Click here to switch to the map view.

The map label for this gene is rnd [H]

Identifier: 126208098

GI number: 126208098

Start: 702230

End: 703345

Strand: Direct

Name: rnd [H]

Synonym: APL_0616

Alternate gene names: 126208098

Gene position: 702230-703345 (Clockwise)

Preceding gene: 126208093

Following gene: 126208099

Centisome position: 30.87

GC content: 40.5

Gene sequence:

>1116_bases
ATGAATCAAATCATTCACTATCATTGGATTGATACGGACGAAAAATTAAAAACGGTTTGCGAGAACGCTTGTCGGAAATC
GGCAGTGGCATTGGATACCGAATTTATTCGAACCCGTTCGTATTATCCGAAACTTGGTCTTATTCAGCTTTTTGACGGCG
ATACCGTCAGTTTGATTGATCCTAATTCAATCTCCGATTTCTCTCCGTTTATCGGTTTATTGACGTGTCAAAACGTCGTA
AAAGTATTACACGCTTGCAGTGAAGATTTAGAGGTTTTCCAGCACCTTTTCAAACAGTTGCCTACACCTTTGGCTGATAC
GCAAATCATGGCAGGATTTGCAGGGGGCGGCATTTCGCTAGGTTTTGCTAAACTTGTCGCGCATTATTTAAATGTCGAGC
TGGATAAAGGCGCCTCCAGAACGGACTGGCTCGCACGACCATTAACGGAAGAACAATTACAATACGCGGCGGCGGATGTA
TGGTATTTGTTACCGGTTTATCAACGCTTGGTTTCGGATCTGGATGCGACACGTTGGCAAAATGCCGTTGAACAGGAATG
TCGATATTTATTAAGTAAAAGAGAATCCGTCGCAAATATTGCTCAAGCGTATAAAGATATTTCAAACGCATGGCGTTTAG
AACCTCAGCAACTGGCTATATTAAAAGTACTGGCGAAATGGCGAATAGAAGAAGCGGAAAAACGAGATTTAGCATTAAAT
TTCGTCGTGAAAGAAAATTGTTTATTTGAAATAGCTAAATTGCAACCGAAACATACTTCGCAATTATTGGGATTTATGCA
TCCGAACGAAGTACGTATTCATGGTAAAAAATTGTTAATGCTCGTTGAACAGGGGTTAGCCGTATTACCGGAAAACTATC
CTGAAAAAATTATACGTTTAGTAGATCAGGCAAACTATAAATATAAATTGAAGGCGATGCAGCAAAAATTAGCGGAAATT
CAACCGCCTGATTTAGCACCCGAGTTATTAGCCAGTAAACGGCAATTAAATCAACTTTTCAGTTGGCATCAACAAGGGCA
AAATGAGGATAAACTACCGGAACTACTGAGCGGATGGCGTCGAGAGTTCGGTTTACAAATTCTTTCGGTTTTGTAA

Upstream 100 bases:

>100_bases
CTTCAATATTGGGGAATCACAACTGTTTTATGTTAATTTTGTGAATTAGCTCACAGAATTAATTTATCTTTTAAAAAAAT
TGGTGAGAAAGATAATAAAA

Downstream 100 bases:

>100_bases
CCTTTCTTCAACCAACATCATTAGACCGAATAAGATAAAACTTGTAGAATTAAATATTAGTAAAAAAACTGGGAAGACAG
GCAAATGGAACATAAAAAAC

Product: ribonuclease D

Products: NA

Alternate protein names: RNase D [H]

Number of amino acids: Translated: 371; Mature: 371

Protein sequence:

>371_residues
MNQIIHYHWIDTDEKLKTVCENACRKSAVALDTEFIRTRSYYPKLGLIQLFDGDTVSLIDPNSISDFSPFIGLLTCQNVV
KVLHACSEDLEVFQHLFKQLPTPLADTQIMAGFAGGGISLGFAKLVAHYLNVELDKGASRTDWLARPLTEEQLQYAAADV
WYLLPVYQRLVSDLDATRWQNAVEQECRYLLSKRESVANIAQAYKDISNAWRLEPQQLAILKVLAKWRIEEAEKRDLALN
FVVKENCLFEIAKLQPKHTSQLLGFMHPNEVRIHGKKLLMLVEQGLAVLPENYPEKIIRLVDQANYKYKLKAMQQKLAEI
QPPDLAPELLASKRQLNQLFSWHQQGQNEDKLPELLSGWRREFGLQILSVL

Sequences:

>Translated_371_residues
MNQIIHYHWIDTDEKLKTVCENACRKSAVALDTEFIRTRSYYPKLGLIQLFDGDTVSLIDPNSISDFSPFIGLLTCQNVV
KVLHACSEDLEVFQHLFKQLPTPLADTQIMAGFAGGGISLGFAKLVAHYLNVELDKGASRTDWLARPLTEEQLQYAAADV
WYLLPVYQRLVSDLDATRWQNAVEQECRYLLSKRESVANIAQAYKDISNAWRLEPQQLAILKVLAKWRIEEAEKRDLALN
FVVKENCLFEIAKLQPKHTSQLLGFMHPNEVRIHGKKLLMLVEQGLAVLPENYPEKIIRLVDQANYKYKLKAMQQKLAEI
QPPDLAPELLASKRQLNQLFSWHQQGQNEDKLPELLSGWRREFGLQILSVL
>Mature_371_residues
MNQIIHYHWIDTDEKLKTVCENACRKSAVALDTEFIRTRSYYPKLGLIQLFDGDTVSLIDPNSISDFSPFIGLLTCQNVV
KVLHACSEDLEVFQHLFKQLPTPLADTQIMAGFAGGGISLGFAKLVAHYLNVELDKGASRTDWLARPLTEEQLQYAAADV
WYLLPVYQRLVSDLDATRWQNAVEQECRYLLSKRESVANIAQAYKDISNAWRLEPQQLAILKVLAKWRIEEAEKRDLALN
FVVKENCLFEIAKLQPKHTSQLLGFMHPNEVRIHGKKLLMLVEQGLAVLPENYPEKIIRLVDQANYKYKLKAMQQKLAEI
QPPDLAPELLASKRQLNQLFSWHQQGQNEDKLPELLSGWRREFGLQILSVL

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=293, Percent_Identity=25.5972696245734, Blast_Score=66, Evalue=6e-11,
Organism=Homo sapiens, GI50301240, Length=293, Percent_Identity=25.5972696245734, Blast_Score=66, Evalue=7e-11,
Organism=Escherichia coli, GI1788105, Length=362, Percent_Identity=47.5138121546961, Blast_Score=347, Evalue=9e-97,
Organism=Caenorhabditis elegans, GI17531757, Length=268, Percent_Identity=26.865671641791, Blast_Score=67, Evalue=1e-11,
Organism=Saccharomyces cerevisiae, GI6324574, Length=296, Percent_Identity=23.9864864864865, Blast_Score=67, Evalue=4e-12,
Organism=Drosophila melanogaster, GI161078302, Length=267, Percent_Identity=25.8426966292135, Blast_Score=79, Evalue=4e-15,

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: 42525; Mature: 42525

Theoretical pI: Translated: 6.79; Mature: 6.79

Prosite motif: PS50967 HRDC

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

1.6 %Cys     (Translated Protein)
1.3 %Met     (Translated Protein)
3.0 %Cys+Met (Translated Protein)
1.6 %Cys     (Mature Protein)
1.3 %Met     (Mature Protein)
3.0 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MNQIIHYHWIDTDEKLKTVCENACRKSAVALDTEFIRTRSYYPKLGLIQLFDGDTVSLID
CCCEEEEEECCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCEEEEECCCEEEEEC
PNSISDFSPFIGLLTCQNVVKVLHACSEDLEVFQHLFKQLPTPLADTQIMAGFAGGGISL
CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHCCCCHHH
GFAKLVAHYLNVELDKGASRTDWLARPLTEEQLQYAAADVWYLLPVYQRLVSDLDATRWQ
HHHHHHHHHHCCEECCCCCCHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
NAVEQECRYLLSKRESVANIAQAYKDISNAWRLEPQQLAILKVLAKWRIEEAEKRDLALN
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
FVVKENCLFEIAKLQPKHTSQLLGFMHPNEVRIHGKKLLMLVEQGLAVLPENYPEKIIRL
EEEHHHHHHHHHHCCCHHHHHHHHCCCCCCEEEHHHHHHHHHHHHHHHCCCCHHHHHHHH
VDQANYKYKLKAMQQKLAEIQPPDLAPELLASKRQLNQLFSWHQQGQNEDKLPELLSGWR
HHHCCCHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
REFGLQILSVL
HHHHHHHHHHC
>Mature Secondary Structure
MNQIIHYHWIDTDEKLKTVCENACRKSAVALDTEFIRTRSYYPKLGLIQLFDGDTVSLID
CCCEEEEEECCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCEEEEECCCEEEEEC
PNSISDFSPFIGLLTCQNVVKVLHACSEDLEVFQHLFKQLPTPLADTQIMAGFAGGGISL
CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHCCCCHHH
GFAKLVAHYLNVELDKGASRTDWLARPLTEEQLQYAAADVWYLLPVYQRLVSDLDATRWQ
HHHHHHHHHHCCEECCCCCCHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
NAVEQECRYLLSKRESVANIAQAYKDISNAWRLEPQQLAILKVLAKWRIEEAEKRDLALN
HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
FVVKENCLFEIAKLQPKHTSQLLGFMHPNEVRIHGKKLLMLVEQGLAVLPENYPEKIIRL
EEEHHHHHHHHHHCCCHHHHHHHHCCCCCCEEEHHHHHHHHHHHHHHHCCCCHHHHHHHH
VDQANYKYKLKAMQQKLAEIQPPDLAPELLASKRQLNQLFSWHQQGQNEDKLPELLSGWR
HHHCCCHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHH
REFGLQILSVL
HHHHHHHHHHC

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: 7542800 [H]