1B34,2Y9A


Conserved Protein Domain Family
Sm_D2

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cd01720: Sm_D2 
Click on image for an interactive view with Cn3D
Sm protein D2
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 D2 heterodimerizes with subunit D1 and three such heterodimers form a hexameric ring structure with alternating D1 and D2 subunits. The D1 - D2 heterodimer also assembles into a heptameric ring containing D2, D3, E, F, and G subunits.
Statistics
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PSSM-Id: 212467
Aligned: 43 rows
Threshold Bit Score: 109.728
Created: 10-May-2012
Updated: 2-Oct-2020
Structure
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Program:
Drawing:
Aligned Rows:
 
Conserved site includes 36 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               #       #     #####      ##  #####   ##  ##                  ### # ######
1B34_B        24 FNTGPLSVLTQSVknNTQVLINCRNNKKLLGRVKAFDRHCNMVLENVKEMWTevpksgkgkkkskpvnKDRYISKMFLRG 103 human
Q06217        26 FKHGPMSLINDAMvtRTPVIISLRNNHKIIARVKAFDRHCNMVLENVKELWTekkgk-------nvinRERFISKLFLRG 98  Saccharomyces c...
AAC71962      14 PEDGPLGLLSECVkdNAQVLINCRNNRKILGRVKAFDRHCNLLLTGVREIWVevvkdkk---kkkkinKDRYISILFLRG 90  Plasmodium falc...
EAL38408      17 PSEGPLSLLTECVktNTQILVNCRNNRKILGRVKAFDRHCNLLLTDAREIWTesmksgkk-gsakyinKDRFISKLFVRG 95  Cryptosporidium...
AAG00462      29 VAEGPFCLLDSAVknGTRVFIQSRYNKSLVATVVAFDKHFNLVLRDAVELTMvnn-----------eqKERSIRNMFLRG 97  Trypanosoma brucei
2Y9A_C        24 FNTGPLSVLTQSVknNTQVLINCRNNKKLLGRVKAFDRHCNMVLENVKEMWTevpksgkgkkkskpvnKDRYISKMFLRG 103 human
XP_002293962  10 LKSGPFSVLFKAVkgNTQVLVNVRNNHKLLGRVKAYDRHMNLLLEDVKEMWTeyskggkgrkrgtsinKDRYVSKMFLRG 89  Thalassiosira p...
XP_002668893  27 FEKGPLSLLLESVreQTQILISCRNNRKLLARVKAFDRHCNMVLENVQEMWTeqpksgkgrkkskpinKTRFTNKLFLRG 106 Naegleria grube...
XP_651333      8 LVEGPFQLLTEAVekHGQVLINCRNNKKLICRVKAFDRHFNMVLENIKEIWTemkrdsd--gklkaklCQRSISKMFLRG 85  Entamoeba histo...
XP_001568110  24 VADGPFSLLDTSMkeNKRVFIQCRNSKALLAHVIAFDKHFNLVLKGVQEITEshg----------seqKQRTIENLFLRG 93  Leishmania braz...
Feature 1        # ####### 
1B34_B       104 DSVIVVLRNP 113 human
Q06217        99 DSVIVVLKTP 108 Saccharomyces cerevisiae S288c
AAC71962      91 DSVILILRNP 100 Plasmodium falciparum 3D7
EAL38408      96 DSVILILKSP 105 Cryptosporidium hominis
AAG00462      98 ASVVFIVRLP 107 Trypanosoma brucei
2Y9A_C       104 DSVIVVLRNP 113 human
XP_002293962  90 DSVILVVSNP 99  Thalassiosira pseudonana CCMP1335
XP_002668893 107 DSVILVLRNP 116 Naegleria gruberi strain NEG-M
XP_651333     86 DSVIVIVKNP 95  Entamoeba histolytica HM-1:IMSS
XP_001568110  94 ESVVFIVKLP 103 Leishmania braziliensis MHOM/BR/75/M2904

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