2VC8,2RM4,4A53,4A54


Conserved Protein Domain Family
LSm16_N

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cd01737: LSm16_N 
Click on image for an interactive view with Cn3D
Like-Sm protein 16, N-terminal domain
LSm16 (also known as enhancer of decapping-3 or EDC3) has been shown to be associated with an mRNA-decapping complex Dcp1-Dcp2, required for removal of the 5-prime cap from mRNA prior to its degradation from the 5-prime end. EDC3 is believed to be a scaffold for decapping complex formation. It belongs to a family of Sm-like proteins that associate with RNA to form complexes 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, that associates with other Sm proteins to form hexameric and heptameric ring structures. LSm16 has, in addition to its N-terminal Sm-like domain, a C-terminal Yjef_N-type Rossmann fold domain of unknown function.
Statistics
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PSSM-Id: 212484
Aligned: 16 rows
Threshold Bit Score: 62.7213
Created: 23-Sep-2004
Updated: 2-Oct-2020
Structure
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Program:
Drawing:
Aligned Rows:
 
Conserved site includes 2 residues -Click on image for an interactive view with Cn3D
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                                   #                           #           
2VC8_A         4 ATDWLGSIVSINCGdsLGVYQGRVSAVDQvsQTISLTRpfhng--vkclvPEVTFRAGDITELKILE 68  human
2RM4_A         7 DQDWIGCAVSIACDevLGVFQGLIKQISA--EEITIVRafrngvplrkqnAEVVLKCTDIRSIDLIE 71  fruit fly
4A53_A         7 VADFYGSNVEVLLNn-DSKARGVITNFDSsnSILQLRLan---------dSTKSIVTKDIKDLRILP 63  fission yeast
XP_002735315   2 SEAFVGCVVSLHCGdiLGTYQGHVSMVDKtqQTISLQKafrng--vkctvPELTISAIDIKDLKLLK 66  Saccoglossus kowalevskii
XP_787406      3 SESFIGNYLSLDCGpaLGTFQGEVSSVCKtgQTISLRNafrng--vkygvPEVTMRASDIKDLKILK 67  purple urchin
XP_002426103   1 MEQFIGKFISLHCNdpLGVFQGQIVHIDPtdQKITLEKafqng--ypyhsRQVILSAKDINDLEIIE 65  human body louse
EFX90390       2 SGKYLGSYVTVDCGelFGCYQGQVSNVDTlnQTLTLKDvwkng--lkssiDDVTLLAKDILSLAIIP 66  common water flea
EHJ71298       1 MSKWIGYAVSVNCGepLGCYQGTILEADG--STITLTKafrng--fpypkSQVTLNSADIKDLKIIE 63  monarch butterfly
XP_001862529   2 AENWIGKAVSIHCRgdIGVFQGVIKQVSP--VEIVITKavrngiplrktnVEVTLTCKDIEKLDLIA 66  southern house mosquito
XP_002175729   3 VADFYGSNVEIFLNn-GSKIQGIITNFDPqsLVLQLKSr----------qNVIPVMTSQIKDLRIIP 58  Schizosaccharomyces japonicu...

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