2ADC,2MJU


Conserved Protein Domain Family
RRM4_PTBP1_like

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cd12425: RRM4_PTBP1_like 
Click on image for an interactive view with Cn3D
RNA recognition motif 4 (RRM4) found in polypyrimidine tract-binding protein 1 (PTB or hnRNP I) and similar proteins
This subfamily corresponds to the RRM4 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: 409859
Aligned: 24 rows
Threshold Bit Score: 106.973
Created: 13-Sep-2011
Updated: 25-Oct-2021
Structure
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Program:
Drawing:
Aligned Rows:
 
RNA bindingRRM
Conserved site includes 23 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 4 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        153 TLHLSNIPp------sVSEEDLKVLFSsngGVVKGFKFFQKDrKMALIQMGSVEEAVQALIDLHnhdlgeNHHLRVSFSK 226  human
XP_002587281  227 TLHLSNIPa------sTTEEELIDLFTstgGAVQAFKFFAKDrKMALLKMSSTEEAVHSLIKMHnyqlsgSNHLKVSFSK 300  Florida lancelet
XP_002115096  401 TLHLSNIPp------sVTEEDIKELFEgdgCTIARFRFFPSNnRMALLQMNSVGEATHSLIERHnyq-igSTYLRVSFSK 473  Trichoplax ad...
CBY24911      707 TLHLSNIPp------eIEEDRIRELFVp-fGNIKNFRFFHNDrKMALIEMGTEPQAVEALIELHnvklsdSNHLRVSFSR 779  Oikopleura di...
EGD75917      418 VLHLSRLPa------eANDVYVTQLFVthgFQPKRVHMFPEDkKMAFVELNSVQEAAEALVALHnkmlgdNLYLRVAFSR 491  Salpingoeca s...
XP_638677     804 FLHLSNLPdpnggdmaEIEKKIKQLFTs-qGEIKSFKFFQNDmKMALIEMGSLEQAINSLVTLHgcs-igDQFVKVSFAK 881  Dictyostelium...
XP_013406944  523 TLHLSNIPp------tATEEELKEAFGk-hGVVKNFKFFPKDrKMALIEMSQVEEAVLGLMGMHnyqlsdSSHLRVSFSK 595  Lingula anatina
XP_019851695  262 TLHLSNIPd------gITEEYLRGLFTstgGTVVNFRFFQNDqRMALVQMSSPDEAISALIVTHnhkiseTNHLRVTFSK 335  Amphimedon qu...
PFX30777     5127 TLHVSNIPd------tATEEELIDAFSa-sGTVTEFRFFAKDrKMALVTMTTIEEAIDALIKMHnykiteSNHLRVSFAK 5199 Stylophora pi...
XP_004368076  479 VLHVSNIPa------sASEEDIKNLFAq-yGRVLSFRFFAKDrRMGHVEMASTTEGIEALLYTHnaq-lhDHHLRVTFSK 550  Acanthamoeba ...
Feature 1         ##
2ADC_A        227 ST 228  human
XP_002587281  301 GQ 302  Florida lancelet
XP_002115096  474 TS 475  Trichoplax adhaerens
CBY24911      780 SA 781  Oikopleura dioica
EGD75917      492 HA 493  Salpingoeca sp. ATCC50818
XP_638677     882 PT 883  Dictyostelium discoideum AX4
XP_013406944  596 ST 597  Lingula anatina
XP_019851695  336 SN 337  Amphimedon queenslandica
PFX30777     5200 TR 5201 Stylophora pistillata
XP_004368076  551 GS 552  Acanthamoeba castellanii str. Neff

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