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The two reactions compared are done so using a Tanimoto similarity score (for more information, please see the MACiE FAQ) for the bond changes only. The score maay range from 0 to 1 where 1 indicates that the two reactions are identical at the bond change level and 0 indicates that there are no bond changes in common.


Key

1.0-0.9 0.9-0.8 0.8-0.7 0.7-0.6 0.6-0.5 0.5-0.4 0.4-0.3 0.3-0.2 0.2-0.1 0.1-0.0 =0

Results for Comparison of M0197 and M0309

These two reactions have a combined similarity of 0.66


M0197

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Comparison

M0309

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EC 6.1.1.1
tyrosine-tRNA ligase
Serial Number EC 6.1.1.5
isoleucine-tRNA ligase

Image of L-tyrosine

Image of ATP

Image of tRNA(Tyr)

right arrow

Image of L-tyrosyl-tRNA(Tyr)

Image of AMP

Image of diphosphate

L-tyrosine
C00082
CHEBI:58315
ATP
C00002
CHEBI:30616
tRNA(Tyr)
C00787
CHEBI:29182
L-tyrosyl-tRNA(Tyr)
C02839
CHEBI:29161
AMP
C00020
CHEBI:456215
diphosphate
C00013
CHEBI:33019
1

Image of L-Isoleucine

Image of ATP

Image of tRNA (Isoleucine)

right arrow

Image of Isoleucyl-tRNA

Image of AMP

Image of diphosphate

L-Isoleucine
C00407
CHEBI:17191
ATP
C00002
CHEBI:15422
tRNA (Isoleucine)
C01644
CHEBI:29174
Isoleucyl-tRNA
C03127
CHEBI:29160
AMP
C00020
CHEBI:16027
diphosphate
C00013
CHEBI:45212

Catalytic CATH Codes

3.40.50.620
1.10.240.10

Catalytic CATH Codes

3.40.50.620

Active Site



0.32342

Active Site



Catalytic Residues

Type Number Chain Location of Function
Thr 40 A Side Chain
His 45 A Side Chain
His 48 A Side Chain
Lys 82 A Side Chain
Arg 86 A Side Chain
Gln 173 A Side Chain
Lys 230 A Side Chain
Lys 233 A Side Chain
Thr 234 A Side Chain
Asp 194 A Side Chain
0.3478

Catalytic Residues

Type Number Chain Location of Function
Lys 591 A Side Chain
Lys 594 A Side Chain
Pro 46 A Side Chain
Trp 518 A Side Chain
Trp 558 A Side Chain
Asp 85 A Side Chain
Gln 554 A Side Chain

Organic Cofactors

No Associated Organic Cofactors

Organic Cofactors

No Associated Organic Cofactors

Metal Cofactors

Type Het group Number Chain
magnesium MG(not in PDB) 1 x

Metal Cofactors

Type Het group Number Chain
zinc ZN 1101 A
zinc ZN 1102 A
magnesium No Available PDB Information

Reaction occurs across 2 steps

0.75

Reaction occurs across 3 steps

Step 1
GIF of Reaction Step M0197.stg01

The carboxylate group of the substrate L-tyrosine acts as a nucleophile and attacks the alpha-phosphate of the ATP in a substitution reaction that liberates pyrophosphate. Mg(II) and all catalytic residues stabilise the intermediates formed. Thr234 also affects the steric outcome of the reaction.
1 Step 1
GIF of Reaction Step M0309.stg01

The zwitterionic leucine substrate attacks the alpha phosphate of ATP, forming an activated, adenylated, amino acid.
Step 2
GIF of Reaction Step M0197.stg02

The phosphate of the tyrosine-AMP complex deprotonates the OH of the ribose ring, which acts as a nucleophile to attack the carbonyl group of the tyrosine in the tyrosine-AMP complex in a substitution reaction, liberating AMP. Mg(II), Thr40, His48, Lys82, Arg86 and Gln173 all stabilise the intermediates formed.
0.6 Step 2
GIF of Reaction Step M0309.stg02

The 2' end of the specific tRNA molecule attacks at the activated phospho-ester bond.
Step 3
No Step with this number present
N/A Step 3
GIF of Reaction Step M0309.stg03

The anionic, tetrahedral intermediate collapses, generating the tRNA-isoleucine adduct and AMP.

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