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S-adenosyl-L-methionine + pseudouridine1191 in yeast 18S rRNA
S-adenosyl-L-homocysteine + N1-methylpseudouridine1191 in yeast 18S rRNA
additional information
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S-adenosyl-L-methionine + pseudouridine1191 in yeast 18S rRNA

S-adenosyl-L-homocysteine + N1-methylpseudouridine1191 in yeast 18S rRNA
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S-adenosyl-L-methionine + pseudouridine1191 in yeast 18S rRNA
S-adenosyl-L-homocysteine + N1-methylpseudouridine1191 in yeast 18S rRNA
S-adenosyl-L-methionine binding structure, overview
S-adenosyl-L-homocysteine binding structure, overview
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S-adenosyl-L-methionine + pseudouridine1191 in yeast 18S rRNA
S-adenosyl-L-homocysteine + N1-methylpseudouridine1191 in yeast 18S rRNA
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S-adenosyl-L-methionine + pseudouridine1191 in yeast 18S rRNA
S-adenosyl-L-homocysteine + N1-methylpseudouridine1191 in yeast 18S rRNA
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RNA-oligonucleotides corresponding to nucleotides 1245-1255 of human 18S rRNA and containing pseudouridine (5'-GACWCAACACG-3') at position 1248. This position corresponds to nucleotide 914 of Methanocaldococcus jannaschii 16S rRNA and to nt 1191 of yeast 18S rRNA
product identification by MALDI-mass spectrometrical analysis
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S-adenosyl-L-methionine + pseudouridine1191 in yeast 18S rRNA
S-adenosyl-L-homocysteine + N1-methylpseudouridine1191 in yeast 18S rRNA
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S-adenosyl-L-methionine + pseudouridine1191 in yeast 18S rRNA
S-adenosyl-L-homocysteine + N1-methylpseudouridine1191 in yeast 18S rRNA
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S-adenosyl-L-methionine + pseudouridine1191 in yeast 18S rRNA
S-adenosyl-L-homocysteine + N1-methylpseudouridine1191 in yeast 18S rRNA
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product identification by 1H-NMR-spectroscopy
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S-adenosyl-L-methionine + pseudouridine1191 in yeast 18S rRNA
S-adenosyl-L-homocysteine + N1-methylpseudouridine1191 in yeast 18S rRNA
S-adenosyl-L-methionine binding site structure, overview
S-adenosyl-L-homocysteine binds to Nep1 at a preformed binding site that is topologically equivalent to the cofactor binding site in other SPOUT-class methyltransferases, intermolecular interactions, overview
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S-adenosyl-L-methionine + pseudouridine1191 in yeast 18S rRNA
S-adenosyl-L-homocysteine + N1-methylpseudouridine1191 in yeast 18S rRNA
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S-adenosyl-L-methionine + pseudouridine1191 in yeast 18S rRNA
S-adenosyl-L-homocysteine + N1-methylpseudouridine1191 in yeast 18S rRNA
S-adenosyl-L-methionine binding site structure, overview
S-adenosyl-L-homocysteine binds to Nep1 at a preformed binding site that is topologically equivalent to the cofactor binding site in other SPOUT-class methyltransferases, intermolecular interactions, overview
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S-adenosyl-L-methionine + pseudouridine1191 in yeast 18S rRNA
S-adenosyl-L-homocysteine + N1-methylpseudouridine1191 in yeast 18S rRNA
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S-adenosyl-L-methionine + pseudouridine1191 in yeast 18S rRNA
S-adenosyl-L-homocysteine + N1-methylpseudouridine1191 in yeast 18S rRNA
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Nep1 catalyzes the psi1191 methylation in vivo. The in vivo target site for Nep1-catalyzed methylation is located within loop 35 of the 18S rRNA that contains the unique hypermodification of U1191 to 1-methyl-3-(3-amino-3-carboxypropyl)-pseudouridine
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S-adenosyl-L-methionine + pseudouridine1191 in yeast 18S rRNA
S-adenosyl-L-homocysteine + N1-methylpseudouridine1191 in yeast 18S rRNA
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S-adenosyl-L-methionine binding structure, overview
S-adenosyl-L-homocysteine binding structure, overview
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S-adenosyl-L-methionine + pseudouridine1191 in yeast 18S rRNA
S-adenosyl-L-homocysteine + N1-methylpseudouridine1191 in yeast 18S rRNA
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additional information

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RNA-binding specificity by in vitro using fluorescence quenching assays and yeast three-hybrid screening. Identification of the binding site for methylation target RNAs by NMR-spectroscopy, overview
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additional information
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the Methanocaldococcus jannaschii Nep1 binds to the Saccharomyces cerevisiae Nep1 RNA consensus sequence 5'-UUCAAC-3' in the Methanocaldococcus jannaschii 16S rRNA. The region of Methanocaldococcus jannaschii 16S rRNA is equivalent to nt 1190-1195 in yeast 18S rRNA including the m1acp3-psi nucleotide at position 1191. And binding of MjNep1 to a 6mer RNA containing the consensus sequence 5'-UUCAAC-3'. Even a 5'-truncated RNA lacking the first uridine of the consensus sequence is bound with comparable affinity. RNA-binding specificity by in vitro using fluorescence quenching assays and yeast three-hybrid screening. Identification of the binding site for methylation target RNAs by NMR-spectroscopy, overview
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additional information
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Nep1 target site identification by mass spectrometry, isotope-labeling, and fluorescence anisotropy measurements
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S-adenosyl-L-methionine + pseudouridine1191 in yeast 18S rRNA
S-adenosyl-L-homocysteine + N1-methylpseudouridine1191 in yeast 18S rRNA
additional information
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Nep1 target site identification by mass spectrometry, isotope-labeling, and fluorescence anisotropy measurements
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S-adenosyl-L-methionine + pseudouridine1191 in yeast 18S rRNA

S-adenosyl-L-homocysteine + N1-methylpseudouridine1191 in yeast 18S rRNA
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S-adenosyl-L-methionine + pseudouridine1191 in yeast 18S rRNA
S-adenosyl-L-homocysteine + N1-methylpseudouridine1191 in yeast 18S rRNA
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S-adenosyl-L-methionine + pseudouridine1191 in yeast 18S rRNA
S-adenosyl-L-homocysteine + N1-methylpseudouridine1191 in yeast 18S rRNA
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S-adenosyl-L-methionine + pseudouridine1191 in yeast 18S rRNA
S-adenosyl-L-homocysteine + N1-methylpseudouridine1191 in yeast 18S rRNA
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S-adenosyl-L-methionine + pseudouridine1191 in yeast 18S rRNA
S-adenosyl-L-homocysteine + N1-methylpseudouridine1191 in yeast 18S rRNA
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S-adenosyl-L-methionine + pseudouridine1191 in yeast 18S rRNA
S-adenosyl-L-homocysteine + N1-methylpseudouridine1191 in yeast 18S rRNA
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S-adenosyl-L-methionine + pseudouridine1191 in yeast 18S rRNA
S-adenosyl-L-homocysteine + N1-methylpseudouridine1191 in yeast 18S rRNA
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Nep1 catalyzes the psi1191 methylation in vivo. The in vivo target site for Nep1-catalyzed methylation is located within loop 35 of the 18S rRNA that contains the unique hypermodification of U1191 to 1-methyl-3-(3-amino-3-carboxypropyl)-pseudouridine
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S-adenosyl-L-methionine + pseudouridine1191 in yeast 18S rRNA
S-adenosyl-L-homocysteine + N1-methylpseudouridine1191 in yeast 18S rRNA
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evolution

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Nep1 belongs to the SPOUT-class RNA methyltransferases, Nep1 subfamily
evolution
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Nep1 belongs to the SPOUT-class RNA methyltransferases, Nep1 subfamily
evolution
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Nep1 is a member of the SPOUT-family of methyltransferases
evolution
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Nep1 is a member of the SPOUT-family of methyltransferases
malfunction

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a temperature-sensitive ScNEP1ts1 allele is isolated and reveals a strongly increased sensitivity to paromomycin, a translational inhibitor which binds to RNA, indicating that ribosome biogenesis within the nucleolus is probably affected. Candida albicans and human NEP1 heterologously complement the essential phenotype in a Saccharomyces cerevisiae nep1 deletion mutant, the ScNEP1 spindle/microtubule phenotype is not found with HsNEP1 and CaNEP1
malfunction
addition of SAM to the medium restores growth at elevated temperatures in yeast with temperature sensitive mutants of the yeast Nep1 protein
malfunction
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lethal phenotype of a DELTAnep1 deletion, deletions in ribosome quality and functional control genes lead to DELTAnep1 growth deficiency. Except for DELTArps18b, deletions in the identified ribosome biogenesis genes are synthetically lethal with DELTAnep1. The DELTAutp30 deletion itself has no phenotype but it enforces all nep1-1ts mutant phenotypes, utp30 overexpression partially restores the nep1-1ts growth deficiency
malfunction
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mutations in Nep1 result in decreased methyl donor binding, but do not result in lethality
malfunction
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Nep1 mutation D86G causes the Bowen-Conradi syndrome, BCS, that results in severe pre and postnatal growth and psychomotor retardation, microcephaly, micrognathia, rocker bottom feet and early childhood death, overview. Human HsNep1D86G protein shows a strongly increased interaction of the monomers
malfunction
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restored growth of a nep1-1ts mutant upon addition of S-adenosylmethionine also after preventing U1191 methylation in a DElTAsnr35 mutant. Nep1 methyltransferase activity is not affected upon introduction of the Bowen-Conradi syndrome, BCS, D86G mutation. Instead, the mutated protein shows enhanced dimerization propensity and increased affinity for its RNA-target in vitro
malfunction
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a temperature-sensitive ScNEP1ts1 allele is isolated and reveals a strongly increased sensitivity to paromomycin, a translational inhibitor which binds to RNA, indicating that ribosome biogenesis within the nucleolus is probably affected. Candida albicans and human NEP1 heterologously complement the essential phenotype in a Saccharomyces cerevisiae nep1 deletion mutant, the ScNEP1 spindle/microtubule phenotype is not found with HsNEP1 and CaNEP1
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malfunction
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addition of SAM to the medium restores growth at elevated temperatures in yeast with temperature sensitive mutants of the yeast Nep1 protein
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metabolism

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Nep1 interacting genes correspond to ribosome biogenesis, i.e. RPS18A, RPS18B, RRP8, EFG1, UTP30, to ribosome quality control, i.e. UBP3, BRE5, UBP6, and to ribosome functional control, i.e. DOM34, no-go decay
metabolism
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replacement of U1191 by any other base caused significant growth deficiencies
physiological function

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MjNep1 binds its RNA target along an extended basic surface cleft at the dimer interface that involves both insertions to the SPOUT-class core fold in an orientation consistent with the proposed methylation of nt 914 in Methanocaldococcus jannaschii 16S rRNA
physiological function
Nep1 is a genuine rRNA methyltransferase and is essential for ribosome biogenesis
physiological function
Nep1 is a SPOUT RNA methyltransferase, and can catalyze methylation at the N1 of pseudouridine, it is required for 18S rRNA maturation. Nep1 is also involved in assembly of Rps19, an SSU ribosomal protein. Functional mechanism of Nep1/Emg1 N1-specific pseudouridine methyltransferase in ribosome biogenesis, structure-function relationship, overview
physiological function
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Nep1 is a SPOUT RNA methyltransferase, and can catalyze methylation at the N1 of pseudouridine, it is required for 18S rRNA maturation. Nep1 is also involved in assembly of Rps19, an SSU ribosomal protein. Functional mechanism of Nep1/Emg1 N1-specific pseudouridine methyltransferase in ribosome biogenesis, structure-function relationship, overview. Nep1 recognizes its RNA site via base-specific interactions and stabilizes a stem-loop in the bound RNA. Nep1 changes rRNA structure upon binding, a uridine base is bound in the active site of Nep1, positioned for a methyltransfer at the C5 position
physiological function
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Nep1 is essential for psi119 pseudouridine methylation, but is not required for acp-modification. Nep1 has a dual function, as psi1191-methyltransferase and ribosome assembly factor
physiological function
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the nucleolar essential protein Nep1 is an important trans-acting factor in the 90S preribosome. Nep1 methylates the hypermodified psi1191 base of 18S rRNA and has an additional essential function during ribosome biogenesis, i.e. in 40S subunit synthesis. Utp30 and Nep1 act together during pre-ribosomal complex formation and, along with Rps18, provide the surface for the Rps19 assembly to the 90S pre-ribosome
physiological function
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the rRNA modifications are thought to play a role in modulation of the three-dimensional structure of RNA and in fine-tuning its interactions with other RNAs or proteins
physiological function
the rRNA modifications are thought to play a role in modulation of the three-dimensional structure of RNA and in fine-tuning its interactions with other RNAs or proteins
physiological function
the rRNA modifications are thought to play a role in modulation of the three-dimensional structure of RNA and in fine-tuning its interactions with other RNAs or proteins
physiological function
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the rRNA modifications are thought to play a role in modulation of the three-dimensional structure of RNA and in fine-tuning its interactions with other RNAs or proteins. The protein has an essential function in ribosomal biogenesis which directly or indirectly interferes with a methylation reaction during the early steps of pre-rRNA processing necessary for the generation of 40S ribosomal subunits
physiological function
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the rRNA modifications are thought to play a role in modulation of the three-dimensional structure of RNA and in fine-tuning its interactions with other RNAs or proteins
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physiological function
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the rRNA modifications are thought to play a role in modulation of the three-dimensional structure of RNA and in fine-tuning its interactions with other RNAs or proteins. The protein has an essential function in ribosomal biogenesis which directly or indirectly interferes with a methylation reaction during the early steps of pre-rRNA processing necessary for the generation of 40S ribosomal subunits
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physiological function
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Nep1 is a genuine rRNA methyltransferase and is essential for ribosome biogenesis
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physiological function
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the rRNA modifications are thought to play a role in modulation of the three-dimensional structure of RNA and in fine-tuning its interactions with other RNAs or proteins
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additional information

active site structure and ligand binding, overview
additional information
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active site structure of scNep1, overview
additional information
Candida albicans NEP1 heterologously complements the essential phenotype in a Saccharomyces cerevisiae nep1 deletion mutant
additional information
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Candida albicans NEP1 heterologously complements the essential phenotype in a Saccharomyces cerevisiae nep1 deletion mutant
additional information
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genome-wide yeast screen to uncover synthetic interactions of DELTAnep1
additional information
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human NEP1 heterologously complements the essential phenotype in a Saccharomyces cerevisiae nep1 deletion mutant
additional information
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active site structure and ligand binding, overview
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additional information
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Candida albicans NEP1 heterologously complements the essential phenotype in a Saccharomyces cerevisiae nep1 deletion mutant
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Please wait a moment until the data is sorted. This message will disappear when the data is sorted.
NEP1_YEAST
Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
252
0
27895
Swiss-Prot
other Location (Reliability: 2)
A0A0Y9VN91_PLABE
231
0
26791
TrEMBL
other Location (Reliability: 1)
A0A077Y4L1_PLAYE
232
0
26965
TrEMBL
other Location (Reliability: 1)
A0A2P6RTL3_ROSCH
55
0
6430
TrEMBL
other Location (Reliability: 3)
A0A422PN61_9TRYP
272
0
28764
TrEMBL
Mitochondrion (Reliability: 5)
A0A1Z5JI76_FISSO
274
0
30291
TrEMBL
other Location (Reliability: 1)
A0A1C3KP59_9APIC
230
0
26621
TrEMBL
other Location (Reliability: 1)
A0A8B6CCF9_MYTGA
225
0
25067
TrEMBL
other Location (Reliability: 3)
A0A084G8F1_PSEDA
125
0
13879
TrEMBL
Mitochondrion (Reliability: 5)
A0A1A8VQU9_PLAMA
230
0
26722
TrEMBL
other Location (Reliability: 1)
A0A5B7AMM9_DAVIN
276
0
31221
TrEMBL
other Location (Reliability: 3)
A0A077TMT0_PLACH
231
0
26854
TrEMBL
other Location (Reliability: 1)
A0A6J8BLN5_MYTCO
225
0
25097
TrEMBL
other Location (Reliability: 3)
A0A1G4GTG1_PLAVI
231
0
26683
TrEMBL
other Location (Reliability: 1)
A0A0J9E9X7_9RHOB
315
0
33792
TrEMBL
-
A0A2P6QY71_ROSCH
114
0
12166
TrEMBL
other Location (Reliability: 2)
A0A0F8AZD1_CERFI
261
0
29067
TrEMBL
other Location (Reliability: 5)
A0A422QBX5_9TRYP
263
0
29765
TrEMBL
other Location (Reliability: 4)
A0A1L3LHH8_9HYPH
338
0
36652
TrEMBL
-
A0A1L3KZ32_9HYPH
338
0
36610
TrEMBL
-
A0A8J5B480_9ASCO
258
0
28835
TrEMBL
other Location (Reliability: 1)
A0A1C3KLP1_PLAMA
230
0
26740
TrEMBL
other Location (Reliability: 1)
A0A5K1UNI0_PLAKH
231
0
26755
TrEMBL
other Location (Reliability: 1)
A0A8J8WJJ2_9EURO
257
0
28570
TrEMBL
other Location (Reliability: 3)
A0A384KSP2_PLAKH
231
0
26755
TrEMBL
other Location (Reliability: 1)
A0A422NAI1_TRYRA
292
0
31199
TrEMBL
other Location (Reliability: 5)
A0A3R7KPC0_TRYRA
273
0
30704
TrEMBL
other Location (Reliability: 3)
A0A1J1H1R2_PLARL
227
0
26452
TrEMBL
other Location (Reliability: 1)
A0A653GWU5_9APIC
229
0
26657
TrEMBL
other Location (Reliability: 1)
A0A1C6XKY8_PLACH
231
0
26854
TrEMBL
other Location (Reliability: 1)
A0A8K1DDA2_9ARCH
222
0
25130
TrEMBL
-
A0A2S5BBH5_9BASI
316
0
33424
TrEMBL
other Location (Reliability: 2)
A0A1D3KXY0_9APIC
229
0
26477
TrEMBL
other Location (Reliability: 1)
W1QJ52_OGAPD
Ogataea parapolymorpha (strain ATCC 26012 / BCRC 20466 / JCM 22074 / NRRL Y-7560 / DL-1)
256
0
28175
TrEMBL
other Location (Reliability: 2)
A0A8J5B6X1_9ASCO
258
0
28835
TrEMBL
other Location (Reliability: 1)
Q8IB49_PLAF7
279
0
32757
TrEMBL
other Location (Reliability: 1)
A0A812DF85_SEPPH
170
1
18990
TrEMBL
Secretory Pathway (Reliability: 1)
A0A1Z5KB49_FISSO
275
0
30505
TrEMBL
other Location (Reliability: 1)
A0A3G2S0G5_9BASI
364
0
39977
TrEMBL
other Location (Reliability: 1)
A0A7R8CPT4_LEPSM
154
0
16957
TrEMBL
other Location (Reliability: 3)