BRENDA - Enzyme Database show
show all sequences of 2.1.1.173

Structure of the bifunctional methyltransferase YcbY (RlmKL) that adds the m7G2069 and m2G2445 modifications in Escherichia coli 23S rRNA

Wang, K.T.; Desmolaize, B.; Nan, J.; Zhang, X.W.; Li, L.F.; Douthwaite, S.; Su, X.D.; Nucleic Acids Res. 40, 5138-5148 (2012)

Data extracted from this reference:

Engineering
Amino acid exchange
Commentary
Organism
additional information
generation of a ycbY knock-out strain, completely inactive in methylation, from Escherichia coli strain BW25113 and complementation with active ycbY
Escherichia coli
Natural Substrates/ Products (Substrates)
Natural Substrates
Organism
Commentary (Nat. Sub.)
Natural Products
Commentary (Nat. Pro.)
Organism (Nat. Pro.)
Reversibility
additional information
Escherichia coli
the bifunctional methyltransferase YcbY, i.e. RlmKL, adds the m7G2069 and m2G2445 modifications in Escherichia coli 23S rRNA, recognition of dual rRNA targets by YcbY
?
-
-
-
S-adenosyl-L-methionine + guanine2069 in 23S rRNA
Escherichia coli
-
S-adenosyl-L-homocysteine + N7-methylguanine2069 in 23S rRNA
-
-
?
S-adenosyl-L-methionine + guanine2445 in 23S rRNA
Escherichia coli
-
S-adenosyl-L-homocysteine + N2-methylguanine2445 in 23S rRNA
-
-
?
S-adenosyl-L-methionine + guanine2445 in 23S rRNA
Streptococcus mutans
Smu472 adds the m2G2445 modification
S-adenosyl-L-homocysteine + N2-methylguanine2445 in 23S rRNA
-
-
?
Organism
Organism
Primary Accession No. (UniProt)
Commentary
Textmining
Streptococcus mutans
-
-
-
Escherichia coli
P75864
gene ycbY
-
Substrates and Products (Substrate)
Substrates
Commentary Substrates
Literature (Substrates)
Organism
Products
Commentary (Products)
Literature (Products)
Organism (Products)
Reversibility
additional information
the bifunctional methyltransferase YcbY, i.e. RlmKL, adds the m7G2069 and m2G2445 modifications in Escherichia coli 23S rRNA, recognition of dual rRNA targets by YcbY
720601
Escherichia coli
?
-
-
-
-
additional information
Smu776 does not target G2069, and this nucleotide remains unmodified in Gram-positive rRNAs
720601
Streptococcus mutans
?
-
-
-
-
S-adenosyl-L-methionine + guanine2069 in 23S rRNA
-
720601
Escherichia coli
S-adenosyl-L-homocysteine + N7-methylguanine2069 in 23S rRNA
-
-
-
?
S-adenosyl-L-methionine + guanine2069 in 23S rRNA
m7G2069 modification by YcbY is stoichiometric
720601
Escherichia coli
S-adenosyl-L-homocysteine + N7-methylguanine2069 in 23S rRNA
-
-
-
?
S-adenosyl-L-methionine + guanine2445 in 23S rRNA
-
720601
Streptococcus mutans
S-adenosyl-L-homocysteine + N2-methylguanine2445 in 23S rRNA
-
-
-
?
S-adenosyl-L-methionine + guanine2445 in 23S rRNA
-
720601
Escherichia coli
S-adenosyl-L-homocysteine + N2-methylguanine2445 in 23S rRNA
-
-
-
?
S-adenosyl-L-methionine + guanine2445 in 23S rRNA
Smu472 adds the m2G2445 modification
720601
Streptococcus mutans
S-adenosyl-L-homocysteine + N2-methylguanine2445 in 23S rRNA
-
-
-
?
S-adenosyl-L-methionine + guanine2445 in 23S rRNA
m2G2445 modification by YcbY is stoichiometric
720601
Escherichia coli
S-adenosyl-L-homocysteine + N2-methylguanine2445 in 23S rRNA
-
-
-
?
Subunits
Subunits
Commentary
Organism
More
structure comparisosns with Streptococcus mutans proteins Smu472 and Smu776, the active site and their folding patterns respectively resemble each other, overview
Escherichia coli
More
structure comparisosns of Streptococcus mutans proteins Smu472 and Smu776 with Escherichia coli RlmKL protein, the active site and their folding patterns respectively resemble each other, overview
Streptococcus mutans
Cofactor
Cofactor
Commentary
Organism
Structure
S-adenosyl-L-methionine
-
Escherichia coli
S-adenosyl-L-methionine
-
Streptococcus mutans
Cofactor (protein specific)
Cofactor
Commentary
Organism
Structure
S-adenosyl-L-methionine
-
Escherichia coli
S-adenosyl-L-methionine
-
Streptococcus mutans
Engineering (protein specific)
Amino acid exchange
Commentary
Organism
additional information
generation of a ycbY knock-out strain, completely inactive in methylation, from Escherichia coli strain BW25113 and complementation with active ycbY
Escherichia coli
Natural Substrates/ Products (Substrates) (protein specific)
Natural Substrates
Organism
Commentary (Nat. Sub.)
Natural Products
Commentary (Nat. Pro.)
Organism (Nat. Pro.)
Reversibility
additional information
Escherichia coli
the bifunctional methyltransferase YcbY, i.e. RlmKL, adds the m7G2069 and m2G2445 modifications in Escherichia coli 23S rRNA, recognition of dual rRNA targets by YcbY
?
-
-
-
S-adenosyl-L-methionine + guanine2069 in 23S rRNA
Escherichia coli
-
S-adenosyl-L-homocysteine + N7-methylguanine2069 in 23S rRNA
-
-
?
S-adenosyl-L-methionine + guanine2445 in 23S rRNA
Escherichia coli
-
S-adenosyl-L-homocysteine + N2-methylguanine2445 in 23S rRNA
-
-
?
S-adenosyl-L-methionine + guanine2445 in 23S rRNA
Streptococcus mutans
Smu472 adds the m2G2445 modification
S-adenosyl-L-homocysteine + N2-methylguanine2445 in 23S rRNA
-
-
?
Substrates and Products (Substrate) (protein specific)
Substrates
Commentary Substrates
Literature (Substrates)
Organism
Products
Commentary (Products)
Literature (Products)
Organism (Products)
Reversibility
additional information
the bifunctional methyltransferase YcbY, i.e. RlmKL, adds the m7G2069 and m2G2445 modifications in Escherichia coli 23S rRNA, recognition of dual rRNA targets by YcbY
720601
Escherichia coli
?
-
-
-
-
additional information
Smu776 does not target G2069, and this nucleotide remains unmodified in Gram-positive rRNAs
720601
Streptococcus mutans
?
-
-
-
-
S-adenosyl-L-methionine + guanine2069 in 23S rRNA
-
720601
Escherichia coli
S-adenosyl-L-homocysteine + N7-methylguanine2069 in 23S rRNA
-
-
-
?
S-adenosyl-L-methionine + guanine2069 in 23S rRNA
m7G2069 modification by YcbY is stoichiometric
720601
Escherichia coli
S-adenosyl-L-homocysteine + N7-methylguanine2069 in 23S rRNA
-
-
-
?
S-adenosyl-L-methionine + guanine2445 in 23S rRNA
-
720601
Streptococcus mutans
S-adenosyl-L-homocysteine + N2-methylguanine2445 in 23S rRNA
-
-
-
?
S-adenosyl-L-methionine + guanine2445 in 23S rRNA
-
720601
Escherichia coli
S-adenosyl-L-homocysteine + N2-methylguanine2445 in 23S rRNA
-
-
-
?
S-adenosyl-L-methionine + guanine2445 in 23S rRNA
Smu472 adds the m2G2445 modification
720601
Streptococcus mutans
S-adenosyl-L-homocysteine + N2-methylguanine2445 in 23S rRNA
-
-
-
?
S-adenosyl-L-methionine + guanine2445 in 23S rRNA
m2G2445 modification by YcbY is stoichiometric
720601
Escherichia coli
S-adenosyl-L-homocysteine + N2-methylguanine2445 in 23S rRNA
-
-
-
?
Subunits (protein specific)
Subunits
Commentary
Organism
More
structure comparisosns with Streptococcus mutans proteins Smu472 and Smu776, the active site and their folding patterns respectively resemble each other, overview
Escherichia coli
More
structure comparisosns of Streptococcus mutans proteins Smu472 and Smu776 with Escherichia coli RlmKL protein, the active site and their folding patterns respectively resemble each other, overview
Streptococcus mutans
General Information
General Information
Commentary
Organism
evolution
the enzyme is a member of the COG1092 family, evolutionary implications of the apparent emergence of Escherichia coli YcbY from the fusion of Streptococcus mutans Smu472 and Smu776 orthologues are considered
Escherichia coli
evolution
the enzyme is a member of the COG1092 family, evolutionary implications of the apparent emergence of Escherichia coli YcbY from the fusion of Streptococcus mutans Smu472 and Smu776 orthologues are considered
Streptococcus mutans
physiological function
the N-terminal region of YcbY adds the m2G2445 modification, while the C-terminal region of YcbY is responsible for the m7G2069 methylation on the opposite side of the same helix, H74. YcbY enzyme is an example of a methyltransferase catalyzing two mechanistically different types of RNA modification
Escherichia coli
General Information (protein specific)
General Information
Commentary
Organism
evolution
the enzyme is a member of the COG1092 family, evolutionary implications of the apparent emergence of Escherichia coli YcbY from the fusion of Streptococcus mutans Smu472 and Smu776 orthologues are considered
Escherichia coli
evolution
the enzyme is a member of the COG1092 family, evolutionary implications of the apparent emergence of Escherichia coli YcbY from the fusion of Streptococcus mutans Smu472 and Smu776 orthologues are considered
Streptococcus mutans
physiological function
the N-terminal region of YcbY adds the m2G2445 modification, while the C-terminal region of YcbY is responsible for the m7G2069 methylation on the opposite side of the same helix, H74. YcbY enzyme is an example of a methyltransferase catalyzing two mechanistically different types of RNA modification
Escherichia coli
Other publictions for EC 2.1.1.173
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)
720987
Kita
Crystal structure of a putativ ...
Escherichia coli
Protein Pept. Lett.
20
530-537
2013
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720598
Kimura
Base methylations in the doubl ...
Escherichia coli
Nucleic Acids Res.
40
4071-4085
2012
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1
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1
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2
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2
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4
1
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1
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3
3
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720601
Wang
Structure of the bifunctional ...
Escherichia coli, Streptococcus mutans
Nucleic Acids Res.
40
5138-5148
2012
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3
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718495
Wang
Purification, crystallization ...
Escherichia coli
Acta Crystallogr. Sect. F
66
1484-1486
2010
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689247
Sergiev
Ribosomal RNA guanine-(N2)-met ...
Escherichia coli
Nucleic Acids Res.
35
2295-2301
2007
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1
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675411
Lesnyak
Identification of Escherichia ...
Escherichia coli
J. Mol. Biol.
364
20-25
2006
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704261
Reddy
Characterization of the uup lo ...
Escherichia coli
J. Bacteriol.
182
1978-1986
2000
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