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Literature summary for 2.1.1.171 extracted from

  • Sergeeva, O.V.; Prokhorova, I.V.; Ordabaev, Y.; Tsvetkov, P.O.; Sergiev, P.V.; Bogdanov, A.A.; Makarov, A.A.; Dontsova, O.A.
    Properties of small rRNA methyltransferase RsmD: mutational and kinetic study (2012), RNA, 18, 1178-1185.
    View publication on PubMedView publication on EuropePMC

Cloned(Commentary)

Cloned (Comment) Organism
gene rsmD, expression of N-terminally His6-tagged RsmD Escherichia coli

Protein Variants

Protein Variants Comment Organism
D58A site-directed mutagenesis, the mutant shows increased Km toward the 30S subunit by two orders of magnitude with only a marginal effect on kcat compared to the wild-type enzyme. The mutation decreases the enthalpic contribution to SAM binding, paralleled by an increase in the entropic contribution Escherichia coli
D58A/P128A/P129A site-directed mutagenesis, the mutant shows increased Km toward the 30S subunit by two orders of magnitude with only a marginal effect on kcat compared to the wild-type enzyme Escherichia coli
F130S site-directed mutagenesis Escherichia coli
additional information knockout of the rsmD gene and complementation by point mutants, except for mutant P128A/P129A/F130S, overview Escherichia coli
P128A/P129A site-directed mutagenesis, the mutation decreases the enthalpic contribution to SAM binding, paralleled by an increase in the entropic contribution, Escherichia coli
P128A/P129A/F130S site-directed mutagenesis, inactive mutant Escherichia coli

KM Value [mM]

KM Value [mM] KM Value Maximum [mM] Substrate Comment Organism Structure
additional information
-
additional information RsmD methyltransferase kinetics, multiple turnover reaction, overview Escherichia coli

Natural Substrates/ Products (Substrates)

Natural Substrates Organism Comment (Nat. Sub.) Natural Products Comment (Nat. Pro.) Rev. Reac.
S-adenosyl-L-methionine + guanine966 in 16S rRNA Escherichia coli
-
S-adenosyl-L-homocysteine + N2-methylguanine966 in 16S rRNA
-
?
S-adenosyl-L-methionine + guanine966 in 30S rRNA Escherichia coli RsmD acts late in the assembly process and is able to modify a completely assembled 30S subunit S-adenosyl-L-homocysteine + N2-methylguanine966 in 30S rRNA
-
?

Organism

Organism UniProt Comment Textmining
Escherichia coli
-
-
-

Substrates and Products (Substrate)

Substrates Comment Substrates Organism Products Comment (Products) Rev. Reac.
additional information RsmD possesses superior binding properties toward the unmodified 30S subunit but is unable to bind a 30S subunit modified at G966 Escherichia coli ?
-
?
S-adenosyl-L-methionine + guanine966 in 16S rRNA
-
Escherichia coli S-adenosyl-L-homocysteine + N2-methylguanine966 in 16S rRNA
-
?
S-adenosyl-L-methionine + guanine966 in 16S rRNA RsmD recognize a single target nucleotide G966 of the 16S rRNA, substrate specificity, overview Escherichia coli S-adenosyl-L-homocysteine + N2-methylguanine966 in 16S rRNA
-
?
S-adenosyl-L-methionine + guanine966 in 30S rRNA RsmD acts late in the assembly process and is able to modify a completely assembled 30S subunit Escherichia coli S-adenosyl-L-homocysteine + N2-methylguanine966 in 30S rRNA
-
?
S-adenosyl-L-methionine + guanine966 in 30S rRNA RsmD-30S rRNA complex formation an structure, overview Escherichia coli S-adenosyl-L-homocysteine + N2-methylguanine966 in 30S rRNA
-
?

Synonyms

Synonyms Comment Organism
RsmD
-
Escherichia coli
small rRNA methyltransferase
-
Escherichia coli

Cofactor

Cofactor Comment Organism Structure
additional information sinefungin is an unreactive S-adenosyl-L-methionine analogue Escherichia coli
S-adenosyl-L-methionine
-
Escherichia coli

General Information

General Information Comment Organism
additional information RsmD is unusual in its ability to withstand multiple amino acid substitutions of the active site. Such efficiency of RsmD may be useful to complete the modification of a 30S subunit ahead of the 30S subunit's involvement in translation Escherichia coli