELKKLAKKR
CEEEECCCCEEEHHHHHHHCCCCCCCCCCCCEEEEEEEEEEEEECCCCCHHHHHHHHHHC
GLPVEETEEEVLVTTIKPFYIPKDFEEYEGKEIWEEIVPNTYIFTVETNGELPVEEIVSI
CCCCCCCCCCEEEEEECCEECCCCHHHCCHHHHHHHHCCCEEEEEEECCCCCCHHHHHHH
ALKILMRKADRFISELQKLTS
HHHHHHHHHHHHHHHHHHHCC
>Mature Secondary Structure 
AGIEVQILEKKEDSIKFVLKGVHVSFANALRRTILGEVPTFAVDEVEFYENDSALFDEI
CCCEEEEECCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCCEECCCCEECCCHHHHHHH
IAHRLAMIPLTTPVDRFELDALELDDYTVTLSLEAEGPGIVYSGDLKSDDPDVKPVNPNI
HHHHHHHCCCCCCCCHHEECEEEECCEEEEEEEECCCCCEEEECCCCCCCCCCCCCCCCC
PIVKLAEGQRLVFNAYAKLGRGKDHAKWQPGFVYYKYYTIVHISKSIPEWKELKKLAKKR
CEEEECCCCEEEHHHHHHHCCCCCCCCCCCCEEEEEEEEEEEEECCCCCHHHHHHHHHHC
GLPVEETEEEVLVTTIKPFYIPKDFEEYEGKEIWEEIVPNTYIFTVETNGELPVEEIVSI
CCCCCCCCCCEEEEEECCEECCCCHHHCCHHHHHHHHCCCEEEEEEECCCCCCHHHHHHH
ALKILMRKADRFISELQKLTS
HHHHHHHHHHHHHHHHHHHCC

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