2U1A,2B0G


Conserved Protein Domain Family
RRM2_U1A_like

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cd12247: RRM2_U1A_like 
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RNA recognition motif 2 (RRM2) found in the U1A/U2B"/SNF protein family
This subfamily corresponds to the RRM2 of U1A/U2B"/SNF protein family, containing Drosophila sex determination protein SNF and its two mammalian counterparts, U1 small nuclear ribonucleoprotein A (U1 snRNP A or U1-A or U1A) and U2 small nuclear ribonucleoprotein B" (U2 snRNP B" or U2B"), all of which consist of two RNA recognition motifs (RRMs) connected by a variable, flexible linker. SNF is an RNA-binding protein found in the U1 and U2 snRNPs of Drosophila where it is essential in sex determination and possesses a novel dual RNA binding specificity. SNF binds with high affinity to both Drosophila U1 snRNA stem-loop II (SLII) and U2 snRNA stem-loop IV (SLIV). It can also bind to poly(U) RNA tracts flanking the alternatively spliced Sex-lethal (Sxl) exon, as does Drosophila Sex-lethal protein (SXL). U1A is 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 that shuttles between the nucleus and the cytoplasm independently of interactions with U1 snRNA. Moreover, U1A may be involved in RNA 3'-end processing, specifically cleavage, splicing and polyadenylation, through interacting with a large number of non-snRNP proteins. U2B", initially identified to bind to stem-loop IV (SLIV) at the 3' end of U2 snRNA, is a unique protein that comprises of the U2 snRNP. Additional research indicates U2B" binds to U1 snRNA stem-loop II (SLII) as well and shows no preference for SLIV or SLII on the basis of binding affinity. U2B" does not require an auxiliary protein for binding to RNA and its nuclear transport is independent on U2 snRNA binding.
Statistics
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PSSM-Id: 409693
Aligned: 39 rows
Threshold Bit Score: 68.7431
Created: 13-Sep-2011
Updated: 25-Oct-2021
Structure
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Program:
Drawing:
Aligned Rows:
PubMed ReferencesClick to see Conserved Features Help

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
2U1A_A        12 PNHILFLTNLPe--ETNELMLSMLFNQfPGFKEVRLVpgrHDIAFVEFDNEVQAGAARDALqgfk-itqnNAMKIS 84  human
XP_001352215 119 LIYTLLVQNLPd--EINKNALEILFNQyPGFYEVRYIp-gKNIAFVDFTAQEHAEISMTGLqnfk-itphHPMKIS 190 Plasmodium falcipar...
CAJ20656     158 GQFSLFIENLPp--KATKTSLDILFGQyRGHTESRLIe-gRGVAFVDFSTQAQAAVAMQGMqgfk-vdpsHPIKIS 229 Toxoplasma gondii ME49
EDO08138     135 ERHTLFVENLHp--DMNKMSVELLFQQyPGYKDTRFVe-gKCVAFVDFATAYQGEVALQGLqgfs-vshsHALRIS 206 Babesia bovis T2Bo
CAG81306     152 VHKILLLQNLPk--SASQDTVAALFSDlPGYVEVRLVp-aRQVGFAEFETEAQAVVAKEKSqgad--idgEKLIVS 222 Yarrowia lipolytica...
XP_002679074 136 PSSVLFIENLPrdvEKSSELLETLFNNyDGYKKLRLVg-eKGVAFVEYETIEQATSAREGLqswk--ikqQPMRIS 208 Naegleria gruberi s...
EGR28098     118 PNNVLMVEYLPs--FISSEILMSLFSQyPGFKEVRLIs-aRRVGFIEFENEDQATVALHGFf-------fQYYYYQ 183 Ichthyophthirius mu...
XP_002783392 251 PNKTLFVENLPp--RCTPEKLTAVFKSyPGFEGTRVIa-eRQVGFIDFSSEFQATMAKNARgdyt--megQLVKIS 321 Perkinsus marinus A...
EGV62328     105 PSSMLILNDYNe-dTISKDQILEVFDRfEGYLELRVIk-nKKIVFIDFEKKEFAASCLNDVslddmqrigGKLSFA 178 Candida tenuis ATCC...
417742       225 PNKVLLIQNLPs--GTTEQLLSQILGN-EALVEIRLVs-vRNLAFVEYETVADATKIKNQLgsty-klqnNDVTIG 295 baker's yeast
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