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Conserved domains on  [gi|119609100|gb|EAW88694|]
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EMG1 nucleolar protein homolog (S. cerevisiae), isoform CRA_a [Homo sapiens]

Protein Classification

ribosomal RNA small subunit methyltransferase NEP1( domain architecture ID 13030971)

ribosomal RNA small subunit methyltransferase NEP1 is a S-adenosyl-L-methionine-dependent pseudouridine N(1)-methyltransferase that methylates a pseudouridine in 18S rRNA

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Nep1-like cd18088
18S rRNA (pseudouridine(1248)-N1)-methyltransferase Nep1; 18S rRNA (pseudouridine(1248)-N1) ...
 43-139 6.22e-65

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: 196.21  E-value: 6.22e-65
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 119609100  43 LIVVLEGASLETVKVG----KTYELLNCDKHKSILLKNGRDPGEARPDITHQSLLMLMDSPLNRAGLLQVYIHTQKNVLI 118
Cdd:cd18088    1 LIVVLEEASLELVPVEiwkkPKYELLNSDDHHNAMKKLKRDPKRGRPDIVHQCLLALLDSPLNKAGLLQVYIHTYNNVLI 80

                         90       100
                 ....*....|....*....|.
gi 119609100 119 EVNPQTRIPRTFDRFCGLMGK 139
Cdd:cd18088   81 EVNPQTRIPRTYKRFCGLMVQ 101
 
Name Accession Description Interval E-value
Nep1-like cd18088
18S rRNA (pseudouridine(1248)-N1)-methyltransferase Nep1; 18S rRNA (pseudouridine(1248)-N1) ...
 43-139 6.22e-65

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: 196.21  E-value: 6.22e-65
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 119609100  43 LIVVLEGASLETVKVG----KTYELLNCDKHKSILLKNGRDPGEARPDITHQSLLMLMDSPLNRAGLLQVYIHTQKNVLI 118
Cdd:cd18088    1 LIVVLEEASLELVPVEiwkkPKYELLNSDDHHNAMKKLKRDPKRGRPDIVHQCLLALLDSPLNKAGLLQVYIHTYNNVLI 80

                         90       100
                 ....*....|....*....|.
gi 119609100 119 EVNPQTRIPRTFDRFCGLMGK 139
Cdd:cd18088   81 EVNPQTRIPRTYKRFCGLMVQ 101
EMG1 pfam03587
EMG1/NEP1 methyltransferase; Members of this family are essential for 40S ribosomal biogenesis. ...
 45-137 1.01e-59

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: 183.13  E-value: 1.01e-59
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 119609100   45 VVLEGASLETVKVG--------KTYELLNCDKHKSILLKNGRDPGEARPDITHQSLLMLMDSPLNRAGLLQVYIHTQKNV 116
Cdd:pfam03587   1 VVLEEASLELVPVEirsrrgkkPSYELLDSDDHYHAMKKLKRDPKRGRPDIVHQCLLALLDSPLNKAGLLQVYIHTEDGV 80

                          90       100
                  ....*....|....*....|.
gi 119609100  117 LIEVNPQTRIPRTFDRFCGLM 137
Cdd:pfam03587  81 LIEVNPETRIPRTYKRFAGLM 101
Emg1 COG1756
rRNA pseudouridine-1189 N-methylase Emg1, Nep1/Mra1 family [Translation, ribosomal structure ...
 42-137 1.66e-27

rRNA pseudouridine-1189 N-methylase Emg1, Nep1/Mra1 family [Translation, ribosomal structure and biogenesis];


Pssm-ID: 441362  Cd Length: 224  Bit Score: 101.47  E-value: 1.66e-27
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 119609100  42 RLIVVLEGASLETVKvgktYELLNcdkHKSILL---KNGRDPGEA---------------------RPDITHQSLLMLMD 97
Cdd:COG1756    1 MLKLILAESALELVP----KELWN---HPAVVKnarRRGKRPSEIlldsslhhaamkrlpeaekrgRPDIVHISLLEALE 73

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|
gi 119609100  98 SPLNRAGLLQVYIHTQKNVLIEVNPQTRIPRTFDRFCGLM 137
Cdd:COG1756   74 SPLNKEGKLRVYVHTIDDKVIFVGPETRIPKNYNRFVGLM 113
PRK04171 PRK04171
16S rRNA (pseudouridine)(914)-N(1))-methyltransferase Nep1;
42-137 2.09e-26

16S rRNA (pseudouridine)(914)-N(1))-methyltransferase Nep1;


Pssm-ID: 235238  Cd Length: 222  Bit Score: 98.42  E-value: 2.09e-26
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 119609100  42 RLIVVLEGASLETV---------------KVGKTYE--LLNCDKHKSIL--LKNGRDPGeaRPDITHQSLLMLMDSPLNR 102
Cdd:PRK04171   1 MLNLVLAESALELVpreiwnhpavvknarRRGKKPEemLLDSSLHYHAMkkLEDKEKRG--RPDIVHISLLVALDSPLNK 78

                         90       100       110
                 ....*....|....*....|....*....|....*
gi 119609100 103 AGLLQVYIHTQKNVLIEVNPQTRIPRTFDRFCGLM 137
Cdd:PRK04171  79 EGKLRVYIHTRDDKVIYVNPETRLPKNYNRFVGLM 113
 
Name Accession Description Interval E-value
Nep1-like cd18088
18S rRNA (pseudouridine(1248)-N1)-methyltransferase Nep1; 18S rRNA (pseudouridine(1248)-N1) ...
 43-139 6.22e-65

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: 196.21  E-value: 6.22e-65
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 119609100  43 LIVVLEGASLETVKVG----KTYELLNCDKHKSILLKNGRDPGEARPDITHQSLLMLMDSPLNRAGLLQVYIHTQKNVLI 118
Cdd:cd18088    1 LIVVLEEASLELVPVEiwkkPKYELLNSDDHHNAMKKLKRDPKRGRPDIVHQCLLALLDSPLNKAGLLQVYIHTYNNVLI 80

                         90       100
                 ....*....|....*....|.
gi 119609100 119 EVNPQTRIPRTFDRFCGLMGK 139
Cdd:cd18088   81 EVNPQTRIPRTYKRFCGLMVQ 101
EMG1 pfam03587
EMG1/NEP1 methyltransferase; Members of this family are essential for 40S ribosomal biogenesis. ...
 45-137 1.01e-59

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: 183.13  E-value: 1.01e-59
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 119609100   45 VVLEGASLETVKVG--------KTYELLNCDKHKSILLKNGRDPGEARPDITHQSLLMLMDSPLNRAGLLQVYIHTQKNV 116
Cdd:pfam03587   1 VVLEEASLELVPVEirsrrgkkPSYELLDSDDHYHAMKKLKRDPKRGRPDIVHQCLLALLDSPLNKAGLLQVYIHTEDGV 80

                          90       100
                  ....*....|....*....|.
gi 119609100  117 LIEVNPQTRIPRTFDRFCGLM 137
Cdd:pfam03587  81 LIEVNPETRIPRTYKRFAGLM 101
Emg1 COG1756
rRNA pseudouridine-1189 N-methylase Emg1, Nep1/Mra1 family [Translation, ribosomal structure ...
 42-137 1.66e-27

rRNA pseudouridine-1189 N-methylase Emg1, Nep1/Mra1 family [Translation, ribosomal structure and biogenesis];


Pssm-ID: 441362  Cd Length: 224  Bit Score: 101.47  E-value: 1.66e-27
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 119609100  42 RLIVVLEGASLETVKvgktYELLNcdkHKSILL---KNGRDPGEA---------------------RPDITHQSLLMLMD 97
Cdd:COG1756    1 MLKLILAESALELVP----KELWN---HPAVVKnarRRGKRPSEIlldsslhhaamkrlpeaekrgRPDIVHISLLEALE 73

                         90       100       110       120
                 ....*....|....*....|....*....|....*....|
gi 119609100  98 SPLNRAGLLQVYIHTQKNVLIEVNPQTRIPRTFDRFCGLM 137
Cdd:COG1756   74 SPLNKEGKLRVYVHTIDDKVIFVGPETRIPKNYNRFVGLM 113
PRK04171 PRK04171
16S rRNA (pseudouridine)(914)-N(1))-methyltransferase Nep1;
42-137 2.09e-26

16S rRNA (pseudouridine)(914)-N(1))-methyltransferase Nep1;


Pssm-ID: 235238  Cd Length: 222  Bit Score: 98.42  E-value: 2.09e-26
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 119609100  42 RLIVVLEGASLETV---------------KVGKTYE--LLNCDKHKSIL--LKNGRDPGeaRPDITHQSLLMLMDSPLNR 102
Cdd:PRK04171   1 MLNLVLAESALELVpreiwnhpavvknarRRGKKPEemLLDSSLHYHAMkkLEDKEKRG--RPDIVHISLLVALDSPLNK 78

                         90       100       110
                 ....*....|....*....|....*....|....*
gi 119609100 103 AGLLQVYIHTQKNVLIEVNPQTRIPRTFDRFCGLM 137
Cdd:PRK04171  79 EGKLRVYIHTRDDKVIYVNPETRLPKNYNRFVGLM 113
 
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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