1D3B,2Y9A


Conserved Protein Domain Family
Sm_B

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cd01717: Sm_B 
Click on image for an interactive view with Cn3D
Sm protein B
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.
Statistics
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PSSM-Id: 212464
Aligned: 47 rows
Threshold Bit Score: 87.2213
Created: 7-Mar-2002
Updated: 2-Oct-2020
Structure
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Program:
Drawing:
Aligned Rows:
 
Conserved site includes 22 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_B         5 KSSKMLQHIDYRMRCILQDGRIFIGTFKAFDKHMNLILCDCDEFRkikpk---------------nskqAEREEKRVLGL 69  human
2Y9A_A         5 KSSKMLQHIDYRMRCILQDGRIFIGTFKAFDKHMNLILCDCDEFRkikpk---------------nskqAEREEKRVLGL 69  human
AAQ15912       2 GHQNMLHNINRTLRVTLVDGREMTGKMLLFDKFMNVVLADTVETRketk----------------kmkdAGISPQRKLGM 65  Trypanosoma bru...
EAL47852       4 KSSKISKYINYTIKVTTIEGRNFVGKFLAFDKYMNMILSETIEKRtvin----------------kktrEEKEIERSLGM 67  Entamoeba histo...
XP_502814      5 NKTKMADLVNYRLRVTTVDGKQMVGQMLAFDRYMNLVLSDCEEFRatkkslleakkt-iqiengdassvSITEEKRTLGL 83  Yarrowia lipoly...
XP_001348319   3 KNSRLETWLQYRVRVTISDTRYFVGTFLSYDRHMNIVLVDAEEFRkvks-----------------qenSLKEIKRVVGL 65  Plasmodium falc...
XP_002490659   6 KRTKLASLVGYHIRVYTVDSRQLVGELISFDKHMNLVISETEEFRvtkksyaqlkkqaqqkagqpldesNIQETKRSLGL 85  Pichia pastoris...
EGV65389       8 KKTKMSELLHYRLKVSSIDGRSFIGNLLAFDKHMNLVLSDCEEVRipkkslqd---------lkkgvatEPRELKTNLGL 78  Candida tenuis ...
EEE19379      45 KNARLQQWINYRIRVCLQDSRMLVGSLLAFDRHMNIVLADAEEFRklkirhkl---------adgkhqtEEKEVKRSVGL 115 Toxoplasma gond...
CBZ28301       2 GKYSMLHNINKVLCVMLDDGRTVTGKLLVFDKHMNVILGDALEERpqsk----------------kmaeEGVSSKRQLGL 65  Leishmania mexi...
Feature 1        ############# 
1D3B_B        70 VLLRGENLVSMTVE 83  human
2Y9A_A        70 VLLRGENLVSMTVE 83  human
AAQ15912      66 ILLRGEYVVAVSVL 79  Trypanosoma brucei brucei strain 927/4 GUTat10.1
EAL47852      68 MLLRGDCIQGYTVL 81  Entamoeba histolytica HM-1:IMSS
XP_502814     84 VILRGETVVSVSVE 97  Yarrowia lipolytica CLIB122
XP_001348319  66 ILIRGENIVSFTAE 79  Plasmodium falciparum 3D7
XP_002490659  86 IILRGEHIVSVSIE 99  Pichia pastoris GS115
EGV65389      79 IILRGDQIVNLTIQ 92  Candida tenuis ATCC 10573
EEE19379     116 MMIRVNVEAKTSGG 129 Toxoplasma gondii GT1
CBZ28301      66 ILLRGEHVVSVIVM 79  Leishmania mexicana MHOM/GT/2001/U1103

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