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Tyrosine--tRNA ligase, mitochondrial (EC 6.1.1.1) (Tyrosyl-tRNA synthetase) (TyrRS)

 SYYM_NEUCR              Reviewed;         669 AA.
P12063; Q7RVM4;
01-OCT-1989, integrated into UniProtKB/Swiss-Prot.
01-FEB-1996, sequence version 2.
16-JAN-2019, entry version 157.
RecName: Full=Tyrosine--tRNA ligase, mitochondrial;
EC=6.1.1.1;
AltName: Full=Tyrosyl-tRNA synthetase;
Short=TyrRS;
Flags: Precursor;
Name=cyt-18; ORFNames=B18P24.070, NCU03030;
Neurospora crassa (strain ATCC 24698 / 74-OR23-1A / CBS 708.71 / DSM
1257 / FGSC 987).
Eukaryota; Fungi; Dikarya; Ascomycota; Pezizomycotina;
Sordariomycetes; Sordariomycetidae; Sordariales; Sordariaceae;
Neurospora.
NCBI_TaxID=367110;
[1]
NUCLEOTIDE SEQUENCE [GENOMIC DNA].
PubMed=3607872; DOI=10.1016/0092-8674(87)90488-0;
Akins R.A., Lambowitz A.M.;
"A protein required for splicing group I introns in Neurospora
mitochondria is mitochondrial tyrosyl-tRNA synthetase or a derivative
thereof.";
Cell 50:331-345(1987).
[2]
SEQUENCE REVISION.
Lambowitz A.M.;
Submitted (NOV-1994) to the EMBL/GenBank/DDBJ databases.
[3]
NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
STRAIN=ATCC 24698 / 74-OR23-1A / CBS 708.71 / DSM 1257 / FGSC 987;
PubMed=12655011; DOI=10.1093/nar/gkg293;
Mannhaupt G., Montrone C., Haase D., Mewes H.-W., Aign V.,
Hoheisel J.D., Fartmann B., Nyakatura G., Kempken F., Maier J.,
Schulte U.;
"What's in the genome of a filamentous fungus? Analysis of the
Neurospora genome sequence.";
Nucleic Acids Res. 31:1944-1954(2003).
[4]
NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
STRAIN=ATCC 24698 / 74-OR23-1A / CBS 708.71 / DSM 1257 / FGSC 987;
PubMed=12712197; DOI=10.1038/nature01554;
Galagan J.E., Calvo S.E., Borkovich K.A., Selker E.U., Read N.D.,
Jaffe D.B., FitzHugh W., Ma L.-J., Smirnov S., Purcell S., Rehman B.,
Elkins T., Engels R., Wang S., Nielsen C.B., Butler J., Endrizzi M.,
Qui D., Ianakiev P., Bell-Pedersen D., Nelson M.A.,
Werner-Washburne M., Selitrennikoff C.P., Kinsey J.A., Braun E.L.,
Zelter A., Schulte U., Kothe G.O., Jedd G., Mewes H.-W., Staben C.,
Marcotte E., Greenberg D., Roy A., Foley K., Naylor J.,
Stange-Thomann N., Barrett R., Gnerre S., Kamal M., Kamvysselis M.,
Mauceli E.W., Bielke C., Rudd S., Frishman D., Krystofova S.,
Rasmussen C., Metzenberg R.L., Perkins D.D., Kroken S., Cogoni C.,
Macino G., Catcheside D.E.A., Li W., Pratt R.J., Osmani S.A.,
DeSouza C.P.C., Glass N.L., Orbach M.J., Berglund J.A., Voelker R.,
Yarden O., Plamann M., Seiler S., Dunlap J.C., Radford A., Aramayo R.,
Natvig D.O., Alex L.A., Mannhaupt G., Ebbole D.J., Freitag M.,
Paulsen I., Sachs M.S., Lander E.S., Nusbaum C., Birren B.W.;
"The genome sequence of the filamentous fungus Neurospora crassa.";
Nature 422:859-868(2003).
[5]
FUNCTION.
PubMed=2143700; DOI=10.1016/0092-8674(90)90119-Y;
Cherniack A.D., Garriga G., Kittle J.D. Jr., Akins R.A.,
Lambowitz A.M.;
"Function of Neurospora mitochondrial tyrosyl-tRNA synthetase in RNA
splicing requires an idiosyncratic domain not found in other
synthetases.";
Cell 62:745-755(1990).
-!- FUNCTION: 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). Has
both an aminoacyl-tRNA synthetase activity and is involved in the
splicing of group I introns. It acts in intron splicing by
stabilizing the catalytically active structure of the intron.
{ECO:0000269|PubMed:2143700}.
-!- CATALYTIC ACTIVITY:
Reaction=ATP + L-tyrosine + tRNA(Tyr) = AMP + diphosphate + H(+) +
L-tyrosyl-tRNA(Tyr); Xref=Rhea:RHEA:10220, Rhea:RHEA-COMP:9706,
Rhea:RHEA-COMP:9707, ChEBI:CHEBI:15378, ChEBI:CHEBI:30616,
ChEBI:CHEBI:33019, ChEBI:CHEBI:58315, ChEBI:CHEBI:78442,
ChEBI:CHEBI:78536, ChEBI:CHEBI:456215; EC=6.1.1.1;
-!- INTERACTION:
Self; NbExp=2; IntAct=EBI-15678762, EBI-15678762;
-!- SUBCELLULAR LOCATION: Mitochondrion matrix.
-!- SIMILARITY: Belongs to the class-I aminoacyl-tRNA synthetase
family. {ECO:0000305}.
-----------------------------------------------------------------------
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EMBL; M17118; AAA33620.1; -; Genomic_DNA.
EMBL; BX842626; CAE76265.1; -; Genomic_DNA.
EMBL; CM002236; EAA36180.1; -; Genomic_DNA.
PIR; A27158; SYNCYT.
RefSeq; XP_965416.1; XM_960323.2.
PDB; 1Y42; X-ray; 1.95 A; X=33-423.
PDB; 2RKJ; X-ray; 4.50 A; A/B/E/F/I/J/M/N=33-423.
PDB; 4OJM; X-ray; 1.95 A; X=33-423.
PDBsum; 1Y42; -.
PDBsum; 2RKJ; -.
PDBsum; 4OJM; -.
ProteinModelPortal; P12063; -.
SMR; P12063; -.
DIP; DIP-59835N; -.
MoonDB; P12063; Curated.
MoonProt; P12063; -.
PRIDE; P12063; -.
EnsemblFungi; EAA36180; EAA36180; NCU03030.
GeneID; 3881566; -.
KEGG; ncr:NCU03030; -.
EuPathDB; FungiDB:NCU03030; -.
HOGENOM; HOG000242790; -.
InParanoid; P12063; -.
KO; K01866; -.
OMA; MHMQLKK; -.
BRENDA; 6.1.1.1; 3627.
EvolutionaryTrace; P12063; -.
Proteomes; UP000001805; Chromosome 1, Linkage Group I.
GO; GO:0005829; C:cytosol; IBA:GO_Central.
GO; GO:0005759; C:mitochondrial matrix; IEA:UniProtKB-SubCell.
GO; GO:0005739; C:mitochondrion; IBA:GO_Central.
GO; GO:0005524; F:ATP binding; IEA:UniProtKB-KW.
GO; GO:0042802; F:identical protein binding; IPI:IntAct.
GO; GO:0003723; F:RNA binding; IDA:CAFA.
GO; GO:0004831; F:tyrosine-tRNA ligase activity; IBA:GO_Central.
GO; GO:0000372; P:Group I intron splicing; IDA:CAFA.
GO; GO:0006397; P:mRNA processing; IEA:UniProtKB-KW.
GO; GO:0033120; P:positive regulation of RNA splicing; IDA:CAFA.
GO; GO:0034337; P:RNA folding; IDA:CAFA.
GO; GO:0043039; P:tRNA aminoacylation; IBA:GO_Central.
GO; GO:0006437; P:tyrosyl-tRNA aminoacylation; IEA:InterPro.
CDD; cd00805; TyrRS_core; 1.
Gene3D; 3.10.290.10; -; 1.
Gene3D; 3.40.50.620; -; 1.
InterPro; IPR001412; aa-tRNA-synth_I_CS.
InterPro; IPR002305; aa-tRNA-synth_Ic.
InterPro; IPR014729; Rossmann-like_a/b/a_fold.
InterPro; IPR036986; S4_RNA-bd_sf.
InterPro; IPR002307; Tyr-tRNA-ligase.
InterPro; IPR024088; Tyr-tRNA-ligase_bac-type.
InterPro; IPR032005; TyrRSs_C.
PANTHER; PTHR11766; PTHR11766; 1.
Pfam; PF00579; tRNA-synt_1b; 1.
Pfam; PF16714; TyrRSs_C; 1.
PRINTS; PR01040; TRNASYNTHTYR.
TIGRFAMs; TIGR00234; tyrS; 1.
PROSITE; PS00178; AA_TRNA_LIGASE_I; 1.
1: Evidence at protein level;
3D-structure; Aminoacyl-tRNA synthetase; ATP-binding;
Complete proteome; Ligase; Mitochondrion; mRNA processing;
Nucleotide-binding; Protein biosynthesis; Reference proteome;
Transit peptide.
TRANSIT 1 32 Mitochondrion.
CHAIN 33 669 Tyrosine--tRNA ligase, mitochondrial.
/FTId=PRO_0000035833.
REGION 33 75 Involved in splicing. {ECO:0000305}.
MOTIF 104 113 "HIGH" region.
MOTIF 324 328 "KMSKS" region.
BINDING 99 99 Tyrosine. {ECO:0000250|UniProtKB:Q9Y2Z4}.
BINDING 103 103 ATP. {ECO:0000250|UniProtKB:Q9Y2Z4}.
BINDING 143 143 Tyrosine. {ECO:0000250|UniProtKB:Q9Y2Z4}.
BINDING 247 247 Tyrosine. {ECO:0000250|UniProtKB:Q9Y2Z4}.
BINDING 251 251 Tyrosine. {ECO:0000250|UniProtKB:Q9Y2Z4}.
BINDING 254 254 Tyrosine. {ECO:0000250|UniProtKB:Q9Y2Z4}.
BINDING 273 273 Tyrosine. {ECO:0000250|UniProtKB:Q9Y2Z4}.
BINDING 327 327 ATP. {ECO:0000250}.
MUTAGEN 127 127 G->E: Splicing and aminoacylation defects
(mutants C-18-1 and C-18-2).
HELIX 40 60 {ECO:0000244|PDB:1Y42}.
HELIX 67 74 {ECO:0000244|PDB:1Y42}.
STRAND 80 82 {ECO:0000244|PDB:1Y42}.
HELIX 84 93 {ECO:0000244|PDB:1Y42}.
STRAND 97 102 {ECO:0000244|PDB:1Y42}.
STRAND 106 108 {ECO:0000244|PDB:1Y42}.
HELIX 111 113 {ECO:0000244|PDB:1Y42}.
HELIX 114 126 {ECO:0000244|PDB:1Y42}.
STRAND 129 134 {ECO:0000244|PDB:1Y42}.
TURN 136 141 {ECO:0000244|PDB:1Y42}.
HELIX 159 183 {ECO:0000244|PDB:1Y42}.
STRAND 193 198 {ECO:0000244|PDB:1Y42}.
HELIX 200 203 {ECO:0000244|PDB:1Y42}.
HELIX 208 215 {ECO:0000244|PDB:1Y42}.
TURN 216 218 {ECO:0000244|PDB:1Y42}.
HELIX 221 225 {ECO:0000244|PDB:1Y42}.
HELIX 228 232 {ECO:0000244|PDB:1Y42}.
STRAND 235 238 {ECO:0000244|PDB:1Y42}.
HELIX 242 262 {ECO:0000244|PDB:1Y42}.
STRAND 264 269 {ECO:0000244|PDB:1Y42}.
HELIX 274 290 {ECO:0000244|PDB:1Y42}.
HELIX 294 300 {ECO:0000244|PDB:1Y42}.
HELIX 305 307 {ECO:0000244|PDB:1Y42}.
STRAND 310 313 {ECO:0000244|PDB:1Y42}.
STRAND 329 332 {ECO:0000244|PDB:1Y42}.
STRAND 334 336 {ECO:0000244|PDB:1Y42}.
TURN 337 339 {ECO:0000244|PDB:1Y42}.
HELIX 342 350 {ECO:0000244|PDB:1Y42}.
TURN 354 356 {ECO:0000244|PDB:1Y42}.
HELIX 357 364 {ECO:0000244|PDB:1Y42}.
HELIX 369 381 {ECO:0000244|PDB:1Y42}.
HELIX 383 385 {ECO:0000244|PDB:1Y42}.
HELIX 387 401 {ECO:0000244|PDB:1Y42}.
HELIX 403 413 {ECO:0000244|PDB:1Y42}.
SEQUENCE 669 AA; 75422 MW; DD136CAC9AD1BEB5 CRC64;
MLLRTKALIR SGGSIAKYAA ANPSCFILQR RGLRREFGPK YTAKINEAEE NWQARAEAIK
KGKKQNTWDL FEERGYVKDT AGTKEHIAEL MRTRRIGAYV GIDPTAPSLH VGHLLPLMPL
FWMYLEGYKA FTLIGGSTAK IGDPTGRLKS RDHLSSSDAT MNMTKIHYQL KKLWENVDTQ
MRARGYEADW ARKRGIVNNN HWWNKQPMLE VLRRVGHALR IGPMLSRDTV KNKMTQGDGV
SFAEFTYPIM QGWDWFELFY QQGVQMQIGG SDQYGNIISG LEVVKAARES EPDPQERKYV
TPKTALDECV GFTVPLLTDS SGAKFGKSAG NAIWLDPYQT SVFDFYGYFV RRSDQEVENL
LKLFTFMPIS EITKTMEEHI KDPSKRVAQH TLAREVVTLV HGKQEASAAE DQHRMMYTGQ
MTIPQVSRAK DAATGGDQYK TISDQPVTLN NAPRIDMILP ESLIMGKSIG RILYAAGLAS
STTEGHKLAA AQGCYVGGAH RAGGENVTMN PDLISFMPVK LWFPGETQRY LINGNLLILR
KGKHNVRVIQ MVSDVEYAAS GQTYPGQSFT GAVRKLNEIM KNLKEKKLTP EEAKNAVNEL
QKSSQEKQQG QQIIFPEEKS RQKKDMETKL KQEMIASVKT IDGMMDEKPS VRGDGVKKQT
QDDRDPYKW


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Pathways :
WP62: Mitochondrial tRNA Synthetases
WP219: Cytoplasmic tRNA Synthetases
WP433: tRNA Synthetases
WP106: Alanine and aspartate metabolism
WP1620: Aminoacyl-tRNA biosynthesis
WP1938: tRNA Aminoacylation
WP296: TCA Cycle - biocyc
WP1097: Non-homologous end joining
WP1107: Mitochondrial LC-Fatty Acid Beta-Oxidation
WP120: Phenylalanine and Tyrosine Biosynthesis
WP1201: Non-homologous end joining
WP1208: Non-homologous end joining
WP1222: Non-homologous end joining
WP1226: Mitochondrial LC-Fatty Acid Beta-Oxidation
WP1242: Non-homologous end joining
WP1263: Mitochondrial Gene Expression
WP1277: Non-homologous end joining
WP1301: Mitochondrial Gene Expression
WP1324: Non-homologous end joining
WP1368: Mitochondrial Gene Expression
WP1502: Mitochondrial biogenesis
WP1570: Non-homologous end joining
WP1577: amino acid conjugation of benzoic acid
WP1625: Base excision repair
WP1672: Mismatch repair

Related Genes :
[cyt-18 B18P24.070 NCU03030] Tyrosine--tRNA ligase, mitochondrial (EC 6.1.1.1) (Tyrosyl-tRNA synthetase) (TyrRS)
[tyrS] Tyrosine--tRNA ligase (EC 6.1.1.1) (Tyrosyl-tRNA synthetase) (TyrRS)
[tyrS b1637 JW1629] Tyrosine--tRNA ligase (EC 6.1.1.1) (Tyrosyl-tRNA synthetase) (TyrRS)
[tyrS tyrZ] Tyrosine--tRNA ligase (EC 6.1.1.1) (TyrRZ) (Tyrosyl-tRNA synthetase) (TyrRS)
[Eprs Qprs] Bifunctional glutamate/proline--tRNA ligase (Bifunctional aminoacyl-tRNA synthetase) [Includes: Glutamate--tRNA ligase (EC 6.1.1.17) (Glutamyl-tRNA synthetase) (GluRS); Proline--tRNA ligase (EC 6.1.1.15) (Prolyl-tRNA synthetase) (ProRS)]
[dtd yihZ b3887 JW3858] D-aminoacyl-tRNA deacylase (DTD) (EC 3.1.1.96) (D-tyrosyl RNA deacylase) (D-tyrosyl-tRNA(Tyr) deacylase) (Gly-tRNA(Ala) deacylase) (EC 3.1.1.-) (Gly-tRNA(Gly) deacylase)
[EPRS GLNS PARS QARS QPRS PIG32] Bifunctional glutamate/proline--tRNA ligase (Bifunctional aminoacyl-tRNA synthetase) (Cell proliferation-inducing gene 32 protein) (Glutamatyl-prolyl-tRNA synthetase) [Includes: Glutamate--tRNA ligase (EC 6.1.1.17) (Glutamyl-tRNA synthetase) (GluRS); Proline--tRNA ligase (EC 6.1.1.15) (Prolyl-tRNA synthetase)]
[FARS2 FARS1 HSPC320] Phenylalanine--tRNA ligase, mitochondrial (EC 6.1.1.20) (Phenylalanyl-tRNA synthetase) (PheRS)
[NARS2] Probable asparagine--tRNA ligase, mitochondrial (EC 6.1.1.22) (Asparaginyl-tRNA synthetase) (AsnRS)
[DARS2] Aspartate--tRNA ligase, mitochondrial (EC 6.1.1.12) (Aspartyl-tRNA synthetase) (AspRS)
[EARS2 KIAA1970] Probable glutamate--tRNA ligase, mitochondrial (EC 6.1.1.17) (Glutamyl-tRNA synthetase) (GluRS)
[Gars] Glycine--tRNA ligase (EC 3.6.1.17) (EC 6.1.1.14) (Diadenosine tetraphosphate synthetase) (AP-4-A synthetase) (Glycyl-tRNA synthetase) (GlyRS)
[GARS] Glycine--tRNA ligase (EC 3.6.1.17) (EC 6.1.1.14) (Diadenosine tetraphosphate synthetase) (AP-4-A synthetase) (Glycyl-tRNA synthetase) (GlyRS)
[WARS2] Tryptophan--tRNA ligase, mitochondrial (EC 6.1.1.2) ((Mt)TrpRS) (Tryptophanyl-tRNA synthetase) (TrpRS)
[hars-1 hrs-1 syh-1 T11G6.1] Histidine--tRNA ligase (EC 6.1.1.21) (Histidyl-tRNA synthetase) (HisRS)
[HARS HRS] Histidine--tRNA ligase, cytoplasmic (EC 6.1.1.21) (Histidyl-tRNA synthetase) (HisRS)
[thrS MJ1197] Threonine--tRNA ligase (EC 6.1.1.3) (Threonyl-tRNA synthetase) (ThrRS)
[Acsm1 Bucs1 Lae Macs1] Acyl-coenzyme A synthetase ACSM1, mitochondrial (EC 6.2.1.2) (Acyl-CoA synthetase medium-chain family member 1) (Butyrate--CoA ligase 1) (Butyryl-coenzyme A synthetase 1) (Lipoate-activating enzyme) (Middle-chain acyl-CoA synthetase 1)
[MARS] Methionine--tRNA ligase, cytoplasmic (EC 6.1.1.10) (Methionyl-tRNA synthetase) (MetRS)
[Ptpmt1 Plip] Phosphatidylglycerophosphatase and protein-tyrosine phosphatase 1 (EC 3.1.3.27) (PTEN-like phosphatase) (Phosphoinositide lipid phosphatase) (Protein-tyrosine phosphatase mitochondrial 1) (EC 3.1.3.16) (EC 3.1.3.48)
[TRNT1 CGI-47] CCA tRNA nucleotidyltransferase 1, mitochondrial (EC 2.7.7.72) (Mitochondrial tRNA nucleotidyl transferase, CCA-adding) (mt CCA-adding enzyme) (mt tRNA CCA-diphosphorylase) (mt tRNA CCA-pyrophosphorylase) (mt tRNA adenylyltransferase)
[AARS] Alanine--tRNA ligase, cytoplasmic (EC 6.1.1.7) (Alanyl-tRNA synthetase) (AlaRS) (Renal carcinoma antigen NY-REN-42)
[IARS2] Isoleucine--tRNA ligase, mitochondrial (EC 6.1.1.5) (Isoleucyl-tRNA synthetase) (IleRS)
[cyt-20 un-3 NCU01965] Valine--tRNA ligase, mitochondrial (EC 6.1.1.9) (Valyl-tRNA synthetase) (ValRS)
[thrS b1719 JW1709] Threonine--tRNA ligase (EC 6.1.1.3) (Threonyl-tRNA synthetase) (ThrRS)
[gltX b2400 JW2395] Glutamate--tRNA ligase (EC 6.1.1.17) (Glutamyl-tRNA synthetase) (GluRS)
[alaS lovB b2697 JW2667] Alanine--tRNA ligase (EC 6.1.1.7) (Alanyl-tRNA synthetase) (AlaRS)
[dtd PF11_0095 PF3D7_1108200] D-aminoacyl-tRNA deacylase (DTD) (EC 3.1.1.96) (D-Tyrosyl-tRNA(Tyr) deacylase) (Gly-tRNA(Ala) deacylase) (EC 3.1.1.-) (Gly-tRNA(Gly) deacylase)
[Ptpn6 Hcp Hcph Ptp1C] Tyrosine-protein phosphatase non-receptor type 6 (EC 3.1.3.48) (70Z-SHP) (Hematopoietic cell protein-tyrosine phosphatase) (PTPTY-42) (Protein-tyrosine phosphatase 1C) (PTP-1C) (SH-PTP1) (SHP-1)
[Abl1 Abl] Tyrosine-protein kinase ABL1 (EC 2.7.10.2) (Abelson murine leukemia viral oncogene homolog 1) (Abelson tyrosine-protein kinase 1) (Proto-oncogene c-Abl) (p150)

Bibliography :
[29581012] The pseudo-dimeric tyrosyl-tRNA synthetase of T. brucei aminoacylates cytosolic and mitochondrial tRNA and requires both monomeric units for activity.
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