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Conserved domains on  [gi|2462489341|ref|XP_054184523|]
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YTH domain-containing protein 1 isoform X1 [Homo sapiens]

Protein Classification

YTH domain-containing protein( domain architecture ID 15340179)

YTH domain-containing protein similar to Homo sapiens YTH domain-containing protein 1, a regulator of alternative splicing that specifically recognizes and binds N6-methyladenosine (m6A)-containing RNAs

CATH:  3.10.590.10
Gene Ontology:  GO:0003723|GO:0000398|GO:0006406|GO:1990247
PubMed:  12368078|19191354
SCOP:  4002214

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
YTH cd21134
YTH (YT521-B homology) domains are RNA-binding domains that belong to the PUA superfamily; ...
 338-474 9.90e-63

YTH (YT521-B homology) domains are RNA-binding domains that belong to the PUA superfamily; Individual members of the YTH family have been shown to selectively remove transcripts of meiosis-specific genes expressed in mitotic cells. In general, eukaryotic YTH-family members may be involved in similar mechanisms to suppress gene regulation during gametogenesis or in other forms of silencing. The YTH domain is a novel RNA-binding domain that has been shown to bind to short, degenerate, single-stranded RNA motifs that loosely follow a consensus sequence. It belongs to the larger PUA superfamily.


:

Pssm-ID: 410979  Cd Length: 133  Bit Score: 205.11  E-value: 9.90e-63
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462489341 338 RFFLIKSNNHENVSLAKAKGVWSTLPVNEKKLNLAFRSARSVILIFSVRESGKFQGFARLSSESHHGGSPIHWvlpaGMS 417
Cdd:cd21134     1 RFFIIKSNNEENIHLSIKYGVWATQPHNEKKLNQAFRESGNVYLIFSVNGSGHFQGYARMTSPPDPNRSPSWP----WWS 76

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 2462489341 418 AKMLGGVFKIDWICRRELPFTKSAHLTNPWNEHKPVKIGRDGQEIELECGTQLCLLF 474
Cdd:cd21134    77 QDKLGGPFKVEWLRVKDLPFSKLRHLKNPLNENKPVTISRDGQEIEPEVGEQLLKLF 133
 
Name Accession Description Interval E-value
YTH cd21134
YTH (YT521-B homology) domains are RNA-binding domains that belong to the PUA superfamily; ...
 338-474 9.90e-63

YTH (YT521-B homology) domains are RNA-binding domains that belong to the PUA superfamily; Individual members of the YTH family have been shown to selectively remove transcripts of meiosis-specific genes expressed in mitotic cells. In general, eukaryotic YTH-family members may be involved in similar mechanisms to suppress gene regulation during gametogenesis or in other forms of silencing. The YTH domain is a novel RNA-binding domain that has been shown to bind to short, degenerate, single-stranded RNA motifs that loosely follow a consensus sequence. It belongs to the larger PUA superfamily.


Pssm-ID: 410979  Cd Length: 133  Bit Score: 205.11  E-value: 9.90e-63
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462489341 338 RFFLIKSNNHENVSLAKAKGVWSTLPVNEKKLNLAFRSARSVILIFSVRESGKFQGFARLSSESHHGGSPIHWvlpaGMS 417
Cdd:cd21134     1 RFFIIKSNNEENIHLSIKYGVWATQPHNEKKLNQAFRESGNVYLIFSVNGSGHFQGYARMTSPPDPNRSPSWP----WWS 76

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 2462489341 418 AKMLGGVFKIDWICRRELPFTKSAHLTNPWNEHKPVKIGRDGQEIELECGTQLCLLF 474
Cdd:cd21134    77 QDKLGGPFKVEWLRVKDLPFSKLRHLKNPLNENKPVTISRDGQEIEPEVGEQLLKLF 133
YTH pfam04146
YT521-B-like domain; A protein of the YTH family has been shown to selectively remove ...
 337-474 6.04e-59

YT521-B-like domain; A protein of the YTH family has been shown to selectively remove transcripts of meiosis-specific genes expressed in mitotic cells. It has been speculated that in higher eukaryotic YTH-family members may be involved in similar mechanisms to suppress gene regulation during gametogenesis or general silencing. The rat protein YT521-B is a tyrosine-phosphorylated nuclear protein, that interacts with the nuclear transcriptosomal component scaffold attachment factor B, and the 68-kDa Src substrate associated during mitosis, Sam68. In vivo splicing assays demonstrated that YT521-B modulates alternative splice site selection in a concentration-dependent manner. The YTH domain has been identified as part of the PUA superfamily.


Pssm-ID: 461195  Cd Length: 135  Bit Score: 195.02  E-value: 6.04e-59
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462489341 337 ARFFLIKSNNHENVSLAKAKGVWSTLPVNEKKLNLAFRSARSVILIFSVRESGKFQGFARLSSESHHGGSPIHWVLPAGM 416
Cdd:pfam04146   1 ARFFIIKSLNEENIHLSIKYGIWATQPHNNKRLNEAFKESKNVYLIFSVNKSGHFQGYARMTSPVDFDPSFIFWEADSDK 80

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 2462489341 417 SakmlGGVFKIDWICRRELPFTKSAHLTNPWNEHKPVKIGRDGQEIELECGTQLCLLF 474
Cdd:pfam04146  81 W----GGPFKVEWLSVKDLPFSRLRHLRNPLNENKPVKISRDGQEIEPEVGRQLLKLF 134
 
Name Accession Description Interval E-value
YTH cd21134
YTH (YT521-B homology) domains are RNA-binding domains that belong to the PUA superfamily; ...
 338-474 9.90e-63

YTH (YT521-B homology) domains are RNA-binding domains that belong to the PUA superfamily; Individual members of the YTH family have been shown to selectively remove transcripts of meiosis-specific genes expressed in mitotic cells. In general, eukaryotic YTH-family members may be involved in similar mechanisms to suppress gene regulation during gametogenesis or in other forms of silencing. The YTH domain is a novel RNA-binding domain that has been shown to bind to short, degenerate, single-stranded RNA motifs that loosely follow a consensus sequence. It belongs to the larger PUA superfamily.


Pssm-ID: 410979  Cd Length: 133  Bit Score: 205.11  E-value: 9.90e-63
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462489341 338 RFFLIKSNNHENVSLAKAKGVWSTLPVNEKKLNLAFRSARSVILIFSVRESGKFQGFARLSSESHHGGSPIHWvlpaGMS 417
Cdd:cd21134     1 RFFIIKSNNEENIHLSIKYGVWATQPHNEKKLNQAFRESGNVYLIFSVNGSGHFQGYARMTSPPDPNRSPSWP----WWS 76

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 2462489341 418 AKMLGGVFKIDWICRRELPFTKSAHLTNPWNEHKPVKIGRDGQEIELECGTQLCLLF 474
Cdd:cd21134    77 QDKLGGPFKVEWLRVKDLPFSKLRHLKNPLNENKPVTISRDGQEIEPEVGEQLLKLF 133
YTH pfam04146
YT521-B-like domain; A protein of the YTH family has been shown to selectively remove ...
 337-474 6.04e-59

YT521-B-like domain; A protein of the YTH family has been shown to selectively remove transcripts of meiosis-specific genes expressed in mitotic cells. It has been speculated that in higher eukaryotic YTH-family members may be involved in similar mechanisms to suppress gene regulation during gametogenesis or general silencing. The rat protein YT521-B is a tyrosine-phosphorylated nuclear protein, that interacts with the nuclear transcriptosomal component scaffold attachment factor B, and the 68-kDa Src substrate associated during mitosis, Sam68. In vivo splicing assays demonstrated that YT521-B modulates alternative splice site selection in a concentration-dependent manner. The YTH domain has been identified as part of the PUA superfamily.


Pssm-ID: 461195  Cd Length: 135  Bit Score: 195.02  E-value: 6.04e-59
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462489341 337 ARFFLIKSNNHENVSLAKAKGVWSTLPVNEKKLNLAFRSARSVILIFSVRESGKFQGFARLSSESHHGGSPIHWVLPAGM 416
Cdd:pfam04146   1 ARFFIIKSLNEENIHLSIKYGIWATQPHNNKRLNEAFKESKNVYLIFSVNKSGHFQGYARMTSPVDFDPSFIFWEADSDK 80

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 2462489341 417 SakmlGGVFKIDWICRRELPFTKSAHLTNPWNEHKPVKIGRDGQEIELECGTQLCLLF 474
Cdd:pfam04146  81 W----GGPFKVEWLSVKDLPFSRLRHLRNPLNENKPVKISRDGQEIEPEVGRQLLKLF 134
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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