Danio_rerioFamily: RRM_1 Number of Genes: 242
Ensembl IDSymbolEntrez IDRBD RBPome PRIExpresion PathwayPhenotype ParalogOrthologGO
puf60b
celf2
tra2b
pabpc1l
ncl
trmt2a
a1cf
igf2bp2a
hnrnpdl
nelfe
tardbpl
celf1
hnrnph1l
rbm25b
pspc1
celf3b
cnot4a
cnot4b
tra2a
hnrnpaba
sart3
srsf9
brap
tial1
sf3b6
srek1
rbfox3a
eif4bb
rbm22
igf2bp3
msi1
hnrnpa1a
-
esrp1
rnpc3
sfpq
rbm39a
u2af2b
u2af2a
rbm14a
cirbpb
srsf6a
rbmx
elavl3
hnrnpr
rbfox1
g3bp2
ncbp2
u2af1
ptbp2b
rbm8a
srsf6b
eif3g
pabpc1a
larp7
eif4ba
g3bp1
srsf1b
sf3b4
cpsf6
esrp2
scaf4b
snrpa
ptbp1a
ewsr1a
ewsr1b
safb
nono
rbm7
pabpc1b
rbfox1l
mcm3ap
rbm4.3
dnd1
rbm28
srsf3a
tia1l
syncripl
srsf5b
ssb
srsf5a
rbm17
rbm24b
ptbp1b
puf60a
msi2b
msi2a
celf3a
hnrnpl
srsf7a
hnrnpa0l
hnrnpa0b
dazl
rbm4.1
hnrnpa1b
fus
elavl1a
zgc:123010
rbm25a
-
snrpb2
hnrnph3
rbm42
tardbp
syncrip
nifk
elavl2
hnrnph1
zgc:110796
rbm39b
eif4h
rbm19
ptbp3
ppil4
nol8
rbms2a
rbm18
rbmx2
zgc:77262
rbms3
pabpn1
elavl4
zcrb1
rbpms2a
rbfox2
tia1
cpeb2
-
raver1
sltm
grsf1
hnrnpc
rbm41
rbm4.2
zgc:153215
rbms2b
trnau1apb
htatsf1
cpeb4a
tut1
srsf2a
srsf1a
si:dkey-33c12.4
rbm38
hnrnpd
pabpc4
hnrnpl2
hnrnpa3
srsf3b
myef2
uhmk1
eif3ba
raly
setd1a
cpeb3
enox1
alkbh8
setd1ba
igf2bp1
u2surp
hnrnpm
rbm47
rbm45
ppargc1a
CR847571.1
si:dkey-189g17.2
taf15
celf4
dazap1
celf5a
rbm15
rbms1a
eif3bb
-
spen
rbfox3b
si:ch1073-335m2.2
zgc:56304
raver2
tnrc6c1
scaf4a
snrnp70
setd1bb
rbm10
alyref
zgc:163098
enox2
rbm15b
-
rbm46
rbpms2b
rbm12b
srsf10b
pabpn1l
hnrnpa0a
rbm11
ralyl
pprc1
celf5b
-
cstf2
si:ch73-190f9.4
slirp
rbm5
srsf11
CR318595.1
-
si:dkey-93h22.8
zgc:165603
rrp7a
poldip3
rbpms
CR762480.1
-
hnrnpabb
snrnp35
RNPS1
cpeb4b
rbm12
srsf3a
srsf7b
trnau1apa
ppargc1b
elavl1b
rbm34
si:dkey-205h23.2
ptbp2a
CABZ01037298.1
CU571328.1
rbm24a
ppie
cirbpa
rbms1b
-
rbm14b
zgc:55733
tnrc6c2
srsf2b
rbm26
dnajc17
srsf4
CU104716.1
-
BX537120.1
-
CR847571.2
-
zgc:171310
BX537120.2
-
CR293507.1
-
CABZ01018956.1
-
CABZ01100304.1
-
BX537120.3
-
rnps1

Introduction

Pfam

The RRM motif is probably diagnostic of an RNA binding protein. RRMs are found in a variety of RNA binding proteins, including various hnRNP proteins, proteins implicated in regulation of alternative splicing, and protein components of snRNPs. The motif also appears in a few single stranded DNA binding proteins. The RRM structure consists of four strands and two helices arranged in an alpha/beta sandwich, with a third helix present during RNA binding in some cases The C-terminal beta strand (4th strand) and final helix are hard to align and have been omitted in the SEED alignment The LA proteins (P05455) have an N terminal rrm which is included in the seed. There is a second region towards the C terminus that has some features characteristic of a rrm but does not appear to have the important structural core of a rrm. The LA proteins (P05455) are one of the main autoantigens in Systemic lupus erythematosus (SLE), an autoimmune disease.

InterPro

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 [PUBMED:3072706, PUBMED:3192525, PUBMED:3313012]. 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 [PUBMED:2470643, PUBMED:2467746]. 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) [PUBMED:3192525, PUBMED:3313012, PUBMED:2467746]. The RRM in heterodimeric splicing factor U2 snRNP auxiliary factor (U2AF) appears to have two RRM-like domains with specialised features for protein recognition [PUBMED:15231733]. The motif also appears in a few single stranded DNA binding proteins.

Reference

  1. Birney E., Kumar S., Krainer A.R. , Nucleic Acid Res 1993;21:5803-5816.: Analysis of the RNA-recognition motif and RS and RGG domains: conservation in metazoan pre-mRNA splicing factors. PUBMED:8290338 EPMC:8290338.