JAR3D
Query RF01122-3.98 completed
Run on Motif Atlas Version 3.98
using the Rfam secondary structure. Run with the CaCoFold secondary structure.
RF01122 Small nucleolar RNA sR39
Input Summary
000000000111111111122222222223333333333444444444455555555556
123456789012345678901234567890123456789012345678901234567890
............................................................
>AJ248284.1/236815-236761
GGCGAUGAAGAAAAUUUCGCUAGCUGAAAAGU-----GAUGAGUACCCUCGCAACUGAGC
>BA000001.2/1411664-1411723
GGUGAUGAGGAAAAUUUCGCUAGCUGAAGUGAAAGAUGAUGAAUACCCUCGCAACCGAGC
>AP006878.1/832424-832370
GGCGAUGACGACAAUUUCGCUAGCUGACCGGU-----GAUGACUACCCUCGCAACCGAGC
>DQ516907.1/5418-5363
GGCGAUGAUGACAAUUUCGCUAUCUGAUUCUG----UGAUGACUACUCCCGCAGCUGAGC
>M97860.2/1902-1843
GGCGAUGAAGAUAAUUUCGCUAGCCGAAAAAUAAGAUGAGGAGUACCCUCGCAACUGAGC
There are no chains in PDB that we map to Rfam family RF01122.
Percentage of input sequences which meet the criteria to match the motif. 80% or above is good.
A score indicating how close a sequence is to the cutoff barrier. 100 is the best, 0 is right on the cutoff line, negative is outside of the cutoff region.
The median of the minimum edit distance between each input sequence and sequences of each motif from 3D structures.
The median of the minimum edit distance between each input sequence and sequences of each motif from 3D structures, aside from the flanking basepairs.
A diagram of the consensus basepair interactions in the motif group, with Leontis-Westhof symbols.