Skip Header

You are using a version of browser that may not display all the features of this website. Please consider upgrading your browser.
Protein

Tyrosine--tRNA ligase, cytoplasmic

Gene

YARS

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-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)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei39 – 391Tyrosine1 Publication
Binding sitei166 – 1661Tyrosine1 Publication
Binding sitei170 – 1701Tyrosine1 Publication
Binding sitei173 – 1731Tyrosine1 Publication
Binding sitei188 – 1881Tyrosine1 Publication

GO - Molecular functioni

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

GO - Biological processi

  • apoptotic process Source: ProtInc
  • tRNA aminoacylation for protein translation Source: Reactome
  • tyrosyl-tRNA aminoacylation Source: ProtInc
  • valyl-tRNA aminoacylation Source: GO_Central
Complete GO annotation...

Keywords - Molecular functioni

Aminoacyl-tRNA synthetase, Ligase

Keywords - Biological processi

Protein biosynthesis

Keywords - Ligandi

ATP-binding, Nucleotide-binding, RNA-binding, tRNA-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

HGNCiHGNC:12840. YARS.

Subcellular locationi

GO - Cellular componenti

  • cytoplasm Source: HPA
  • cytosol Source: Reactome
  • extracellular space Source: ProtInc
  • nucleus Source: HPA
Complete GO annotation...

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)LengthDescriptionGraphical viewFeature identifierActions
Natural varianti41 – 411G → R in CMTDIC; partial loss of activity. 1 Publication
Corresponds to variant rs121908833 [ dbSNP | Ensembl ].
VAR_026681
Natural varianti153 – 1564Missing in CMTDIC. 1 Publication
VAR_026682
Natural varianti196 – 1961E → K in CMTDIC; partial loss of activity. 1 Publication
Corresponds to variant rs121908834 [ dbSNP | Ensembl ].
VAR_026684

Keywords - Diseasei

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

Organism-specific databases

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

Chemistry

ChEMBLiCHEMBL3179.
DrugBankiDB00135. L-Tyrosine.

Polymorphism and mutation databases

BioMutaiYARS.
DMDMi13638438.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 528528Tyrosine--tRNA ligase, cytoplasmicPRO_0000423285Add
BLAST
Initiator methionineiRemoved; alternateCombined sources2 Publications
Chaini2 – 528527Tyrosine--tRNA ligase, cytoplasmic, N-terminally processedPRO_0000055673Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei1 – 11N-acetylmethionineCombined sources
Modified residuei2 – 21N-acetylglycine; in Tyrosine--tRNA ligase, cytoplasmic, N-terminally processedCombined sources1 Publication
Modified residuei197 – 1971N6-acetyllysineCombined sources
Modified residuei205 – 2051PhosphoserineCombined sources
Modified residuei206 – 2061N6-acetyllysineCombined sources
Modified residuei386 – 3861PhosphoserineCombined sources
Modified residuei474 – 4741N6-acetyllysineCombined sources
Modified residuei482 – 4821N6-acetyllysineCombined sources
Modified residuei490 – 4901N6-acetyllysineCombined sources

Keywords - PTMi

Acetylation, Phosphoprotein

Proteomic databases

EPDiP54577.
MaxQBiP54577.
PaxDbiP54577.
PeptideAtlasiP54577.
PRIDEiP54577.

2D gel databases

REPRODUCTION-2DPAGEIPI00007074.

PTM databases

iPTMnetiP54577.
PhosphoSiteiP54577.
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

GO - Molecular functioni

  • interleukin-8 receptor binding Source: ProtInc

Protein-protein interaction databases

BioGridi114134. 53 interactions.
DIPiDIP-50415N.
IntActiP54577. 16 interactions.
STRINGi9606.ENSP00000362576.

Chemistry

BindingDBiP54577.

Structurei

Secondary structure

1
528
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Helixi7 – 159Combined sources
Beta strandi19 – 224Combined sources
Helixi24 – 318Combined sources
Beta strandi37 – 426Combined sources
Helixi50 – 523Combined sources
Helixi53 – 6412Combined sources
Beta strandi68 – 736Combined sources
Helixi75 – 806Combined sources
Turni81 – 844Combined sources
Helixi87 – 10822Combined sources
Beta strandi115 – 1195Combined sources
Helixi120 – 1223Combined sources
Turni123 – 1253Combined sources
Helixi127 – 13711Combined sources
Helixi142 – 1487Combined sources
Turni149 – 1524Combined sources
Helixi161 – 17616Combined sources
Beta strandi180 – 1856Combined sources
Helixi186 – 1883Combined sources
Helixi189 – 19810Combined sources
Helixi199 – 2024Combined sources
Beta strandi208 – 2125Combined sources
Helixi238 – 2469Combined sources
Beta strandi247 – 2493Combined sources
Helixi259 – 2668Combined sources
Turni267 – 2737Combined sources
Beta strandi275 – 2773Combined sources
Helixi281 – 2833Combined sources
Beta strandi287 – 2915Combined sources
Helixi292 – 3009Combined sources
Helixi306 – 32722Combined sources
Helixi331 – 34010Combined sources
Helixi365 – 3673Combined sources
Beta strandi370 – 38011Combined sources
Beta strandi388 – 3936Combined sources
Beta strandi395 – 3984Combined sources
Beta strandi400 – 4056Combined sources
Turni407 – 4093Combined sources
Helixi412 – 4143Combined sources
Turni415 – 4173Combined sources
Beta strandi419 – 4235Combined sources
Beta strandi429 – 4313Combined sources
Beta strandi434 – 4363Combined sources
Beta strandi442 – 45413Combined sources
Beta strandi466 – 4694Combined sources
Beta strandi479 – 4813Combined sources
Helixi483 – 4853Combined sources
Helixi487 – 4926Combined sources
Beta strandi495 – 4973Combined sources
Beta strandi501 – 5055Combined sources
Beta strandi508 – 5125Combined sources
Beta strandi526 – 5283Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
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[»]
ProteinModelPortaliP54577.
SMRiP54577. Positions 4-342, 360-528.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP54577.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini364 – 468105tRNA-bindingPROSITE-ProRule annotationAdd
BLAST

Motif

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Motifi44 – 529"HIGH" region
Motifi222 – 2265"KMSKS" region

Sequence similaritiesi

Contains 1 tRNA-binding domain.PROSITE-ProRule annotation

Phylogenomic databases

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

Family and domain databases

Gene3Di2.40.50.140. 1 hit.
3.40.50.620. 1 hit.
InterProiIPR002305. aa-tRNA-synth_Ic.
IPR012340. NA-bd_OB-fold.
IPR014729. Rossmann-like_a/b/a_fold.
IPR002547. tRNA-bd_dom.
IPR002307. Tyr-tRNA-ligase.
[Graphical view]
PfamiPF00579. tRNA-synt_1b. 1 hit.
PF01588. tRNA_bind. 1 hit.
[Graphical view]
PRINTSiPR01040. TRNASYNTHTYR.
SUPFAMiSSF50249. SSF50249. 1 hit.
TIGRFAMsiTIGR00234. tyrS. 1 hit.
PROSITEiPS50886. TRBD. 1 hit.
[Graphical view]

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)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti143 – 1431H → R in BAD97328 (Ref. 4) Curated

Natural variant

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Natural varianti41 – 411G → R in CMTDIC; partial loss of activity. 1 Publication
Corresponds to variant rs121908833 [ dbSNP | Ensembl ].
VAR_026681
Natural varianti153 – 1564Missing in CMTDIC. 1 Publication
VAR_026682
Natural varianti170 – 1701Q → H.
Corresponds to variant rs2128600 [ dbSNP | Ensembl ].
VAR_026683
Natural varianti196 – 1961E → K in CMTDIC; partial loss of activity. 1 Publication
Corresponds to variant rs121908834 [ dbSNP | Ensembl ].
VAR_026684
Natural varianti274 – 2741E → K Found in a patient with hereditary motor and sensory neuropathy; unknown pathological significance. 1 Publication
Corresponds to variant rs758897498 [ dbSNP | Ensembl ].
VAR_073292

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

Cross-referencesi

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.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
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[»]
ProteinModelPortaliP54577.
SMRiP54577. Positions 4-342, 360-528.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi114134. 53 interactions.
DIPiDIP-50415N.
IntActiP54577. 16 interactions.
STRINGi9606.ENSP00000362576.

Chemistry

BindingDBiP54577.
ChEMBLiCHEMBL3179.
DrugBankiDB00135. L-Tyrosine.

PTM databases

iPTMnetiP54577.
PhosphoSiteiP54577.
SwissPalmiP54577.

Polymorphism and mutation databases

BioMutaiYARS.
DMDMi13638438.

2D gel databases

REPRODUCTION-2DPAGEIPI00007074.

Proteomic databases

EPDiP54577.
MaxQBiP54577.
PaxDbiP54577.
PeptideAtlasiP54577.
PRIDEiP54577.

Protocols and materials databases

DNASUi8565.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

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

Organism-specific databases

CTDi8565.
GeneCardsiYARS.
HGNCiHGNC:12840. YARS.
HPAiHPA017936.
HPA018950.
HPA018954.
MalaCardsiYARS.
MIMi603623. gene.
608323. phenotype.
neXtProtiNX_P54577.
Orphaneti100045. Autosomal dominant intermediate Charcot-Marie-Tooth disease type C.
PharmGKBiPA37431.
GenAtlasiSearch...

Phylogenomic databases

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

Enzyme and pathway databases

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

Miscellaneous databases

ChiTaRSiYARS. human.
EvolutionaryTraceiP54577.
GeneWikiiYARS.
GenomeRNAii8565.
PMAP-CutDBP54577.
PROiP54577.
SOURCEiSearch...

Gene expression databases

BgeeiENSG00000134684.
CleanExiHS_YARS.
ExpressionAtlasiP54577. baseline and differential.
GenevisibleiP54577. HS.

Family and domain databases

Gene3Di2.40.50.140. 1 hit.
3.40.50.620. 1 hit.
InterProiIPR002305. aa-tRNA-synth_Ic.
IPR012340. NA-bd_OB-fold.
IPR014729. Rossmann-like_a/b/a_fold.
IPR002547. tRNA-bd_dom.
IPR002307. Tyr-tRNA-ligase.
[Graphical view]
PfamiPF00579. tRNA-synt_1b. 1 hit.
PF01588. tRNA_bind. 1 hit.
[Graphical view]
PRINTSiPR01040. TRNASYNTHTYR.
SUPFAMiSSF50249. SSF50249. 1 hit.
TIGRFAMsiTIGR00234. tyrS. 1 hit.
PROSITEiPS50886. TRBD. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiSYYC_HUMAN
AccessioniPrimary (citable) accession number: P54577
Secondary accession number(s): B3KWK4
, D3DPQ4, O43276, Q53EN1
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 1, 1996
Last sequence update: January 23, 2007
Last modified: September 7, 2016
This is version 178 of the entry and version 4 of the sequence. [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

Documents

  1. Aminoacyl-tRNA synthetases
    List of aminoacyl-tRNA synthetase entries
  2. Human chromosome 1
    Human chromosome 1: entries, gene names and cross-references to MIM
  3. Human entries with polymorphisms or disease mutations
    List of human entries with polymorphisms or disease mutations
  4. Human polymorphisms and disease mutations
    Index of human polymorphisms and disease mutations
  5. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  6. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  7. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.