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Conserved domains on  [gi|119609103|gb|EAW88697|]
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EMG1 nucleolar protein homolog (S. cerevisiae), isoform CRA_d [Homo sapiens]

Protein Classification

RNA methyltransferase( domain architecture ID 1000317)

SpoU family RNA methyltransferase catalyzes the methylation of rRNA or tRNA at specific sites in a S-adenosyl-L-methionine (SAM)-dependent manner

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
SPOUT_MTase super family cl38912
SPOUT superfamily of SAM-dependent RNA methyltransferases; The SPOUT (SpoU-TrmD) ...
 43-90 4.26e-22

SPOUT superfamily of SAM-dependent RNA methyltransferases; The SPOUT (SpoU-TrmD) methyltransferase (MTase) superfamily, also known as class IV methyltransferase family, is a large class of S-adenosyl-L-methionine (AdoMet or SAM)-dependent RNA MTases which are structurally characterized by a deep trefoil knot. Members of the SPOUT superfamily that have been characterized functionally are involved in post-transcriptional RNA modification by catalyzing methylation of the 2-OH group of ribose, the N-1 atom of guanosine 37 in tRNA, or the N-3 atom of uridine 1498 in 16S rRNA.


The actual alignment was detected with superfamily member cd18088:

Pssm-ID: 476814  Cd Length: 204  Bit Score: 85.27  E-value: 4.26e-22
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|..
gi 119609103  43 LIVVLEGASLETVKVG----KTYELLNCDKHKSILLKNGRDPGEARPDITHQ 90
Cdd:cd18088    1 LIVVLEEASLELVPVEiwkkPKYELLNSDDHHNAMKKLKRDPKRGRPDIVHQ 52
 
Name Accession Description Interval E-value
Nep1-like cd18088
18S rRNA (pseudouridine(1248)-N1)-methyltransferase Nep1; 18S rRNA (pseudouridine(1248)-N1) ...
 43-90 4.26e-22

18S rRNA (pseudouridine(1248)-N1)-methyltransferase Nep1; 18S rRNA (pseudouridine(1248)-N1)-methyltransferase Nep1 (also known as EMG1) methylates pseudouridine at position1248 (Psi1248) in 18S rRNA and is required for small subunit (SSU) ribosomal RNA (rRNA) maturation. Mutations on human cause in Bowen-Conradi Syndrome. Nep1 is a member of the SPOUT (SpoU-TrmD) methyltransferase (MTase) superfamily, a large class of S-adenosyl-L-methionine (AdoMet or SAM)-dependent RNA MTases which are structurally characterized by a deep trefoil knot.


Pssm-ID: 349961  Cd Length: 204  Bit Score: 85.27  E-value: 4.26e-22
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|..
gi 119609103  43 LIVVLEGASLETVKVG----KTYELLNCDKHKSILLKNGRDPGEARPDITHQ 90
Cdd:cd18088    1 LIVVLEEASLELVPVEiwkkPKYELLNSDDHHNAMKKLKRDPKRGRPDIVHQ 52
EMG1 pfam03587
EMG1/NEP1 methyltransferase; Members of this family are essential for 40S ribosomal biogenesis. ...
 45-90 1.56e-18

EMG1/NEP1 methyltransferase; Members of this family are essential for 40S ribosomal biogenesis. The structure of EMG1 has revealed that it is a novel member of the superfamily of alpha/beta knot fold methyltransferases.


Pssm-ID: 460980  Cd Length: 205  Bit Score: 76.05  E-value: 1.56e-18
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 119609103   45 VVLEGASLETVKVG--------KTYELLNCDKHKSILLKNGRDPGEARPDITHQ 90
Cdd:pfam03587   1 VVLEEASLELVPVEirsrrgkkPSYELLDSDDHYHAMKKLKRDPKRGRPDIVHQ 54
 
Name Accession Description Interval E-value
Nep1-like cd18088
18S rRNA (pseudouridine(1248)-N1)-methyltransferase Nep1; 18S rRNA (pseudouridine(1248)-N1) ...
 43-90 4.26e-22

18S rRNA (pseudouridine(1248)-N1)-methyltransferase Nep1; 18S rRNA (pseudouridine(1248)-N1)-methyltransferase Nep1 (also known as EMG1) methylates pseudouridine at position1248 (Psi1248) in 18S rRNA and is required for small subunit (SSU) ribosomal RNA (rRNA) maturation. Mutations on human cause in Bowen-Conradi Syndrome. Nep1 is a member of the SPOUT (SpoU-TrmD) methyltransferase (MTase) superfamily, a large class of S-adenosyl-L-methionine (AdoMet or SAM)-dependent RNA MTases which are structurally characterized by a deep trefoil knot.


Pssm-ID: 349961  Cd Length: 204  Bit Score: 85.27  E-value: 4.26e-22
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|..
gi 119609103  43 LIVVLEGASLETVKVG----KTYELLNCDKHKSILLKNGRDPGEARPDITHQ 90
Cdd:cd18088    1 LIVVLEEASLELVPVEiwkkPKYELLNSDDHHNAMKKLKRDPKRGRPDIVHQ 52
EMG1 pfam03587
EMG1/NEP1 methyltransferase; Members of this family are essential for 40S ribosomal biogenesis. ...
 45-90 1.56e-18

EMG1/NEP1 methyltransferase; Members of this family are essential for 40S ribosomal biogenesis. The structure of EMG1 has revealed that it is a novel member of the superfamily of alpha/beta knot fold methyltransferases.


Pssm-ID: 460980  Cd Length: 205  Bit Score: 76.05  E-value: 1.56e-18
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....
gi 119609103   45 VVLEGASLETVKVG--------KTYELLNCDKHKSILLKNGRDPGEARPDITHQ 90
Cdd:pfam03587   1 VVLEEASLELVPVEirsrrgkkPSYELLDSDDHYHAMKKLKRDPKRGRPDIVHQ 54
 
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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