Protein Domain : IPR000504

Type:  Domain Name:  RNA recognition motif domain
Description:  Many eukaryotic proteins containing one or more copies of a putative RNA-binding domain of about 90 amino acids are known to bind single-stranded RNAs [, , ]. The largest group of single strand RNA-binding proteins is the eukaryotic RNA recognition motif (RRM) family that contains an eight amino acid RNP-1 consensus sequence [, ]. RRM proteins have a variety of RNA binding preferences and functions, and include heterogeneous nuclear ribonucleoproteins (hnRNPs), proteins implicated in regulation of alternative splicing (SR, U2AF, Sxl), protein components of small nuclear ribonucleoproteins (U1 and U2 snRNPs), and proteins that regulate RNA stability and translation (PABP, La, Hu) [, , ]. The RRM in heterodimeric splicing factor U2 snRNP auxiliary factor (U2AF) appears to have two RRM-like domains with specialised features for protein recognition []. The motif also appears in a few single stranded DNA binding proteins.The typical RRM consists of four anti-parallel beta-strands and two alpha-helices arranged in a beta-alpha-beta-beta-alpha-beta fold with side chains that stack with RNA bases. Specificity of RNA binding is determined by multiple contacts with surrounding amino acids. A third helix is present during RNA binding in some cases []. The RRM is reviewed in a number of publications [, , ]. Short Name:  RRM_dom
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1 Child Features

DB identifier Type Name
IPR003954 Domain RNA recognition motif domain, eukaryote

0 Contains

3 Cross Referencess

Identifier
PF00076
PS50102
SM00360

20 Found Ins

DB identifier Type Name
IPR017334 Family Eukaryotic translation initiation factor 3 subunit G
IPR016967 Family Splicing factor, SPF45
IPR011400 Family Eukaryotic translation initiation factor 3 subunit B
IPR012677 Domain Nucleotide-binding alpha-beta plait domain
IPR006515 Family Polyadenylate binding protein, human types 1, 2, 3, 4
IPR002344 Family Lupus La protein
IPR009145 Family U2 auxiliary factor small subunit
IPR006529 Family U2 snRNP auxilliary factor, large subunit, splicing factor
IPR002343 Family Paraneoplastic encephalomyelitis antigen
IPR008111 Family RNA-binding motif protein 8
IPR006509 Family Splicing factor, RBM39-like
IPR006536 Family HnRNP-L/PTB/hephaestus splicing factor
IPR006548 Family Splicing factor ELAV/HuD
IPR006546 Family Sex-lethal splicing factor
IPR006535 Family HnRNP R/Q splicing factor
IPR006532 Family Poly-U binding splicing factor, half-pint
IPR016304 Family Cyclophilin-type peptidyl-prolyl cis-trans isomerase E
IPR017111 Family Histone H3-K4 methyltransferase Set1, fungal
IPR017325 Family RNA binding protein Fox-1
IPR017347 Family Heterogeneous nuclear ribonucleoprotein C

1 GO Annotation

GO Term Gene Name
GO:0003676 IPR000504

1 Ontology Annotations

GO Term Gene Name
GO:0003676 IPR000504

1 Parent Features

DB identifier Type Name
IPR012677 Domain Nucleotide-binding alpha-beta plait domain

119022 Proteins

DB identifier UniProt Accession Secondary Identifier Organism Name Length
410730 D8RFP4 PAC:15407855 Selaginella moellendorffii 771  
64568 D8RFQ2 PAC:15403386 Selaginella moellendorffii 425  
440984 D8RFU4 PAC:15408824 Selaginella moellendorffii 447  
92344 D8RFH7 PAC:15417672 Selaginella moellendorffii 83  
448813 D8TAE1 PAC:15408979 Selaginella moellendorffii 535  
236569 D8TAN7 PAC:15409879 Selaginella moellendorffii 361  
172407 D8RLJ7 PAC:15411827 Selaginella moellendorffii 167  
431962 D8TEI2 PAC:15404434 Selaginella moellendorffii 281  
172546 D8RM89 PAC:15412654 Selaginella moellendorffii 173  
26372 D8RMT9 PAC:15401291 Selaginella moellendorffii 107  
97566 D8RMN4 PAC:15411566 Selaginella moellendorffii 288  
97426 D8RM92 PAC:15410702 Selaginella moellendorffii 370  
26412 D8QV96 PAC:15401975 Selaginella moellendorffii 177  
35606 D8QWC1 PAC:15407645 Selaginella moellendorffii 270  
438348 D8QWC6 PAC:15420388 Selaginella moellendorffii 760  
78193 D8QU13 PAC:15419363 Selaginella moellendorffii 89  
8465 D8RNS7 PAC:15405175 Selaginella moellendorffii 79  
8400 D8RPG8 PAC:15405010 Selaginella moellendorffii 93  
59634 D8RPF0 PAC:15411630 Selaginella moellendorffii 82  
173175 D8RQL5 PAC:15412602 Selaginella moellendorffii 436  
413714 D8RPZ8 PAC:15416665 Selaginella moellendorffii 289  
99329 D8RQL8 PAC:15415779 Selaginella moellendorffii 410  
100512 D8RS01 PAC:15423200 Selaginella moellendorffii 193  
100454 D8RS29 PAC:15422593 Selaginella moellendorffii 350  
100311 D8RRW6 PAC:15421665 Selaginella moellendorffii 122  
101375 D8RTI0 PAC:15402458 Selaginella moellendorffii 187  
101161 D8RTC1 PAC:15423181 Selaginella moellendorffii 642  
101113 D8RTI1 PAC:15423055 Selaginella moellendorffii 355  
414593 D8RTA3 PAC:15418273 Selaginella moellendorffii 1371  
414635 D8RTF3 PAC:15418929 Selaginella moellendorffii 468  

10 Publications

First Author Title Year Journal Volume Pages PubMed ID
            2470643
            8290338
            3072706
            15231733
            3192525
            3313012
            2467746
            1716386
            15853797
            16387655