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Literature summary extracted from

  • Demirci, H.; Larsen, L.H.; Hansen, T.; Rasmussen, A.; Cadambi, A.; Gregory, S.T.; Kirpekar, F.; Jogl, G.
    Multi-site-specific 16S rRNA methyltransferase RsmF from Thermus thermophilus (2010), RNA, 16, 1584-1596.
    View publication on PubMedView publication on EuropePMC

Cloned(Commentary)

EC Number Cloned (Comment) Organism
2.1.1.176 gene TTHA0851 Thermus thermophilus
2.1.1.178 gene TTHA1387 Thermus thermophilus

Crystallization (Commentary)

EC Number Crystallization (Comment) Organism
2.1.1.178 RsmF in a complex with cofactor S-adenosyl-methionine, three crystal structures, X-ray diffrcation structure determination and analysis at 1.3 A resolution Thermus thermophilus

Protein Variants

EC Number Protein Variants Comment Organism
2.1.1.176 additional information construction of a null mutant strain in which TTHA0851 is inactivated by homologous recombination and insertion of a heat stable kanamycin-resistance gene Thermus thermophilus
2.1.1.178 additional information construction of a null mutant strain in which TTHA1387 is inactivated by homologous recombination and insertion of a heat stable kanamycin-resistance gene Thermus thermophilus

Natural Substrates/ Products (Substrates)

EC Number Natural Substrates Organism Comment (Nat. Sub.) Natural Products Comment (Nat. Pro.) Rev. Reac.
2.1.1.176 S-adenosyl-L-methionine + cytosine967 in 16S rRNA Thermus thermophilus
-
S-adenosyl-L-homocysteine + 5-methylcytosine967 in 16S rRNA
-
?
2.1.1.176 S-adenosyl-L-methionine + cytosine967 in 16S rRNA Thermus thermophilus HB8 / ATCC 27634 / DSM 579
-
S-adenosyl-L-homocysteine + 5-methylcytosine967 in 16S rRNA
-
?
2.1.1.178 S-adenosyl-L-methionine + cytosine1400 in 16S rRNA Thermus thermophilus
-
S-adenosyl-L-homocysteine + 5-methylcytosine1400 in 16S rRNA
-
?
2.1.1.178 S-adenosyl-L-methionine + cytosine1400 in 16S rRNA Thermus thermophilus HB8 / ATCC 27634 / DSM 579
-
S-adenosyl-L-homocysteine + 5-methylcytosine1400 in 16S rRNA
-
?
2.1.1.178 S-adenosyl-L-methionine + cytosine1404 in 16S rRNA Thermus thermophilus
-
S-adenosyl-L-homocysteine + 5-methylcytosine1404 in 16S rRNA
-
?
2.1.1.178 S-adenosyl-L-methionine + cytosine1407 in 16S rRNA Thermus thermophilus
-
S-adenosyl-L-homocysteine + 5-methylcytosine1407 in 16S rRNA
-
?
2.1.1.178 S-adenosyl-L-methionine + cytosine1407 in 16S rRNA Thermus thermophilus HB8 / ATCC 27634 / DSM 579
-
S-adenosyl-L-homocysteine + 5-methylcytosine1407 in 16S rRNA
-
?

Organism

EC Number Organism UniProt Comment Textmining
2.1.1.176 Thermus thermophilus
-
gene TTHA0851 or rsmB
-
2.1.1.176 Thermus thermophilus HB8 / ATCC 27634 / DSM 579
-
gene TTHA0851 or rsmB
-
2.1.1.178 Thermus thermophilus Q5SJI2 gene TTHA1387 or rsmF
-
2.1.1.178 Thermus thermophilus HB8 / ATCC 27634 / DSM 579 Q5SJI2 gene TTHA1387 or rsmF
-

Substrates and Products (Substrate)

EC Number Substrates Comment Substrates Organism Products Comment (Products) Rev. Reac.
2.1.1.176 additional information substrate recognition mechanism, overview Thermus thermophilus ?
-
?
2.1.1.176 additional information substrate recognition mechanism, overview Thermus thermophilus HB8 / ATCC 27634 / DSM 579 ?
-
?
2.1.1.176 S-adenosyl-L-methionine + cytosine967 in 16S rRNA
-
Thermus thermophilus S-adenosyl-L-homocysteine + 5-methylcytosine967 in 16S rRNA
-
?
2.1.1.176 S-adenosyl-L-methionine + cytosine967 in 16S rRNA
-
Thermus thermophilus HB8 / ATCC 27634 / DSM 579 S-adenosyl-L-homocysteine + 5-methylcytosine967 in 16S rRNA
-
?
2.1.1.178 additional information substrate recognition mechanism, overview Thermus thermophilus ?
-
?
2.1.1.178 additional information substrate recognition mechanism, overview Thermus thermophilus HB8 / ATCC 27634 / DSM 579 ?
-
?
2.1.1.178 S-adenosyl-L-methionine + cytosine1400 in 16S rRNA
-
Thermus thermophilus S-adenosyl-L-homocysteine + 5-methylcytosine1400 in 16S rRNA
-
?
2.1.1.178 S-adenosyl-L-methionine + cytosine1400 in 16S rRNA RsmF completely methylates C1400 when either 16S rRNA or 30S subunits are used as a substrate Thermus thermophilus S-adenosyl-L-homocysteine + 5-methylcytosine1400 in 16S rRNA
-
?
2.1.1.178 S-adenosyl-L-methionine + cytosine1400 in 16S rRNA
-
Thermus thermophilus HB8 / ATCC 27634 / DSM 579 S-adenosyl-L-homocysteine + 5-methylcytosine1400 in 16S rRNA
-
?
2.1.1.178 S-adenosyl-L-methionine + cytosine1400 in 16S rRNA RsmF completely methylates C1400 when either 16S rRNA or 30S subunits are used as a substrate Thermus thermophilus HB8 / ATCC 27634 / DSM 579 S-adenosyl-L-homocysteine + 5-methylcytosine1400 in 16S rRNA
-
?
2.1.1.178 S-adenosyl-L-methionine + cytosine1404 in 16S rRNA
-
Thermus thermophilus S-adenosyl-L-homocysteine + 5-methylcytosine1404 in 16S rRNA
-
?
2.1.1.178 S-adenosyl-L-methionine + cytosine1404 in 16S rRNA RsmF methylates C1404 to about 35% with 16S rRNA and completely with 30S subunits Thermus thermophilus S-adenosyl-L-homocysteine + 5-methylcytosine1404 in 16S rRNA
-
?
2.1.1.178 S-adenosyl-L-methionine + cytosine1407 in 16S rRNA
-
Thermus thermophilus S-adenosyl-L-homocysteine + 5-methylcytosine1407 in 16S rRNA
-
?
2.1.1.178 S-adenosyl-L-methionine + cytosine1407 in 16S rRNA RsmF produces only trace amounts of methylation of C1407 with 16S rRNA and about 75% with 30S subunits Thermus thermophilus S-adenosyl-L-homocysteine + 5-methylcytosine1407 in 16S rRNA
-
?
2.1.1.178 S-adenosyl-L-methionine + cytosine1407 in 16S rRNA
-
Thermus thermophilus HB8 / ATCC 27634 / DSM 579 S-adenosyl-L-homocysteine + 5-methylcytosine1407 in 16S rRNA
-
?
2.1.1.178 S-adenosyl-L-methionine + cytosine1407 in 16S rRNA RsmF produces only trace amounts of methylation of C1407 with 16S rRNA and about 75% with 30S subunits Thermus thermophilus HB8 / ATCC 27634 / DSM 579 S-adenosyl-L-homocysteine + 5-methylcytosine1407 in 16S rRNA
-
?

Subunits

EC Number Subunits Comment Organism
2.1.1.176 More comparison of Thermus thermophilus RsmB and RsmF protein sequences, secondary and tertiary structure, differences in substrate binding, overview Thermus thermophilus
2.1.1.178 More comparison of Thermus thermophilus RsmB and RsmF protein sequences, secondary and tertiary structure, differences in substrate binding, overview Thermus thermophilus

Synonyms

EC Number Synonyms Comment Organism
2.1.1.176 16S rRNA methyltransferase
-
Thermus thermophilus
2.1.1.176 fmu
-
Thermus thermophilus
2.1.1.176 rsmB
-
Thermus thermophilus
2.1.1.178 16S rRNA methyltransferase
-
Thermus thermophilus
2.1.1.178 RsmF
-
Thermus thermophilus

Temperature Stability [°C]

EC Number Temperature Stability Minimum [°C] Temperature Stability Maximum [°C] Comment Organism
2.1.1.178 60 70 no difference in the relative growth proportions of the wild-type and rsmF mutant at 70°C. However, at 60°C, the rsmF null mutant constitutes only around 5% of the population, and at 80°C the rsmF null mutant is unable to grow at all Thermus thermophilus

Cofactor

EC Number Cofactor Comment Organism Structure
2.1.1.176 S-adenosyl-L-methionine
-
Thermus thermophilus
2.1.1.178 S-adenosyl-L-methionine
-
Thermus thermophilus

General Information

EC Number General Information Comment Organism
2.1.1.176 metabolism two methyltransferases, RsmB and RsmF, are responsible for all four 5-methylcytidine modifications in 16S rRNA of Thermus thermophilus, overview. RsmB produces m5C967, while RsmF methylates C1400, C1404, and C1407 in a 30S subunit substrate, but only C1400 and C1404 when naked 16S rRNA is the substrate Thermus thermophilus
2.1.1.178 metabolism two methyltransferases, RsmB and RsmF, are responsible for all four 5-methylcytidine modifications in 16S rRNA of Thermus thermophilus, overview. RsmB produces m5C967, while RsmF methylates C1400, C1404, and C1407 in a 30S subunit substrate, but only C1400 and C1404 when naked 16S rRNA is the substrate. C1400 and C1404 are sufficiently buried in the mature ribosome structure so require extensive unfolding of the rRNA to be accessible to RsmF Thermus thermophilus