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P38088

- SYG_YEAST

UniProt

P38088 - SYG_YEAST

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Protein
Glycine--tRNA ligase 1, mitochondrial
Gene
GRS1, YBR121C, YBR0917
Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed - Annotation score: 5 out of 5 - Experimental evidence at protein leveli

Functioni

Catalyzes the attachment of glycine to tRNA(Gly). Is also able produce diadenosine tetraphosphate (Ap4A), a universal pleiotropic signaling molecule needed for cell regulation pathways, by direct condensation of 2 ATPs By similarity.1 Publication

Catalytic activityi

ATP + glycine + tRNA(Gly) = AMP + diphosphate + glycyl-tRNA(Gly).

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei132 – 1321Substrate By similarity
Binding sitei251 – 2511Substrate By similarity
Binding sitei388 – 3881Substrate By similarity
Binding sitei388 – 3881Substrate; via carbonyl oxygen By similarity

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi283 – 2853ATP By similarity
Nucleotide bindingi293 – 2986ATP By similarity
Nucleotide bindingi410 – 4112ATP By similarity
Nucleotide bindingi535 – 5384ATP By similarity

GO - Molecular functioni

  1. ATP binding Source: UniProtKB-KW
  2. glycine-tRNA ligase activity Source: UniProtKB
  3. protein dimerization activity Source: UniProtKB
Complete GO annotation...

GO - Biological processi

  1. DNA-templated transcription, termination Source: SGD
  2. diadenosine tetraphosphate biosynthetic process Source: UniProtKB
  3. glycyl-tRNA aminoacylation Source: SGD
  4. mitochondrial glycyl-tRNA aminoacylation Source: SGD
Complete GO annotation...

Keywords - Molecular functioni

Aminoacyl-tRNA synthetase, Ligase

Keywords - Biological processi

Protein biosynthesis

Keywords - Ligandi

ATP-binding, Nucleotide-binding

Enzyme and pathway databases

BioCyciYEAST:G3O-29078-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Glycine--tRNA ligase 1, mitochondrial (EC:6.1.1.14)
Alternative name(s):
Diadenosine tetraphosphate synthetase
Short name:
AP-4-A synthetase
Glycyl-tRNA synthetase 1
Short name:
GlyRS 1
Short name:
GlyRS1
Gene namesi
Name:GRS1
Ordered Locus Names:YBR121C
ORF Names:YBR0917
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
ProteomesiUP000002311: Chromosome II

Organism-specific databases

CYGDiYBR121c.
SGDiS000000325. GRS1.

Subcellular locationi

Isoform Cytoplasmic : Cytoplasm 1 Publication
Isoform Mitochondrial : Mitochondrion matrix 1 Publication

GO - Cellular componenti

  1. cytoplasm Source: SGD
  2. mitochondrial matrix Source: UniProtKB-SubCell
  3. mitochondrion Source: SGD
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm, Mitochondrion

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Transit peptidei1 – 2424Mitochondrion Reviewed prediction
Add
BLAST
Chaini25 – 690666Glycine--tRNA ligase 1, mitochondrial
PRO_0000073005Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei25 – 251N-acetylserine1 Publication
Modified residuei226 – 2261Phosphoserine4 Publications
Modified residuei476 – 4761Phosphoserine2 Publications
Modified residuei528 – 5281Phosphoserine1 Publication
Modified residuei689 – 6891Phosphothreonine1 Publication

Keywords - PTMi

Acetylation, Phosphoprotein

Proteomic databases

MaxQBiP38088.
PaxDbiP38088.
PeptideAtlasiP38088.
PRIDEiP38088.

Expressioni

Gene expression databases

GenevestigatoriP38088.

Interactioni

Subunit structurei

Homodimer.

Protein-protein interaction databases

BioGridi32823. 41 interactions.
DIPiDIP-6526N.
IntActiP38088. 13 interactions.
MINTiMINT-690383.
STRINGi4932.YBR121C.

Structurei

3D structure databases

ProteinModelPortaliP38088.
SMRiP38088. Positions 39-437, 521-671.

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni298 – 3025Substrate binding By similarity
Regioni531 – 5355Substrate binding By similarity

Sequence similaritiesi

Keywords - Domaini

Transit peptide

Phylogenomic databases

eggNOGiCOG0423.
HOGENOMiHOG000242015.
KOiK01880.
OMAiLMFQTTI.
OrthoDBiEOG76TB17.

Family and domain databases

Gene3Di3.40.50.800. 1 hit.
InterProiIPR002314. aa-tRNA-synt_IIb_cons-dom.
IPR006195. aa-tRNA-synth_II.
IPR004154. Anticodon-bd.
IPR027031. Gly-tRNA_synthase/POLG2.
IPR002315. tRNA-synt_gly.
[Graphical view]
PANTHERiPTHR10745. PTHR10745. 1 hit.
PfamiPF03129. HGTP_anticodon. 1 hit.
PF00587. tRNA-synt_2b. 1 hit.
[Graphical view]
PRINTSiPR01043. TRNASYNTHGLY.
SUPFAMiSSF52954. SSF52954. 1 hit.
TIGRFAMsiTIGR00389. glyS_dimeric. 1 hit.
PROSITEiPS50862. AA_TRNA_LIGASE_II. 1 hit.
[Graphical view]

Sequences (2)i

Sequence statusi: Complete.

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

This entry describes 2 isoformsi produced by alternative initiation. Align

Isoform Mitochondrial (identifier: P38088-1) [UniParc]FASTAAdd to Basket

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide

MSFFNISRRF YSQIVKKSVK IKRMSVEDIK KARAAVPFNR EQLESVLRGR    50
FFYAPAFDLY GGVSGLYDYG PPGCAFQNNI IDAWRKHFIL EEDMLEVDCT 100
MLTPYEVLKT SGHVDKFSDW MCRDLKTGEI FRADHLVEEV LEARLKGDQE 150
ARGLVEDANA AAKDDAEKKK RKKKVKQIKA VKLDDDVVKE YEEILAKIDG 200
YSGPELGELM EKYDIGNPVT GETLESPRAF NLMFETAIGP SGQLKGYLRP 250
ETAQGQFLNF NKLLEFNNSK TPFASASIGK SFRNEISPRA GLLRVREFLM 300
AEIEHFVDPL DKSHPKFNEI KDIKLSFLPR DVQEAGSTEP IVKTVGEAVA 350
SRMVDNETLG YFIARIYQFL MKIGVDESKL RFRQHMANEM AHYAADCWDG 400
ELKTSYGWIE CVGCADRSAY DLTVHSKKTK EKLVVRQKLD NPIEVTKWEI 450
DLTKKLFGPK FRKDAPKVES HLLNMSQDDL ASKAELLKAN GKFTIKVDGV 500
DGEVELDDKL VKIEQRTKVE HVREYVPSVI EPSFGIGRII YSVFEHSFWN 550
RPEDNARSVL SFPPLVAPTK VLLVPLSNHK DLVPVTTEVA KILRKSQIPF 600
KIDDSGVSIG KRYARNDELG TPFGVTIDFE SAKDHSVTLR ERDSTKQVRG 650
SVENVIKAIR DITYNGASWE EGTKDLTPFI AQAEAEAETD 690

Note: Produced by alternative initiation at an upstream UUG codon in-frame of the first AUG used for isoform Cytoplasmic.

Length:690
Mass (Da):78,184
Last modified:July 27, 2011 - v3
Checksum:i4EBDE6F0A942F7F6
GO
Isoform Cytoplasmic (identifier: P38088-2) [UniParc]FASTAAdd to Basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-23: Missing.

Show »
Length:667
Mass (Da):75,339
Checksum:iB62E3DDAD7E87552
GO

Sequence cautioni

The sequence CAA55623.1 differs from that shown. Reason: Erroneous initiation. Translation N-terminally extended.
The sequence CAA85078.1 differs from that shown. Reason: Erroneous initiation. Translation N-terminally extended.
The sequence DAA07239.2 differs from that shown. Reason: Erroneous initiation. Translation N-terminally extended.

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei1 – 2323Missing in isoform Cytoplasmic.
VSP_041147Add
BLAST

Sequence conflict

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti586 – 5872TT → HH in CAA55623. 1 Publication
Sequence conflicti586 – 5872TT → HH in CAA85078. 1 Publication

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
X78993 Genomic DNA. Translation: CAA55623.1. Different initiation.
Z35990 Genomic DNA. Translation: CAA85078.1. Different initiation.
BK006936 Genomic DNA. Translation: DAA07239.2. Different initiation.
PIRiS48285.
RefSeqiNP_009679.2. NM_001178469.2. [P38088-2]

Genome annotation databases

GeneIDi852418.
KEGGisce:YBR121C.

Keywords - Coding sequence diversityi

Alternative initiation

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
X78993 Genomic DNA. Translation: CAA55623.1 . Different initiation.
Z35990 Genomic DNA. Translation: CAA85078.1 . Different initiation.
BK006936 Genomic DNA. Translation: DAA07239.2 . Different initiation.
PIRi S48285.
RefSeqi NP_009679.2. NM_001178469.2. [P38088-2 ]

3D structure databases

ProteinModelPortali P38088.
SMRi P38088. Positions 39-437, 521-671.
ModBasei Search...

Protein-protein interaction databases

BioGridi 32823. 41 interactions.
DIPi DIP-6526N.
IntActi P38088. 13 interactions.
MINTi MINT-690383.
STRINGi 4932.YBR121C.

Proteomic databases

MaxQBi P38088.
PaxDbi P38088.
PeptideAtlasi P38088.
PRIDEi P38088.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

GeneIDi 852418.
KEGGi sce:YBR121C.

Organism-specific databases

CYGDi YBR121c.
SGDi S000000325. GRS1.

Phylogenomic databases

eggNOGi COG0423.
HOGENOMi HOG000242015.
KOi K01880.
OMAi LMFQTTI.
OrthoDBi EOG76TB17.

Enzyme and pathway databases

BioCyci YEAST:G3O-29078-MONOMER.

Miscellaneous databases

NextBioi 971279.

Gene expression databases

Genevestigatori P38088.

Family and domain databases

Gene3Di 3.40.50.800. 1 hit.
InterProi IPR002314. aa-tRNA-synt_IIb_cons-dom.
IPR006195. aa-tRNA-synth_II.
IPR004154. Anticodon-bd.
IPR027031. Gly-tRNA_synthase/POLG2.
IPR002315. tRNA-synt_gly.
[Graphical view ]
PANTHERi PTHR10745. PTHR10745. 1 hit.
Pfami PF03129. HGTP_anticodon. 1 hit.
PF00587. tRNA-synt_2b. 1 hit.
[Graphical view ]
PRINTSi PR01043. TRNASYNTHGLY.
SUPFAMi SSF52954. SSF52954. 1 hit.
TIGRFAMsi TIGR00389. glyS_dimeric. 1 hit.
PROSITEi PS50862. AA_TRNA_LIGASE_II. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  1. "Analysis of a 70 kb region on the right arm of yeast chromosome II."
    Mannhaupt G., Stucka R., Ehnle S., Vetter I., Feldmann H.
    Yeast 10:1363-1381(1994) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    Strain: ATCC 204508 / S288c.
  2. "Complete DNA sequence of yeast chromosome II."
    Feldmann H., Aigle M., Aljinovic G., Andre B., Baclet M.C., Barthe C., Baur A., Becam A.-M., Biteau N., Boles E., Brandt T., Brendel M., Brueckner M., Bussereau F., Christiansen C., Contreras R., Crouzet M., Cziepluch C.
    , Demolis N., Delaveau T., Doignon F., Domdey H., Duesterhus S., Dubois E., Dujon B., El Bakkoury M., Entian K.-D., Feuermann M., Fiers W., Fobo G.M., Fritz C., Gassenhuber J., Glansdorff N., Goffeau A., Grivell L.A., de Haan M., Hein C., Herbert C.J., Hollenberg C.P., Holmstroem K., Jacq C., Jacquet M., Jauniaux J.-C., Jonniaux J.-L., Kallesoee T., Kiesau P., Kirchrath L., Koetter P., Korol S., Liebl S., Logghe M., Lohan A.J.E., Louis E.J., Li Z.Y., Maat M.J., Mallet L., Mannhaupt G., Messenguy F., Miosga T., Molemans F., Mueller S., Nasr F., Obermaier B., Perea J., Pierard A., Piravandi E., Pohl F.M., Pohl T.M., Potier S., Proft M., Purnelle B., Ramezani Rad M., Rieger M., Rose M., Schaaff-Gerstenschlaeger I., Scherens B., Schwarzlose C., Skala J., Slonimski P.P., Smits P.H.M., Souciet J.-L., Steensma H.Y., Stucka R., Urrestarazu L.A., van der Aart Q.J.M., Van Dyck L., Vassarotti A., Vetter I., Vierendeels F., Vissers S., Wagner G., de Wergifosse P., Wolfe K.H., Zagulski M., Zimmermann F.K., Mewes H.-W., Kleine K.
    EMBO J. 13:5795-5809(1994) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 204508 / S288c.
  3. Cited for: GENOME REANNOTATION, SEQUENCE REVISION TO 586-587.
    Strain: ATCC 204508 / S288c.
  4. "One of two genes encoding glycyl-tRNA synthetase in Saccharomyces cerevisiae provides mitochondrial and cytoplasmic functions."
    Turner R.J., Lovato M., Schimmel P.
    J. Biol. Chem. 275:27681-27688(2000) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, SUBCELLULAR LOCATION.
  5. Cited for: LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].
  6. "Translation initiation from a naturally occurring non-AUG codon in Saccharomyces cerevisiae."
    Chang K.J., Wang C.C.
    J. Biol. Chem. 279:13778-13785(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: ALTERNATIVE INITIATION.
  7. "Quantitative phosphoproteomics applied to the yeast pheromone signaling pathway."
    Gruhler A., Olsen J.V., Mohammed S., Mortensen P., Faergeman N.J., Mann M., Jensen O.N.
    Mol. Cell. Proteomics 4:310-327(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-226, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Strain: YAL6B.
  8. "Large-scale phosphorylation analysis of alpha-factor-arrested Saccharomyces cerevisiae."
    Li X., Gerber S.A., Rudner A.D., Beausoleil S.A., Haas W., Villen J., Elias J.E., Gygi S.P.
    J. Proteome Res. 6:1190-1197(2007) [PubMed] [Europe PMC] [Abstract]
    Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-226, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Strain: ADR376.
  9. "A multidimensional chromatography technology for in-depth phosphoproteome analysis."
    Albuquerque C.P., Smolka M.B., Payne S.H., Bafna V., Eng J., Zhou H.
    Mol. Cell. Proteomics 7:1389-1396(2008) [PubMed] [Europe PMC] [Abstract]
    Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-226; SER-476 AND SER-528, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
  10. "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution."
    Holt L.J., Tuch B.B., Villen J., Johnson A.D., Gygi S.P., Morgan D.O.
    Science 325:1682-1686(2009) [PubMed] [Europe PMC] [Abstract]
    Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-226; SER-476 AND THR-689, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
  11. Cited for: ACETYLATION [LARGE SCALE ANALYSIS] AT SER-25, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].

Entry informationi

Entry nameiSYG_YEAST
AccessioniPrimary (citable) accession number: P38088
Secondary accession number(s): D6VQB9
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 1, 1994
Last sequence update: July 27, 2011
Last modified: June 11, 2014
This is version 130 of the entry and version 3 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Miscellaneousi

Miscellaneous

Present with 98400 molecules/cell in log phase SD medium.

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Aminoacyl-tRNA synthetases
    List of aminoacyl-tRNA synthetase entries
  2. SIMILARITY comments
    Index of protein domains and families
  3. Yeast
    Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD
  4. Yeast chromosome II
    Yeast (Saccharomyces cerevisiae) chromosome II: entries and gene names

External Data

Dasty 3

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