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The map label for this gene is rnd [H]

Identifier: 209694623

GI number: 209694623

Start: 1156366

End: 1157490

Strand: Direct

Name: rnd [H]

Synonym: VSAL_I1064

Alternate gene names: 209694623

Gene position: 1156366-1157490 (Clockwise)

Preceding gene: 209694620

Following gene: 209694627

Centisome position: 34.78

GC content: 37.33

Gene sequence:

>1125_bases
GTGGAATTTGAAATCGTTAAACACAGCCAACGTTTAGCTGAAATTTGCCAACAGGCAAGTAATAAACCTTTTTTAATGCT
GGATACTGAGTTCGTACGTACGAGAACTTTGTATGCACGTTTAGGTTTAATTCAAATGTTTGATGGTGAAACATTAGCAT
TAGTTGATCCTGTTGAAATTGATGATTTAACGCCGCTTTGGGATTTATTAAAAAACGAAAGTGTGACAAAAGTTCTTCAT
GCTTGTGGTGAAGATTTAGAAGTATTTCAACATTATGCTGGCTGTATGCCGACACCAATGATTGATACTCAAATTATGGC
GGCATTTTTAGGCTATGGTTTGTCGACAGGCTTTGCGAAATTAGTGTCTGATTATTTAGGTGTTGATCTCGATAAAGGTG
AATCTCGTACTGATTGGATGGCGCGTCCTTTATCAGATAAACAATTGGATTATGCCGCAGCCGATGTGCATTATTTATTA
CCATTGTTTGAGAAACTACAAGCAGAATTAGCTCAAACAGAGTGGGAAAAAGCAGCGTATCAAGAATCGTTACTTGCGGT
TAAAAAACGTGAAAAACAACCTGATCCTGAGAAAGCGTATTTAGATATTAAAAATGCTTGGCAGTTAAATGGTAAGCAGT
TAGCTATTTTAAAAATGGCAGCACAATGGCGATTAGAAGAAGCAAGAAAGCGCGATTTGGCGGTTAACTTTGTTGTACAA
GAATTAAACTTATGGAAATTAGCTCGATTTGGACTTCGCAGTAAAGAGCAAATGCTAAAAGAAGAGTTTGATTCGAGAGA
GGTTCAACGTCATGGTGGAAAACTATTGCGTTTCACATACCTTGCAGATGAGCTAAATGAAAACGAATATCCAGAAACGT
TAACACGATTAATGGATTATCCGGGCTATAAGCAAATTTTTAAGTTGTTAAAAGATGAAGTAAAAGCGGCCTCTGATCAA
TCGGGTTTGATGCCTGAGTTTTTAGCGTCTAAAAAACAGCTTAATCAATTATTGTCTTGGAAATGGAAGAAAAACAGTCA
CCCTGATTTAAAACCAGACGTATTAAAAGAGTGGAGAGAAGGGCTGCTTGCTGAGCGCTTTATGGCGGTGTTAGATAAAA
GCTAA

Upstream 100 bases:

>100_bases
GTTAGGTGTAGTTCCCCGCACGCTTACAGTTTTTCTAACGTTAAGCTATCTTGCCTTAGACCAATTAATAGAAGCGTTAC
AGATTTTTAAGGAAGAAATT

Downstream 100 bases:

>100_bases
TCTCAATAAACAGAAACAAAAAAGGTGACTCTGATAGGTCACCTTTTTTATAGACTTTGATTAACGAAATAGTGTTTAAT
TATCGTCTTCTGGCAGAGTG

Product: ribonuclease D (rnase d)

Products: NA

Alternate protein names: RNase D [H]

Number of amino acids: Translated: 374; Mature: 374

Protein sequence:

>374_residues
MEFEIVKHSQRLAEICQQASNKPFLMLDTEFVRTRTLYARLGLIQMFDGETLALVDPVEIDDLTPLWDLLKNESVTKVLH
ACGEDLEVFQHYAGCMPTPMIDTQIMAAFLGYGLSTGFAKLVSDYLGVDLDKGESRTDWMARPLSDKQLDYAAADVHYLL
PLFEKLQAELAQTEWEKAAYQESLLAVKKREKQPDPEKAYLDIKNAWQLNGKQLAILKMAAQWRLEEARKRDLAVNFVVQ
ELNLWKLARFGLRSKEQMLKEEFDSREVQRHGGKLLRFTYLADELNENEYPETLTRLMDYPGYKQIFKLLKDEVKAASDQ
SGLMPEFLASKKQLNQLLSWKWKKNSHPDLKPDVLKEWREGLLAERFMAVLDKS

Sequences:

>Translated_374_residues
MEFEIVKHSQRLAEICQQASNKPFLMLDTEFVRTRTLYARLGLIQMFDGETLALVDPVEIDDLTPLWDLLKNESVTKVLH
ACGEDLEVFQHYAGCMPTPMIDTQIMAAFLGYGLSTGFAKLVSDYLGVDLDKGESRTDWMARPLSDKQLDYAAADVHYLL
PLFEKLQAELAQTEWEKAAYQESLLAVKKREKQPDPEKAYLDIKNAWQLNGKQLAILKMAAQWRLEEARKRDLAVNFVVQ
ELNLWKLARFGLRSKEQMLKEEFDSREVQRHGGKLLRFTYLADELNENEYPETLTRLMDYPGYKQIFKLLKDEVKAASDQ
SGLMPEFLASKKQLNQLLSWKWKKNSHPDLKPDVLKEWREGLLAERFMAVLDKS
>Mature_374_residues
MEFEIVKHSQRLAEICQQASNKPFLMLDTEFVRTRTLYARLGLIQMFDGETLALVDPVEIDDLTPLWDLLKNESVTKVLH
ACGEDLEVFQHYAGCMPTPMIDTQIMAAFLGYGLSTGFAKLVSDYLGVDLDKGESRTDWMARPLSDKQLDYAAADVHYLL
PLFEKLQAELAQTEWEKAAYQESLLAVKKREKQPDPEKAYLDIKNAWQLNGKQLAILKMAAQWRLEEARKRDLAVNFVVQ
ELNLWKLARFGLRSKEQMLKEEFDSREVQRHGGKLLRFTYLADELNENEYPETLTRLMDYPGYKQIFKLLKDEVKAASDQ
SGLMPEFLASKKQLNQLLSWKWKKNSHPDLKPDVLKEWREGLLAERFMAVLDKS

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=250, Percent_Identity=27.6, Blast_Score=78, Evalue=1e-14,
Organism=Homo sapiens, GI50301240, Length=250, Percent_Identity=27.6, Blast_Score=78, Evalue=1e-14,
Organism=Escherichia coli, GI1788105, Length=371, Percent_Identity=46.900269541779, Blast_Score=338, Evalue=4e-94,
Organism=Caenorhabditis elegans, GI17531757, Length=218, Percent_Identity=29.3577981651376, Blast_Score=70, Evalue=1e-12,
Organism=Drosophila melanogaster, GI161078302, Length=256, Percent_Identity=27.34375, Blast_Score=81, Evalue=1e-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: 43301; Mature: 43301

Theoretical pI: Translated: 5.39; Mature: 5.39

Prosite motif: PS50967 HRDC

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.8 %Cys     (Translated Protein)
3.2 %Met     (Translated Protein)
4.0 %Cys+Met (Translated Protein)
0.8 %Cys     (Mature Protein)
3.2 %Met     (Mature Protein)
4.0 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MEFEIVKHSQRLAEICQQASNKPFLMLDTEFVRTRTLYARLGLIQMFDGETLALVDPVEI
CCCHHHHHHHHHHHHHHHCCCCCEEEECHHHHHHHHHHHHHHHHHEECCCEEEEECCCCC
DDLTPLWDLLKNESVTKVLHACGEDLEVFQHYAGCMPTPMIDTQIMAAFLGYGLSTGFAK
CCCCHHHHHHCCCHHHHHHHHCCCHHHHHHHHHCCCCCCCHHHHHHHHHHHCCHHHHHHH
LVSDYLGVDLDKGESRTDWMARPLSDKQLDYAAADVHYLLPLFEKLQAELAQTEWEKAAY
HHHHHHCCCCCCCCCCHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
QESLLAVKKREKQPDPEKAYLDIKNAWQLNGKQLAILKMAAQWRLEEARKRDLAVNFVVQ
HHHHHHHHHHCCCCCCHHHHEECCHHHHCCCCEEHHHHHHHHHHHHHHHHHHHHHHHHHH
ELNLWKLARFGLRSKEQMLKEEFDSREVQRHGGKLLRFTYLADELNENEYPETLTRLMDY
HHHHHHHHHHCCCCHHHHHHHHHHHHHHHHCCCCEEEHHHHHHHCCCCCCHHHHHHHHCC
PGYKQIFKLLKDEVKAASDQSGLMPEFLASKKQLNQLLSWKWKKNSHPDLKPDVLKEWRE
CCHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHH
GLLAERFMAVLDKS
HHHHHHHHHHHCCC
>Mature Secondary Structure
MEFEIVKHSQRLAEICQQASNKPFLMLDTEFVRTRTLYARLGLIQMFDGETLALVDPVEI
CCCHHHHHHHHHHHHHHHCCCCCEEEECHHHHHHHHHHHHHHHHHEECCCEEEEECCCCC
DDLTPLWDLLKNESVTKVLHACGEDLEVFQHYAGCMPTPMIDTQIMAAFLGYGLSTGFAK
CCCCHHHHHHCCCHHHHHHHHCCCHHHHHHHHHCCCCCCCHHHHHHHHHHHCCHHHHHHH
LVSDYLGVDLDKGESRTDWMARPLSDKQLDYAAADVHYLLPLFEKLQAELAQTEWEKAAY
HHHHHHCCCCCCCCCCHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
QESLLAVKKREKQPDPEKAYLDIKNAWQLNGKQLAILKMAAQWRLEEARKRDLAVNFVVQ
HHHHHHHHHHCCCCCCHHHHEECCHHHHCCCCEEHHHHHHHHHHHHHHHHHHHHHHHHHH
ELNLWKLARFGLRSKEQMLKEEFDSREVQRHGGKLLRFTYLADELNENEYPETLTRLMDY
HHHHHHHHHHCCCCHHHHHHHHHHHHHHHHCCCCEEEHHHHHHHCCCCCCHHHHHHHHCC
PGYKQIFKLLKDEVKAASDQSGLMPEFLASKKQLNQLLSWKWKKNSHPDLKPDVLKEWRE
CCHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHH
GLLAERFMAVLDKS
HHHHHHHHHHHCCC

PDB accession: NA

Resolution: NA

Structure class: Alpha

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]