2ADC,2MJU


Conserved Protein Domain Family
RRM3_PTBP1_like

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cd12423: RRM3_PTBP1_like 
Click on image for an interactive view with Cn3D
RNA recognition motif 3 (RRM3) found in polypyrimidine tract-binding protein 1 (PTB or hnRNP I) and similar proteins
This subfamily corresponds to the RRM3 of polypyrimidine tract-binding protein 1 (PTB or hnRNP I), polypyrimidine tract-binding protein 2 (PTBP2 or nPTB), regulator of differentiation 1 (Rod1), and similar proteins found in Metazoa. PTB is an important negative regulator of alternative splicing in mammalian cells and also functions at several other aspects of mRNA metabolism, including mRNA localization, stabilization, polyadenylation, and translation. PTBP2 is highly homologous to PTB and is perhaps specific to the vertebrates. Unlike PTB, PTBP2 is enriched in the brain and in some neural cell lines. It binds more stably to the downstream control sequence (DCS) RNA than PTB does but is a weaker repressor of splicing in vitro. PTBP2 also greatly enhances the binding of two other proteins, heterogeneous nuclear ribonucleoprotein (hnRNP) H and KH-type splicing-regulatory protein (KSRP), to the DCS RNA. The binding properties of PTBP2 and its reduced inhibitory activity on splicing imply roles in controlling the assembly of other splicing-regulatory proteins. PTBP2 also contains four RRMs. ROD1 coding protein Rod1 is a mammalian PTB homolog of a regulator of differentiation in the fission yeast Schizosaccharomyces pombe, where the nrd1 gene encodes an RNA binding protein negatively regulates the onset of differentiation. ROD1 is predominantly expressed in hematopoietic cells or organs. It may play a role controlling differentiation in mammals. All members in this family contain four RNA recognition motifs (RRM), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain).
Statistics
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PSSM-Id: 409857
Aligned: 25 rows
Threshold Bit Score: 118.102
Created: 14-Dec-2011
Updated: 25-Oct-2021
Structure
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Program:
Drawing:
Aligned Rows:
 
RNA bindingRRM
Conserved site includes 12 residues -Click on image for an interactive view with Cn3D
Feature 1:RNA binding site [nucleic acid binding site]
Evidence:
  • Structure:2ADC; Homo sapiens polypyrimidine tract binding protein RNA recognition motif 3 binds a CUCUCU oligonucleotide, contacts at 4A.
    View structure with Cn3D

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
Feature 1          # ##                        # #     # #                          # # ###
2ADC_A        36 VLLVSNLNpervTPQSLFILFGVYgDVQRVKILfnkkENALVQMAdgNQAQLAMSHLNGhklhgkPIRITLSKH 109 human
XP_002115096 285 VIHVTNLNeakvTPRALFILFGVYgDVYRVKILfnkkDTALIQMAepHQAQTAIAHLHGiqlygkKMFVSSSKY 358 Trichoplax adhaerens
EGD75917     304 VVLVSNLNeatiQPDHLFMLCGVYgDVTRVKIMhknrSRALVQFMlpQHAATAISNLNGlpfqgnQLRLVLSKF 377 Salpingoeca sp. ATCC5...
CCD81489     406 VLIVSNLNedrvYPDALFTLFGVYgDVTRVKIMfnkkDTALIQFNdpHQALTALQFLNGqrlwdkPMKIAVSRH 479 Schistosoma mansoni
EEY59696     374 ALICSNIDrelvSPHRIFTLFGCFgDVLRIKIMfrkrDTALIQFVdeVHSTSALDHLDGvyvfgkKLRVDYSKH 447 Phytophthora infestan...
EAL65349     687 VLIVAGLPienvSPDDLFTLFGIYgDPVRVKILfnrkDTALIQMNtaQQAELVLQLLHSfpfkghSIRVNLSKH 760 Dictyostelium discoid...
XP_019851695 145 VVLASNLNdkmiSPHALFILFGVYgDVMRVKILyskrDSALVQFReaQQAQNAVTHLNGcmlygkKLHLTLSKH 218 Amphimedon queenslandica
XP_004368076 362 VLIVNGLEaervTPDVLFTLFGVYgDVLRVKILynktDTALVQFAtpQQAETALANLNQaplfgrTLTINFSKH 435 Acanthamoeba castella...
KJE94712     342 IILVSNLNdqhvTPDILFMIIGTYaDVHRVKILynkkDTALVQVTdsQQAQTAIHNLNMqtfygkEMRLSLSKH 415 Capsaspora owczarzaki...
EJY84954     622 VLILSNLPvn-vHPHLLFKLFGIYgNVLRVKILfnkrETALIEFEdiNQAKTAKQFLNGiqffstNIQVNFSKN 694 Oxytricha trifallax

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