Conserved Protein Domain Family
LSm4

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cd01723: LSm4 
Like-Sm protein 4
The eukaryotic LSm proteins (LSm2-8 or LSm1-7) assemble into a hetero-heptameric ring around the 3'-terminus uridylation tag of the gamma-methyl triphosphate (gamma-m-P3) capped U6 snRNA. LSm2-8 form the core of the snRNP particle that, in turn, assembles with other components onto the pre-mRNA to form the spliceosome which is responsible for the excision of introns and the ligation of exons. LSm1-7 is involved in recognition of the 3' uridylation tag and recruitment of the decapping machinery. Members of this family share a highly conserved Sm fold containing an N-terminal helix followed by a strongly bent five-stranded antiparallel beta-sheet.
Statistics
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PSSM-Id: 212470
Aligned: 46 rows
Threshold Bit Score: 85.7053
Created: 10-May-2012
Updated: 2-Oct-2020
Structure
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Aligned Rows:
 
Feature 1:putative RNA binding site [nucleic acid binding site]
Evidence:
  • Comment:Residues within loops 3 and 5 of the SM1 motif bind RNA

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
Feature 1                                       # #                                    #         
Q9Y4Z0         2 LPLSLLKTAQNHPMLVELKNGETYNGHLVSCDNWMNINLREVic-------tSRDGDKFWRm---pECYIRGSTIKYLRI 71  human
P40070         2 LPLYLLTNAKGQQMQIELKNGEIIQGILTNVDNWMNLTLSNVteyseesainSEDNAESSKavklnEIYIRGTFIKFIKL 81  Saccharomyces c...
NP_597548      2 YPLTLLRISRNRIVELELKNNDQLRGLLHKCDMAMNLHLKSVti-------qKEDGSSIFIn----ECYLKGTSIRLVKL 70  Encephalitozoon...
EAL50464       3 LPINLLENSQGTSVTLELKNGFKYTGILDRCDRMMNIHLKNAil-------iKPSGDRFSVs----KLIVKGISIRCFSV 71  Entamoeba histo...
CCA36310      26 LPLFLLATAKGEPIQVELKNNVTINGYLVDCDSWMNLTLENVle-------vDATGEHFKKf---pQFYVHGVEIKGVRM 95  Pichia pastoris...
XP_001347757   3 FPLTLLKCSQNQPVMVELKNGETYSGFLVFCDRFMNLHMKNIic-------tSKDGDKFWKi---sECYVRGNSIKYIRV 72  Plasmodium falc...
CBK23201      19 LPLSLLRAARDNEILVELTNGETYNGKLVSCDSYMNLVLNDAil-------tTKTGSRFFHl---sECYIRGATVKCIRL 88  Blastocystis ho...
XP_002140371   3 LPLSVIRSANKHSIMVELKNGETYSGMLIGVDGFMNLVLNNVis-------tSKDGQRFFRm---sECYLRGNNIKYIRM 72  Cryptosporidium...
XP_001441151   5 FPLSLLLTAKGSDVVIEVKAGDTYDGKLELLDKFMNVKLTNVkh-------tSKDGNSFHGi---kELLIKGNSIKYFRL 74  Paramecium tetr...
EHY66066       2 YPLTVIRIARGHEVKVEMKSGSIYTGMLYKCDLWMNIHIKNA----------IKNGTEEIE-----ECYIKGSAIKAVHC 66  Nematocida sp. ...
Feature 1              
Q9Y4Z0        72 PDEIID 77  human
P40070        82 QDNIID 87  Saccharomyces cerevisiae S288c
NP_597548     71 ESKILL 76  Encephalitozoon cuniculi GB-M1
EAL50464      72 DESLLK 77  Entamoeba histolytica HM-1:IMSS
CCA36310      96 DENIID 101 Pichia pastoris CBS 7435
XP_001347757  73 QDQAIE 78  Plasmodium falciparum 3D7
CBK23201      89 SKDVIN 94  Blastocystis hominis
XP_002140371  73 NDNIIG 78  Cryptosporidium muris RN66
XP_001441151  75 NPDAEK 80  Paramecium tetraurelia strain d4-2
EHY66066      67 KKKHLS 72  Nematocida sp. 1 ERTm2

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