2UP1,1HA1,6DCL,1UP1,4YOE,1L3K,2LYV,1PGZ,5MPG


Conserved Protein Domain Family
RRM1_hnRNPA1

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cd12761: RRM1_hnRNPA1 
Click on image for an interactive view with Cn3D
RNA recognition motif 1 (RRM1) found in heterogeneous nuclear ribonucleoprotein A1 (hnRNP A1) and similar proteins
This subgroup corresponds to the RRM1 of hnRNP A1, also termed helix-destabilizing protein, or single-strand RNA-binding protein, or hnRNP core protein A1, and is an abundant eukaryotic nuclear RNA-binding protein that may modulate splice site selection in pre-mRNA splicing. hnRNP A1 has been characterized as a splicing silencer, often acting in opposition to an activating hnRNP H. It silences exons when bound to exonic elements in the alternatively spliced transcripts of c-src, HIV, GRIN1, and beta-tropomyosin. hnRNP A1 can shuttle between the nucleus and the cytoplasm. Thus, it may be involved in transport of cellular RNAs, including the packaging of pre-mRNA into hnRNP particles and transport of poly A+ mRNA from the nucleus to the cytoplasm. The cytoplasmic hnRNP A1 has high affinity with AU-rich elements, whereas the nuclear hnRNP A1 has high affinity with a polypyrimidine stretch bordered by AG at the 3' ends of introns. hnRNP A1 is also involved in the replication of an RNA virus, such as mouse hepatitis virus (MHV), through an interaction with the transcription-regulatory region of viral RNA. hnRNP A1, together with the scaffold protein septin 6, serves as host protein to form a complex with NS5b and viral RNA, and further plays important roles in the replication of Hepatitis C virus (HCV). hnRNP A1 contains two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), followed by a long glycine-rich region at the C-terminus. The RRMs of hnRNP A1 play an important role in silencing the exon and the glycine-rich domain is responsible for protein-protein interactions.
Statistics
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PSSM-Id: 410154
Aligned: 13 rows
Threshold Bit Score: 160.993
Created: 20-Sep-2011
Updated: 25-Oct-2021
Structure
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Program:
Drawing:
Aligned Rows:
 
DNA binding
Conserved site includes 20 residues -Click on image for an interactive view with Cn3D
Feature 1:DNA binding site [nucleic acid binding site]
Evidence:
  • Structure:2UP1; Homo sapiens hnRNP A RRM1 domain binds single-stranded telomeric DNA, contacts at 4 A.
    View structure with Cn3D

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
Feature 1        #  # # ##                     # # #        ### #                      #  # #####
2UP1_A         5 QLRKLFIGGLSfetTDESLRSHFEQWGTLTDCVVMrdpntkrsRGFGFVTYATVEEVDAAMNArpHKVDGRVVEPKRAVS 84  human
P17130        12 QLRKLFIGGLSfetTDESLREHFEQWGTLTDCVVMrdpnskrsRGFGFVTYLSTDEVDAAMTArpHKVDGRVVEPKRAVS 91  African clawed ...
1HA1_A        12 QLRKLFIGGLSfetTDESLRSHFEQWGTLTDCVVMrdpntkrsRGFGFVTYATVEEVDAAMNArpHKVDGRVVEPKRAVS 91  human
6DCL_A        15 QLRKLFIGGLSfetTDESLRSHFEQWGTLTDCVVMrdpntkrsRGFGFVTYATVEEVDAAMNArpHKVDGRVVEPKRAVS 94  human
1UP1_A        10 QLRKLFIGGLSfetTDESLRSHFEQWGTLTDCVVMrdpntkrsRGFGFVTYATVEEVDAAMNArpHKVDGRVVEPKRAVS 89  human
4YOE_A        14 QLRKLFIGGLSfetTDESLRSHFEQWGTLTDCVVMrdpntkrsRGFGFVTYATVEEVDAAMNArpHKVDGRVVEPKRAVS 93  human
1L3K_A        12 QLRKLFIGGLSfetTDESLRSHFEQWGTLTDCVVMrdpntkrsRGFGFVTYATVEEVDAAMNArpHKVDGRVVEPKRAVS 91  human
2LYV_A        13 QLRKLFIGGLSfetTDESLRSHFEQWGTLTDCVVMrdpntkrsRGFGFVTYATVEEVDAAMNArpHKVDGRVVEPKRAVS 92  human
1PGZ_A        11 QLRKLFIGGLSfetTDESLRSHFEQWGTLTDCVVMrdpntkrsRGFGFVTYATVEEVDAAMNArpHKVDGRVVEPKRAVS 90  human
5MPG_A        12 QLRKLFIGGLSfetTDESLRSHFEQWGTLTDCVVMrdpntkrsRGFGFVTYATVEEVDAAMNArpHKVDGRVVEPKRAVS 91  human
NP_001305347  12 QLRKLFIGGLSfetTDESLRSHFEQWGTLTDCVVMrdpntkrsRGFGFVTYSSVEEVDAAMNArpHKVDGRVVEPKRAVS 91  chicken
NP_001349307  36 QLRKLFIGGLSfetTDESLRAHFEQWGTLTDCVVMrdpntkrsRGFGFVTYSSVGEVDAAMDArpHKVDGRAVEPKRAVS 115 zebrafish
XP_005995673  12 QLRKLFIGGLSfetSDDSLRAHFEQWGTLTDCVVMrdpctrrsRGFGFVTYSSVEEVDNAMEArpHKVDGRVVEPKRAVS 91  coelacanth
Feature 1        #
2UP1_A        85 R 85  human
P17130        92 R 92  African clawed frog
1HA1_A        92 R 92  human
6DCL_A        95 R 95  human
1UP1_A        90 R 90  human
4YOE_A        94 R 94  human
1L3K_A        92 R 92  human
2LYV_A        93 R 93  human
1PGZ_A        91 R 91  human
5MPG_A        92 R 92  human
NP_001305347  92 R 92  chicken
NP_001349307 116 R 116 zebrafish
XP_005995673  92 R 92  coelacanth

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