1N9R,2Y9A


Conserved Protein Domain Family
Sm_F

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cd01722: Sm_F 
Click on image for an interactive view with Cn3D
Sm protein F
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 F is capable of forming both homo- and hetero-heptamer ring structures. To form the hetero-heptamer, Sm subunit F initially binds subunits E and G to form a trimer which then assembles onto snRNA along with the D3/B and D1/D2 heterodimers.
Statistics
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PSSM-Id: 212469
Aligned: 44 rows
Threshold Bit Score: 88.038
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: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        ##   #          ####    #       # ####                ################
1N9R_A        21 NPKPFLKGLVNHRVGVKLKFnsTEYRGTLVSTDNYFNLQLNEAEEFVagVSHGTLGEIFIRCNNVLYIRE 90  baker's yeast
AAG00459       5 VPAAFLASLVGNTVHVKSKWg-PVYVGTLVSCDPYMNLQLRDAVEKA--KQETELGDMLLRNNNVLYIRE 71  Trypanosoma brucei
CAD25266      13 NPKQFLQRMKNRSVRVALKWg-QVYEGTLVASDNYFNILLDECTEREg-EASVKIGEVSIRCNNIKRICE 80  Encephalitozoon cuniculi ...
Q9P5Z8         7 NPRPFLQDLVNSFVTIRLKWgeTEYVGRLVSIDSYMNIQLSDTKEYInrKFTGALGQVLIRCNNVLYIKK 76  Neurospora crassa OR74A
EAA62186     792 EIKWELGRAVGTEVIVRLKWgqTEYKGRLESIDSYMNVLLRDTEEFIdgKPTGTLGLVLIRCNNILWMGS 861 Aspergillus nidulans FGSC A4
2Y9A_F         6 NPKPFLNGLTGKPVMVKLKWg-MEYKGYLVSVDGYMNMQLANTEEYIdgALSGHLGEVLIRCNNVLYIRG 74  human
XP_002142223   8 NPKPFLTGLIEKTVIVRLKWgnIEYKGTLESYDDYMNFLLRDCEEWIdgTVKGALGTVFIRCNNILYIRE 77  Cryptosporidium muris RN66
XP_001320283   8 FPQKFMESLLNKQIVIKLKWenIEYVGTLISFDERMNIHLSETSEYVggKTEGVMGDVIIRCNNILHIRE 77  Trichomonas vaginalis G3
XP_001948152   7 NPKPYLNGLMGKTIIVKLKWg-HEYKGFLVSTDNYMNIQLASATEFVegSEPALLGEIMIRCNNVLYIRS 75  pea aphid
XP_001347951   9 NPKPFLNSLAGNRVIIKLKWg-MEYKGILKSFDGYMNIRLTNAEEWIhgEFKGTLGEIFLRCNNILYIRE 77  Plasmodium falciparum 3D7

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