_EC 2.1.1.207 tRNA (cytidine(34)-2'-O)-methyltransferase. 11 PDB entries  
EC 2.-.-.- Transferases. [17,949 PDB entries]
EC 2.1.-.- Transferring one-carbon groups. [1,711 PDB entries]
EC 2.1.1.- Methyltransferases. [1,381 PDB entries]
EC 2.1.1.207 tRNA (cytidine(34)-2'-O)-methyltransferase. [11 PDB entries]    
1j85

Reaction: (1) S-adenosyl-L-methionine + cytidine(34) in tRNA = S-adenosyl-L- homocysteine + 2'-O-methylcytidine(34) in tRNA. (2) S-adenosyl-L-methionine + 5-carboxymethylaminomethyluridine(34) in tRNA(Leu) = S-adenosyl-L-homocysteine + 5-carboxymethylaminomethyl-2'-O- methyluridine(34) in tRNA(Leu).
 


S-adenosyl-L-methionine
+ cytidine(34) in tRNA
=
S-adenosyl-L- homocysteine
+ 2'-O-methylcytidine(34) in tRNA

S-adenosyl-L-methionine
+ 5-carboxymethylaminomethyluridine(34) in tRNA(Leu)
=
S-adenosyl-L-homocysteine
+ 5-carboxymethylaminomethyl-2'-O- methyluridine(34) in tRNA(Leu)
Molecule diagrams generated from .mol files obtained from the KEGG ftp site.

Other name(s): tRNA (cytidine(34)/5-carboxymethylaminomethyluridine(34)-2'-O)- methyltransferase. tRNA methyltransferase L.
Comments: The enzyme from Escherichia coli catalyzes the 2'-O-methylation of cytidine or 5-carboxymethylaminomethyluridine at the wobble position at nucleotide 34 in tRNA(Leu)CmAA and tRNA(Leu)cmnm(5)UmAA. The enzyme is selective for the two tRNA(Leu) isoacceptors and only methylates these when they present the correct anticodon loop sequence and modification pattern. Specifically, YibK requires a pyrimidine nucleoside at position 34, it has a clear preference for an adenosine at position 35, and it fails to methylate without prior addition of the N(6)-(isopentenyl)- 2-methylthioadenosine modification at position 37.
Links:   [IntEnz]   [ExPASy]   [KEGG]  

There are 11 PDB entries in enzyme class E.C.2.1.1.207

  PDB code Protein
1j85
Structure of yibk from haemophilus influenzae (hi0766), a tr sequence homolog of tRNA (guanosine-2'-o-) methyltransferas
Source: Haemophilus influenzae rd. Organism_taxid: 71421. Strain: kw20. Gene: hi0766. Expressed in: escherichia coli bl21(de3). Expression_system_taxid: 469008.
Chain: A (156 residues) CATH domain: 3.40.1280.10
1mxi
Structure of yibk from haemophilus influenzae (hi0766): a methyltransferase with a cofactor bound at a site formed by a knot
Source: Haemophilus influenzae. Organism_taxid: 727. Gene: hi0766. Expressed in: escherichia coli bl21(de3). Expression_system_taxid: 469008.
Chain: A (156 residues) CATH domain: 3.40.1280.10
3e5y
Crystal structure of trmh family RNA methyltransferase from burkholderia pseudomallei
Source: Burkholderia pseudomallei 305. Organism_taxid: 425067. Gene: burps305_4843. Expressed in: escherichia coli.
Chains: A, B (156 residues) CATH domain: 3.40.1280.10
3l8u
Crystal structure of smu.1707c, a putative rrna methyltransf streptococcus mutans ua159
Source: Streptococcus mutans. Organism_taxid: 210007. Strain: ua159. Gene: smu_1707c. Expressed in: escherichia coli. Expression_system_taxid: 562.
Chains: A, B (154 residues) CATH domain: 3.40.1280.10
3n4j
Putative RNA methyltransferase from yersinia pestis
Source: Yersinia pestis. Organism_taxid: 214092. Strain: co92. Gene: cspr, ypo0071, yp_0071. Expressed in: escherichia coli. Expression_system_taxid: 469008.
Chain: A (161 residues) CATH domain: 3.40.1280.10
3n4k
Putative RNA methyltransferase from yersinia pestis in compl adenosyl-l-homocysteine.
Source: Yersinia pestis. Organism_taxid: 214092. Strain: co92. Gene: cspr, ypo0071, yp_0071. Expressed in: escherichia coli. Expression_system_taxid: 469008.
Chains: A, B (163 residues) CATH domain: 3.40.1280.10
4jak
Crystal structure of tRNA (um34/cm34) methyltransferase trml escherichia coli
Source: Escherichia coli. Organism_taxid: 83333. Strain: k12. Gene: trml, yibk, b3606, jw3581. Expressed in: escherichia coli. Expression_system_taxid: 562.
Chains: A, B (155 residues) CATH domain: 3.40.1280.10
4jal
Crystal structure of tRNA (um34/cm34) methyltransferase trml escherichia coli with sah
Source: Escherichia coli. Organism_taxid: 83333. Strain: k12. Gene: trml, yibk, b3606, jw3581. Expressed in: escherichia coli. Expression_system_taxid: 562.
Chains: A, B (156 residues) CATH domain: 3.40.1280.10
Bound ligands:   Het Group SAH corresponds to enzyme product S-adenosylhomocysteine
  Het Group SAH corresponds to enzyme product S-adenosylhomocysteine
4kdz
Crystal structure of tRNA/rrna methyltransferase yibk from e coli (target nysgrc-012599)
Source: Escherichia coli. Organism_taxid: 364106. Strain: uti89. Gene: b3606, jw3581, trml, uti89_c4147, yibk. Expressed in: escherichia coli. Expression_system_taxid: 469008.
Chain: A (156 residues) CATH domain: 3.40.1280.10
4kgn
Crystal structure of a tRNA (cytidine(34)-2'-o)-methyltransf bound to s-adenosyl homocysteine
Source: Burkholderia pseudomallei. Organism_taxid: 320372. Strain: 1710b. Gene: burps1710b_0668, trml. Expressed in: escherichia coli. Expression_system_taxid: 562.
Chains: A, B, C, D, E, F, G, H (139 residues) CATH domain: 3.40.1280.10
Bound ligands:   Het Group SAH corresponds to enzyme product S-adenosylhomocysteine
  Het Group SAH corresponds to enzyme product S-adenosylhomocysteine
4pzk
Crystal strucrure of putative RNA methyltransferase from bac anthracis.
Source: Bacillus anthracis. Anthrax,anthrax bacterium. Organism_taxid: 261594. Strain: ames ancestor. Gene: bas0516, ba_0547, cspr, gbaa_0547. Expressed in: escherichia coli. Expression_system_taxid: 511693.
Chains: A, B (159 residues) CATH domain: 3.40.1280.10
Bound ligands:   Het Group SAH corresponds to enzyme product S-adenosylhomocysteine
  Het Group SAH corresponds to enzyme product S-adenosylhomocysteine