Conserved Protein Domain Family
LSMD1

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cd06168: LSMD1 
LSM domain containing 1
The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. 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. LSMD1 proteins have a single Sm-like domain structure. Sm-like proteins exist in archaea as well as prokaryotes, forming heptameric and hexameric ring structures similar to those found in eukaryotes.
Statistics
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PSSM-Id: 212486
Aligned: 55 rows
Threshold Bit Score: 64.8857
Created: 28-May-2008
Updated: 2-Oct-2020
Structure
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Aligned Rows:
 
putative RNASm1 motifSm2 motif
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                                     # #                                #          
AAH33861      90 RQQLEALLNKTMRIRMTDGRTLVGCFLCTDRDCNVILGSAQEFLkpsds-fsagEPRVLGLAMVPGHHIVSIEVQ 163 human
CAG62092       6 LLRVSDFIGSTLFIEIDDDRSLQGILVAVDCQMNLLLDHVHEHTks-------iGSRTLGLVSVPQYTIKNIKIS 73  Candida glabrata
P23059         3 ILKLSDFIGNTLIVSLTEDRILVGSLVAVDAQMNLLLDHVEERMg--------sSSRMMGLVSVPRRSVKTIMID 69  Saccharomyces cerevi...
AAS52638      27 QIDLNDLLGATLRVEVGPDRVLYGVLVALDCHANYLLDRVVERRg--------gRERELGLVSVPSEAVGNVKIE 93  Ashbya gossypii ATCC...
CAG89808       5 EMKPEKFIGAQLRLKLTDLRVLDGVLTVVDPFGNLLLTNVFEISedrld-sknlHKRELGLVSVPRDTITNVLVD 78  Debaryomyces hanseni...
XP_002499101  12 GLKLPDFVGCTLYVNLHNNRILKGSLMALDAQLNLLLDHVQERAgd-------gNRRTLGLVSVPRKTIQAIKVP 79  Zygosaccharomyces ro...
XP_003679905   3 CLKLPDFIGCTLHISHGDGRMLTGTLVALDCQLNLLLDHVQEHRgq------dqGERSLGLVSVPRNTITSVKIS 71  Torulaspora delbrueckii
XP_003673789   7 CLKLNDFIGCTLYVSLEKERSLQGTLVAIDAQCNLLLDHVYERTiiptttgnkkNDRSLGLVSVPKSSIKSIELK 81  Naumovozyma castelli...
XP_001644266   3 KLGLHDFIGSTLYVSIDDNRYIKGTLVALDSQLNLLMNHVREQNgeg----snlVQRAMGLVSIPQSTIKSIKIT 73  Vanderwaltozyma poly...
XP_001385409   8 SLTPDQFIGSNLRVAIKDGRVVTGILTVIDPFGNLLLSNVIEESediis-ppgiHKRDIGLVSVPRETIVTVSVD 81  Pichia stipitis CBS ...

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