Tudor domain found in Tudor domain-containing protein 10 (TDRD10) and similar proteins; TDRD10 is widely expressed and localized both to the nucleus and cytoplasm, and may play general roles like regulation of RNA metabolism. It contains a Tudor domain and an RNA recognition motif (RRM). The Tudor domain binds to proteins with dimethylated arginine or lysine residues, and may also bind methylated histone tails to facilitate protein-protein interactions.

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767908325 207 LLRECFRDLSWLALIHSVRGEAGLLVTSIVPKTPFFWAMHVTEALHQNMQALFSTLAQAEEQQPYLEGSTVMRGTRCLAE 286
Cdd:cd20432    1 MLKDCFGDLSWLASIMKVHGEVGLLVTDTFPHTPYFWAILLTEESQQNMQQLFSTLAEVESQQPFLAKEDVHRGRRCLAE 80

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 767908325 287 YHLGDYGHAWNRCWVLDRVDTWAVVMFIDFGQLATIPVQSLRSLDSDDFWTIPPLTQPF 345
Cdd:cd20432   81 CPLGEEGGAWNRCWVLDVVEDFAVVFFVDFGSTANIPLPSLRSLDEDEFWQIPPLAQPF 139

Tudor domain found in Tudor domain-containing protein 10 (TDRD10) and similar proteins; TDRD10 is widely expressed and localized both to the nucleus and cytoplasm, and may play general roles like regulation of RNA metabolism. It contains a Tudor domain and an RNA recognition motif (RRM). The Tudor domain binds to proteins with dimethylated arginine or lysine residues, and may also bind methylated histone tails to facilitate protein-protein interactions.

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767908325 207 LLRECFRDLSWLALIHSVRGEAGLLVTSIVPKTPFFWAMHVTEALHQNMQALFSTLAQAEEQQPYLEGSTVMRGTRCLAE 286
Cdd:cd20432    1 MLKDCFGDLSWLASIMKVHGEVGLLVTDTFPHTPYFWAILLTEESQQNMQQLFSTLAEVESQQPFLAKEDVHRGRRCLAE 80

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 767908325 287 YHLGDYGHAWNRCWVLDRVDTWAVVMFIDFGQLATIPVQSLRSLDSDDFWTIPPLTQPF 345
Cdd:cd20432   81 CPLGEEGGAWNRCWVLDVVEDFAVVFFVDFGSTANIPLPSLRSLDEDEFWQIPPLAQPF 139

RNA recognition motif;

                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767908325    43 VYVGNLPLDISkagptcyltvkwaeepymwflqwsgEEEILYLLKDFNPL-DVH----KIQNGCKCFAFVDLGSMQKVTL 117
Cdd:smart00360   2 LFVGNLPPDTT-------------------------EEELRELFSKFGKVeSVRlvrdKETGKSKGFAFVEFESEEDAEK 56

                           90
                   ....*....|....*..
gi 767908325   118 AIQELNGKLFHKRKLFV 134
Cdd:smart00360  57 ALEALNGKELDGRPLKV 73

Tudor domain;

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767908325  251 LHQNMQALFSTLAQaeeqqpylEGSTVMRGTRCLAEYHLGDyghAWNRCWVL-DRVDTWAVVMFIDFGQLATIPVQSLRS 329
Cdd:pfam00567  30 LTEELQEYYASKPP--------ESLPPAVGDGCVAAFSEDG---KWYRAKITeSLDDGLVEVLFIDYGNTETVPLSDLRP 98

                          90
                  ....*....|....*...
gi 767908325  330 LDSdDFWTIPPLTQPFML 347
Cdd:pfam00567  99 LPP-ELESLPPQAIKCQL 115

polyadenylate binding protein, human types 1, 2, 3, 4 family; These eukaryotic proteins recognize the poly-A of mRNA and consists of four tandem RNA recognition domains at the N-terminus (rrm: pfam00076) followed by a PABP-specific domain (pfam00658) at the C-terminus. The protein is involved in the transport of mRNA's from the nucleus to the cytoplasm. There are four paralogs in Homo sapiens which are expressed in testis, platelets, broadly expressed and of unknown tissue range.

                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 767908325  102 KCFAFVDLGSMQKVTLAIQELNGKLFHKRKLFVNTSKRPPKRTP---DMIQQPRAP 154
Cdd:TIGR01628 326 RGFGFVCFSNPEEANRAVTEMHGRMLGGKPLYVALAQRKEQRRAhlqDQFMQLQPR 381

Tudor domain found in Tudor domain-containing protein 10 (TDRD10) and similar proteins; TDRD10 is widely expressed and localized both to the nucleus and cytoplasm, and may play general roles like regulation of RNA metabolism. It contains a Tudor domain and an RNA recognition motif (RRM). The Tudor domain binds to proteins with dimethylated arginine or lysine residues, and may also bind methylated histone tails to facilitate protein-protein interactions.

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767908325 207 LLRECFRDLSWLALIHSVRGEAGLLVTSIVPKTPFFWAMHVTEALHQNMQALFSTLAQAEEQQPYLEGSTVMRGTRCLAE 286
Cdd:cd20432    1 MLKDCFGDLSWLASIMKVHGEVGLLVTDTFPHTPYFWAILLTEESQQNMQQLFSTLAEVESQQPFLAKEDVHRGRRCLAE 80

                         90       100       110       120       130
                 ....*....|....*....|....*....|....*....|....*....|....*....
gi 767908325 287 YHLGDYGHAWNRCWVLDRVDTWAVVMFIDFGQLATIPVQSLRSLDSDDFWTIPPLTQPF 345
Cdd:cd20432   81 CPLGEEGGAWNRCWVLDVVEDFAVVFFVDFGSTANIPLPSLRSLDEDEFWQIPPLAQPF 139

RNA recognition motif 1 (RRM1) found in yeast regulator of rDNA transcription protein 5 (RRT5) and similar proteins; This subfamily corresponds to the RRM1 of the lineage specific family containing a group of uncharacterized yeast regulators of rDNA transcription protein 5 (RRT5), which may play roles in the modulation of rDNA transcription. RRT5 contains two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains).

                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 767908325  77 SGEEEILYLLKDFNPLDV----HKIQNGCKCF------AFVDLGSMQKVTLAIQELNGKLFHKRKLFV 134
Cdd:cd12409   11 TTEEELEELLKDYKPVSVlipsYTVRGFRSRKhrplgiAYAEFSSVEEAEKVVKDLNGKVFKGRKLFV 78

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).

                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767908325  43 VYVGNLPLDISkagptcyltvkwaeepymwflqwsgEEEILYLLKDFNPLD----VHKIQNGCKCFAFVDLGSMQKVTLA 118
Cdd:cd00590    1 LFVGNLPPDTT-------------------------EEDLRELFSKFGEVVsvriVRDRDGKSKGFAFVEFESPEDAEKA 55

                         90
                 ....*....|....*..
gi 767908325 119 IQELNGKLFHKRKLFVN 135
Cdd:cd00590   56 LEALNGTELGGRPLKVS 72

Tudor domain found in Drosophila melanogaster maternal protein Tudor (dTUD) and similar proteins; dTUD is required during oogenesis for the formation of primordial germ cells and for normal abdominal segmentation. It contains 11 Tudor domains. The family also includes mitochondrial A-kinase anchor protein 1 (AKAP1) and Tudor domain-containing proteins (TDRDs). AKAP1, also called A-kinase anchor protein 149 kDa (AKAP 149), or dual specificity A-kinase-anchoring protein 1 (D-AKAP-1), or protein kinase A-anchoring protein 1 (PRKA1), or Spermatid A-kinase anchor protein 84 (S-AKAP84), is found in mitochondria and in the endoplasmic reticulum-nuclear envelope where it anchors protein kinases, phosphatases, and a phosphodiesterase. It regulates multiple cellular processes governing mitochondrial homeostasis and cell viability. AKAP1 binds to type I and II regulatory subunits of protein kinase A and anchors them to the cytoplasmic face of the mitochondrial outer membrane. TDRDs have diverse biological functions and may contain one or more copies of the Tudor domain. The Tudor domain binds to proteins with dimethylated arginine or lysine residues, and may also bind methylated histone tails to facilitate protein-protein interactions.

                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|..
gi 767908325 280 GTRCLAEYHLGDyghAWNRCWVLDRV-DTWAVVMFIDFGQLATIPVQSLRSL 330
Cdd:cd20379    2 GDLCAAKYEEDG---KWYRARVLEVLsNDKVEVFFVDYGNTETVPLSDLRPL 50

RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain); 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 have an N terminal rrm which is included in the seed. There is a second region towards the C terminus that has some features characteriztic of a rrm but does not appear to have the important structural core of a rrm. The LA proteins are one of the main autoantigens in Systemic lupus erythematosus (SLE), an autoimmune disease.

                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 767908325   43 VYVGNLPLDISkagptcyltvkwaeepymwflqwsgEEEILYLLKDFNP---LDVHKIQNG-CKCFAFV---DLGSMQKv 115
Cdd:pfam00076   1 LFVGNLPPDTT-------------------------EEDLKDLFSKFGPiksIRLVRDETGrSKGFAFVefeDEEDAEK- 54

                          90
                  ....*....|....*..
gi 767908325  116 tlAIQELNGKLFHKRKL 132
Cdd:pfam00076  55 --AIEALNGKELGGREL 69

Tudor domain found in Tudor domain-containing protein 11 (TDRD11) and similar proteins; TDRD11, also called Staphylococcal nuclease domain-containing protein 1 (SND1), 100 kDa coactivator, EBNA2 coactivator p100, or p100 co-activator, is a multifunctional protein that is reportedly associated with different types of RNA molecules, including mRNA, miRNA, pre-miRNA, and dsRNA. It has been implicated in a number of biological processes in eukaryotic cells, including the cell cycle, DNA damage repair, proliferation, and apoptosis. TDRD11 is overexpressed in multiple cancers and functions as an oncogene. It contains multiple Staphylococcal nuclease (SN) domains and a C-terminal Tudor domain. The Tudor domain binds to proteins with dimethylated arginine or lysine residues, and may also bind methylated histone tails to facilitate protein-protein interactions.

                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 767908325 262 LAQAEEQQPYLEGS-TVMRGTRCLAEYHLGDyghAWNRCWVLD-RVDTWAVVMFIDFGQLATIPVQSLRSLDS 332
Cdd:cd20433   12 LRFEIASNPPLPGSyTPRKGDLCAAKFVEDG---EWYRAKVEKvEGDKKVHVLYIDYGNREVLPSTRLAALPP 81

RNA recognition motif 1 (RRM1) found in vertebrate RRM-containing coactivator activator/modulator (CoAA); This subgroup corresponds to the RRM1 of CoAA, also termed RNA-binding protein 14 (RBM14), or paraspeckle protein 2 (PSP2), or synaptotagmin-interacting protein (SYT-interacting protein), a heterogeneous nuclear ribonucleoprotein (hnRNP)-like protein identified as a nuclear receptor coactivator. It mediates transcriptional coactivation and RNA splicing effects in a promoter-preferential manner and is enhanced by thyroid hormone receptor-binding protein (TRBP). CoAA contains two N-terminal RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a TRBP-interacting domain. It stimulates transcription through its interactions with coactivators, such as TRBP and CREB-binding protein CBP/p300, via the TRBP-interacting domain and interaction with an RNA-containing complex, such as DNA-dependent protein kinase-poly(ADP-ribose) polymerase complexes, via the RRMs.

                         10        20        30
                 ....*....|....*....|....*....|....*.
gi 767908325 102 KCFAFVDLGSMQKVTLAIQELNGKLFHKRKLFVNTS 137
Cdd:cd12608   34 KQFAFVHMRGEAAADRAIRELNGRELHGRALVVEES 69