Conserved Protein Domain Family
LSm1

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cd01728: LSm1 
Like-Sm protein 1
The eukaryotic LSm proteins (LSm1-7) assemble into a hetero-heptameric ring around the 3'-terminus of the gamma-methyl triphosphate (gamma-m-P3) capped U6 snRNA. Accumulation of uridylated RNAs in an lsm1 mutant suggests an involvement of the LSm1-7 complex in recognition of the 3' uridylation tag and recruitment of the decapping machinery. LSm1-7, together with Pat1, are also called the decapping activator. 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: 212475
Aligned: 39 rows
Threshold Bit Score: 90.6532
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                                        # #                                #          
P47017        40 FTTTAAIVSSVDRKIFVLLRDGRMLFGVLRTFDQYANLILQDCVERIyfse--enkYAEEDRGIFMIRGENVVMLGEV 115 baker's yeast
EAK87525      40 SSWMLCLEEDLDKEIYVVLRDGRQFTGIFRSFDQYGSLCLERSFEVFsnn----dcYNEIYQGCMIFRGDNLMLCGLI 113 Cryptosporidium p...
NP_597474      6 FDDTRDYEKYLEQEVVVMLRDGRYLYGVMKSFDQFNSVTLDGVIERIfhd----trYAERRHELFIIRGENITMIGLS 79  Encephalitozoon c...
EEE30210     216 PNWITALEEELDKKLLVVLRDGRKLIGYLRTFDQFGNLVLEGTVQRMvvd----naYADLYLGCMIVRGDNMILFGAV 289 Toxoplasma gondii...
EGZ13405       5 FPGNSSLIQQLDKQVLMVLRDGRHLVGYLRSFDQYSNIILEDTYERHvag----glFCDIELGLNIIRGDNIVLLGEL 78  Phytophthora sojae
XP_002788617  21 PSWITAISDSLDRLVLVLLRDDRKLIGWLKTYDQFGNIVLQNTLERHvad----glYADIDLGIMIIRGENIVLFGEV 94  Perkinsus marinus...
EHY64606       8 SKGTRLMEEYLDKPIFVVMRDGKYMVGTLRSYDQYYNILLEDSTEYTtss----teYSSIESESVLLRGENIILLGEG 81  Nematocida sp. 1 ...
XP_001827858  34 SIDLMEYSSYVDKNVVVILKDNSLLYGTLKSYDQYNNISLNYAVQRIfhn----nqYAEKMIGFIVIRGDTIVMISLA 107 Enterocytozoon bi...
XP_001347926   7 PLWLSSFEEEIDTYIFISSRDNKLYLGILRTYDQHGNVFLTHCVEKIivpe--knyFSDVYVGNLIIRGDNIAYFGSV 82  Plasmodium falcip...
XP_002295855   3 LPGSASIVEQLDQRMLVVLRDGRHLVGTLRTFDQFANMVLEDTSERRilgetttcyQADVKLGLYVVRGDVVVLMGEV 80  Thalassiosira pse...

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