3CUL,1URN,1M5K,1AUD,3K0J,1U6B,3L3C,1DRZ,3PGW,4PKD,4C4W,5FJ4,4PR6,4W90,1OIA,3IWN,1FHT,3BO2,2NZ4,4YB1,6CMN


Conserved Protein Domain Family
RRM1_U1A

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cd12477: RRM1_U1A 
Click on image for an interactive view with Cn3D
RNA recognition motif 1 (RRM1) found in vertebrate U1 small nuclear ribonucleoprotein A (U1A)
This subgroup corresponds to the RRM1 of U1A (also termed U1 snRNP A or U1-A), an RNA-binding protein associated with the U1 snRNP, a small RNA-protein complex involved in pre-mRNA splicing. U1A binds with high affinity and specificity to stem-loop II (SLII) of U1 snRNA. It is predominantly a nuclear protein and it also shuttles between the nucleus and the cytoplasm independently of interactions with U1 snRNA. U1A may be involved in RNA 3'-end processing, specifically cleavage, splicing and polyadenylation, through interacting with a large number of non-snRNP proteins, including polypyrimidine tract binding protein (PTB), polypyrimidine-tract binding protein-associated factor (PSF), and non-POU-domain-containing, octamer-binding (NONO), DEAD (Asp-Glu-Ala-Asp) box polypeptide 5 (DDX5). It also binds to a flavivirus NS5 protein and plays an important role in virus replication. U1A contains two RNA recognition motifs (RRMs); the N-terminal RRM (RRM1) binds tightly and specifically to the U1 snRNA SLII and its own 3'-UTR, while in contrast, the C-terminal RRM (RRM2) does not appear to associate with any RNA and may be free to bind other proteins. U1A also contains a proline-rich region, and a nuclear localization signal (NLS) in the central domain that is responsible for its nuclear import.
Statistics
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PSSM-Id: 409906
Aligned: 24 rows
Threshold Bit Score: 171.318
Created: 14-Sep-2011
Updated: 17-Aug-2020
Structure
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Program:
Drawing:
Aligned Rows:
 
RNA binding
Conserved site includes 24 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           # ##  #                        # # ####### #                       #  # ##
3CUL_A      7 RPNHTIYINNLNEKIKKDELKKSLHAIFSrFGQILDILVSRSLKXRGQAFVIFKEVSSATNALRSXQGFPFYDKPXRIQY 86  human
P45429      7 RPNNTIYINNLNEKIKKDELKKSLYAIFSqFGQILDILVSRNLKMRGQAFVIFKETSSATNALRSMQGFPFYDKPMRIQY 86  African clawed frog
3PGW_A      7 RPNHTIYINNLNEKIKKDELKKSLYAIFSqFGQILDILVSRSLKMRGQAFVIFKEVSSATNALRSMQGFPFYDKPMRIQY 86  human
4PKD_B      6 RPNHTIYINNLNEKIKKDELKKSLYAIFSqFGQILDILVSRSLKMRGQAFVIFKEVSSATNALRSMQGFPFYDKPMRIQY 85  pig
4C4W_A      7 RPNHTIYINNLNEKIKKDELKKSLYAIFSqFGQILDILVSRSLKMRGQAFVIFKEVSSATNALRSMQGFPFYDKPMRIQY 86  human
4PR6_A      4 RPNHTIYINNLNEKIKKDELKKSLHAIFSrFGQILDILVSRSLKXRGQAFVIFKEVSSATNALRSXQGFPFYDKPXRIQY 83  human
4W90_B      2 RPNHTIYINNLNEKIKKDELKKSLHAIFSrFGQILDILVSRSLKXRGQAFVIFKEVSSATNALRSXQGFPFYDKPXRIQY 81  human
RXN01493    7 RPNHTIYINNLNEKIKKDELKKSLYAIFSqFGQILDILVSRSLKMRGQAFVIFKEVNSASNALRSMQGFPFYDKPMRIQY 86  sterlet
1OIA_A      7 RPNHTIYINNLNEKIKKDELKKSLYAIFSqFGQILDILVSRSLKMRGQAFVIFKEVSSATNALRSMQGFPFYDKPMRIQY 86  human
1FHT_A      6 RPNHTIYINNLNEKIKKDELKKSLYAIFSqFGQILDILVSRSLKMRGQAFVIFKEVSSATNALRSMQGFPFYDKPMRIQY 85  human
Feature 1     ######   
3CUL_A     87 AKTDSDIIA 95  human
P45429     87 SKTDSDIIA 95  African clawed frog
3PGW_A     87 AKTDSDIIA 95  human
4PKD_B     86 AKTDSDIIA 94  pig
4C4W_A     87 AKTDSDIIA 95  human
4PR6_A     84 AKTDSDIIA 92  human
4W90_B     82 AKTDSDIIA 90  human
RXN01493   87 SKMDSDIIA 95  sterlet
1OIA_A     87 AKTDSDIIA 95  human
1FHT_A     86 AKTDSDIIA 94  human

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