741  structures 0  species 0  sequences

Clan: 5S_rRNA (CL00113)


5S rRNA clan

Includes 5S rRNA family with permuted secondary structure.

This clan contains 2 families and the total number of sequence regions in the clan is 109,047.

Literature references

  1. Nawrocki EP, Kolbe DL, Eddy SR, Bioinformatics. 2009;25:1335-7.: Infernal 1.0: inference of RNA alignments. 19307242
  2. Valach M, Burger G, Gray MW, Lang BF, Nucleic Acids Res. 2014;42:13764-13777.: Widespread occurrence of organelle genome-encoded 5S rRNAs including permuted molecules. 25429974


This clan contains the following 2 member families:

5S_rRNA mtPerm-5S


For those sequences which have a structure in the Protein DataBank, we generate a mapping between EMBL, PDB and Rfam coordinate systems. The table below shows the mapping between the Rfam families in this clan, the corresponding EMBL entries, and the region of the three-dimensional structures that are available for that sequence.

Loading structure mapping...

Secondary structures

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
mtPerm-5S (RF02547) 1 (0.0%) View
5S_rRNA (RF00001) 109,046 (100.0%) View