3SWN


Conserved Protein Domain Family
LSm6

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cd01726: LSm6 
Click on image for an interactive view with Cn3D
Like-Sm protein 6
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. LSm657 is believed to be an assembly intermediate for both the LSm1-7 and LSm2-8 rings. 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: 212473
Aligned: 51 rows
Threshold Bit Score: 89.503
Created: 10-May-2012
Updated: 2-Oct-2020
Structure
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Program:
Drawing:
Aligned Rows:
 
Conserved site includes 29 residues -Click on image for an interactive view with Cn3D
Feature 1:hexamer interface [polypeptide binding site]
Evidence:
  • Comment:This oligomerization interface is flexible and plays a role in both the hexameric arrangement of assembly intermediates and the hetero-heptamer
  • Structure:3SWN, Schizosaccharomyces pombe LSm5-7 hetero-hexamer, contacts at 4A

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
Feature 1            #  ##    # ###  # #    ####  ## #                   #############
3SWN_B        6 SPNEFLNKVIGKKVLIRLSSGVDYKGILSCLDGYMNLALERTEEYVN--GKKTNVYGDAFIRGNNVLYVS 73  Schizosaccharomyces pombe ...
YP_003669145 14 TPLKYLKSAINQIVLVKIKDGHEYIGTLDMVDHTMNVVLSNCQEYGDn-GKPTARYGKVLIRGSHIVFIS 82  Staphylothermus hellenicus...
NP_341755     7 NPLKSLRTAINRIVLVKLKDGSEYIGKLEQTDGTMNLVLRDCTEIREgtSEPVAKYGRVLIRGSNILFIS 76  Sulfolobus solfataricus P2
YP_001434748 14 NPLKYLRAAVDNVVLVRLKDGNEYVGKLVFTDNTMNLILDDCTELSPetGEPVAKYGRIMIRGSYVLFIS 83  Ignicoccus hospitalis KIN4/I
YP_003860209 11 TPMRILRGSMNKSILVKVKEGSEYIGRLVMTDATMNVVLEDATEFSDggKDVVAKYGRILIRGSQILFIC 80  Ignisphaera aggregans DSM ...
YP_003816004 11 NPLRYLRDAVDSQIYVKLKDGTEYVGQLLVTDSTMNLVLDNSVEVKDg-KQIVARLGKILIRGSMVQYVS 79  Acidilobus saccharovorans ...
YP_874866    11 NPFKYLKEHLNSQIYVKLKDGSEYVGKLVATDTTMNLILDDAIEVADngTRLVAKIGRVLIKGSMVEFIS 80  Aeropyrum pernix K1
NP_558763    11 SPIKVLTKMLNKEIIARLKGGVAVKGVLTAYDGCMNLVLNDAAELDKs-GEPKTRYGRIVIRGSQVIYVS 79  Pyrobaculum aerophilum str...
YP_001540691 11 QPLRALGMMVNKSVVVKLKAGRVLSGTLRFIDQCMNIVLDDAEELDTrtNQVIVRYGKVLIRGNQVLYVS 80  Caldivirga maquilingensis ...
YP_004244673  6 QPMKTLQKLVGKHVTIRLKNNKVLRGVLVNYDDCMNLIIDEGEELDQkgENVVVKYGRLVIRGTQVLYIT 75  Vulcanisaeta moutnovskia 7...

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