SUPERFAMILY 1.75 HMM library and genome assignments server

SUPERFAMILY 2 can be accessed from supfam.org. Please contact us if you experience any problems.

Sm-like ribonucleoproteins superfamily models

A superfamily is represented by one or more models; usually there is more than one model representing the superfamily. Since each model is built to capture the whole superfamily, they are likely to be overlapping and sometimes are mostly overlapping or even redundant to each other. Also models often do not score their own seed sequence more highly than other sequences in the superfamily, so it is a mistake to think that the model represents the seed sequence.

All models are available for immediate download after obtaining a license by filling in a short online registration form. Licenses are free for academic and commercial purposes.

Plots showing hydrophobicity, match emmission probabilities and insertion/deletion probabilities can be viewed for each model by following the model ID link.


All 25 SUPERFAMILY models representing the Sm-like ribonucleoproteins superfamily
Model ID No. of seqs Build date Seed sequence Family of seed
0035325 430 2005-09-08 d1b34a_ Sm motif of small nuclear ribonucleoproteins, SNRNP
0047299 1736 2008-09-10 d1i4k1_ Sm motif of small nuclear ribonucleoproteins, SNRNP
0046263 1288 2008-09-10 d1d3bl_ Sm motif of small nuclear ribonucleoproteins, SNRNP
0049628 1773 2008-09-10 d1th7a1 Sm motif of small nuclear ribonucleoproteins, SNRNP
0040799 483 2005-09-08 d1m5q1_ Sm motif of small nuclear ribonucleoproteins, SNRNP
0046262 794 2008-09-10 d1d3ba_ Sm motif of small nuclear ribonucleoproteins, SNRNP
0048307 1294 2008-09-10 d1n9sc_ Sm motif of small nuclear ribonucleoproteins, SNRNP
0038922 571 2005-09-08 d1i8fa_ Sm motif of small nuclear ribonucleoproteins, SNRNP
0047557 1766 2008-09-10 d1jbma_ Sm motif of small nuclear ribonucleoproteins, SNRNP
0052794 1520 2008-09-10 d2fwka1 Sm motif of small nuclear ribonucleoproteins, SNRNP
0047126 1661 2008-09-10 d1h641_ Sm motif of small nuclear ribonucleoproteins, SNRNP
0045867 1134 2008-09-10 d1b34b_ Sm motif of small nuclear ribonucleoproteins, SNRNP
0047980 1664 2008-09-10 d1ljoa_ Sm motif of small nuclear ribonucleoproteins, SNRNP
0047853 201 2008-09-10 d1kq1a_ Pleiotropic translational regulator Hfq
0047193 212 2008-09-10 d1hk9a_ Pleiotropic translational regulator Hfq
0049770 212 2008-09-10 d1u1sa1 Pleiotropic translational regulator Hfq
0053242 3037 2008-09-10 d2oaua1 Mechanosensitive channel protein MscS (YggB), middle domain
0051278 6 2008-09-10 d1ycya1 PF1955-like
0052637 172 2008-09-10 d2fb7a1 LSM14 N-terminal domain-like
0054824 88 2010-05-31 d3bdua1 YgdI/YgdR-like
0054661 89 2010-05-31 d2ra2a1 YgdI/YgdR-like
0054668 83 2010-05-31 d2rd1a1 YgdI/YgdR-like
0054255 87 2010-05-31 d2k57a1 YgdI/YgdR-like
0054664 90 2010-05-31 d2rb6a1 YgdI/YgdR-like
0054224 89 2010-05-31 d2jn0a1 YgdI/YgdR-like