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Conserved domains on  [gi|1498134830|gb|RMF98306|]
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MAG: Trm112 family protein [Candidatus Schekmanbacteria bacterium]

Protein Classification

Trm112 family protein( domain architecture ID 10006712)

Trm112 family protein with similarity to Schizosaccharomyces pombe multifunctional methyltransferase subunit trm112, which acts as an activator of both rRNA/tRNA and protein methyltransferases

CATH:  2.20.25.10
PubMed:  28134793|30010922

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Trm112 COG2835
RNA methyltransferase activator Trm112/YbaR [Translation, ribosomal structure and biogenesis];
3-56 9.55e-22

RNA methyltransferase activator Trm112/YbaR [Translation, ribosomal structure and biogenesis];


:

Pssm-ID: 442083 [Multi-domain]  Cd Length: 60  Bit Score: 78.38  E-value: 9.55e-22
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....
gi 1498134830  3 LDKELLDILACPQCKGDIHLNESEDGLICDNCKLLYEIKDDIPIMLPEEAKKLE 56
Cdd:COG2835    1 MDPRLLEILACPVCKGPLELDKEEGELVCTACGLAYPIRDGIPVLLPDEARPLS 54
 
Name Accession Description Interval E-value
Trm112 COG2835
RNA methyltransferase activator Trm112/YbaR [Translation, ribosomal structure and biogenesis];
3-56 9.55e-22

RNA methyltransferase activator Trm112/YbaR [Translation, ribosomal structure and biogenesis];


Pssm-ID: 442083 [Multi-domain]  Cd Length: 60  Bit Score: 78.38  E-value: 9.55e-22
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....
gi 1498134830  3 LDKELLDILACPQCKGDIHLNESEDGLICDNCKLLYEIKDDIPIMLPEEAKKLE 56
Cdd:COG2835    1 MDPRLLEILACPVCKGPLELDKEEGELVCTACGLAYPIRDGIPVLLPDEARPLS 54
Trm112_arch NF038101
methytransferase partner Trm112; This HMM describes an archaeal branch of a small protein, ...
 5-53 2.08e-08

methytransferase partner Trm112; This HMM describes an archaeal branch of a small protein, Trm112, that is conserved in the three domains of life and that serves as general activator of methyltransferases for RNA or protein.


Pssm-ID: 411682 [Multi-domain]  Cd Length: 59  Bit Score: 44.88  E-value: 2.08e-08
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 1498134830  5 KELLDILACPQCKGDIHLNESEDG--------LICDNCKLLYEIKDDIPIMLPEEAK 53
Cdd:NF038101   3 ESLMDILCCPVCKGDLELEVDEEDdeeiiegtLTCTACGEDYPIEDGIPNLLPPDMR 59
PRK11827 PRK11827
protein YcaR;
3-55 3.12e-08

protein YcaR;


Pssm-ID: 183328  Cd Length: 60  Bit Score: 44.60  E-value: 3.12e-08
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|...
gi 1498134830  3 LDKELLDILACPQCKGDIHLNESEDGLICDNCKLLYEIKDDIPIMLPEEAKKL 55
Cdd:PRK11827   1 MDHRLLEIIACPVCNGKLWYNQEKQELICKLDNLAFPLRDGIPVLLETEARVL 53
Trm112p pfam03966
Trm112p-like protein; The function of this family is uncertain. The bacterial members are ...
 4-42 1.20e-07

Trm112p-like protein; The function of this family is uncertain. The bacterial members are about 60-70 amino acids in length and the eukaryotic examples are about 120 amino acids in length. The C terminus contains the strongest conservation. Trm112p is required for tRNA methylation in S. cerevisiae and is found in complexes with 2 tRNA methylases (TRM9 and TRM11) also with putative methyltransferase YDR140W. The zinc-finger protein Ynr046w is plurifunctional and a component of the eRF1 methyltransferase in yeast. The crystal structure of Ynr046w has been determined to 1.7 A resolution. It comprises a zinc-binding domain built from both the N- and C-terminal sequences and an inserted domain, absent from bacterial and archaeal orthologs of the protein, composed of three alpha-helices.


Pssm-ID: 397869  Cd Length: 44  Bit Score: 42.54  E-value: 1.20e-07
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|...
gi 1498134830  4 DKELLDILACPQCKGDIHL----NESEDGLICDNCKLLYEIKD 42
Cdd:pfam03966  1 DLLLLEILACPLCKGPLHLlleyDIEEGELVCPECGLAYPIRD 43
 
Name Accession Description Interval E-value
Trm112 COG2835
RNA methyltransferase activator Trm112/YbaR [Translation, ribosomal structure and biogenesis];
3-56 9.55e-22

RNA methyltransferase activator Trm112/YbaR [Translation, ribosomal structure and biogenesis];


Pssm-ID: 442083 [Multi-domain]  Cd Length: 60  Bit Score: 78.38  E-value: 9.55e-22
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....
gi 1498134830  3 LDKELLDILACPQCKGDIHLNESEDGLICDNCKLLYEIKDDIPIMLPEEAKKLE 56
Cdd:COG2835    1 MDPRLLEILACPVCKGPLELDKEEGELVCTACGLAYPIRDGIPVLLPDEARPLS 54
Trm112_arch NF038101
methytransferase partner Trm112; This HMM describes an archaeal branch of a small protein, ...
 5-53 2.08e-08

methytransferase partner Trm112; This HMM describes an archaeal branch of a small protein, Trm112, that is conserved in the three domains of life and that serves as general activator of methyltransferases for RNA or protein.


Pssm-ID: 411682 [Multi-domain]  Cd Length: 59  Bit Score: 44.88  E-value: 2.08e-08
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 1498134830  5 KELLDILACPQCKGDIHLNESEDG--------LICDNCKLLYEIKDDIPIMLPEEAK 53
Cdd:NF038101   3 ESLMDILCCPVCKGDLELEVDEEDdeeiiegtLTCTACGEDYPIEDGIPNLLPPDMR 59
PRK11827 PRK11827
protein YcaR;
3-55 3.12e-08

protein YcaR;


Pssm-ID: 183328  Cd Length: 60  Bit Score: 44.60  E-value: 3.12e-08
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|...
gi 1498134830  3 LDKELLDILACPQCKGDIHLNESEDGLICDNCKLLYEIKDDIPIMLPEEAKKL 55
Cdd:PRK11827   1 MDHRLLEIIACPVCNGKLWYNQEKQELICKLDNLAFPLRDGIPVLLETEARVL 53
Trm112p pfam03966
Trm112p-like protein; The function of this family is uncertain. The bacterial members are ...
 4-42 1.20e-07

Trm112p-like protein; The function of this family is uncertain. The bacterial members are about 60-70 amino acids in length and the eukaryotic examples are about 120 amino acids in length. The C terminus contains the strongest conservation. Trm112p is required for tRNA methylation in S. cerevisiae and is found in complexes with 2 tRNA methylases (TRM9 and TRM11) also with putative methyltransferase YDR140W. The zinc-finger protein Ynr046w is plurifunctional and a component of the eRF1 methyltransferase in yeast. The crystal structure of Ynr046w has been determined to 1.7 A resolution. It comprises a zinc-binding domain built from both the N- and C-terminal sequences and an inserted domain, absent from bacterial and archaeal orthologs of the protein, composed of three alpha-helices.


Pssm-ID: 397869  Cd Length: 44  Bit Score: 42.54  E-value: 1.20e-07
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|...
gi 1498134830  4 DKELLDILACPQCKGDIHL----NESEDGLICDNCKLLYEIKD 42
Cdd:pfam03966  1 DLLLLEILACPLCKGPLHLlleyDIEEGELVCPECGLAYPIRD 43
 
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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