Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to ...
1-376
1.48e-140
Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Pseudouridine synthases contains the RsuA/RluD, TruA, TruB and TruD families. This group consists of eukaryotic, bacterial and archeal pseudouridine synthases. Some psi sites such as psi55,13,38 and 39 in tRNA are highly conserved, being in the same position in eubacteria, archeabacteria and eukaryotes. Other psi sites occur in a more restricted fashion, for example psi2604in 23S RNA made by E.coli RluF has only been detected in E.coli. Human dyskerin with the help of guide RNAs makes the hundreds of psueudouridnes present in rRNA and small nuclear RNAs (snRNAs). Mutations in human dyskerin cause X-linked dyskeratosis congenitas. Missense mutation in human PUS1 causes mitochondrial myopathy and sideroblastic anemia (MLASA).
The actual alignment was detected with superfamily member TIGR00094:
Pssm-ID: 469624 [Multi-domain] Cd Length: 387 Bit Score: 404.93 E-value: 1.48e-140
tRNA pseudouridine synthase, TruD family; an EGAD loading error caused one member to be called ...
1-376
1.48e-140
tRNA pseudouridine synthase, TruD family; an EGAD loading error caused one member to be called surE, but that's an adjacent gene. MJ11364 is a strong partial match from 50 to 230 aa. [Protein synthesis, tRNA and rRNA base modification]
Pssm-ID: 272903 [Multi-domain] Cd Length: 387 Bit Score: 404.93 E-value: 1.48e-140
Pseudouridine synthase, similar to Escherichia coli TruD; This group consists of bacterial ...
19-370
1.77e-104
Pseudouridine synthase, similar to Escherichia coli TruD; This group consists of bacterial pseudouridine synthases similar to Escherichia coli TruD. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). E. coli TruD makes the highly phylogenetically conserved psi13 in tRNAs.
Pssm-ID: 211340 [Multi-domain] Cd Length: 253 Bit Score: 308.37 E-value: 1.77e-104
tRNA(Glu) U13 pseudouridine synthase TruD [Translation, ribosomal structure and biogenesis]; tRNA(Glu) U13 pseudouridine synthase TruD is part of the Pathway/BioSystem: tRNA modification
Pssm-ID: 440350 [Multi-domain] Cd Length: 349 Bit Score: 260.13 E-value: 3.03e-84
tRNA pseudouridine synthase D (TruD); TruD is responsible for synthesis of pseudouridine from ...
23-370
7.81e-50
tRNA pseudouridine synthase D (TruD); TruD is responsible for synthesis of pseudouridine from uracil-13 in transfer RNAs. The structure of TruD reveals an overall V-shaped molecule which contains an RNA-binding cleft.
Pssm-ID: 426077 [Multi-domain] Cd Length: 414 Bit Score: 172.76 E-value: 7.81e-50
tRNA pseudouridine synthase, TruD family; an EGAD loading error caused one member to be called ...
1-376
1.48e-140
tRNA pseudouridine synthase, TruD family; an EGAD loading error caused one member to be called surE, but that's an adjacent gene. MJ11364 is a strong partial match from 50 to 230 aa. [Protein synthesis, tRNA and rRNA base modification]
Pssm-ID: 272903 [Multi-domain] Cd Length: 387 Bit Score: 404.93 E-value: 1.48e-140
Pseudouridine synthase, similar to Escherichia coli TruD; This group consists of bacterial ...
19-370
1.77e-104
Pseudouridine synthase, similar to Escherichia coli TruD; This group consists of bacterial pseudouridine synthases similar to Escherichia coli TruD. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). E. coli TruD makes the highly phylogenetically conserved psi13 in tRNAs.
Pssm-ID: 211340 [Multi-domain] Cd Length: 253 Bit Score: 308.37 E-value: 1.77e-104
tRNA(Glu) U13 pseudouridine synthase TruD [Translation, ribosomal structure and biogenesis]; tRNA(Glu) U13 pseudouridine synthase TruD is part of the Pathway/BioSystem: tRNA modification
Pssm-ID: 440350 [Multi-domain] Cd Length: 349 Bit Score: 260.13 E-value: 3.03e-84
Pseudouridine synthase, TruD family; This group consists of eukaryotic, bacterial and archeal ...
20-370
3.50e-60
Pseudouridine synthase, TruD family; This group consists of eukaryotic, bacterial and archeal pseudouridine synthases similar to Escherichia coli TruD and Saccharomyces cerevisiae Pus7. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). E. coli TruD and S. cerevisiae Pus7 make psi13 in cytoplasmic tRNAs. In addition S. cerevisiae Pus7 makes psi35 in U2 small nuclear RNA (U2 snRNA) and psi35 in pre-tRNATyr. Psi35 in U2 snRNA and psi13 in tRNAs are highly phylogenetically conserved. Psi34 is the mammalian U2 snRNA counterpart of yeast U2 snRNA psi35.
Pssm-ID: 211326 [Multi-domain] Cd Length: 232 Bit Score: 193.96 E-value: 3.50e-60
tRNA pseudouridine synthase D (TruD); TruD is responsible for synthesis of pseudouridine from ...
23-370
7.81e-50
tRNA pseudouridine synthase D (TruD); TruD is responsible for synthesis of pseudouridine from uracil-13 in transfer RNAs. The structure of TruD reveals an overall V-shaped molecule which contains an RNA-binding cleft.
Pssm-ID: 426077 [Multi-domain] Cd Length: 414 Bit Score: 172.76 E-value: 7.81e-50
Pseudouridine synthase, a subgroup of the TruD family; This group consists of several ...
27-217
1.22e-28
Pseudouridine synthase, a subgroup of the TruD family; This group consists of several hypothetical archeal pseudouridine synthases assigned to the TruD family of psuedouridine synthases. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). The TruD family is comprised of proteins related to Escherichia coli TruD.
Pssm-ID: 211342 [Multi-domain] Cd Length: 319 Bit Score: 113.58 E-value: 1.22e-28
Pseudouridine synthase, TruD family; This group consists of eukaryotic pseudouridine synthases ...
27-266
4.73e-23
Pseudouridine synthase, TruD family; This group consists of eukaryotic pseudouridine synthases similar to Saccharomyces cerevisiae Pus7. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). Saccharomyces cerevisiae Pus7 makes psi35 in U2 small nuclear RNA (U2 snRNA), psi13 in cytoplasmic tRNAs and psi35 in pre-tRNATyr. Psi35 in yeast U2 snRNA and psi13 in tRNAs are highly phylogenetically conserved. Psi34 is the mammalian U2 snRNA counterpart of yeast U2 snRNA psi35.
Pssm-ID: 211341 [Multi-domain] Cd Length: 371 Bit Score: 98.84 E-value: 4.73e-23
Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to ...
49-91
3.87e-08
Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Pseudouridine synthases contains the RsuA/RluD, TruA, TruB and TruD families. This group consists of eukaryotic, bacterial and archeal pseudouridine synthases. Some psi sites such as psi55,13,38 and 39 in tRNA are highly conserved, being in the same position in eubacteria, archeabacteria and eukaryotes. Other psi sites occur in a more restricted fashion, for example psi2604in 23S RNA made by E.coli RluF has only been detected in E.coli. Human dyskerin with the help of guide RNAs makes the hundreds of psueudouridnes present in rRNA and small nuclear RNAs (snRNAs). Mutations in human dyskerin cause X-linked dyskeratosis congenitas. Missense mutation in human PUS1 causes mitochondrial myopathy and sideroblastic anemia (MLASA).
Pssm-ID: 211324 [Multi-domain] Cd Length: 87 Bit Score: 50.26 E-value: 3.87e-08
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.
of the residues that compose this conserved feature have been mapped to the query sequence.
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