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Information on EC 6.1.1.1 - tyrosine-tRNA ligase and Organism(s) Homo sapiens and UniProt Accession Q9Y2Z4

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Homo sapiens
UNIPROT: Q9Y2Z4 not found.
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Word Map
The taxonomic range for the selected organisms is: Homo sapiens
The enzyme appears in selected viruses and cellular organisms
Synonyms
tyrosyl-trna synthetase, tyrrs, cyt-18, mitochondrial tyrosyl-trna synthetase, mini-tyrrs, tyrrss, cyt-18 protein, tyrosyl trna synthetase, mttyrrs, ldtyrrs, more
SYNONYM
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
mitochondrial tyrosyl-tRNA synthetase
-
-
mt-TyrRS
-
-
Tyrosine translase
-
-
-
-
Tyrosine tRNA synthetase
-
-
-
-
Tyrosine--tRNA ligase
-
-
-
-
Tyrosine-transfer ribonucleate synthetase
-
-
-
-
Tyrosine-transfer RNA ligase
-
-
-
-
Tyrosyl--tRNA ligase
-
-
-
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Tyrosyl-transfer ribonucleate synthetase
-
-
-
-
Tyrosyl-transfer ribonucleic acid synthetase
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-
-
-
Tyrosyl-transfer RNA synthetase
-
-
-
-
Tyrosyl-tRNA ligase
-
-
-
-
Tyrosyl-tRNA synthetase
TyrRS
YARS
-
-
REACTION
REACTION DIAGRAM
COMMENTARY hide
ORGANISM
UNIPROT
LITERATURE
ATP + L-tyrosine + tRNATyr = AMP + diphosphate + L-tyrosyl-tRNATyr
show the reaction diagram
REACTION TYPE
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
esterification
Acylation
PATHWAY SOURCE
PATHWAYS
-
-
SYSTEMATIC NAME
IUBMB Comments
L-tyrosine:tRNATyr ligase (AMP-forming)
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CAS REGISTRY NUMBER
COMMENTARY hide
9023-45-4
-
SUBSTRATE
PRODUCT                       
REACTION DIAGRAM
ORGANISM
UNIPROT
COMMENTARY
(Substrate) hide
LITERATURE
(Substrate)
COMMENTARY
(Product) hide
LITERATURE
(Product)
Reversibility
r=reversible
ir=irreversible
?=not specified
ATP + L-tyrosine + tRNATyr
AMP + L-Tyr-tRNATyr + diphosphate
show the reaction diagram
the enzyme aminoacylates Escherichia coli tRNA as well as in vitro transcribed human mitochondrial tRNAs
-
-
?
ATP + L-tyrosine + tRNATyr
AMP + diphosphate + L-tyrosyl-tRNATyr
show the reaction diagram
ATP + L-tyrosine + tRNATyr
AMP + L-Tyr-tRNATyr + diphosphate
show the reaction diagram
ATP + L-tyrosine + tRNATyr + A22G mutated tRNATyr transcript
?
show the reaction diagram
-
-
-
-
?
ATP + L-tyrosine + tRNATyr + G15A mutated tRNATyr transcript
?
show the reaction diagram
-
-
-
-
?
ATP + L-tyrosine + tRNATyr + U54C mutated tRNATyr transcript
?
show the reaction diagram
-
-
-
-
?
ATP + tyrosine + tRNATyr
AMP + Tyr-tRNATyr + diphosphate
show the reaction diagram
additional information
?
-
NATURAL SUBSTRATE
NATURAL PRODUCT
REACTION DIAGRAM
ORGANISM
UNIPROT
COMMENTARY
(Substrate) hide
LITERATURE
(Substrate)
COMMENTARY
(Product) hide
LITERATURE
(Product)
REVERSIBILITY
r=reversible
ir=irreversible
?=not specified
ATP + L-tyrosine + tRNATyr
AMP + diphosphate + L-tyrosyl-tRNATyr
show the reaction diagram
ATP + L-tyrosine + tRNATyr
AMP + L-Tyr-tRNATyr + diphosphate
show the reaction diagram
ATP + tyrosine + tRNATyr
AMP + Tyr-tRNATyr + diphosphate
show the reaction diagram
additional information
?
-
COFACTOR
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
IMAGE
METALS and IONS
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
KM VALUE [mM]
SUBSTRATE
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
IMAGE
0.00052 - 0.0048
tRNATyr
1.6
A22G mutated tRNATyr transcript
-
-
-
3 - 4.1
ATP
0.8
G15A mutated tRNATyr transcript
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-
-
22 - 32
K+
0.0003 - 0.05
L-tyrosine
0.0009 - 4.8
tRNATyr
2.2
U54C mutated tRNATyr transcript
-
-
-
additional information
additional information
-
TURNOVER NUMBER [1/s]
SUBSTRATE
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
IMAGE
0.00003
A22G mutated tRNATyr transcript
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-
-
0.0002
G15A mutated tRNATyr transcript
-
-
-
0.78 - 45
L-tyrosine
0.046
tRNATyr
-
-
0.012
U54C mutated tRNATyr transcript
-
-
-
additional information
additional information
-
SPECIFIC ACTIVITY [µmol/min/mg]
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
0.0000076
-
purified recombinant His-tagged enzyme
additional information
-
in vitro tyrosylation efficiency is decreased 600fold for mutant A22G (mitochondrial gene mutation T5874C), 40fold for G15A (C5877T), and is without significant effect on U54C (A5843G)
pH OPTIMUM
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
7.4
-
adhesion assay at
7.6
-
assay at
7.8
assay at
TEMPERATURE OPTIMUM
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
22
aminoacylation assay at room temperature
25
-
assay at
30
-
assay at
ORGANISM
COMMENTARY hide
LITERATURE
UNIPROT
SEQUENCE DB
SOURCE
-
Uniprot
Manually annotated by BRENDA team
SOURCE TISSUE
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
SOURCE
-
lung cancer giant-cell strain
Manually annotated by BRENDA team
peripheral blood leukocytes
Manually annotated by BRENDA team
-
differentiating, YARS locates mostly in the granular structures of the growth cone, branch points and the most distal part of of projecting neurites, co-localization with synaptophysin
Manually annotated by BRENDA team
additional information
-
YARS is expressed ubiquitously, in neuronal cells making extensions, the enzyme is located at outgrowth behaving like an early polarity maker, overview
Manually annotated by BRENDA team
LOCALIZATION
ORGANISM
UNIPROT
COMMENTARY hide
GeneOntology No.
LITERATURE
SOURCE
human mitochondrial and cytosolic enzymes are encoded by two different sets of genes
Manually annotated by BRENDA team
-
axonal termini in differentiating primary motor neuron and neuroblastoma cultures
Manually annotated by BRENDA team
additional information
GENERAL INFORMATION
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
physiological function
additional information
-
dissociating quaternary structures regulating novel functions of other tRNA synthetases
UNIPROT
ENTRY NAME
ORGANISM
NO. OF AA
NO. OF TRANSM. HELICES
MOLECULAR WEIGHT[Da]
SOURCE
SEQUENCE
LOCALIZATION PREDICTION?
SYYM_HUMAN
477
0
53199
Swiss-Prot
Mitochondrion (Reliability: 2)
MOLECULAR WEIGHT
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
130000
gel filtration
51302
2 * 51302, calculation from amino acid sequence
58000
-
2 * 58000, SDS-PAGE
SUBUNIT
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
dimer
2 * 51302, calculation from amino acid sequence
?
-
x * 59000, recombinant His6-tagged enzyme, SDS-PAGE
dimer
homodimer
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POSTTRANSLATIONAL MODIFICATION
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
proteolytic modification
-
the C-terminal domain of the enzyme, which has cytokine and angiogenic activity and stimulates immune cells, is isolated by proteolytic cleavage or alternative splicing, the mini enzyme is a stimulator of blood vessel development, the full-length enzyme is inactive
CRYSTALLIZATION (Commentary)
ORGANISM
UNIPROT
LITERATURE
mutant mt-TyrRS-DS4, lacking the C-terminal S4-like domain, in complex with Tyr-AMS, an adenylate analogue, X-ray diffraction structure determination and analysis at 2.2 A resolution, molecular replacement
-
PROTEIN VARIANTS
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
E196K
-
naturally occuring mutation in the autosomal dominant intermediate Charcot-Marie-Tooth neuropathy type C disorder, the mutant enzyme shows reduced activity and specific distribution in the cell compared to the wild-type enzyme, no functional complementation of a Saccharomyces cerevisiae TYS1 mutant strain, the mutant shows altered distribution in neuronal cells compared to the wild-type enzyme when recombinantly expressed
G41R
-
naturally occuring mutation in the autosomal dominant intermediate Charcot-Marie-Tooth neuropathy type C disorder, the mutant enzyme shows reduced activity and specific distribution in the cell compared to the wild-type enzyme, partial functional complementation of a Saccharomyces cerevisiae TYS1 mutant strain, the mutant shows altered distribution in neuronal cells compared to the wild-type enzyme when recombinantly expressed
K231A
-
site-directed mutagenesis, no effect on the catalytic activity of the enzyme
M252A
-
site-directed mutagenesis, the mutant is fully active in ATP/diphosphate exchange, indicating that the site for tyrosyl-adenylate formation remains unperturbed upon mutation, tRNA mutant U73 is no more charged by mt-TyrRS upon Met252Ala mutation, the weak tyrosylation activity of tRNATyr with G73 is completely abolished, mutating Met252 shows only faint effects on wild-type and mutants mt-tRNATyr charging as compared to the wild-type enzyme
mini-TyrRS_D173A
binding pocket variant, retains cytokine function
mini-TyrRS_TyrRS(ELQ)
the surface helix encodes an ELR motif that functions like the ELR tripeptide in CXC cytokines, substitution of Arg93 to generate ELQ
mini-TyrRS_TyrRS(EYR)
the surface helix encodes an ELR motif that functions like the ELR tripeptide in CXC cytokines, substitution of Leu92 to generate EYR
mini-TyrRS_TyrRS(NLR)
the surface helix encodes an ELR motif that functions like the ELR tripeptide in CXC cytokines, substitution of Glu91 to generate NLR
mini-TyrRS_Y39A
binding pocket variant, retains cytokine function
mini-TyrRS_Y39A/D173A
binding pocket variant, retains cytokine function
Q202A
-
site-directed mutagenesis, the mutant is fully active in ATP/diphosphate exchange, indicating that the site for tyrosyl-adenylate formation remains unperturbed upon mutation, the weak tyrosylation activity of tRNATyr with G73 is completely abolished, mutating Gln202 shows only faint effects on wild-type and mutants mt-tRNATyr charging as compared to the wild-type enzyme
S200A
-
site-directed mutagenesis, the mutant is fully active in ATP/diphosphate exchange, indicating that the site for tyrosyl-adenylate formation remains unperturbed upon mutation, replacing Ser200 with Glu completely abolishes tyrosylation activity of wild-type and mutated tRNATyr transcripts
S224A
-
site-directed mutagenesis, 7.5fold decrease of the forward rate constant
S225A
-
site-directed mutagenesis, no effect on the catalytic activity of the enzyme
S226A
-
site-directed mutagenesis, 60fold decrease of the forward rate constant
TyrRS_153-156delVKQV
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dominant-intermediate Charcot-Marie-Tooth neuropathy associated mutation
TyrRS_E196K
-
dominant-intermediate Charcot-Marie-Tooth neuropathy associated mutation
TyrRS_G41R
-
dominant-intermediate Charcot-Marie-Tooth neuropathy associated mutation
additional information
PURIFICATION (Commentary)
ORGANISM
UNIPROT
LITERATURE
by utilizing the His-tag
recombinant His-Tagged enzyme form Escherichia coli strain BL21(DE3), removal of the N-terminal His-tag
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recombinant His-tagged enzyme from Escherichia coli strain BL21, 4.2fold
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recombinant His-tagged full-length wild-type and mutant mitochondrial enzymes, and truncated mutant mt-TyrRS-DS4 mitochondrial enzyme from Escherichia coli by nickel affinity chromatography
-
recombinant His6-tagged enzyme from Escherichia coli strain BL21(DE3) by nickel affinity chromatography
-
recombinant thioredoxin-His-tagged enzyme splice variants from Escherichia coli strain BL21(DE3) by nickel affinity chromatography
recombinant wild-type and mutant His-tagged enzymes
-
CLONED (Commentary)
ORGANISM
UNIPROT
LITERATURE
overexpression in Escherichia coli
DNA and amino acid sequence determination of wild-type and mutant enzymes, localization of the gene encoding the enzyme on chromosome 1p34-p35, functional complementation of a Saccharomyces cerevisiae TYS1 mutant strain, overview, transient expression of EGFP-tagged wild-type and mutant enzymes in murine neuroblastoma N2a cells
-
expression of His-tagged full-length wild-type and truncated mutant enzymes in Escherichia coli
-
expression of the enzyme as His-tagged protein in Escherichia coli strain BL21(DE3)
-
expression of wild-type and mutant enzymes as His-tagged proteins in Escherichia coli
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gene TyrS, DNA sequence determination, overexpression as His-tagged enzyme in Escherichia coli BL21
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mutant human mini-TyrRS constructs are generated using QuikChange site-directed mutagenesis kit and using a plasmid encoding the gene for wild-type human mini-TyrRS as the template for PCR mutagenesis reactions, all proteins are expressed with a C-terminal His-tag to facilitate purification
recombinant expression of N-terminally His6-tagged enzyme in Escherichia coli strain BL21(DE3)
-
tyrS, DNA and amino acid sequence determination and analysis, analysis of two closely related, internally deleted, splice variants of homodimeric human tyrosyl-tRNA synthetase (TyrRS). Detection of the TyrRS transcripts in the cytoplasmic and polyribosomal RNA is carried out by PCR using primers targeting the 5'-UTR/exon1 and exon5/exon6 regions of the TyrRS gene (FP and RP2). Recombinant expression of splice variants in Jurkat T, THP-1, or HEK-293T cells, and recombinant expression of splice variants as thioredoxin-His-tagged proteins in Escherichia coli strain BL21(DE3), removal of the tag by protease-3C, followed by gel filtration
APPLICATION
ORGANISM
UNIPROT
COMMENTARY hide
LITERATURE
medicine
pharmacology
-
design of antimicrobials that target the bacterial enzyme of Bacillus stearothermophilus making use of the differences between the actives sites of the 2 enzymes
REF.
AUTHORS
TITLE
JOURNAL
VOL.
PAGES
YEAR
ORGANISM (UNIPROT)
PUBMED ID
SOURCE
Ewalt, K.L.; Schimmel, P.
Activation of angiogenic signaling pathways by two human tRNA synthetases
Biochemistry
41
13344-13349
2002
Homo sapiens
Manually annotated by BRENDA team
Austin, J.; First, E.A.
Catalysis of tyrosyl-adenylate formation by the human tyrosyl-tRNA synthetase
J. Biol. Chem.
277
14812-14820
2002
Homo sapiens
Manually annotated by BRENDA team
Austin, J.; First, E.A.
Comparison of the catalytic roles played by the KMSKS motif in the human and Bacillus stearothermophilus trosyl-tRNA synthetases
J. Biol. Chem.
277
28394-28399
2002
Geobacillus stearothermophilus, Homo sapiens
Manually annotated by BRENDA team
Jia, J.; Li, B.; Jin, Y.; Wang, D.
Expression, purification, and characterization of human tyrosyl-tRNA synthetase
Protein Expr. Purif.
27
104-108
2003
Homo sapiens
Manually annotated by BRENDA team
Bonnefond, L.; Fender, A.; Rudinger-Thirion, J.; Giege, R.; Florentz, C.; Sissler, M.
Toward the full set of human mitochondrial aminoacyl-tRNA synthetases: characterization of AspRS and TyrRS
Biochemistry
44
4805-4816
2005
Homo sapiens (Q9Y2Z4), Homo sapiens
Manually annotated by BRENDA team
Jordanova, A.; Irobi, J.; Thomas, F.P.; Van Dijck, P.; Meerschaert, K.; Dewil, M.; Dierick, I.; Jacobs, A.; De Vriendt, E.; Guergueltcheva, V.; Rao, C.V.; Tournev, I.; Gondim, F.A.; DHooghe, M.; Van Gerwen, V.; Callaerts, P.; Van Den Bosch, L.; Timmermans, J.P.; Robberecht, W.; Gettemans, J.; The, T.h.e.v.
Disrupted function and axonal distribution of mutant tyrosyl-tRNA synthetase in dominant intermediate Charcot-Marie-Tooth neuropathy
Nat. Genet.
38
197-202
2006
Homo sapiens
Manually annotated by BRENDA team
Bonnefond, L.; Frugier, M.; Touze, E.; Lorber, B.; Florentz, C.; Giege, R.; Sauter, C.; Rudinger-Thirion, J.
Crystal structure of human mitochondrial tyrosyl-tRNA synthetase reveals common and idiosyncratic features
Structure
15
1505-1516
2007
Homo sapiens
Manually annotated by BRENDA team
Bonnefond, L.; Florentz, C.; Giege, R.; Rudinger-Thirion, J.
Decreased aminoacylation in pathology-related mutants of mitochondrial tRNATyr is associated with structural perturbations in tRNA architecture
RNA
14
641-648
2008
Homo sapiens
Manually annotated by BRENDA team
Kapoor, M.; Otero, F.J.; Slike, B.M.; Ewalt, K.L.; Yang, X.L.
Mutational separation of aminoacylation and cytokine activities of human tyrosyl-tRNA synthetase
Chem. Biol.
16
531-539
2009
Homo sapiens (P54577), Homo sapiens
Manually annotated by BRENDA team
Storkebaum, E.; Leitao-Goncalves, R.; Godenschwege, T.; Nangle, L.; Mejia, M.; Bosmans, I.; Ooms, T.; Jacobs, A.; Van Dijck, P.; Yang, X.L.; Schimmel, P.; Norga, K.; Timmerman, V.; Callaerts, P.; Jordanova, A.
Dominant mutations in the tyrosyl-tRNA synthetase gene recapitulate in Drosophila features of human Charcot-Marie-Tooth neuropathy
Proc. Natl. Acad. Sci. USA
106
11782-11787
2009
Saccharomyces cerevisiae, Drosophila melanogaster, Homo sapiens
Manually annotated by BRENDA team
Vo, M.N.; Yang, X.L.; Schimmel, P.
Dissociating quaternary structure regulates cell-signaling functions of a secreted human tRNA synthetase
J. Biol. Chem.
286
11563-11568
2011
Homo sapiens
Manually annotated by BRENDA team
Savytskyi, O.V.; Yesylevskyy, S.O.; Kornelyuk, A.I.
Asymmetric structure and domain binding interfaces of human tyrosyl-tRNA synthetase studied by molecular dynamics simulations
J. Mol. Recognit.
26
113-120
2013
Homo sapiens (P54577), Homo sapiens
Manually annotated by BRENDA team
Ling, Z.; Yanling, Z.; Zhe, F.; Kui, C.; Xiushi, Z.; Min, Y.; Wei, M.
Recombinant human tyrosyl-tRNA synthetase, a novel thrombopoietic agent
Eur. J. Pharmacol.
738
293-300
2014
Homo sapiens
Manually annotated by BRENDA team
Wei, Z.; Xu, Z.; Liu, X.; Lo, W.S.; Ye, F.; Lau, C.F.; Wang, F.; Zhou, J.J.; Nangle, L.A.; Yang, X.L.; Zhang, M.; Schimmel, P.
Alternative splicing creates two new architectures for human tyrosyl-tRNA synthetase
Nucleic Acids Res.
44
1247-1255
2016
Homo sapiens (P54577), Homo sapiens
Manually annotated by BRENDA team
Tsukahara, T.; Yamagishi, S.; Neyama, H.; Ueda, H.
Tyrosyl-tRNA synthetase A potential kyotorphin synthetase in mammals
Peptides
101
60-68
2018
Homo sapiens
Manually annotated by BRENDA team