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Protein

Glycine--tRNA ligase 1, mitochondrial

Gene

GRS1

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed-Annotation score: 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).By similarity1 Publication

Catalytic activityi

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

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Binding sitei132SubstrateBy similarity1
Binding sitei251SubstrateBy similarity1
Binding sitei388SubstrateBy similarity1
Binding sitei388Substrate; via carbonyl oxygenBy similarity1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi283 – 285ATPBy similarity3
Nucleotide bindingi293 – 298ATPBy similarity6
Nucleotide bindingi410 – 411ATPBy similarity2
Nucleotide bindingi535 – 538ATPBy similarity4

GO - Molecular functioni

GO - Biological processi

  • diadenosine tetraphosphate biosynthetic process Source: UniProtKB
  • DNA-templated transcription, termination Source: SGD
  • glycyl-tRNA aminoacylation Source: SGD
  • 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.
BRENDAi6.1.1.14. 984.

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
Proteomesi
  • UP000002311 Componenti: Chromosome II

Organism-specific databases

EuPathDBiFungiDB:YBR121C.
SGDiS000000325. GRS1.

Subcellular locationi

GO - Cellular componenti

  • cytoplasm Source: SGD
  • mitochondrial matrix Source: UniProtKB-SubCell
  • mitochondrion Source: SGD
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm, Mitochondrion

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Transit peptidei1 – 24MitochondrionSequence analysisCombined sourcesAdd BLAST24
ChainiPRO_000007300525 – 690Glycine--tRNA ligase 1, mitochondrialAdd BLAST666

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei25N-acetylserineCombined sources1
Modified residuei226PhosphoserineCombined sources1
Modified residuei476PhosphoserineCombined sources1
Modified residuei528PhosphoserineCombined sources1
Modified residuei689PhosphothreonineCombined sources1

Keywords - PTMi

Acetylation, Phosphoprotein

Proteomic databases

PRIDEiP38088.

PTM databases

iPTMnetiP38088.

Interactioni

Subunit structurei

Homodimer.

GO - Molecular functioni

Protein-protein interaction databases

BioGridi32823. 46 interactors.
DIPiDIP-6526N.
IntActiP38088. 14 interactors.
MINTiMINT-690383.

Structurei

3D structure databases

ProteinModelPortaliP38088.
SMRiP38088.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni298 – 302Substrate bindingBy similarity5
Regioni531 – 535Substrate bindingBy similarity5

Sequence similaritiesi

Keywords - Domaini

Transit peptide

Phylogenomic databases

HOGENOMiHOG000242015.
InParanoidiP38088.
KOiK01880.
OMAiYAPSFQI.
OrthoDBiEOG092C1IOM.

Family and domain databases

CDDicd00774. GlyRS-like_core. 1 hit.
Gene3Di3.40.50.800. 1 hit.
InterProiIPR002314. aa-tRNA-synt_IIb.
IPR006195. aa-tRNA-synth_II.
IPR004154. Anticodon-bd.
IPR027031. Gly-tRNA_synthase/POLG2.
IPR033731. GlyRS-like_core.
IPR002315. tRNA-synt_gly.
[Graphical view]
PANTHERiPTHR10745. PTHR10745. 2 hits.
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. AlignAdd to basket

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

        10         20         30         40         50
MSFFNISRRF YSQIVKKSVK IKRMSVEDIK KARAAVPFNR EQLESVLRGR
60 70 80 90 100
FFYAPAFDLY GGVSGLYDYG PPGCAFQNNI IDAWRKHFIL EEDMLEVDCT
110 120 130 140 150
MLTPYEVLKT SGHVDKFSDW MCRDLKTGEI FRADHLVEEV LEARLKGDQE
160 170 180 190 200
ARGLVEDANA AAKDDAEKKK RKKKVKQIKA VKLDDDVVKE YEEILAKIDG
210 220 230 240 250
YSGPELGELM EKYDIGNPVT GETLESPRAF NLMFETAIGP SGQLKGYLRP
260 270 280 290 300
ETAQGQFLNF NKLLEFNNSK TPFASASIGK SFRNEISPRA GLLRVREFLM
310 320 330 340 350
AEIEHFVDPL DKSHPKFNEI KDIKLSFLPR DVQEAGSTEP IVKTVGEAVA
360 370 380 390 400
SRMVDNETLG YFIARIYQFL MKIGVDESKL RFRQHMANEM AHYAADCWDG
410 420 430 440 450
ELKTSYGWIE CVGCADRSAY DLTVHSKKTK EKLVVRQKLD NPIEVTKWEI
460 470 480 490 500
DLTKKLFGPK FRKDAPKVES HLLNMSQDDL ASKAELLKAN GKFTIKVDGV
510 520 530 540 550
DGEVELDDKL VKIEQRTKVE HVREYVPSVI EPSFGIGRII YSVFEHSFWN
560 570 580 590 600
RPEDNARSVL SFPPLVAPTK VLLVPLSNHK DLVPVTTEVA KILRKSQIPF
610 620 630 640 650
KIDDSGVSIG KRYARNDELG TPFGVTIDFE SAKDHSVTLR ERDSTKQVRG
660 670 680 690
SVENVIKAIR DITYNGASWE EGTKDLTPFI AQAEAEAETD
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 differs from that shown. Reason: Erroneous initiation. Translation N-terminally extended.Curated
The sequence CAA85078 differs from that shown. Reason: Erroneous initiation. Translation N-terminally extended.Curated
The sequence DAA07239 differs from that shown. Reason: Erroneous initiation. Translation N-terminally extended.Curated

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti586 – 587TT → HH in CAA55623 (PubMed:7900426).Curated2
Sequence conflicti586 – 587TT → HH in CAA85078 (PubMed:7813418).Curated2

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_0411471 – 23Missing in isoform Cytoplasmic. Add BLAST23

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
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:
EMBLi
GenBanki
DDBJi
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]

3D structure databases

ProteinModelPortaliP38088.
SMRiP38088.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi32823. 46 interactors.
DIPiDIP-6526N.
IntActiP38088. 14 interactors.
MINTiMINT-690383.

PTM databases

iPTMnetiP38088.

Proteomic databases

PRIDEiP38088.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

GeneIDi852418.
KEGGisce:YBR121C.

Organism-specific databases

EuPathDBiFungiDB:YBR121C.
SGDiS000000325. GRS1.

Phylogenomic databases

HOGENOMiHOG000242015.
InParanoidiP38088.
KOiK01880.
OMAiYAPSFQI.
OrthoDBiEOG092C1IOM.

Enzyme and pathway databases

BioCyciYEAST:G3O-29078-MONOMER.
BRENDAi6.1.1.14. 984.

Miscellaneous databases

PROiP38088.

Family and domain databases

CDDicd00774. GlyRS-like_core. 1 hit.
Gene3Di3.40.50.800. 1 hit.
InterProiIPR002314. aa-tRNA-synt_IIb.
IPR006195. aa-tRNA-synth_II.
IPR004154. Anticodon-bd.
IPR027031. Gly-tRNA_synthase/POLG2.
IPR033731. GlyRS-like_core.
IPR002315. tRNA-synt_gly.
[Graphical view]
PANTHERiPTHR10745. PTHR10745. 2 hits.
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]
ProtoNetiSearch...

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: November 2, 2016
This is version 152 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.1 Publication

Caution

GRS1, which appears to be a duplication of GRS2, is necessary and sufficient for both mitochondrial and cytoplasmic glycyl-tRNA synthetase activities, suggesting that GRS2 may not be essential.Curated

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

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.