Please note: this site relies heavily on the use of javascript. Without a javascript-enabled browser, this site will not function correctly. Please enable javascript and reload the page, or switch to a different browser.
515  structures 2737  species 1  interaction 9033  sequences 85  architectures

Clan: Sm-like (CL0527)

Summary

Sm (Small RNA binding protein domain) Add an annotation

Conserved domain of core RNA-binding proteins of mRNA splicing and rRNA processing complexes, with a SH3-like Beta-barrel

This clan contains 3 families and the total number of domains in the clan is 9033. The clan was built by V Anantharaman.

Literature references

  1. Toro I, Thore S, Mayer C, Basquin J, Seraphin B, Suck D;, EMBO J. 2001;20:2293-2303.: RNA binding in an Sm core domain: X-ray structure and functional analysis of an archaeal Sm protein complex. PUBMED:11331594 EPMC:11331594
  2. Kambach C, Walke S, Young R, Avis JM, de la Fortelle E, Raker VA, Luhrmann R, Li J, Nagai K; , Cell 1999;96:375-387.: Crystal structures of two Sm protein complexes and their implications for the assembly of the spliceosomal snRNPs. PUBMED:10025403 EPMC:10025403
  3. Anantharaman V, Koonin EV, Aravind L;, Nucleic Acids Res. 2002;30:1427-1464.: Comparative genomics and evolution of proteins involved in RNA metabolism. PUBMED:11917006 EPMC:11917006
  4. Neuwald AF, Koonin EV; , J Mol Med 1998;76:3-5.: Ataxin-2, global regulators of bacterial gene expression, and spliceosomal snRNP proteins share a conserved domain. PUBMED:9462862 EPMC:9462862
  5. Anantharaman V, Aravind L;, BMC Genomics. 2004;5:45.: Novel conserved domains in proteins with predicted roles in eukaryotic cell-cycle regulation, decapping and RNA stability. PUBMED:15257761 EPMC:15257761

Members

This clan contains the following 3 member families:

LSM LSM14 SM-ATX

Domain organisation

Below is a listing of the unique domain organisations or architectures from this clan. More...

Loading domain graphics...

Alignments

The table below shows the number of occurrences of each domain throughout the sequence database. More...

Pfam family Num. domains Alignment
LSM (PF01423) 8102 (89.7%) View
LSM14 (PF12701) 564 (6.2%) View
SM-ATX (PF14438) 367 (4.1%) View
Total: 3 Total: 9033 Clan alignment
 

Please note: Clan alignments can be very large and can cause problems for some browsers. Read the note above before viewing.

Family relationships

This diagram shows the relationships between members of this clan. More...

Species distribution

Tree controls

Hide

This tree shows the occurrence of the domains in this clan across different species. More...

Loading...

Interactions

There is 1 interaction for this clan. More...

Interacting families
A B
LSM LSM

Structures

For those sequences which have a structure in the Protein DataBank, we use the mapping between UniProt, PDB and Pfam coordinate systems from the MSD group, to allow us to map Pfam domains onto UniProt three-dimensional structures. The table below shows the mapping between the Pfam families in this clan, the corresponding UniProt entries, and the region of the three-dimensional structures that are available for that sequence.

Loading structure mapping...