R3H and coiled-coil domain-containing protein 1 isoform b [Homo sapiens]
RNA-binding protein( domain architecture ID 10119042)
RNA-binding protein recognizes RNA via an RNA recognition motif (RRM); similar to Plasmodium falciparum clustered-asparagine-rich protein (CARP)
List of domain hits
Name | Accession | Description | Interval | E-value | ||
R3H_unknown_1 | cd02638 | R3H domain of a group of eukaryotic proteins with unknown function. The name of the R3H domain ... |
19-80 | 2.70e-33 | ||
R3H domain of a group of eukaryotic proteins with unknown function. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the domain is predicted to bind ssDNA or ssRNA in a sequence-specific manner. : Pssm-ID: 100067 Cd Length: 62 Bit Score: 118.71 E-value: 2.70e-33
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RRM_SF super family | cl17169 | RNA recognition motif (RRM) superfamily; RRM, also known as RBD (RNA binding domain) or RNP ... |
276-340 | 7.69e-12 | ||
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). The actual alignment was detected with superfamily member cd12428: Pssm-ID: 473069 [Multi-domain] Cd Length: 66 Bit Score: 60.40 E-value: 7.69e-12
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Name | Accession | Description | Interval | E-value | ||
R3H_unknown_1 | cd02638 | R3H domain of a group of eukaryotic proteins with unknown function. The name of the R3H domain ... |
19-80 | 2.70e-33 | ||
R3H domain of a group of eukaryotic proteins with unknown function. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the domain is predicted to bind ssDNA or ssRNA in a sequence-specific manner. Pssm-ID: 100067 Cd Length: 62 Bit Score: 118.71 E-value: 2.70e-33
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R3H | smart00393 | Putative single-stranded nucleic acids-binding domain; |
7-80 | 1.95e-16 | ||
Putative single-stranded nucleic acids-binding domain; Pssm-ID: 214647 Cd Length: 79 Bit Score: 73.49 E-value: 1.95e-16
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R3H | pfam01424 | R3H domain; The name of the R3H domain comes from the characteriztic spacing of the most ... |
17-78 | 4.09e-12 | ||
R3H domain; The name of the R3H domain comes from the characteriztic spacing of the most conserved arginine and histidine residues. The function of the domain is predicted to be binding ssDNA. Pssm-ID: 460206 Cd Length: 60 Bit Score: 60.97 E-value: 4.09e-12
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RRM_PARN | cd12428 | RNA recognition motif (RRM) found in poly(A)-specific ribonuclease PARN and similar proteins; ... |
276-340 | 7.69e-12 | ||
RNA recognition motif (RRM) found in poly(A)-specific ribonuclease PARN and similar proteins; The subfamily corresponds to the RRM of PARN, also termed deadenylating nuclease, or deadenylation nuclease, or polyadenylate-specific ribonuclease, a processive poly(A)-specific 3'-exoribonuclease involved in the decay of eukaryotic mRNAs. It specifically binds both, the poly(A) tail at the 3' end and the 7-methylguanosine (m7G) cap located at the 5' end of eukaryotic mRNAs, and catalyzes the 3'- to 5'-end deadenylation of single-stranded mRNA with a free 3' hydroxyl group both in the nucleus and in the cytoplasm. PARN belongs to the DEDD superfamily of exonucleases. It contains a nuclease domain, an RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), and an R3H domain. PARN exists as a homodimer. The nuclease domain is involved in the dimerization. RRM and R3H domains are essential for the RNA-binding. Pssm-ID: 409862 [Multi-domain] Cd Length: 66 Bit Score: 60.40 E-value: 7.69e-12
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NCBP3 | pfam10309 | Nuclear cap-binding protein subunit 3; NCBP3 and NCBP1 form an alternative cap-binding complex ... |
287-328 | 8.57e-04 | ||
Nuclear cap-binding protein subunit 3; NCBP3 and NCBP1 form an alternative cap-binding complex in higher eukaryotes. NCBP3 binds mRNA, associates with components of the mRNA processing machinery and contributes to polyA RNA export. Pssm-ID: 463048 Cd Length: 59 Bit Score: 37.13 E-value: 8.57e-04
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Jag | COG1847 | Predicted RNA-binding protein Jag (SpoIIIJ-associated), conains KH and R3H domains [General ... |
41-78 | 1.10e-03 | ||
Predicted RNA-binding protein Jag (SpoIIIJ-associated), conains KH and R3H domains [General function prediction only]; Pssm-ID: 441452 [Multi-domain] Cd Length: 143 Bit Score: 38.94 E-value: 1.10e-03
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Name | Accession | Description | Interval | E-value | ||
R3H_unknown_1 | cd02638 | R3H domain of a group of eukaryotic proteins with unknown function. The name of the R3H domain ... |
19-80 | 2.70e-33 | ||
R3H domain of a group of eukaryotic proteins with unknown function. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the domain is predicted to bind ssDNA or ssRNA in a sequence-specific manner. Pssm-ID: 100067 Cd Length: 62 Bit Score: 118.71 E-value: 2.70e-33
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R3H | smart00393 | Putative single-stranded nucleic acids-binding domain; |
7-80 | 1.95e-16 | ||
Putative single-stranded nucleic acids-binding domain; Pssm-ID: 214647 Cd Length: 79 Bit Score: 73.49 E-value: 1.95e-16
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R3H | pfam01424 | R3H domain; The name of the R3H domain comes from the characteriztic spacing of the most ... |
17-78 | 4.09e-12 | ||
R3H domain; The name of the R3H domain comes from the characteriztic spacing of the most conserved arginine and histidine residues. The function of the domain is predicted to be binding ssDNA. Pssm-ID: 460206 Cd Length: 60 Bit Score: 60.97 E-value: 4.09e-12
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RRM_PARN | cd12428 | RNA recognition motif (RRM) found in poly(A)-specific ribonuclease PARN and similar proteins; ... |
276-340 | 7.69e-12 | ||
RNA recognition motif (RRM) found in poly(A)-specific ribonuclease PARN and similar proteins; The subfamily corresponds to the RRM of PARN, also termed deadenylating nuclease, or deadenylation nuclease, or polyadenylate-specific ribonuclease, a processive poly(A)-specific 3'-exoribonuclease involved in the decay of eukaryotic mRNAs. It specifically binds both, the poly(A) tail at the 3' end and the 7-methylguanosine (m7G) cap located at the 5' end of eukaryotic mRNAs, and catalyzes the 3'- to 5'-end deadenylation of single-stranded mRNA with a free 3' hydroxyl group both in the nucleus and in the cytoplasm. PARN belongs to the DEDD superfamily of exonucleases. It contains a nuclease domain, an RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), and an R3H domain. PARN exists as a homodimer. The nuclease domain is involved in the dimerization. RRM and R3H domains are essential for the RNA-binding. Pssm-ID: 409862 [Multi-domain] Cd Length: 66 Bit Score: 60.40 E-value: 7.69e-12
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R3H | cd02325 | R3H domain. The name of the R3H domain comes from the characteristic spacing of the most ... |
19-78 | 2.43e-11 | ||
R3H domain. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. R3H domains are found in proteins together with ATPase domains, SF1 helicase domains, SF2 DEAH helicase domains, Cys-rich repeats, ring-type zinc fingers, and KH domains. The function of the domain is predicted to bind ssDNA or ssRNA in a sequence-specific manner. Pssm-ID: 100064 Cd Length: 59 Bit Score: 58.39 E-value: 2.43e-11
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R3H_jag | cd02644 | R3H domain found in proteins homologous to Bacillus subtilus Jag, which is associated with ... |
37-78 | 1.30e-04 | ||
R3H domain found in proteins homologous to Bacillus subtilus Jag, which is associated with SpoIIIJ. SpoIIIJ is necessary for the third stage of sporulation. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the domain is predicted to bind ssDNA or ssRNA in a sequence-specific manner. Pssm-ID: 100073 Cd Length: 67 Bit Score: 39.76 E-value: 1.30e-04
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R3H_G-patch | cd02646 | R3H domain of a group of fungal and plant proteins with unknown function, who also contain a ... |
22-77 | 5.54e-04 | ||
R3H domain of a group of fungal and plant proteins with unknown function, who also contain a G-patch domain. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the R3H domain is predicted to bind ssDNA or ssRNA in a sequence-specific manner. Pssm-ID: 100075 Cd Length: 58 Bit Score: 37.94 E-value: 5.54e-04
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NCBP3 | pfam10309 | Nuclear cap-binding protein subunit 3; NCBP3 and NCBP1 form an alternative cap-binding complex ... |
287-328 | 8.57e-04 | ||
Nuclear cap-binding protein subunit 3; NCBP3 and NCBP1 form an alternative cap-binding complex in higher eukaryotes. NCBP3 binds mRNA, associates with components of the mRNA processing machinery and contributes to polyA RNA export. Pssm-ID: 463048 Cd Length: 59 Bit Score: 37.13 E-value: 8.57e-04
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Jag | COG1847 | Predicted RNA-binding protein Jag (SpoIIIJ-associated), conains KH and R3H domains [General ... |
41-78 | 1.10e-03 | ||
Predicted RNA-binding protein Jag (SpoIIIJ-associated), conains KH and R3H domains [General function prediction only]; Pssm-ID: 441452 [Multi-domain] Cd Length: 143 Bit Score: 38.94 E-value: 1.10e-03
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R3H_encore_like | cd02642 | R3H domain of encore-like and DIP1-like proteins. Drosophila encore is involved in the ... |
18-61 | 7.61e-03 | ||
R3H domain of encore-like and DIP1-like proteins. Drosophila encore is involved in the germline exit after four mitotic divisions, by facilitating SCF-ubiquitin-proteasome-dependent proteolysis. Maize DBF1-interactor protein 1 (DIP1) containing an R3H domain is a potential regulator of DBF1 activity in stress responses. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues. The function of the domain is predicted to bind ssDNA or ssRNA in a sequence-specific manner. Pssm-ID: 100071 Cd Length: 63 Bit Score: 34.89 E-value: 7.61e-03
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Blast search parameters | ||||
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