Archaeal small nucleolar RNA CD-box

This Clan include Rfam:RF00065 Small nucleolar RNA snoR9 reported in a computational screen in AT-rich hyperthermophiles [3], Rfam:RF00095 smaller snoRNA R19 a member of Pyrococcus C/D box snoRNA family [1,2], Rfam:RF01131 snoRNA SR47 and Rfam:RF01309 snoRNA SR60 [1].

This clan contains 4 families and the total number of sequence regions in the clan is 25.

Literature references

1. Omer AD, Lowe TM, Russell AG, Ebhardt H, Eddy SR, Dennis PP, Science 2000;288:517-522.: Homologs of small nucleolar RNAs in Archaea. 10775111
2. Gaspin C, Cavaille J, Erauso G, Bachellerie JP, J Mol Biol 2000;297:895-906.: Archaeal homologs of eukaryotic methylation guide small nucleolar RNAs: lessons from the Pyrococcus genomes. 10736225
3. Klein RJ, Misulovin Z, Eddy SR, Proc Natl Acad Sci U S A 2002;99:7542-7547.: Noncoding RNA genes identified in AT-rich hyperthermophiles. 12032319

Members

This clan contains the following 4 member families:

snoR9 snoPyro_CD sR47 sR60

This tool allows you to view the secondary structure images of two clan members side-by-side. Choose the family structures using the two drop-down menus below.

The table below shows the number of occurrences of each family throughout the sequence database. In brackets beside each number is the percentage of the total number of sequence hits for the clan that are represented by this family. The rightmost column provides a link to the alignments tab for each family.

Rfam family	Num. regions	Alignment
sR60 (RF01309)	2 (8.0%)	View
sR47 (RF01131)	4 (16.0%)	View
snoPyro_CD (RF00095)	18 (72.0%)	View
snoR9 (RF00065)	1 (4.0%)	View