2DGS,2CPF,2I2Y,2ERR,3LPY,1X5S,1X4A,2FY1,1H2T,1CVJ,2DNQ,2OSQ,2FC8,2CQ0,2CQI,2RRA,2XS5,2D9P,1WHW,2KI2,2YTC,1CVJ,2QFJ,2CPH,2JRS,1WTB,1FXL,1X5U,2FC9,2LEA,4A8X,2CPZ,2YWK,3SDE,1FXL,1UP1,2CQH,2CQD,2XNR,1X5T,2DO4,2GHP,3EGN,1X4H,2DO0,2CJK,2DIS,3EX7,1WI8,2DK2,1FJE,2DGQ,2DH9,1FJE,3PGW,1WF2,2G4B,3B4D,3BS9,3LQV,3SDE,2E5H,2LA6,1X4E,2DNG,2MSS,1HD0,2DIV,2HGM,2K3K,2CQ4,2KT5,3SMZ,2U1A,3U1L,2KM8,2GO9,1WHY,1X4G,2DHG,2QFJ,2E5J,2DNL,2G4B,3D2W,3H2V,1WG4,2ADC,2BZ2,2CQG,2E5G,1O0P,2ADC,1WHX,2DGX,2CPI,1X5O,3TYT,1YTY,2DIT,2KH9,1X4F,2E44,2KRB,3SMZ,2D9O,2DIU,1JMT,3DXB,1UW4,2DHX,3N9U,3S8S,2WBR,2AD9,3D45,3S6E,4ERD,4E8U,3TO8,1UFW,1OWX,2ADB,1WWH,2L9W,2CQ2,2J8A,1WEY,3MOJ


Conserved Protein Domain Family
RRM_SF

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cd00590: RRM_SF (this model, PSSM-Id:240668 is obsolete and has been replaced by 409669)
Click on image for an interactive view with Cn3D
RNA recognition motif (RRM) superfamily
RRM, also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA processing, RNA export, and RNA stability. This domain is 90 amino acids in length and consists of a four-stranded beta-sheet packed against two alpha-helices. RRM usually interacts with ssRNA, but is also known to interact with ssDNA as well as proteins. RRM binds a variable number of nucleotides, ranging from two to eight. The active site includes three aromatic side-chains located within the conserved RNP1 and RNP2 motifs of the domain. The RRM domain is found in a variety heterogeneous nuclear ribonucleoproteins (hnRNPs), proteins implicated in regulation of alternative splicing, and protein components of small nuclear ribonucleoproteins (snRNPs).
Statistics
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PSSM-Id: 240668
Aligned: 470 rows
Threshold Bit Score: 26.8841
Threshold Setting Gi: 71041901
Created: 6-Mar-2002
Updated: 1-Feb-2013
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:
2DGS_A        13 IFVGGIphncgETELREYFkkfg-----vvtEVVMIydaek-qrprGFGFITFEde---qSVDQAVNmhfhd-imgkKVE 82  human
2E44_A        18 LQIRNIpphlqWEVLDSLLvqyg-----vveSCEQVntd----setAVVNVTYSsk---dQARQALDklngfqlenfTLK 85  human
EFA74815     129 LFLGNLpkefnKEQLLEILnkht----egitSMDFLmdpdnptrnrGFAFVEFSdyyladKARKEFAspsfr-igssCVT 203 Polysphondylium...
EDQ62892     207 LFVGNIpktweKEELESVLseqg----pgiqSVELLkdpktpgrnrGFGFVEYYnhacaeHARREMSkssfr-lgtnAPT 281 Physcomitrella ...
ABK24755     208 LFLGNIpsnlkEEELTKIVseqg----pgyqHLELIkdpkdttrnrGFAFVEYYnkgcaeKAMKNMThskfq-lddkLIT 282 Sitka spruce
XP_002968556 184 LFIGNIpkswdTPELEKILaeeg----pgveGVELLkdprnpgknrGFAFVEYYnhacadHARKLMSrssfr-lgnnVPT 258 Selaginella moe...
NP_850422    296 LFVGNIckiwtPEALREKLkhygv---enmdDITLVedsnnvnmnrGYAFLEFSsrsdamDAHKRLVkkdv--mfgvEKP 370 thale cress
XP_002161012 103 LFVGGVapdltPEEFQDYIesrhptsigtidKIDFLkdkdt-nknkGFGFLECSse---dFADRLVIsensfqlngkNMS 178 green hydra
NP_586356      8 LFVGNIpssfsNELLMEILnifg-----evrEFRRGrsle--gadsPWAIVNYHep---aSANRLYGvllnralgqsRVT 77  Encephalitozoon...
CBY38743     163 LQFSEIdpslkAERLTELVapfg-----kvdSVQIVesth---skkFFGMVVCEsa---tMANSAKDaldgvevdgnKLT 231 Oikopleura dioica
2E44_A        18 LQIRNIpphlqWEVLDSLLvqyg-----vveSCEQVntd----setAVVNVTYSsk---dQARQALDklngfqlenfTLK 85  human
EFA74815     129 LFLGNLpkefnKEQLLEILnkht----egitSMDFLmdpdnptrnrGFAFVEFSdyyladKARKEFAspsfr-igssCVT 203 Polysphondylium...
EDQ62892     207 LFVGNIpktweKEELESVLseqg----pgiqSVELLkdpktpgrnrGFGFVEYYnhacaeHARREMSkssfr-lgtnAPT 281 Physcomitrella ...
ABK24755     208 LFLGNIpsnlkEEELTKIVseqg----pgyqHLELIkdpkdttrnrGFAFVEYYnkgcaeKAMKNMThskfq-lddkLIT 282 Sitka spruce
XP_002968556 184 LFIGNIpkswdTPELEKILaeeg----pgveGVELLkdprnpgknrGFAFVEYYnhacadHARKLMSrssfr-lgnnVPT 258 Selaginella moe...
NP_850422    296 LFVGNIckiwtPEALREKLkhygv---enmdDITLVedsnnvnmnrGYAFLEFSsrsdamDAHKRLVkkdv--mfgvEKP 370 thale cress
XP_002161012 103 LFVGGVapdltPEEFQDYIesrhptsigtidKIDFLkdkdt-nknkGFGFLECSse---dFADRLVIsensfqlngkNMS 178 green hydra
NP_586356      8 LFVGNIpssfsNELLMEILnifg-----evrEFRRGrsle--gadsPWAIVNYHep---aSANRLYGvllnralgqsRVT 77  Encephalitozoon...
CBY38743     163 LQFSEIdpslkAERLTELVapfg-----kvdSVQIVesth---skkFFGMVVCEsa---tMANSAKDaldgvevdgnKLT 231 Oikopleura dioica
2DGS_A        83 VK 84  human
2E44_A        86 VA 87  human
EFA74815     204 VN 205 Polysphondylium pallidum PN500
EDQ62892     282 IS 283 Physcomitrella patens subsp. patens
ABK24755     283 VK 284 Sitka spruce
XP_002968556 259 VS 260 Selaginella moellendorffii
NP_850422    371 AK 372 thale cress
XP_002161012 179 LK 180 green hydra
NP_586356     78 IL 79  Encephalitozoon cuniculi GB-M1
CBY38743     232 VG 233 Oikopleura dioica
2E44_A        86 VA 87  human
EFA74815     204 VN 205 Polysphondylium pallidum PN500
EDQ62892     282 IS 283 Physcomitrella patens subsp. patens
ABK24755     283 VK 284 Sitka spruce
XP_002968556 259 VS 260 Selaginella moellendorffii
NP_850422    371 AK 372 thale cress
XP_002161012 179 LK 180 green hydra
NP_586356     78 IL 79  Encephalitozoon cuniculi GB-M1
CBY38743     232 VG 233 Oikopleura dioica
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