BRENDA - Enzyme Database show
show all sequences of 2.1.1.202

Identification of direct targets and modified bases of RNA cytosine methyltransferases

Khoddami, V.; Cairns, B.R.; Nat. Biotechnol. 31, 458-464 (2013)

Data extracted from this reference:

Engineering
Amino acid exchange
Commentary
Organism
additional information
siRNA-mediated enzyme knockout in HeLa cells
Homo sapiens
Inhibitors
Inhibitors
Commentary
Organism
Structure
5-aza-2'-deoxycytidine
the catalytic mechanism is disrupted by the suicide inhibitor
Homo sapiens
5-azacytidine
the catalytic mechanism is disrupted by the suicide inhibitor
Homo sapiens
Localization
Localization
Commentary
Organism
GeneOntology No.
Textmining
nucleolus
-
Homo sapiens
5730
-
Natural Substrates/ Products (Substrates)
Natural Substrates
Organism
Commentary (Nat. Sub.)
Natural Products
Commentary (Nat. Pro.)
Organism (Nat. Pro.)
Reversibility
additional information
Homo sapiens
NSUN2 candidate ncRNA targets identified include RNAs with central functions in the processing, folding and modification of other ncRNAs (RPPH1, Y RNA, SCARNA2), RNAs important for protein synthesis and trafficking (5S rRNA and 7SL RNA) and RNAs involved in multidrug resistance and other processes (Vault RNAs). Notably, all of the NSUN2 targets revealed by 5-azacytidine-mediated RNA immunoprecipitation are either transcribed by RNA Pol III in the nucleolus (SCARNA2 excepted), or function in the nucleolus (SCARNA2), where NSUN2 resides
?
-
-
-
S-adenosyl-L-methionine + cytosine34 in tRNALeu precursor
Homo sapiens
-
S-adenosyl-L-homocysteine + 5-methylcytosine34 in tRNALeu precursor
-
-
?
S-adenosyl-L-methionine + cytosine40 in tRNAGly precursor
Homo sapiens
-
S-adenosyl-L-homocysteine + 5-methylcytosine40 in tRNAGly precursor
-
-
?
S-adenosyl-L-methionine + cytosine48 in tRNAAsp precursor
Homo sapiens
-
S-adenosyl-L-homocysteine + 5-methylcytosine48 in tRNAAsp precursor
-
-
?
S-adenosyl-L-methionine + cytosine48 in tRNAGly precursor
Homo sapiens
-
S-adenosyl-L-homocysteine + 5-methylcytosine48 in tRNAGly precursor
-
-
?
S-adenosyl-L-methionine + cytosine49 in tRNAasp precursor
Homo sapiens
-
S-adenosyl-L-homocysteine + 5-methylcytosine49 in tRNAAsp precursor
-
-
?
S-adenosyl-L-methionine + cytosine49 in tRNAGly precursor
Homo sapiens
-
S-adenosyl-L-homocysteine + 5-methylcytosine49 in tRNAGly precursor
-
-
?
S-adenosyl-L-methionine + cytosine50 in tRNAGly precursor
Homo sapiens
-
S-adenosyl-L-homocysteine + 5-methylcytosine50 in tRNAGly precursor
-
-
?
Organism
Organism
Primary Accession No. (UniProt)
Commentary
Textmining
Homo sapiens
-
-
-
Reaction
Reaction
Commentary
Organism
S-adenosyl-L-methionine + cytosine34 in tRNA precursor = S-adenosyl-L-homocysteine + 5-methylcytosine34 in tRNA precursor
the enzyme forms a covalent enzyme-substrate intermediate with its target
Homo sapiens
S-adenosyl-L-methionine + cytosine40 in tRNA precursor = S-adenosyl-L-homocysteine + 5-methylcytosine40 in tRNA precursor
the enzyme forms a covalent enzyme-substrate intermediate with its target
Homo sapiens
S-adenosyl-L-methionine + cytosine48 in tRNA = S-adenosyl-L-homocysteine + 5-methylcytosine48 in tRNA
the enzyme forms a covalent enzyme-substrate intermediate with its target
Homo sapiens
S-adenosyl-L-methionine + cytosine49 in tRNA = S-adenosyl-L-homocysteine + 5-methylcytosine49 in tRNA
the enzyme forms a covalent enzyme-substrate intermediate with its target
Homo sapiens
Source Tissue
Source Tissue
Commentary
Organism
Textmining
HeLa cell
-
Homo sapiens
-
Substrates and Products (Substrate)
Substrates
Commentary Substrates
Literature (Substrates)
Organism
Products
Commentary (Products)
Literature (Products)
Organism (Products)
Reversibility
additional information
NSUN2 candidate ncRNA targets identified include RNAs with central functions in the processing, folding and modification of other ncRNAs (RPPH1, Y RNA, SCARNA2), RNAs important for protein synthesis and trafficking (5S rRNA and 7SL RNA) and RNAs involved in multidrug resistance and other processes (Vault RNAs). Notably, all of the NSUN2 targets revealed by 5-azacytidine-mediated RNA immunoprecipitation are either transcribed by RNA Pol III in the nucleolus (SCARNA2 excepted), or function in the nucleolus (SCARNA2), where NSUN2 resides
736856
Homo sapiens
?
-
-
-
-
additional information
development and evaluation of 5-azacytidine-mediated RNA immunoprecipitation, a mechanism-based technique in nine steps that exploits the covalent bond formed between an RNA methyltransferase and the cytidine analogue 5-azacytidine to recover RNA targets by immunoprecipitation, overview. The method enables over 200fold enrichment of tRNAs that are known targets of the enzyme revealing many tRNA and non-coding RNA targets not previously associated with NSUN2. High frequency of C>G transversions at the cytosine residues targeted by the enzyme, allowing identification of the specific methylated cytosine(s) in target RNAs. tRNAGly(GCC), bears four NSUN2 target sites (C40, 48, 49 and 50)
736856
Homo sapiens
?
-
-
-
-
S-adenosyl-L-methionine + cytosine34 in tRNALeu precursor
-
736856
Homo sapiens
S-adenosyl-L-homocysteine + 5-methylcytosine34 in tRNALeu precursor
-
-
-
?
S-adenosyl-L-methionine + cytosine40 in tRNAGly precursor
-
736856
Homo sapiens
S-adenosyl-L-homocysteine + 5-methylcytosine40 in tRNAGly precursor
-
-
-
?
S-adenosyl-L-methionine + cytosine48 in tRNAAsp precursor
-
736856
Homo sapiens
S-adenosyl-L-homocysteine + 5-methylcytosine48 in tRNAAsp precursor
-
-
-
?
S-adenosyl-L-methionine + cytosine48 in tRNAGly precursor
-
736856
Homo sapiens
S-adenosyl-L-homocysteine + 5-methylcytosine48 in tRNAGly precursor
-
-
-
?
S-adenosyl-L-methionine + cytosine49 in tRNAasp precursor
-
736856
Homo sapiens
S-adenosyl-L-homocysteine + 5-methylcytosine49 in tRNAAsp precursor
-
-
-
?
S-adenosyl-L-methionine + cytosine49 in tRNAGly precursor
-
736856
Homo sapiens
S-adenosyl-L-homocysteine + 5-methylcytosine49 in tRNAGly precursor
-
-
-
?
S-adenosyl-L-methionine + cytosine50 in tRNAGly precursor
-
736856
Homo sapiens
S-adenosyl-L-homocysteine + 5-methylcytosine50 in tRNAGly precursor
-
-
-
?
Cofactor
Cofactor
Commentary
Organism
Structure
S-adenosyl-L-methionine
-
Homo sapiens
Cofactor (protein specific)
Cofactor
Commentary
Organism
Structure
S-adenosyl-L-methionine
-
Homo sapiens
Engineering (protein specific)
Amino acid exchange
Commentary
Organism
additional information
siRNA-mediated enzyme knockout in HeLa cells
Homo sapiens
Inhibitors (protein specific)
Inhibitors
Commentary
Organism
Structure
5-aza-2'-deoxycytidine
the catalytic mechanism is disrupted by the suicide inhibitor
Homo sapiens
5-azacytidine
the catalytic mechanism is disrupted by the suicide inhibitor
Homo sapiens
Localization (protein specific)
Localization
Commentary
Organism
GeneOntology No.
Textmining
nucleolus
-
Homo sapiens
5730
-
Natural Substrates/ Products (Substrates) (protein specific)
Natural Substrates
Organism
Commentary (Nat. Sub.)
Natural Products
Commentary (Nat. Pro.)
Organism (Nat. Pro.)
Reversibility
additional information
Homo sapiens
NSUN2 candidate ncRNA targets identified include RNAs with central functions in the processing, folding and modification of other ncRNAs (RPPH1, Y RNA, SCARNA2), RNAs important for protein synthesis and trafficking (5S rRNA and 7SL RNA) and RNAs involved in multidrug resistance and other processes (Vault RNAs). Notably, all of the NSUN2 targets revealed by 5-azacytidine-mediated RNA immunoprecipitation are either transcribed by RNA Pol III in the nucleolus (SCARNA2 excepted), or function in the nucleolus (SCARNA2), where NSUN2 resides
?
-
-
-
S-adenosyl-L-methionine + cytosine34 in tRNALeu precursor
Homo sapiens
-
S-adenosyl-L-homocysteine + 5-methylcytosine34 in tRNALeu precursor
-
-
?
S-adenosyl-L-methionine + cytosine40 in tRNAGly precursor
Homo sapiens
-
S-adenosyl-L-homocysteine + 5-methylcytosine40 in tRNAGly precursor
-
-
?
S-adenosyl-L-methionine + cytosine48 in tRNAAsp precursor
Homo sapiens
-
S-adenosyl-L-homocysteine + 5-methylcytosine48 in tRNAAsp precursor
-
-
?
S-adenosyl-L-methionine + cytosine48 in tRNAGly precursor
Homo sapiens
-
S-adenosyl-L-homocysteine + 5-methylcytosine48 in tRNAGly precursor
-
-
?
S-adenosyl-L-methionine + cytosine49 in tRNAasp precursor
Homo sapiens
-
S-adenosyl-L-homocysteine + 5-methylcytosine49 in tRNAAsp precursor
-
-
?
S-adenosyl-L-methionine + cytosine49 in tRNAGly precursor
Homo sapiens
-
S-adenosyl-L-homocysteine + 5-methylcytosine49 in tRNAGly precursor
-
-
?
S-adenosyl-L-methionine + cytosine50 in tRNAGly precursor
Homo sapiens
-
S-adenosyl-L-homocysteine + 5-methylcytosine50 in tRNAGly precursor
-
-
?
Source Tissue (protein specific)
Source Tissue
Commentary
Organism
Textmining
HeLa cell
-
Homo sapiens
-
Substrates and Products (Substrate) (protein specific)
Substrates
Commentary Substrates
Literature (Substrates)
Organism
Products
Commentary (Products)
Literature (Products)
Organism (Products)
Reversibility
additional information
NSUN2 candidate ncRNA targets identified include RNAs with central functions in the processing, folding and modification of other ncRNAs (RPPH1, Y RNA, SCARNA2), RNAs important for protein synthesis and trafficking (5S rRNA and 7SL RNA) and RNAs involved in multidrug resistance and other processes (Vault RNAs). Notably, all of the NSUN2 targets revealed by 5-azacytidine-mediated RNA immunoprecipitation are either transcribed by RNA Pol III in the nucleolus (SCARNA2 excepted), or function in the nucleolus (SCARNA2), where NSUN2 resides
736856
Homo sapiens
?
-
-
-
-
additional information
development and evaluation of 5-azacytidine-mediated RNA immunoprecipitation, a mechanism-based technique in nine steps that exploits the covalent bond formed between an RNA methyltransferase and the cytidine analogue 5-azacytidine to recover RNA targets by immunoprecipitation, overview. The method enables over 200fold enrichment of tRNAs that are known targets of the enzyme revealing many tRNA and non-coding RNA targets not previously associated with NSUN2. High frequency of C>G transversions at the cytosine residues targeted by the enzyme, allowing identification of the specific methylated cytosine(s) in target RNAs. tRNAGly(GCC), bears four NSUN2 target sites (C40, 48, 49 and 50)
736856
Homo sapiens
?
-
-
-
-
S-adenosyl-L-methionine + cytosine34 in tRNALeu precursor
-
736856
Homo sapiens
S-adenosyl-L-homocysteine + 5-methylcytosine34 in tRNALeu precursor
-
-
-
?
S-adenosyl-L-methionine + cytosine40 in tRNAGly precursor
-
736856
Homo sapiens
S-adenosyl-L-homocysteine + 5-methylcytosine40 in tRNAGly precursor
-
-
-
?
S-adenosyl-L-methionine + cytosine48 in tRNAAsp precursor
-
736856
Homo sapiens
S-adenosyl-L-homocysteine + 5-methylcytosine48 in tRNAAsp precursor
-
-
-
?
S-adenosyl-L-methionine + cytosine48 in tRNAGly precursor
-
736856
Homo sapiens
S-adenosyl-L-homocysteine + 5-methylcytosine48 in tRNAGly precursor
-
-
-
?
S-adenosyl-L-methionine + cytosine49 in tRNAasp precursor
-
736856
Homo sapiens
S-adenosyl-L-homocysteine + 5-methylcytosine49 in tRNAAsp precursor
-
-
-
?
S-adenosyl-L-methionine + cytosine49 in tRNAGly precursor
-
736856
Homo sapiens
S-adenosyl-L-homocysteine + 5-methylcytosine49 in tRNAGly precursor
-
-
-
?
S-adenosyl-L-methionine + cytosine50 in tRNAGly precursor
-
736856
Homo sapiens
S-adenosyl-L-homocysteine + 5-methylcytosine50 in tRNAGly precursor
-
-
-
?
General Information
General Information
Commentary
Organism
evolution
the enzyme belongs to the RsmF/YebU/NSUN2 family of cytosine 5-methylation-RNA methyltransferases utilizing two cysteines in their catalytic pocket
Homo sapiens
malfunction
NSUN2 is associated with Myc-induced proliferation of cancer cells, mitotic spindle stability, infertility in male mice, and the balance of selfrenewal and differentiation in skin stem cells. In humans NSUN2 mutations cause an autosomal recessive syndrome characterized by intellectual disability and mental retardation
Homo sapiens
General Information (protein specific)
General Information
Commentary
Organism
evolution
the enzyme belongs to the RsmF/YebU/NSUN2 family of cytosine 5-methylation-RNA methyltransferases utilizing two cysteines in their catalytic pocket
Homo sapiens
malfunction
NSUN2 is associated with Myc-induced proliferation of cancer cells, mitotic spindle stability, infertility in male mice, and the balance of selfrenewal and differentiation in skin stem cells. In humans NSUN2 mutations cause an autosomal recessive syndrome characterized by intellectual disability and mental retardation
Homo sapiens
Other publictions for EC 2.1.1.202
No.
1st author
Pub Med
title
organims
journal
volume
pages
year
Activating Compound
Application
Cloned(Commentary)
Crystallization (Commentary)
Engineering
General Stability
Inhibitors
KM Value [mM]
Localization
Metals/Ions
Molecular Weight [Da]
Natural Substrates/ Products (Substrates)
Organic Solvent Stability
Organism
Oxidation Stability
Posttranslational Modification
Purification (Commentary)
Reaction
Renatured (Commentary)
Source Tissue
Specific Activity [micromol/min/mg]
Storage Stability
Substrates and Products (Substrate)
Subunits
Temperature Optimum [°C]
Temperature Range [°C]
Temperature Stability [°C]
Turnover Number [1/s]
pH Optimum
pH Range
pH Stability
Cofactor
Ki Value [mM]
pI Value
IC50 Value
Activating Compound (protein specific)
Application (protein specific)
Cloned(Commentary) (protein specific)
Cofactor (protein specific)
Crystallization (Commentary) (protein specific)
Engineering (protein specific)
General Stability (protein specific)
IC50 Value (protein specific)
Inhibitors (protein specific)
Ki Value [mM] (protein specific)
KM Value [mM] (protein specific)
Localization (protein specific)
Metals/Ions (protein specific)
Molecular Weight [Da] (protein specific)
Natural Substrates/ Products (Substrates) (protein specific)
Organic Solvent Stability (protein specific)
Oxidation Stability (protein specific)
Posttranslational Modification (protein specific)
Purification (Commentary) (protein specific)
Renatured (Commentary) (protein specific)
Source Tissue (protein specific)
Specific Activity [micromol/min/mg] (protein specific)
Storage Stability (protein specific)
Substrates and Products (Substrate) (protein specific)
Subunits (protein specific)
Temperature Optimum [°C] (protein specific)
Temperature Range [°C] (protein specific)
Temperature Stability [°C] (protein specific)
Turnover Number [1/s] (protein specific)
pH Optimum (protein specific)
pH Range (protein specific)
pH Stability (protein specific)
pI Value (protein specific)
Expression
General Information
General Information (protein specific)
Expression (protein specific)
KCat/KM [mM/s]
KCat/KM [mM/s] (protein specific)
735864
Burgess
Conservation of tRNA and rRNA ...
Arabidopsis thaliana, Brassica rapa, Caulerpa taxifolia, Ginkgo biloba, Nannochloropsis oculata, Triticum turgidum subsp. durum
BMC Plant Biol.
15
199
2015
-
-
1
-
-
-
-
-
1
-
-
6
-
19
-
-
-
-
-
1
-
-
7
-
-
-
-
-
-
-
-
6
-
-
-
-
-
1
6
-
-
-
-
-
-
-
1
-
-
6
-
-
-
-
-
1
-
-
7
-
-
-
-
-
-
-
-
-
-
13
13
-
-
-
735680
Moon
Trm4 and Nsun2 RNA:m5C methylt ...
Saccharomyces cerevisiae
Biochemistry
53
7132-7144
2014
-
-
-
-
-
-
-
-
-
-
-
1
-
2
-
-
-
-
-
-
-
-
2
-
-
-
-
-
1
-
-
1
-
-
-
-
-
-
1
-
-
-
-
-
-
-
-
-
-
1
-
-
-
-
-
-
-
-
2
-
-
-
-
-
1
-
-
-
-
2
2
-
-
-
735907
Hussain
NSun2-mediated cytosine-5 meth ...
Homo sapiens
Cell Rep.
4
255-261
2013
-
-
-
-
2
-
-
-
-
-
-
10
-
1
-
-
-
-
-
1
-
-
11
-
-
-
-
-
-
-
-
1
-
-
-
-
-
-
1
-
2
-
-
-
-
-
-
-
-
10
-
-
-
-
-
1
-
-
11
-
-
-
-
-
-
-
-
-
1
2
2
1
-
-
736856
Khoddami
Identification of direct targe ...
Homo sapiens
Nat. Biotechnol.
31
458-464
2013
-
-
-
-
1
-
2
-
1
-
-
8
-
1
-
-
-
4
-
1
-
-
9
-
-
-
-
-
-
-
-
1
-
-
-
-
-
-
1
-
1
-
-
2
-
-
1
-
-
8
-
-
-
-
-
1
-
-
9
-
-
-
-
-
-
-
-
-
-
2
2
-
-
-
737227
Preston
TRNAHis 5-methylcytidine level ...
Saccharomyces cerevisiae, Saccharomyces cerevisiae BY4741
RNA
19
243-256
2013
1
-
-
-
-
-
-
-
-
-
-
11
-
58
-
-
-
-
-
-
-
-
13
-
-
-
-
-
-
-
-
1
-
-
-
1
-
-
1
-
-
-
-
-
-
-
-
-
-
11
-
-
-
-
-
-
-
-
13
-
-
-
-
-
-
-
-
-
1
3
3
1
-
-
719968
Awai
Substrate tRNA recognition mec ...
Methanocaldococcus jannaschii
J. Biol. Chem.
286
35236-35246
2011
-
-
1
1
-
-
-
-
-
-
-
2
-
1
-
-
1
-
-
-
-
-
3
-
1
-
-
-
1
-
-
2
-
-
-
-
-
1
2
1
-
-
-
-
-
-
-
-
-
2
-
-
-
1
-
-
-
-
3
-
1
-
-
-
1
-
-
-
-
-
-
-
-
-
710546
Walbott
Cysteine of sequence motif VI ...
Saccharomyces cerevisiae
RNA
13
967-973
2007
-
-
-
-
1
-
-
-
-
-
-
-
-
3
-
-
-
-
-
-
-
-
1
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
1
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
1
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
672512
Redman
Assembly of protein-RNA comple ...
Saccharomyces cerevisiae
Biomacromolecules
7
3321-3326
2006
-
-
-
-
2
-
-
-
-
-
-
-
-
2
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
2
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
710135
Brzezicha
Identification of human tRNA:m ...
Saccharomyces cerevisiae
Nucleic Acids Res.
34
6034-6043
2006
-
-
1
-
-
-
-
-
-
-
-
-
-
3
-
-
-
-
-
-
-
-
3
-
1
-
-
-
1
-
-
-
-
-
-
-
-
1
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
3
-
1
-
-
-
1
-
-
-
-
-
-
-
-
-
639472
King
RNA methyltransferases utilize ...
Saccharomyces cerevisiae
Biochemistry
41
11218-11225
2002
-
-
-
-
2
-
-
-
-
-
-
-
-
3
-
-
-
-
-
-
-
-
1
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
2
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
1
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
639471
Motorin
Multisite-specific tRNA:m5C-me ...
Saccharomyces cerevisiae
RNA
5
1105-1118
1999
-
-
1
-
-
-
-
-
-
-
3
4
-
4
-
-
1
4
-
-
-
-
8
1
1
-
-
-
1
-
-
-
-
-
-
-
-
1
-
-
-
-
-
-
-
-
-
-
3
4
-
-
-
1
-
-
-
-
8
1
1
-
-
-
1
-
-
-
-
2
2
-
-
-
710134
Jiang
Pleiotropic effects of intron ...
Saccharomyces cerevisiae, Saccharomyces cerevisiae Pp1001
Nucleic Acids Res.
25
2694-2701
1997
-
-
-
-
-
-
-
-
-
-
-
-
-
2
-
-
-
-
-
-
-
-
4
-
1
-
-
-
1
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
4
-
1
-
-
-
1
-
-
-
-
-
-
-
-
-
709946
Strobel
Effect of intron mutations on ...
Saccharomyces cerevisiae
Mol. Cell. Biol.
6
2663-2673
1986
-
-
-
-
-
-
-
-
-
-
-
-
-
1
-
-
-
-
-
-
-
-
1
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
1
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-