1D3B,2Y9A


Conserved Protein Domain Family
Sm_D3

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cd01721: Sm_D3 
Click on image for an interactive view with Cn3D
Sm protein D3
The eukaryotic Sm proteins (B/B', D1, D2, D3, E, F and G) assemble into a hetero-heptameric ring around the Sm site of the 2,2,7-trimethyl guanosine (m3G) capped U1, U2, U4 and U5 snRNAs (Sm snRNAs) forming the core of the snRNP particle. The snRNP particle, 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. 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. Sm subunit D3 heterodimerizes with subunit B and three such heterodimers form a hexameric ring structure with alternating B and D3 subunits. The D3 - B heterodimer also assembles into a heptameric ring containing D1, D2, E, F, and G subunits.
Statistics
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PSSM-Id: 212468
Aligned: 53 rows
Threshold Bit Score: 91.0433
Created: 10-May-2012
Updated: 2-Oct-2020
Structure
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Program:
Drawing:
Aligned Rows:
 
Conserved site includes 21 residues -Click on image for an interactive view with Cn3D
Feature 1:heptamer interface [polypeptide binding site]
Evidence:
  • Structure:2Y9A; Human spliceosomal U4 snRNP core domain hetero-heptamer, contacts at 4A

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
Feature 1                            # #       #  #  #       #        # ##############  
1D3B_E         6 PIKVLHEAEGHIVTCETNTGEVYRGKLIEAEDNMNCQMSNITVTYRd-gRVAQLEQVYIRGCKIRFLILPD 75  human
2Y9A_D         6 PIKVLHEAEGHIVTCETNTGEVYRGKLIEAEDNMNCQMSNITVTYRd-gRVAQLEQVYIRGSKIRFLILPD 75  human
CAC27028       6 IDSILRESKPYVITIECKNGFIYRGKLIHIEENMNCILKEAFVIKKk--KVQKLTLVFLRGSNISMFIIPD 74  Guillardia theta
P43321         7 PVKLLNEAQGHIVSLELTTGATYRGKLVESEDSMNVQLRDVIATEPq-gAVTHMDQIFVRGSQIKFIVVPD 76  Saccharomyces cerevisiae...
XP_001580171  11 VIAILHEADGFVVTIETKQGEMYRGTLFGSEDTMNVELHDVTYTNSk-gVDSHKDKVYIRGSNIVFFVLPD 80  Trichomonas vaginalis G3
XP_001323163   6 PIKLLHEATNFVVEIHLNTGDSYRGTLKYVEDNMNCWLTNVVHTQKd-gQQIKFDKTYVRGSNILYFDLPE 75  Trichomonas vaginalis G3
CCC47397       7 PLKVLYDAIGTVVSLEVANGSVYTGTLSQLEDNMNVLLTKAQKTSKs-gRVENMASVLVRGSHIVFFQLPD 76  Trypanosoma vivax Y486
CBZ30499       6 PIKVLYDALHLKVSIEVATGEVYHGTVEELQNNMNVLLKNATKTARg-gKETKMDSVFVRGSNIVFFQLPD 75  Leishmania mexicana MHOM...
XP_001712973  11 PLKLIHQAEKHQISVKLKDGKLLIGELMNSEDNWNLCLKKVIIKEKe-nKSSKSMLYFVRGNQITFIIIPE 80  Bigelowiella natans
XP_001771723   2 PLKLLHEGEGHGVTVELKNGDVCRGKLIESENNWTLQLDTANFIFSrtgKEVKLDSIFIRGRRIKLVLFQP 72  Physcomitrella patens su...

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