Takifugu_rubripesFamily: LSM Number of Genes: 18
Ensembl IDSymbolEntrez IDRBD RBPome PRIExpresion PathwayPhenotype ParalogOrthologGO
si:ch73-14h10.2
snrpg
-
snrpd1
oscp1a
-
snrpf
lsm5
-
naa38
lsm4
lsm7
snrpd2
snrpb
lsm3
lsm6
snrpd3l
lsm8
lsm1
SNRPE
snrpe

Introduction

Pfam

The LSM domain contains Sm proteins as well as other related LSM (Like Sm) proteins. The U1, U2, U4/U6, and U5 small nuclear ribonucleoprotein particles (snRNPs) involved in pre-mRNA splicing contain seven Sm proteins (B/B', D1, D2, D3, E, F and G) in common, which assemble around the Sm site present in four of the major spliceosomal small nuclear RNAs. The U6 snRNP binds to the LSM (Like Sm) proteins [3]. Sm proteins are also found in archaebacteria, which do not have any splicing apparatus suggesting a more general role for Sm proteins. All Sm proteins contain a common sequence motif in two segments, Sm1 and Sm2, separated by a short variable linker. This family also includes the bacterial Hfq (host factor Q) proteins. Hfq are also RNA-binding proteins, that form hexameric rings.

InterPro

This domain is found in Lsm (like-Sm) proteins, which have a core structure consisting of an open beta-barrel with an SH3-like topology.

Reference

  1. Hermann H, Fabrizio P, Raker VA, Foulaki K, Hornig H, Brahms H, Luhrmann R , EMBO J 1995;14:2076-2088.: snRNP Sm proteins share two evolutionarily conserved sequence motifs which are involved in Sm protein-protein interactions. PUBMED:7744013 EPMC:7744013 .

  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. Mayes AE, Verdone L, Legrain P, Beggs JD; , EMBO J 1999;18:4321-4331.: Characterization of Sm-like proteins in yeast and their association with U6 snRNA. PUBMED:10428970 EPMC:10428970 .

  4. Hajnsdorf E, Regnier P; , Proc Natl Acad Sci U S A 2000;97:1501-1505.: Host factor Hfq of Escherichia coli stimulates elongation of poly(A) tails by poly(A) polymerase I. PUBMED:10677490 EPMC:10677490 .

  5. Vytvytska O, Moll I, Kaberdin VR, von Gabain A, Blasi U; , Genes Dev 2000;14:1109-1118.: Hfq (HF1) stimulates ompA mRNA decay by interfering with ribosome binding. PUBMED:10809669 EPMC:10809669 .

  6. Kufel J, Allmang C, Petfalski E, Beggs J, Tollervey D; , J Biol Chem 2003;278:2147-2156.: Lsm Proteins are required for normal processing and stability of ribosomal RNAs. PUBMED:12438310 EPMC:12438310.