2KM8,2CJK


Conserved Protein Domain Family
RRM1_Hrp1p

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cd12577: RRM1_Hrp1p 
Click on image for an interactive view with Cn3D
RNA recognition motif 1 (RRM1) found in yeast nuclear polyadenylated RNA-binding protein 4 (Hrp1p or Nab4p) and similar proteins
This subfamily corresponds to the RRM1 of Hrp1p and similar proteins. Hrp1p or Nab4p, also termed cleavage factor IB (CFIB), is a sequence-specific trans-acting factor that is essential for mRNA 3'-end formation in yeast Saccharomyces cerevisiae. It can be UV cross-linked to RNA and specifically recognizes the (UA)6 RNA element required for both, the cleavage and poly(A) addition, steps. Moreover, Hrp1p can shuttle between the nucleus and the cytoplasm, and play an additional role in the export of mRNAs to the cytoplasm. Hrp1p also interacts with Rna15p and Rna14p, two components of CF1A. In addition, Hrp1p functions as a factor directly involved in modulating the activity of the nonsense-mediated mRNA decay (NMD) pathway. It binds specifically to a downstream sequence element (DSE)-containing RNA and interacts with Upf1p, a component of the surveillance complex, further triggering the NMD pathway. Hrp1p contains two central RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and an arginine-glycine-rich region harboring repeats of the sequence RGGF/Y.
Statistics
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PSSM-Id: 409991
Aligned: 6 rows
Threshold Bit Score: 136.087
Created: 13-Sep-2011
Updated: 25-Oct-2021
Structure
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Program:
Drawing:
Aligned Rows:
 
RNA binding
Conserved site includes 18 residues -Click on image for an interactive view with Cn3D
Feature 1:RNA binding site [nucleic acid binding site]
Evidence:

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
Feature 1      # #####                    # #       #### #                      #  #  ###  
2KM8_C      6 MFIGGLNWDtTEDNLREYFGKYGTVTDLKIMKDpatGRSRGFGFLSFEKPSSVDEVVKT-QHILDGKVIDPKRAIPR 81  baker's yeast
2CJK_A      6 MFIGGLNWDtTEDNLREYFGKYGTVTDLKIMKDpatGRSRGFGFLSFEKPSSVDEVVKT-QHILDGKVIDPKRAIPR 81  baker's yeast
EGS18232  227 MFIGGLNWEtTDESLRNYFSQFGEVVECTVMRDsatGRSRGFGFLTFKDPKVVNIVMVK-EHYLDGKIIDPKRAIPR 302 Chaetomium thermophil...
O94432    165 MFIGGLNWEtTDDSLRDYFEQFGEVLDCTVMRDsttGRSRGFGFLTFKNPKCVNEVMSK-EHHLDGKIIDPKRAIPR 240 Schizosaccharomyces p...
EDO49349    2 IFIGGLNWNtTEEGLKDYFSQWGTIVDCVIMKRd--GRSRGFGFVTYESSDSVNEVLKKkDHVLDDREIEPKRSVPR 76  starlet sea anemone
OSD03666  121 MFVGGLSWDtTDEGLRKYFSEFGEVEDCTILRDq-dGRSRGFAFLTFKDPSSVNAVMCR-EHVLDGKTIDPKRAIPR 195 Trametes coccinea BRF...

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