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Protein

Tyrosine--tRNA ligase, cytoplasmic

Gene

YARS

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: -Experimental evidence at protein leveli

Functioni

Catalyzes the attachment of tyrosine to tRNA(Tyr) in a two-step reaction: tyrosine is first activated by ATP to form Tyr-AMP and then transferred to the acceptor end of tRNA(Tyr).By similarity

Catalytic activityi

ATP + L-tyrosine + tRNA(Tyr) = AMP + diphosphate + L-tyrosyl-tRNA(Tyr).

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Binding sitei39TyrosineCombined sources1 Publication1
Binding sitei166TyrosineCombined sources1 Publication1
Binding sitei170TyrosineCombined sources1 Publication1
Binding sitei173TyrosineCombined sources1 Publication1
Binding sitei188TyrosineCombined sources1 Publication1

GO - Molecular functioni

  • ATP binding Source: UniProtKB-KW
  • interleukin-8 receptor binding Source: ProtInc
  • RNA binding Source: UniProtKB
  • signal transducer activity Source: ProtInc
  • tRNA binding Source: GO_Central
  • tyrosine-tRNA ligase activity Source: Reactome

GO - Biological processi

  • apoptotic process Source: ProtInc
  • tRNA aminoacylation for protein translation Source: GO_Central
  • tyrosyl-tRNA aminoacylation Source: ProtInc

Keywordsi

Molecular functionAminoacyl-tRNA synthetase, Ligase, RNA-binding, tRNA-binding
Biological processProtein biosynthesis
LigandATP-binding, Nucleotide-binding

Enzyme and pathway databases

BRENDAi6.1.1.1 2681
ReactomeiR-HSA-379716 Cytosolic tRNA aminoacylation

Names & Taxonomyi

Protein namesi
Recommended name:
Tyrosine--tRNA ligase, cytoplasmic (EC:6.1.1.1)
Alternative name(s):
Tyrosyl-tRNA synthetase
Short name:
TyrRS
Cleaved into the following chain:
Gene namesi
Name:YARS
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 1

Organism-specific databases

EuPathDBiHostDB:ENSG00000134684.10
HGNCiHGNC:12840 YARS
MIMi603623 gene
neXtProtiNX_P54577

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

Keywords - Cellular componenti

Cytoplasm

Pathology & Biotechi

Involvement in diseasei

Charcot-Marie-Tooth disease, dominant, intermediate type, C (CMTDIC)1 Publication
The disease is caused by mutations affecting the gene represented in this entry.
Disease descriptionA form of Charcot-Marie-Tooth disease, a disorder of the peripheral nervous system, characterized by progressive weakness and atrophy, initially of the peroneal muscles and later of the distal muscles of the arms. The dominant intermediate type C is characterized by clinical and pathologic features intermediate between demyelinating and axonal peripheral neuropathies, and motor median nerve conduction velocities ranging from 25 to 45 m/sec.
See also OMIM:608323
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Natural variantiVAR_02668141G → R in CMTDIC; partial loss of activity. 1 PublicationCorresponds to variant dbSNP:rs121908833EnsemblClinVar.1
Natural variantiVAR_026682153 – 156Missing in CMTDIC. 1 Publication4
Natural variantiVAR_026684196E → K in CMTDIC; partial loss of activity. 1 PublicationCorresponds to variant dbSNP:rs121908834EnsemblClinVar.1

Keywords - Diseasei

Charcot-Marie-Tooth disease, Disease mutation, Neurodegeneration, Neuropathy

Organism-specific databases

DisGeNETi8565
MalaCardsiYARS
MIMi608323 phenotype
OpenTargetsiENSG00000134684
Orphaneti100045 Autosomal dominant intermediate Charcot-Marie-Tooth disease type C
PharmGKBiPA37431

Chemistry databases

ChEMBLiCHEMBL3179
DrugBankiDB01766 Beta-(2-Naphthyl)-Alanine
DB00135 L-Tyrosine
DB07205 N6-ISOPENTENYL-ADENOSINE-5'-MONOPHOSPHATE
DB08371 PARA-(BENZOYL)-PHENYLALANINE
DB03978 Tyrosinal

Polymorphism and mutation databases

BioMutaiYARS
DMDMi13638438

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00004232851 – 528Tyrosine--tRNA ligase, cytoplasmicAdd BLAST528
Initiator methionineiRemoved; alternateCombined sources2 Publications
ChainiPRO_00000556732 – 528Tyrosine--tRNA ligase, cytoplasmic, N-terminally processedAdd BLAST527

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei1N-acetylmethionineCombined sources1
Modified residuei2N-acetylglycine; in Tyrosine--tRNA ligase, cytoplasmic, N-terminally processedCombined sources1 Publication1
Modified residuei197N6-acetyllysineCombined sources1
Modified residuei205PhosphoserineCombined sources1
Modified residuei206N6-acetyllysineCombined sources1
Modified residuei386PhosphoserineCombined sources1
Modified residuei474N6-acetyllysineCombined sources1
Modified residuei482N6-acetyllysineCombined sources1
Modified residuei490N6-acetyllysineCombined sources1

Keywords - PTMi

Acetylation, Phosphoprotein

Proteomic databases

EPDiP54577
MaxQBiP54577
PaxDbiP54577
PeptideAtlasiP54577
PRIDEiP54577

2D gel databases

REPRODUCTION-2DPAGEIPI00007074

PTM databases

CarbonylDBiP54577
iPTMnetiP54577
PhosphoSitePlusiP54577
SwissPalmiP54577

Miscellaneous databases

PMAP-CutDBP54577

Expressioni

Gene expression databases

BgeeiENSG00000134684
CleanExiHS_YARS
ExpressionAtlasiP54577 baseline and differential
GenevisibleiP54577 HS

Organism-specific databases

HPAiHPA017936
HPA018950
HPA018954

Interactioni

Subunit structurei

Homodimer.2 Publications

Binary interactionsi

WithEntry#Exp.IntActNotes
PARP1P098745EBI-1048893,EBI-355676

GO - Molecular functioni

  • interleukin-8 receptor binding Source: ProtInc

Protein-protein interaction databases

BioGridi114134, 58 interactors
DIPiDIP-50415N
IntActiP54577, 17 interactors
MINTiP54577
STRINGi9606.ENSP00000362576

Chemistry databases

BindingDBiP54577

Structurei

Secondary structure

1528
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Helixi7 – 15Combined sources9
Beta strandi19 – 22Combined sources4
Helixi24 – 31Combined sources8
Beta strandi37 – 42Combined sources6
Helixi50 – 52Combined sources3
Helixi53 – 64Combined sources12
Beta strandi68 – 73Combined sources6
Helixi75 – 80Combined sources6
Turni81 – 84Combined sources4
Helixi87 – 108Combined sources22
Beta strandi115 – 119Combined sources5
Helixi120 – 122Combined sources3
Turni123 – 125Combined sources3
Helixi127 – 137Combined sources11
Helixi142 – 148Combined sources7
Turni149 – 152Combined sources4
Helixi161 – 176Combined sources16
Beta strandi180 – 185Combined sources6
Helixi186 – 188Combined sources3
Helixi189 – 198Combined sources10
Helixi199 – 202Combined sources4
Beta strandi208 – 212Combined sources5
Helixi238 – 246Combined sources9
Beta strandi247 – 249Combined sources3
Helixi259 – 266Combined sources8
Turni267 – 273Combined sources7
Beta strandi275 – 277Combined sources3
Helixi281 – 283Combined sources3
Beta strandi287 – 291Combined sources5
Helixi292 – 300Combined sources9
Helixi306 – 327Combined sources22
Helixi331 – 340Combined sources10
Helixi365 – 367Combined sources3
Beta strandi370 – 380Combined sources11
Beta strandi388 – 393Combined sources6
Beta strandi395 – 398Combined sources4
Beta strandi400 – 405Combined sources6
Turni407 – 409Combined sources3
Helixi412 – 414Combined sources3
Turni415 – 417Combined sources3
Beta strandi419 – 423Combined sources5
Beta strandi429 – 431Combined sources3
Beta strandi434 – 436Combined sources3
Beta strandi442 – 454Combined sources13
Beta strandi466 – 469Combined sources4
Beta strandi479 – 481Combined sources3
Helixi483 – 485Combined sources3
Helixi487 – 492Combined sources6
Beta strandi495 – 497Combined sources3
Beta strandi501 – 505Combined sources5
Beta strandi508 – 512Combined sources5
Beta strandi526 – 528Combined sources3

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1N3LX-ray1.18A1-364[»]
1NTGX-ray2.21A/B/C/D359-528[»]
1Q11X-ray1.60A1-364[»]
4Q93X-ray2.10A1-364[»]
4QBTX-ray2.10A1-364[»]
5THHX-ray1.96A4-342[»]
5THLX-ray1.60A1-364[»]
ProteinModelPortaliP54577
SMRiP54577
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP54577

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini364 – 468tRNA-bindingPROSITE-ProRule annotationAdd BLAST105

Motif

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Motifi44 – 52"HIGH" region9
Motifi222 – 226"KMSKS" region5

Sequence similaritiesi

Phylogenomic databases

eggNOGiKOG2144 Eukaryota
KOG2241 Eukaryota
COG0073 LUCA
COG0162 LUCA
GeneTreeiENSGT00790000123100
HOGENOMiHOG000228237
HOVERGENiHBG080113
InParanoidiP54577
KOiK01866
OMAiYIGFEIS
OrthoDBiEOG091G03XO
PhylomeDBiP54577
TreeFamiTF300898

Family and domain databases

CDDicd00805 TyrRS_core, 1 hit
Gene3Di3.40.50.620, 1 hit
InterProiView protein in InterPro
IPR002305 aa-tRNA-synth_Ic
IPR012340 NA-bd_OB-fold
IPR014729 Rossmann-like_a/b/a_fold
IPR002547 tRNA-bd_dom
IPR002307 Tyr-tRNA-ligase
PfamiView protein in Pfam
PF00579 tRNA-synt_1b, 1 hit
PF01588 tRNA_bind, 1 hit
PRINTSiPR01040 TRNASYNTHTYR
SUPFAMiSSF50249 SSF50249, 1 hit
TIGRFAMsiTIGR00234 tyrS, 1 hit
PROSITEiView protein in PROSITE
PS50886 TRBD, 1 hit

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

P54577-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MGDAPSPEEK LHLITRNLQE VLGEEKLKEI LKERELKIYW GTATTGKPHV
60 70 80 90 100
AYFVPMSKIA DFLKAGCEVT ILFADLHAYL DNMKAPWELL ELRVSYYENV
110 120 130 140 150
IKAMLESIGV PLEKLKFIKG TDYQLSKEYT LDVYRLSSVV TQHDSKKAGA
160 170 180 190 200
EVVKQVEHPL LSGLLYPGLQ ALDEEYLKVD AQFGGIDQRK IFTFAEKYLP
210 220 230 240 250
ALGYSKRVHL MNPMVPGLTG SKMSSSEEES KIDLLDRKED VKKKLKKAFC
260 270 280 290 300
EPGNVENNGV LSFIKHVLFP LKSEFVILRD EKWGGNKTYT AYVDLEKDFA
310 320 330 340 350
AEVVHPGDLK NSVEVALNKL LDPIREKFNT PALKKLASAA YPDPSKQKPM
360 370 380 390 400
AKGPAKNSEP EEVIPSRLDI RVGKIITVEK HPDADSLYVE KIDVGEAEPR
410 420 430 440 450
TVVSGLVQFV PKEELQDRLV VVLCNLKPQK MRGVESQGML LCASIEGINR
460 470 480 490 500
QVEPLDPPAG SAPGEHVFVK GYEKGQPDEE LKPKKKVFEK LQADFKISEE
510 520
CIAQWKQTNF MTKLGSISCK SLKGGNIS
Length:528
Mass (Da):59,143
Last modified:January 23, 2007 - v4
Checksum:i00C7E88843905780
GO

Sequence cautioni

The sequence AAB39406 differs from that shown. Reason: Frameshift at position 354.Curated

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti143H → R in BAD97328 (Ref. 4) Curated1

Natural variant

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Natural variantiVAR_02668141G → R in CMTDIC; partial loss of activity. 1 PublicationCorresponds to variant dbSNP:rs121908833EnsemblClinVar.1
Natural variantiVAR_026682153 – 156Missing in CMTDIC. 1 Publication4
Natural variantiVAR_026683170Q → H. Corresponds to variant dbSNP:rs2128600Ensembl.1
Natural variantiVAR_026684196E → K in CMTDIC; partial loss of activity. 1 PublicationCorresponds to variant dbSNP:rs121908834EnsemblClinVar.1
Natural variantiVAR_073292274E → K Found in a patient with hereditary motor and sensory neuropathy; unknown pathological significance. 1 PublicationCorresponds to variant dbSNP:rs758897498Ensembl.1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U40714 mRNA Translation: AAB39406.1 Frameshift.
U89436 mRNA Translation: AAB88409.1
AK125213 mRNA Translation: BAG54166.1
AK223608 mRNA Translation: BAD97328.1
CH471059 Genomic DNA Translation: EAX07506.1
CH471059 Genomic DNA Translation: EAX07507.1
BC001933 mRNA Translation: AAH01933.1
BC004151 mRNA Translation: AAH04151.1
BC016689 mRNA Translation: AAH16689.1
CCDSiCCDS368.1
RefSeqiNP_003671.1, NM_003680.3
UniGeneiHs.213264

Genome annotation databases

EnsembliENST00000373477; ENSP00000362576; ENSG00000134684
GeneIDi8565
KEGGihsa:8565
UCSCiuc001bvy.2 human

Keywords - Coding sequence diversityi

Polymorphism

Similar proteinsi

Entry informationi

Entry nameiSYYC_HUMAN
AccessioniPrimary (citable) accession number: P54577
Secondary accession number(s): B3KWK4
, D3DPQ4, O43276, Q53EN1
Entry historyiIntegrated into UniProtKB/Swiss-Prot: October 1, 1996
Last sequence update: January 23, 2007
Last modified: May 23, 2018
This is version 193 of the entry and version 4 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program
DisclaimerAny medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Direct protein sequencing, Reference proteome

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