Click here to switch to the map view.

The map label for this gene is rnd [H]

Identifier: 167623763

GI number: 167623763

Start: 2190976

End: 2192085

Strand: Direct

Name: rnd [H]

Synonym: Shal_1833

Alternate gene names: 167623763

Gene position: 2190976-2192085 (Clockwise)

Preceding gene: 167623762

Following gene: 167623767

Centisome position: 41.92

GC content: 42.7

Gene sequence:

>1110_bases
TTGTTAGTGTTTCAATATATTGAAGATGATGCCAGTTTAGCGGCCCTTGTAGAGCAATACCAAGAAGCTGATTTATTGGT
GCTAGACACAGAATTTGTTCGTACTCGCACCTATTATGCAAGACTAGGTCTTATCCAAGCCTATGACGGTAAAACCCTAG
CGTTGATTGACCCGTTAGCCGTGAGTAATCTTGAGCTATTTTGGCAGCTTCTTAATAAAGAGAGTAGCGTAAAGTTGCTA
CATTCTTGCAGCGAGGACTTAGAAGTCTTTGCCCGTTATGGCCAATGCCAGCCAACTAATTTATTTGATAGCCAAATTGC
TGCCGGTTTAGCAGGCATGGGACACGGTTTAGGTTACGCAAAATTGGTTGAGCAAACTCTAGAGGTGAGTCTAGATAAAG
GCGAGTCTCGCACCGACTGGCTGAAGCGACCGTTGACTGAAGCGCAGCTGAATTATGCCGCCAATGACGTGTATTATCTT
TATAAGCTGTATCCTCAATTAGTCGATAAGCTCAAAGAGCAGGGCAGACTAGACTGGGTGTATGAAGAAGGCGTTCGCAT
GACTCAGGGGCGTTTAGATACGCCTGATCCCGATCTTGCTTATTTAAAGGTTAAAAATGCCTTTCAGTTGACATCAAATC
AACTCGCAGTTTTAAGAGATTTAGCTAAATGGCGTATGCAGCGTGCTTTACAAAAAGATCTTGCACTGGGCTTTGTTGTC
AAAGATCACGCATTAATTGGCTTGGCAAAAAAACTCCCTAAGACGAGTAATGATCTTTATAAGCTGACGGAACTGACCGA
GCAAGAAAAACGTATTCATGGTAAGGAGCTTATTAAGCTTATTGCCAATGTGAGCTATGACAACCCACCTAAACCTTTAG
ATGTGATAGCACTTAAAACGGGTTATAAAGTGGCTTTTAAGAGCATCAAAAACTGTATTACAGAGCAAGCTGAGGCAAAA
GAAATCCCGATTGAACTATTGGGGTCTAAAAAGTATATCCACGAATATTTGGAGTGGGTATGGGCTAATAAGCAAGGCGA
TAAGCCGCTTATTCTTACCGGTTGGAGAGAAGCTATTGTCGCAGAGGCTTTAGCTGCGCTGAAACTGTAG

Upstream 100 bases:

>100_bases
AGCAAGCCTAACCTCATTAGTCATTAAGTGGTGATTGCCACTTGTGATTACAAAAAAGCCGGCGATCGCCGGCTTTTGCA
TATTTATGGAGTAGACAACT

Downstream 100 bases:

>100_bases
TCATTTAAGTTTAAACTATCTACAAAAATGCCCGCATAAGCGGGCATTTTTATTAGCAATAACAAAGTTATTTAGCTTTG
TTCTGGCAAAGTGACGTTAA

Product: ribonuclease D

Products: NA

Alternate protein names: RNase D [H]

Number of amino acids: Translated: 369; Mature: 369

Protein sequence:

>369_residues
MLVFQYIEDDASLAALVEQYQEADLLVLDTEFVRTRTYYARLGLIQAYDGKTLALIDPLAVSNLELFWQLLNKESSVKLL
HSCSEDLEVFARYGQCQPTNLFDSQIAAGLAGMGHGLGYAKLVEQTLEVSLDKGESRTDWLKRPLTEAQLNYAANDVYYL
YKLYPQLVDKLKEQGRLDWVYEEGVRMTQGRLDTPDPDLAYLKVKNAFQLTSNQLAVLRDLAKWRMQRALQKDLALGFVV
KDHALIGLAKKLPKTSNDLYKLTELTEQEKRIHGKELIKLIANVSYDNPPKPLDVIALKTGYKVAFKSIKNCITEQAEAK
EIPIELLGSKKYIHEYLEWVWANKQGDKPLILTGWREAIVAEALAALKL

Sequences:

>Translated_369_residues
MLVFQYIEDDASLAALVEQYQEADLLVLDTEFVRTRTYYARLGLIQAYDGKTLALIDPLAVSNLELFWQLLNKESSVKLL
HSCSEDLEVFARYGQCQPTNLFDSQIAAGLAGMGHGLGYAKLVEQTLEVSLDKGESRTDWLKRPLTEAQLNYAANDVYYL
YKLYPQLVDKLKEQGRLDWVYEEGVRMTQGRLDTPDPDLAYLKVKNAFQLTSNQLAVLRDLAKWRMQRALQKDLALGFVV
KDHALIGLAKKLPKTSNDLYKLTELTEQEKRIHGKELIKLIANVSYDNPPKPLDVIALKTGYKVAFKSIKNCITEQAEAK
EIPIELLGSKKYIHEYLEWVWANKQGDKPLILTGWREAIVAEALAALKL
>Mature_369_residues
MLVFQYIEDDASLAALVEQYQEADLLVLDTEFVRTRTYYARLGLIQAYDGKTLALIDPLAVSNLELFWQLLNKESSVKLL
HSCSEDLEVFARYGQCQPTNLFDSQIAAGLAGMGHGLGYAKLVEQTLEVSLDKGESRTDWLKRPLTEAQLNYAANDVYYL
YKLYPQLVDKLKEQGRLDWVYEEGVRMTQGRLDTPDPDLAYLKVKNAFQLTSNQLAVLRDLAKWRMQRALQKDLALGFVV
KDHALIGLAKKLPKTSNDLYKLTELTEQEKRIHGKELIKLIANVSYDNPPKPLDVIALKTGYKVAFKSIKNCITEQAEAK
EIPIELLGSKKYIHEYLEWVWANKQGDKPLILTGWREAIVAEALAALKL

Specific function: Cleaves multimeric tRNA precursor at the spacer region. Contribute to the 3' maturation of several stable RNAs [H]

COG id: COG0349

COG function: function code J; Ribonuclease D

Gene ontology:

Cell location: Cytoplasm [H]

Metaboloic importance: Non_Essential [C]

Operon status: Not Known

Operon components: None

Similarity: Contains 1 HRDC domain [H]

Homologues:

Organism=Homo sapiens, GI4505917, Length=260, Percent_Identity=26.1538461538462, Blast_Score=73, Evalue=4e-13,
Organism=Homo sapiens, GI50301240, Length=260, Percent_Identity=26.1538461538462, Blast_Score=73, Evalue=4e-13,
Organism=Escherichia coli, GI1788105, Length=368, Percent_Identity=41.5760869565217, Blast_Score=265, Evalue=3e-72,
Organism=Caenorhabditis elegans, GI17531757, Length=260, Percent_Identity=27.3076923076923, Blast_Score=76, Evalue=3e-14,
Organism=Saccharomyces cerevisiae, GI6324574, Length=300, Percent_Identity=24.6666666666667, Blast_Score=70, Evalue=5e-13,
Organism=Drosophila melanogaster, GI161078302, Length=258, Percent_Identity=27.906976744186, Blast_Score=84, Evalue=1e-16,

Paralogues:

None

Copy number: NA

Swissprot (AC and ID): NA

Other databases:

- InterPro:   IPR002562
- InterPro:   IPR002121
- InterPro:   IPR010997
- InterPro:   IPR006292
- InterPro:   IPR012337 [H]

Pfam domain/function: PF01612 3_5_exonuc; PF00570 HRDC [H]

EC number: =3.1.13.5 [H]

Molecular weight: Translated: 41929; Mature: 41929

Theoretical pI: Translated: 6.09; Mature: 6.09

Prosite motif: PS50967 HRDC

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.8 %Cys     (Translated Protein)
1.1 %Met     (Translated Protein)
1.9 %Cys+Met (Translated Protein)
0.8 %Cys     (Mature Protein)
1.1 %Met     (Mature Protein)
1.9 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MLVFQYIEDDASLAALVEQYQEADLLVLDTEFVRTRTYYARLGLIQAYDGKTLALIDPLA
CEEEEEECCCHHHHHHHHHHHCCCEEEEEHHHHHHHHHHHHHCEEEECCCCEEEEECCHH
VSNLELFWQLLNKESSVKLLHSCSEDLEVFARYGQCQPTNLFDSQIAAGLAGMGHGLGYA
HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHCCCCHHH
KLVEQTLEVSLDKGESRTDWLKRPLTEAQLNYAANDVYYLYKLYPQLVDKLKEQGRLDWV
HHHHHHHHHHHCCCCCHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCEEEE
YEEGVRMTQGRLDTPDPDLAYLKVKNAFQLTSNQLAVLRDLAKWRMQRALQKDLALGFVV
HHCCCHHHCCCCCCCCCCEEEEEECCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHEE
KDHALIGLAKKLPKTSNDLYKLTELTEQEKRIHGKELIKLIANVSYDNPPKPLDVIALKT
HHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCEEEEEECC
GYKVAFKSIKNCITEQAEAKEIPIELLGSKKYIHEYLEWVWANKQGDKPLILTGWREAIV
CHHHHHHHHHHHHHCCHHHHCCCHHHHCCHHHHHHHHHHHHCCCCCCCCEEEECHHHHHH
AEALAALKL
HHHHHHHCC
>Mature Secondary Structure
MLVFQYIEDDASLAALVEQYQEADLLVLDTEFVRTRTYYARLGLIQAYDGKTLALIDPLA
CEEEEEECCCHHHHHHHHHHHCCCEEEEEHHHHHHHHHHHHHCEEEECCCCEEEEECCHH
VSNLELFWQLLNKESSVKLLHSCSEDLEVFARYGQCQPTNLFDSQIAAGLAGMGHGLGYA
HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHCCCCHHH
KLVEQTLEVSLDKGESRTDWLKRPLTEAQLNYAANDVYYLYKLYPQLVDKLKEQGRLDWV
HHHHHHHHHHHCCCCCHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCEEEE
YEEGVRMTQGRLDTPDPDLAYLKVKNAFQLTSNQLAVLRDLAKWRMQRALQKDLALGFVV
HHCCCHHHCCCCCCCCCCEEEEEECCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHEE
KDHALIGLAKKLPKTSNDLYKLTELTEQEKRIHGKELIKLIANVSYDNPPKPLDVIALKT
HHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCEEEEEECC
GYKVAFKSIKNCITEQAEAKEIPIELLGSKKYIHEYLEWVWANKQGDKPLILTGWREAIV
CHHHHHHHHHHHHHCCHHHHCCCHHHHCCHHHHHHHHHHHHCCCCCCCCEEEECHHHHHH
AEALAALKL
HHHHHHHCC

PDB accession: NA

Resolution: NA

Structure class: Unstructured

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: 9.0

TargetDB status: NA

Availability: NA

References: 3041371; 9097040; 9278503; 8107670 [H]