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Conserved domains on  [gi|156847118|ref|XP_001646444|]
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uncharacterized protein Kpol_1048p16 [Vanderwaltozyma polyspora DSM 70294]

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 ...
 135-222 1.90e-27

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: 105.26  E-value: 1.90e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 156847118  135 IKNIGKIKSVIDKDIIVELSGSGENRILKEGTIFCLNDRTIIGTLAEVFGKLTNPLYRIVASNKDSTD-NLKEKIGEDVF 213
Cdd:pfam04410   1 VVELGTISSIVENDVVIKANSSGEYKVLDFNSVLCLENKTVIGKVDEIFGPVNEPFYSVKFNSGVSFEiKELLKVGDKVY 80


                  ....*....
gi 156847118  214 YVIRDAHWL 222
Cdd:pfam04410  81 ILLPLARFL 89
PRK10263 super family cl35903
DNA translocase FtsK; Provisional
 334-407 8.18e-05

DNA translocase FtsK; Provisional


The actual alignment was detected with superfamily member PRK10263:

Pssm-ID: 236669 [Multi-domain]  Cd Length: 1355  Bit Score: 45.46  E-value: 8.18e-05
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 156847118  334 RPVQSESNSYNRQEPARNNMEYSHPNHQFQEQYMNNYPKQVQHHQiypPNMNYPQQPYNPGPQFQPP----VPYQQFQ 407
Cdd:PRK10263  757 QPVAPQQQYQQPQQPVAPQPQYQQPQQPVAPQPQYQQPQQPVAPQ---PQYQQPQQPVAPQPQYQQPqqpvAPQPQYQ 831
 
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 ...
 135-222 1.90e-27

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: 105.26  E-value: 1.90e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 156847118  135 IKNIGKIKSVIDKDIIVELSGSGENRILKEGTIFCLNDRTIIGTLAEVFGKLTNPLYRIVASNKDSTD-NLKEKIGEDVF 213
Cdd:pfam04410   1 VVELGTISSIVENDVVIKANSSGEYKVLDFNSVLCLENKTVIGKVDEIFGPVNEPFYSVKFNSGVSFEiKELLKVGDKVY 80


                  ....*....
gi 156847118  214 YVIRDAHWL 222
Cdd:pfam04410  81 ILLPLARFL 89
PRK10263 PRK10263
DNA translocase FtsK; Provisional
 334-407 8.18e-05

DNA translocase FtsK; Provisional


Pssm-ID: 236669 [Multi-domain]  Cd Length: 1355  Bit Score: 45.46  E-value: 8.18e-05
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 156847118  334 RPVQSESNSYNRQEPARNNMEYSHPNHQFQEQYMNNYPKQVQHHQiypPNMNYPQQPYNPGPQFQPP----VPYQQFQ 407
Cdd:PRK10263  757 QPVAPQQQYQQPQQPVAPQPQYQQPQQPVAPQPQYQQPQQPVAPQ---PQYQQPQQPVAPQPQYQQPqqpvAPQPQYQ 831
 
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 ...
 135-222 1.90e-27

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: 105.26  E-value: 1.90e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 156847118  135 IKNIGKIKSVIDKDIIVELSGSGENRILKEGTIFCLNDRTIIGTLAEVFGKLTNPLYRIVASNKDSTD-NLKEKIGEDVF 213
Cdd:pfam04410   1 VVELGTISSIVENDVVIKANSSGEYKVLDFNSVLCLENKTVIGKVDEIFGPVNEPFYSVKFNSGVSFEiKELLKVGDKVY 80


                  ....*....
gi 156847118  214 YVIRDAHWL 222
Cdd:pfam04410  81 ILLPLARFL 89
PRK10263 PRK10263
DNA translocase FtsK; Provisional
 334-407 8.18e-05

DNA translocase FtsK; Provisional


Pssm-ID: 236669 [Multi-domain]  Cd Length: 1355  Bit Score: 45.46  E-value: 8.18e-05
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 156847118  334 RPVQSESNSYNRQEPARNNMEYSHPNHQFQEQYMNNYPKQVQHHQiypPNMNYPQQPYNPGPQFQPP----VPYQQFQ 407
Cdd:PRK10263  757 QPVAPQQQYQQPQQPVAPQPQYQQPQQPVAPQPQYQQPQQPVAPQ---PQYQQPQQPVAPQPQYQQPqqpvAPQPQYQ 831
PRK10263 PRK10263
DNA translocase FtsK; Provisional
 311-423 1.60e-03

DNA translocase FtsK; Provisional


Pssm-ID: 236669 [Multi-domain]  Cd Length: 1355  Bit Score: 41.22  E-value: 1.60e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 156847118  311 TPQSSYRSRDQRQQvnsntTNKSRPVQSESNSYNRQEPARNNMEYSHPNHQFQEQYMNNYPKQVQHHQIYPPNMNYPQQP 390
Cdd:PRK10263  381 PQQSQYAQPAVQYN-----EPLQQPVQPQQPYYAPAAEQPAQQPYYAPAPEQPAQQPYYAPAPEQPVAGNAWQAEEQQST 455

                          90       100       110
                  ....*....|....*....|....*....|...
gi 156847118  391 YNPGPQFQPPVPYQQFQYQGHSNGSQQYIPNGP 423
Cdd:PRK10263  456 FAPQSTYQTEQTYQQPAAQEPLYQQPQPVEQQP 488
 
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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