Modomics - A Database of RNA Modifications

ID Card:

Full name: tRNA-specific adenosine deaminase subunit TAD3
Synonym: ADAT3
GI: 23822264
Orf: YLR316C
COG: COG0590
UniProt: Q9URQ3
Structures: | 7BV5 |
Alpha Fold Predicted Structure: AF-Q9URQ3-F1
Complex: Tad2/3
Enzyme type: deaminase
Position of modification - modification: t:34 - I


PDB Structures:


7BV5

Structure Description:

Title:
Classification:
Technique:

Abstract of the PDB Structure's related Publication:

The adenosine-to-inosine (A-to-I) editing in anticodons of tRNAs is critical for wobble base-pairing during translation. This modification is produced via deamination on A34 and catalyzed by the adenosine deaminase acting on tRNA (ADAT) enzyme. Eukaryotic ADATs are heterodimers composed of the catalytic subunit ADAT2 and the structural subunit ADAT3, but their molecular assemblies and catalytic mechanisms are largely unclear.

Download RCSB-PDB Structures:

Pdb Files   7BV5.pdb  
Pdbx/mmCIF Files   7BV5.cif  


Protein sequence:

MVKKVNNPLKIDYQNGIIENRLLQIRNFKDVNTPKLINVWSIRIDPRDSKKVIELIRNDFQKNDPVSLRHLKRIRKDIETSTLEVVLCSKEYICDEGEINNKLKSIWVGTKKYELSDDIEVPEFAPSTKELNNAWSVKYWPLIWNGNPNDQILNDYKIDMQEVRNELSRASTLSVKMATAGKQFPMVSVFVDPSRKKDKVVAEDGRNCENSLPIDHSVMVGIRAVGERLREGVDEDANSYLCLDYDVYLTHEPCSMCSMALIHSRVRRVVFLTEMQRTGSLKLTSGDGYCMNDNKQLNSTYEAFQWIGEEYPVGQVDRDVCC

Comments:

Tad2 is a part of the heterodimeric deaminase Tad2/3 (ADAT2/3) which is responsible for A:I reaction in tRNA position 34. Zinc enzyme.




Reaction Substrate SubstrateType Position (Anti)Codon Modified (Anti)Codon Amino Acid Change Transcript Name Transcript Region Cellular Localization References
A:I RNA tRNA 34 AGG IGG tRNAProIGG anticodon-loop Nucleus 22024020   
A:I RNA tRNA 34 AAC IAC tRNAValIAC anticodon-loop Nucleus 22024020   
A:I RNA tRNA 34 AGU IGU tRNAThrIGU anticodon-loop Nucleus 22024020   
A:I RNA tRNA 34 AGA IGA tRNASerIGA anticodon-loop Nucleus 22024020   
A:I RNA tRNA 34 AAU IAU tRNAIleIAU anticodon-loop Nucleus 22024020   
A:I RNA tRNA 34 ACG ICG tRNAArgICG anticodon-loop Nucleus 22024020   
A:I RNA tRNA 34 AGC IGC tRNAAlaIGC anticodon-loop Nucleus 22024020   

Alpha Fold Predicted Structure:






Clear Selection and Reset Camera

Protein sequence:

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

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-Q9URQ3-F1.pdb  
Alpha Fold Pdbx/mmCIF Files   AF-Q9URQ3-F1.cif  
DSSP Secondary Structures   Q9URQ3.dssp  





Publications:

Title Authors Journal Details PubMed Id DOI
An adenosine deaminase that generates inosine at the wobble position of tRNAs. Gerber AP, Keller W Science [details] 10550050 -
A-to-I and C-to-U editing within transfer RNAs. Su AA, Randau L Biochemistry (Mosc) [details] 22022967 -
Determinants of tRNA editing and modification: Avoiding conundrums, affecting function. Paris Z, Fleming IM, Alfonzo JD Semin Cell Dev Biol [details] 22024020 -

Links:

_Wikipedia_-_RNA_editing_
_Wikipedia_-_Deamination_
_SGD_