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Information on EC 2.1.1.220 - tRNA (adenine58-N1)-methyltransferase and Organism(s) Saccharomyces cerevisiae and UniProt Accession P46959

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EC Tree
     2 Transferases
         2.1 Transferring one-carbon groups
             2.1.1 Methyltransferases
                2.1.1.220 tRNA (adenine58-N1)-methyltransferase
IUBMB Comments
The enzyme specifically methylates adenine58 in tRNA. The methylation of A58 is critical for maintaining the stability of initiator tRNAMet in yeast .
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This record set is specific for:
Saccharomyces cerevisiae
UNIPROT: P46959 not found.
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Word Map
The taxonomic range for the selected organisms is: Saccharomyces cerevisiae
The expected taxonomic range for this enzyme is: Eukaryota, Bacteria, Archaea
Reaction Schemes
Synonyms
gcd14p, gcd10p, rv2118c, trna m(1)a58 methyltransferase, rv2118p, trm61p, trm6p, trm6-trm61 holoenzyme, trna (m1a58) methyltransferase, m1a58 trna methyltransferase, more
SYNONYM
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
Gcd10p
P46959; P41814
non-catalytic subunit
Gcd10p-Gcd14p
P46959; P41814
-
Gcd10pyGcd14p complex
P46959; P41814
-
Gcd14p
P46959; P41814
catalytic subunit
m1A58 MTase
m1A58 tRNA methyl-transferase
P41814; P46959
-
TRM6-TRM61 holoenzyme
P41814; P46959
-
tRNA m(1)A58 methyltransferase
P41814; P46959
-
tRNA m1A58 methyltransferase
-
-
two component m1A58 tRNA methyl-transferase
P41814; P46959
-
REACTION
REACTION DIAGRAM
COMMENTARY hide
ORGANISM
UNIPROT
LITERATURE
S-adenosyl-L-methionine + adenine58 in tRNA = S-adenosyl-L-homocysteine + N1-methyladenine58 in tRNA
show the reaction diagram
TRM61 is the subunit that binds S-adenosyl-l-methionine and both subunits contribute to target tRNA binding, catalytic mechanism, overview
-
PATHWAY SOURCE
PATHWAYS
-
-
SYSTEMATIC NAME
IUBMB Comments
S-adenosyl-L-methionine:tRNA (adenine58-N1)-methyltransferase
The enzyme specifically methylates adenine58 in tRNA. The methylation of A58 is critical for maintaining the stability of initiator tRNAMet in yeast [3].
SUBSTRATE
PRODUCT                       
REACTION DIAGRAM
ORGANISM
UNIPROT
COMMENTARY
(Substrate) hide
LITERATURE
(Substrate)
COMMENTARY
(Product) hide
LITERATURE
(Product)
Reversibility
r=reversible
ir=irreversible
?=not specified
2 S-adenosyl-L-methionine + adenine58 in tRNA
2 S-adenosyl-L-homocysteine + N1-methyladenine58 in tRNA
show the reaction diagram
P41814; P46959
-
-
-
?
2 S-adenosyl-L-methionine + adenine58 in tRNALys3
2 S-adenosyl-L-homocysteine + N1-methyladenine58 in tRNALys3
show the reaction diagram
P41814; P46959
-
-
-
?
S-adenosyl-L-methionine + adenine58 in initiator tRNAMet
S-adenosyl-L-homocysteine + N1-methyladenine58 in initiator tRNAMet
show the reaction diagram
S-adenosyl-L-methionine + adenine58 in tRNA
S-adenosyl-L-homocysteine + N1-methyladenine58 in tRNA
show the reaction diagram
NATURAL SUBSTRATE
NATURAL PRODUCT
REACTION DIAGRAM
ORGANISM
UNIPROT
COMMENTARY
(Substrate) hide
LITERATURE
(Substrate)
COMMENTARY
(Product) hide
LITERATURE
(Product)
REVERSIBILITY
r=reversible
ir=irreversible
?=not specified
2 S-adenosyl-L-methionine + adenine58 in tRNA
2 S-adenosyl-L-homocysteine + N1-methyladenine58 in tRNA
show the reaction diagram
P41814; P46959
-
-
-
?
2 S-adenosyl-L-methionine + adenine58 in tRNALys3
2 S-adenosyl-L-homocysteine + N1-methyladenine58 in tRNALys3
show the reaction diagram
P41814; P46959
-
-
-
?
S-adenosyl-L-methionine + adenine58 in initiator tRNAMet
S-adenosyl-L-homocysteine + N1-methyladenine58 in initiator tRNAMet
show the reaction diagram
S-adenosyl-L-methionine + adenine58 in tRNA
S-adenosyl-L-homocysteine + N1-methyladenine58 in tRNA
show the reaction diagram
COFACTOR
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
IMAGE
S-adenosyl-L-methionine
KM VALUE [mM]
SUBSTRATE
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
IMAGE
0.0000025
adenine58 in initiator tRNAMet
P46959; P41814
pH 8.0, 30°C, purified FlagGcd10pyGcd14p complex
-
0.005
S-adenosyl-L-methionine
P46959; P41814
pH 8.0, 30°C, purified FlagGcd10pyGcd14p complex
additional information
additional information
-
pH OPTIMUM
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
TEMPERATURE OPTIMUM
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
30
P46959; P41814
assay at
ORGANISM
COMMENTARY hide
LITERATURE
UNIPROT
SEQUENCE DB
SOURCE
LOCALIZATION
ORGANISM
UNIPROT
COMMENTARY hide
GeneOntology No.
LITERATURE
SOURCE
P41814; P46959
two subunits Trm6-Trm61
Manually annotated by BRENDA team
P41814; P46959
only subunit Trm61
Manually annotated by BRENDA team
GENERAL INFORMATION
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
evolution
malfunction
metabolism
P41814; P46959
in cytosolic (cyt) tRNA, the m1A modification occurs at five different positions (9, 14, 22, 57, and 58), two of which (9 and 58) are also found in mitochondrial tRNAs. In some cases, these modifications have been shown to increase tRNA structural stability and induce correct tRNA folding. Two enzyme families are responsible for formation of m1A at nucleotide position 9 and 58 in tRNA, tRNA binding, m1A mechanism, protein domain organisation and overall structures
physiological function
additional information
UNIPROT
ENTRY NAME
ORGANISM
NO. OF AA
NO. OF TRANSM. HELICES
MOLECULAR WEIGHT[Da]
SOURCE
SEQUENCE
LOCALIZATION PREDICTION?
A0A8H4FC47_YEASX
383
0
43920
TrEMBL
other Location (Reliability: 1)
SUBUNIT
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
heterodimer
P41814; P46959
TRM6 and TRM61 form a compact complex via numerous hydrogen bonding and extensive hydrophobic interactions. The heterodimer interface of TRM6-TRM61 buries 3194 A2 of TRM6 and 3167 A2 of TRM61 solvent-accessible area, which represents about 17% and 16% of TRM6 and TRM61's total surface area, respectively. TRM6 mainly interacts with TRM61 through four major sites. Interaction analyses for sites A-C, detailed overview
heterotetramer
tetramer
-
dimers of tightly assembled dimers, interactions and structure analysis, overview
additional information
CRYSTALLIZATION (Commentary)
ORGANISM
UNIPROT
LITERATURE
crystal structure is available for heterotetrameric Trm6-Trm61A complex from Saccharomyces cerevisiae
P41814; P46959
purified recombinant His-tagged TRM6-TRM61 complex, from 0.1 M KCl, 0.1 M Tris-HCl, pH 8.0, 25% w/v PEG 2000 MME, X-ray diffraction structure determination and analysis at 2.8 A resolution, molecular replacement
-
purified recombinant wild-type and selenomethionine-labeled holoenzyme in apoform and complexed with S-adenosyl-L-methionine (SAM), mixing of 15 mg/ml protein in 20 mM Tris-HCl, pH 8.0, 300 mM NaCl, and 5 mM DTT, with a three-fold molecular excess of S-adenosyl-L-methionine, sitting drop vapour diffusion method, with the mother liquor containing 0.1 M HEPES, PH 7.5, 2% v/v 2-methyl-2,4-pentanediol, 10% w/v PEG 6000, 3 days X-ray diffraction structure determination and analysis
P41814; P46959
PROTEIN VARIANTS
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
additional information
PURIFICATION (Commentary)
ORGANISM
UNIPROT
LITERATURE
recombinant His-tagged TRM6 and TRM61 from Escherichia coli strain Rosetta (DE3) by nickel affinity chromatography and gel filtration
-
recombinant wild-type and selenomethionine-labeled His-tagged subunits Trm6 and Trm61 from Escherichia coli by nickel affinity chromatography and gel filtration
P41814; P46959
CLONED (Commentary)
ORGANISM
UNIPROT
LITERATURE
genes GCD10 and GCD14 encoding TRM6 and TRM61, expression of His-tagged proteins in Escherichia coli strain Rosetta (DE3)
-
genes GCD10 and GCD14, recombinant co-expression of wild-type and selenomethionine-labeled His-tagged subunits in Escherichia coli
P41814; P46959
REF.
AUTHORS
TITLE
JOURNAL
VOL.
PAGES
YEAR
ORGANISM (UNIPROT)
PUBMED ID
SOURCE
Anderson, J.; Phan, L.; Hinnebusch, A.G.
The Gcd10p/Gcd14p complex is the essential two-subunit tRNA(1-methyladenosine) methyltransferase of Saccharomyces cerevisiae
Proc. Natl. Acad. Sci. USA
97
5173-5178
2000
Saccharomyces cerevisiae (P46959 and P41814), Saccharomyces cerevisiae
Manually annotated by BRENDA team
Anderson, J.; Phan, L.; Cuesta, R.; Carlson, B.A.; Pak, M.; Asano, K.; Bjrk, G.R.; Tamame, M.; Hinnebusch, A.G.
The essential Gcd10p-Gcd14p nuclear complex is required for 1-methyladenosine modification and maturation of initiator methionyl-tRNA
Genes Dev.
12
3650-3662
1998
Saccharomyces cerevisiae (P46959 and P41814), Saccharomyces cerevisiae
Manually annotated by BRENDA team
Ozanick, S.G.
Bujnicki, J.M.; Sem, D.S.; Anderson, J.T.: Conserved amino acids in each subunit of the heteroligomeric tRNA m1A58 Mtase from Saccharomyces cerevisiae contribute to tRNA binding
Nucleic Acids Res.
35
6808-6819
2007
Saccharomyces cerevisiae (P46959 and P41814), Saccharomyces cerevisiae
Manually annotated by BRENDA team
Qiu, X.; Huang, K.; Ma, J.; Gao, Y.
Crystallization and preliminary X-ray diffraction crystallographic study of tRNA m1A58 methyltransferase from Saccharomyces cerevisiae
Acta Crystallogr. Sect. F
67
1448-1450
2011
Saccharomyces cerevisiae
Manually annotated by BRENDA team
Guelorget, A.; Barraud, P.; Tisne, C.; Golinelli-Pimpaneau, B.
Structural comparison of tRNA m(1)A58 methyltransferases revealed different molecular strategies to maintain their oligomeric architecture under extreme conditions
BMC Struct. Biol.
11
48
2011
Aquifex aeolicus, Homo sapiens, Mycobacterium tuberculosis, Pyrococcus abyssi, Saccharomyces cerevisiae, Thermotoga maritima, Thermus thermophilus
Manually annotated by BRENDA team
Oerum, S.; Degut, C.; Barraud, P.; Tisne, C.
m1A Post-transcriptional modification in tRNAs
Biomolecules
7
20
2017
Homo sapiens (Q9UJA5 AND Q96FX7 AND Q9BVS5), Saccharomyces cerevisiae (P41814 AND P46959), Thermus thermophilus (Q8GBB2)
Manually annotated by BRENDA team
Wang, M.; Zhu, Y.; Wang, C.; Fan, X.; Jiang, X.; Ebrahimi, M.; Qiao, Z.; Niu, L.; Teng, M.; Li, X.
Crystal structure of the two-subunit tRNA m(1)A58 methyltransferase TRM6-TRM61 from Saccharomyces cerevisiae
Sci. Rep.
6
32562
2016
Saccharomyces cerevisiae (P41814 AND P46959), Saccharomyces cerevisiae, Saccharomyces cerevisiae ATCC 204508 (P41814 AND P46959)
Manually annotated by BRENDA team