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:	Crystal structure of the yeast heterodimeric ADAT2/3
Classification:	HYDROLASE
Technique:	X-Ray Diffraction
Resolution:	2.80
R value free:	0.250
R value observed:	0.203
R value work:	0.200

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.

Search:

Reaction	Substrate	SubstrateType	Position	(Anti)Codon	Modified (Anti)Codon	Transcript Name	Transcript Region	Cellular Localization	References
A:I	RNA	tRNA	34	AGG	IGG	tRNA^Pro_IGG	anticodon-loop	Nucleus	22024020
A:I	RNA	tRNA	34	AAC	IAC	tRNA^Val_IAC	anticodon-loop	Nucleus	22024020
A:I	RNA	tRNA	34	AGU	IGU	tRNA^Thr_IGU	anticodon-loop	Nucleus	22024020
A:I	RNA	tRNA	34	AGA	IGA	tRNA^Ser_IGA	anticodon-loop	Nucleus	22024020
A:I	RNA	tRNA	34	AAU	IAU	tRNA^Ile_IAU	anticodon-loop	Nucleus	22024020
A:I	RNA	tRNA	34	ACG	ICG	tRNA^Arg_ICG	anticodon-loop	Nucleus	22024020
A:I	RNA	tRNA	34	AGC	IGC	tRNA^Ala_IGC	anticodon-loop	Nucleus	22024020


A:I
A:I
A:I
A:I
A:I
A:I
A:I

Showing 1 to 7 of 7 entries

Alpha Fold Predicted Structure:

Parsing response... [303930/303930]

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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:

Search:

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


A-to-I and C-to-U editing within transfer RNAs.
An adenosine deaminase that generates inosine at the wobble position of tRNAs.
Determinants of tRNA editing and modification: Avoiding conundrums, affecting function.

Showing 1 to 3 of 3 entries

Links:

_Wikipedia_-_RNA_editing_
_Wikipedia_-_Deamination_
_SGD_

_Wikipedia_-_RNA_editing_

_Wikipedia_-_Deamination_

_SGD_