1YTY,1S29,2CQK


Conserved Protein Domain Family
LAM

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cd07323: LAM 
Click on image for an interactive view with Cn3D
LA motif RNA-binding domain
This domain is found at the N-terminus of La RNA-binding proteins as well as in other related proteins. Typically, the domain co-occurs with an RNA-recognition motif (RRM), and together these domains function to bind primary transcripts of RNA polymerase III in the La autoantigen (Lupus La protein, LARP3, or Sjoegren syndrome type B antigen, SS-B). A variety of La-related proteins (LARPs or La ribonucleoproteins), with differing domain architecture, appear to function as RNA-binding proteins in eukaryotic cellular processes.
Statistics
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PSSM-Id: 153396
View PSSM: cd07323
Aligned: 61 rows
Threshold Bit Score: 69.8681
Threshold Setting Gi: 225565535
Created: 2-Oct-2008
Updated: 17-Jan-2013
Structure
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Program:
Drawing:
Aligned Rows:
 
RNA binding
Conserved site includes 10 residues -Click on image for an interactive view with Cn3D
Feature 1:RNA binding site [nucleic acid binding site]
Evidence:
  • Structure:1YTY_A ; human La bound to UUUoh 3'-termini of nascent RNA Pol III transcripts; contacts at 4A.
    View structure with Cn3D

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1               #  ##    #  ## #                        ###                               
1YTY_A         14 EAKICHQIEYYFGdfNLPRDKFLKeqik-----ldeGWVPLEIXikFNRLNRLTTDfNVIVEALSKSka----elXEISE 84
gi 239890248   40 VADVKRQVEYYFSddNLRHDAFFHrkis----edpeGWLPADLVlsCNKMKQMHCTaENIEHALAEGs------hLELKK 109
gi 262110734   11 RKRLQRQLEFYLSesNLRQDKFLQqam------daqGFVPVREFlsFNKLKSLKATeRMILDEADKSs------tIRVDR 78
gi 238658520   14 DLKILRQVEFYLSegNLNRDSFFKqemq----krddGGIPIDLLlkCNRMIAMNVTeDILKNVVGTSk------iLKLSN 83
gi 211963252   77 KQRIKRQVEYYLSdeSLAYDAFFQskmreaaqqgkgESLDLRFVlsSPRIKSLNLTkAEILAAIADSv------aVKVKE 150
gi 159110475    7 PRNALTQLEYYFSnyNITRDKWMLdklr----estdQSIELSVVndFPKLKAYGLTpEQLRDAAIDSp------vIEVSS 76
gi 239897845    7 TSKVDRQVNFYFSdeNLRRDVYLRgll------kspEGLPVTTLltFPLLRRHQAAkDEVMPALEKVcat--sqyVELSS 78
gi 239879032   26 YEKVKVAVEGVLSkeYLKSNPSFAsrm------naqMYMSLDSLfnVKAIEDLNTTvEEIADAISSLgs----skVALDS 95
gi 238664863  532 LDYIRHHVEYYFSesNLQRDSHLRailt-----anqDVCPLTELlqFNRLRWVSATeSELLDAVSSSnv----llVVLSP 602
gi 239868942  391 FGAIRRQVEWWLNkpNWDKDEHLRslay-----pgtHWIPVQELmkFERLRDLSDDqAEVVHVLRTErcgkqdprLEVSP 465
                          90
                  ....*....|.
Feature 1                    
1YTY_A         85 d----kTKIRR 91
gi 239890248  110 dn--dkLFIRR 118
gi 262110734   79 arcciaPKVVP 89
gi 238658520   84 d----gLAIVR 90
gi 211963252  151 ead-gtTLLYR 160
gi 159110475   77 d-----LRVKR 82
gi 239897845   79 e-----EFVRP 84
gi 239879032   96 t----rTLIKP 102
gi 238664863  603 dg--spTGITR 611
gi 239868942  466 d----gYYVRH 472

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