Modomics - A Database of RNA Modifications

ID Card:

Full name: Cytoplasmic tRNA 2-thiolation protein 1
Synonym: Ctu1, Tuc1
GI: 50593215
Orf: YGL211W
COG: COG0037
UniProt: P53088
Alpha Fold Predicted Structure: AF-P53088-F1
Complex: Nsc2/Ncs6
Enzyme type: thiolase
Position of modification - modification: t:34 - cmnm5s2U



Protein sequence:

MSFTAPSDPVNKPTKVKVSQLCELCHSRKALIRRPKNLSKLCKQCFCLVFETEIHNTIVANNLFQRGEKVAVGASGGKDSTVLAHMLKLLNDRYDYGIEIVLLSIDEGIIGYRDDSLATVKRNQQQYGLPLEIFSFKDLYDWTMDEIVSVAGIRNSCTYCGVFRRQSLDRGAAKLGISHVVTGHNADDMAETVLMNILRGDVARLEKSTAIITQSSGSPIKRSKPFKYSYQKEIVLYAHYMKLDYFSTECTYAPEAFRGTAREYMKNLEAVRPSCIIDIIQSGENLALKAKKSNAGKRVVKFVDGNRCARCGYLSSNNICKACMLLEGLEKSRAQVAIENDTSADGAALKLRALEKLSF

Comments:

Both Ncs6 and Ncs2 are necessary for the thiolation of cytoplasmic tRNA. For more information see the entry for yeast Nsc2. High sequence similarities exist between bacterial eukaryal Ncs6 (Tuc1) and bacterial TtcA responsible for the thiolation of C32 in anticodon loop of tRNA (convergent evolution). They might have evolved from a common thiolase precursor. Ncs2 and Ncs6 are down-regulated in a proteasomal dependent fashion in yeast exposed to mild heat stress. This down-regulation influences translation of mRNAs rich in codons decoded by tRNAs thiolated by the Ncs2-Ncs6 complex.




Reaction Substrate SubstrateType Position (Anti)Codon Modified (Anti)Codon Amino Acid Change Transcript Name Transcript Region Cellular Localization References
U:s2U RNA tRNA 34 wobble - position Cytoplasm and Mitochondrion 17592039   
mcm5U:mcm5s2U RNA tRNA 34 UUG 3UG tRNAGln3UG wobble - position Cytoplasm and Mitochondrion 17592039   
ncm5U:ncm5s2U RNA tRNA 34 UUC 3UC tRNAGlu3UC wobble - position Cytoplasm and Mitochondrion 17592039   
ncm5U:ncm5s2U RNA tRNA 34 UUU 3UU tRNALys3UU wobble - position Cytoplasm and Mitochondrion 17592039   
ncm5U:ncm5s2U RNA tRNA 34 UUG 3UG tRNAGln3UG wobble - position Cytoplasm and Mitochondrion 17592039   
cm5s2U:mcm5s2U RNA tRNA 34 UUU 3UU tRNALys 3UU wobble - position Cytoplasm and Mitochondrion 17592039   
cm5s2U:mcm5s2U RNA tRNA 34 UUC 3UC tRNAThrAGT wobble - position Cytoplasm and Nucleoplasm 17592039   

Alpha Fold Predicted Structure:






Clear Selection and Reset Camera

Protein sequence:

M S F T A P S D P V N K P T K V K V S Q L C E L C H S R K A L I R R P K N L S K L C K Q C F C L V F E T E I H N T I V A N N L F Q R G E K V A V G A S G G K D S T V L A H M L K L L N D R Y D Y G I E I V L L S I D E G I I G Y R D D S L A T V K R N Q Q Q Y G L P L E I F S F K D L Y D W T M D E I V S V A G I R N S C T Y C G V F R R Q S L D R G A A K L G I S H V V T G H N A D D M A E T V L M N I L R G D V A R L E K S T A I I T Q S S G S P I K R S K P F K Y S Y Q K E I V L Y A H Y M K L D Y F S T E C T Y A P E A F R G T A R E Y M K N L E A V R P S C I I D I I Q S G E N L A L K A K K S N A G K R V V K F V D G N R C A R C G Y L S S N N I C K A C M L L E G L E K S R A Q V A I E N D T S A D G A A L K L R A L E K L S F

Secondary Structure Alphabet

  • G: 3-turn helix (310helix)
  • H: α-helix
  • I: 𝝅-helix (5 - turn helix)
  • T: Hydrogen Bonded Turn
  • B: β-sheet
  • S: Bend
  • C: Coil (residues not present in any of the above conformations)
  • N: Not assigned

Download PDB Structures & DSSP Secondary Structures:

Alpha Fold Pdb Files   AF-P53088-F1.pdb  
Alpha Fold Pdbx/mmCIF Files   AF-P53088-F1.cif  
DSSP Secondary Structures   P53088.dssp  





Publications:

Title Authors Journal Details PubMed Id DOI
Ubiquitin-related modifier Urm1 acts as a sulphur carrier in thiolation of eukaryotic transfer RNA. Leidel S, Pedrioli PG, Bucher T, Brost R, Costanzo M, Schmidt A, Aebersold R, Boone C, Hofmann K, Peter M Nature [details] 19145231 -
A conserved modified wobble nucleoside (mcm5s2U) in lysyl-tRNA is required for viability in yeast. Bjork GR, Huang B, Persson OP, Bystrom AS RNA [details] 17592039 -
Mechanistic characterization of the sulfur-relay system for eukaryotic 2-thiouridine biogenesis at tRNA wobble positions. Noma A, Sakaguchi Y, Suzuki T Nucleic Acids Res [details] 19151091 -
A genome-wide screen identifies genes required for formation of the wobble nucleoside 5-methoxycarbonylmethyl-2-thiouridine in Saccharomyces cerevisiae. Huang B, Lu J, Bystrom AS RNA [details] 18755837 -
Thio-modification of yeast cytosolic tRNA requires a ubiquitin-related system that resembles bacterial sulfur transfer systems. Nakai Y, Nakai M, Hayashi H J Biol Chem [details] 18664566 -
Protein degradation and dynamic tRNA thiolation fine-tune translation at elevated temperatures. Tyagi K, Pedrioli PG... Nucleic Acids Res [details] 25870413 -

Links:

_PubMed_