4PJO,3CW1


Conserved Protein Domain Family
LSM

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pfam01423: LSM 
Click on image for an interactive view with Cn3D
LSM domain
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. 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.
Statistics
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PSSM-Id: 366634
View PSSM: pfam01423
Aligned: 114 rows
Threshold Bit Score: 39.3957
Threshold Setting Gi: 75270410
Created: 24-Apr-2019
Updated: 18-Jul-2019
Structure
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Program:
Drawing:
Aligned Rows:
PubMed ReferencesClick to see Conserved Features Help

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
4PJO_F         9 PFLNGLTGKPVMVKLKWGMEYKGYLVSVDGYMNMQLANTEeyidga--------lsghlGE-VLIRCNNVLYI 72  human
Q23543        14 VDLTRFLDKEIRVKFQGGREASGVLRGFDQLLNMVLDDCReylrdpqnpsvvgdetrqlGL-IVARGTAITVV 85  Caenorhabditis elegans
EDW46158       7 PEVKKYMDKRMMLKLNGGRAVTGILRGFDPFMNVVLDDTVeeckdn--------tknniGM-VVIRGNSIVMV 70  Drosophila sechellia
XP_001079708   7 PELKKFMDKKLSLKLNGGRHVQGILRGFDPFMNLVIDECVematsg--------qqnniGM-VVIRGNSIIML 70  Norway rat
Q9N4G9         7 PELKKYMDKEMDLKLNGNRRVSGILRGFDPFMNMVIDEAVeyqkdg--------gsvnlGM-TVIRGNSVVIM 70  Caenorhabditis elegans
P40204         5 PELKKYMDKKILLNINGSRKVAGILRGYDIFLNVVLDDAMeingedp------annhqlGLqTVIRGNSIISL 71  Saccharomyces cerevisi...
O74966         7 PDLKKYLDRQVFVQLNGSRKVYGVLRGYDIFLNIVLEDSIeekvdg--------ekvkiGS-VAIRGNSVIMI 70  Schizosaccharomyces po...
Q98RT8         8 VEISNFIQKKVNVILINQINLKGTLVGFDNFSNIVIKKNQvkqe-----------ncfiNEiVLIRGDSLVSI 69  Guillardia theta
EFH61107       8 PDLKKYMDKKLQIKLNANRMVVGTLRGFDQFMNLVVDNTVevngd---------dktdiGM-VVIRGNSIVTV 70  Arabidopsis lyrata sub...
3CW1_G         7 PELKKFMDKKLSLKLNGGRHVQGILRGFDPFMNLVIDECVematsg--------qqnniGM-VVIRGNSIIML 70  human
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