Modomics - A Database of RNA Modifications

ID Card:

Full name: tRNA wybutosine-synthesizing protein 3
Synonym: YGL050W
GI: 1322543
COG: COG1590
UniProt: P53177
Structures: | |
Alpha Fold Predicted Structure: AF-P53177-F1
Enzyme type: methyltransferase
Position of modification - modification: t:37 - yW



Protein sequence:

MAAQNAFEQKKRAILNEIDSTQPDLSPKGTIDELCLPIIDLINASADMVTTSSCSGRVSVFLEGTKSYNGEVKIGGKGQGGKWLYVTHDREKVIGWLDELKSKSEFSFELSGKEIPTEKVTGSIRYILYKYEPFILHVKCRDFQAASKLYNTAMSCGFRESGIGSNNLVAIRINIKLDVPLGYLDETSGTLKFFVTPEYVSVLDSLSLSKFDENTRKMQALYDRIEKELINCAPDVNSKVNITPIETKEERRERKKREGMERQRQLKSPQNVL

Comments:

TYW3 takes part in wyosine synthesis. It methylates N-4 position of yW-86 in Ado-Met-dependent manner to yield yW-72.




Reaction Substrate SubstrateType Position (Anti)Codon Modified (Anti)Codon Amino Acid Change Transcript Name Transcript Region Cellular Localization References
yW-86:yW-72 RNA tRNA 37 #AA #AA tRNAPhe#AA anticodon-loop Cytoplasm 16642040   
yW-86:yW-72 RNA tRNA 37 #AA #AA tRNAPhe#AA anticodon-loop Cytoplasm 16642040   

Alpha Fold Predicted Structure:






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Protein sequence:

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

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-P53177-F1.pdb  
Alpha Fold Pdbx/mmCIF Files   AF-P53177-F1.cif  
DSSP Secondary Structures   P53177.dssp  





Publications:

Title Authors Journal Details PubMed Id DOI
Biosynthesis of wybutosine, a hyper-modified nucleoside in eukaryotic phenylalanine tRNA. Noma A, Kirino Y, Ikeuchi Y, Suzuki T EMBO J [details] 16642040 -

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