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Conserved domains on  [gi|6321881|ref|NP_011957|]
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H/ACA snoRNP pseudouridylase subunit GAR1 [Saccharomyces cerevisiae S288C]

Protein Classification

H/ACA ribonucleoprotein complex subunit GAR1/NAF1( domain architecture ID 10516561)

H/ACA ribonucleoprotein complex subunit GAR1/NAF1 is an RNA-binding protein required for the maturation of box H/ACA snoRNPs complex and ribosome biogenesis, as well as telomere maintenance

CATH:  2.40.10.230
Gene Ontology:  GO:0000454|GO:0031429|GO:0003723|GO:0042254
PubMed:  15770508

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Gar1 pfam04410
Gar1/Naf1 RNA binding region; Gar1 is a small nucleolar RNP that is required for pre-mRNA ...
 37-123 2.33e-33

Gar1/Naf1 RNA binding region; Gar1 is a small nucleolar RNP that is required for pre-mRNA processing and pseudouridylation. It is co-immunoprecipitated with the H/ACA families of snoRNAs. This family represents the conserved central region of Gar1. This region is necessary and sufficient for normal cell growth, and specifically binds two snoRNAs snR10 and snR30. This region is also necessary for nucleolar targeting, and it is thought that the protein is co-transported to the nucleolus as part of a nucleoprotein complex. In humans, Gar1 is also component of telomerase in vivo. Naf1 is an essential protein that plays a role in ribosome biogenesis, modification of spliceosomal small nuclear RNAs and telomere synthesis, and is homologous to Gar1.


:

Pssm-ID: 461296  Cd Length: 89  Bit Score: 114.51  E-value: 2.33e-33
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6321881     37 VLEMGAFLHPCEGDIVCRSINT---KIPYFNAPIYLENKTQVGKVDEILGPLNEVFFTIKCGDGVQ---ATSFKEGDKFY 110
Cdd:pfam04410   1 VVELGTISSIVENDVVIKANSSgeyKVLDFNSVLCLENKTVIGKVDEIFGPVNEPFYSVKFNSGVSfeiKELLKVGDKVY 80

                          90
                  ....*....|...
gi 6321881    111 IaadkLLPIERFL 123
Cdd:pfam04410  81 I----LLPLARFL 89
 
Name Accession Description Interval E-value
Gar1 pfam04410
Gar1/Naf1 RNA binding region; Gar1 is a small nucleolar RNP that is required for pre-mRNA ...
 37-123 2.33e-33

Gar1/Naf1 RNA binding region; Gar1 is a small nucleolar RNP that is required for pre-mRNA processing and pseudouridylation. It is co-immunoprecipitated with the H/ACA families of snoRNAs. This family represents the conserved central region of Gar1. This region is necessary and sufficient for normal cell growth, and specifically binds two snoRNAs snR10 and snR30. This region is also necessary for nucleolar targeting, and it is thought that the protein is co-transported to the nucleolus as part of a nucleoprotein complex. In humans, Gar1 is also component of telomerase in vivo. Naf1 is an essential protein that plays a role in ribosome biogenesis, modification of spliceosomal small nuclear RNAs and telomere synthesis, and is homologous to Gar1.


Pssm-ID: 461296  Cd Length: 89  Bit Score: 114.51  E-value: 2.33e-33
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6321881     37 VLEMGAFLHPCEGDIVCRSINT---KIPYFNAPIYLENKTQVGKVDEILGPLNEVFFTIKCGDGVQ---ATSFKEGDKFY 110
Cdd:pfam04410   1 VVELGTISSIVENDVVIKANSSgeyKVLDFNSVLCLENKTVIGKVDEIFGPVNEPFYSVKFNSGVSfeiKELLKVGDKVY 80

                          90
                  ....*....|...
gi 6321881    111 IaadkLLPIERFL 123
Cdd:pfam04410  81 I----LLPLARFL 89
GAR1 COG3277
rRNA processing protein Gar1 [Translation, ribosomal structure and biogenesis]; rRNA ...
 49-111 1.58e-05

rRNA processing protein Gar1 [Translation, ribosomal structure and biogenesis]; rRNA processing protein Gar1 is part of the Pathway/BioSystem: 16S rRNA modification


Pssm-ID: 442508  Cd Length: 76  Bit Score: 41.40  E-value: 1.58e-05
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 6321881   49 GDIVCRSINTKIPYFNAPIYLENKTQVGKVDEILGPLNEVFFTIKCGDGVQATSFkEGDKFYI 111
Cdd:COG3277  14 GLLIVRLDAADLPPIGSPVVDKSLKRVGKVVDVFGPVDSPYAAVKPDSKVSLEKL-VGEKLYV 75
 
Name Accession Description Interval E-value
Gar1 pfam04410
Gar1/Naf1 RNA binding region; Gar1 is a small nucleolar RNP that is required for pre-mRNA ...
 37-123 2.33e-33

Gar1/Naf1 RNA binding region; Gar1 is a small nucleolar RNP that is required for pre-mRNA processing and pseudouridylation. It is co-immunoprecipitated with the H/ACA families of snoRNAs. This family represents the conserved central region of Gar1. This region is necessary and sufficient for normal cell growth, and specifically binds two snoRNAs snR10 and snR30. This region is also necessary for nucleolar targeting, and it is thought that the protein is co-transported to the nucleolus as part of a nucleoprotein complex. In humans, Gar1 is also component of telomerase in vivo. Naf1 is an essential protein that plays a role in ribosome biogenesis, modification of spliceosomal small nuclear RNAs and telomere synthesis, and is homologous to Gar1.


Pssm-ID: 461296  Cd Length: 89  Bit Score: 114.51  E-value: 2.33e-33
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 6321881     37 VLEMGAFLHPCEGDIVCRSINT---KIPYFNAPIYLENKTQVGKVDEILGPLNEVFFTIKCGDGVQ---ATSFKEGDKFY 110
Cdd:pfam04410   1 VVELGTISSIVENDVVIKANSSgeyKVLDFNSVLCLENKTVIGKVDEIFGPVNEPFYSVKFNSGVSfeiKELLKVGDKVY 80

                          90
                  ....*....|...
gi 6321881    111 IaadkLLPIERFL 123
Cdd:pfam04410  81 I----LLPLARFL 89
GAR1 COG3277
rRNA processing protein Gar1 [Translation, ribosomal structure and biogenesis]; rRNA ...
 49-111 1.58e-05

rRNA processing protein Gar1 [Translation, ribosomal structure and biogenesis]; rRNA processing protein Gar1 is part of the Pathway/BioSystem: 16S rRNA modification


Pssm-ID: 442508  Cd Length: 76  Bit Score: 41.40  E-value: 1.58e-05
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 6321881   49 GDIVCRSINTKIPYFNAPIYLENKTQVGKVDEILGPLNEVFFTIKCGDGVQATSFkEGDKFYI 111
Cdd:COG3277  14 GLLIVRLDAADLPPIGSPVVDKSLKRVGKVVDVFGPVDSPYAAVKPDSKVSLEKL-VGEKLYV 75
 
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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