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Protein

Serine--tRNA ligase, cytoplasmic

Gene

SES1

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 serine to tRNA(Ser). Is also probably able to aminoacylate tRNA(Sec) with serine, to form the misacylated tRNA L-seryl-tRNA(Sec), which will be further converted into selenocysteinyl-tRNA(Sec).1 Publication

Catalytic activityi

ATP + L-serine + tRNA(Ser) = AMP + diphosphate + L-seryl-tRNA(Ser).
ATP + L-serine + tRNA(Sec) = AMP + diphosphate + L-seryl-tRNA(Sec).

Pathwayi: selenocysteinyl-tRNA(Sec) biosynthesis

This protein is involved in step 1 of the subpathway that synthesizes L-seryl-tRNA(Sec) from L-serine and tRNA(Sec).
Proteins known to be involved in this subpathway in this organism are:
  1. Serine--tRNA ligase, cytoplasmic (SES1), Serine--tRNA ligase, mitochondrial (DIA4)
This subpathway is part of the pathway selenocysteinyl-tRNA(Sec) biosynthesis, which is itself part of Aminoacyl-tRNA biosynthesis.
View all proteins of this organism that are known to be involved in the subpathway that synthesizes L-seryl-tRNA(Sec) from L-serine and tRNA(Sec), the pathway selenocysteinyl-tRNA(Sec) biosynthesis and in Aminoacyl-tRNA biosynthesis.

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Binding sitei295ATP; via amide nitrogen and carbonyl oxygenBy similarity1
Binding sitei302SerineBy similarity1
Binding sitei404SerineBy similarity1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi279 – 281ATPBy similarity3
Nucleotide bindingi366 – 369ATPBy similarity4

GO - Molecular functioni

  • ATP binding Source: UniProtKB-KW
  • serine-tRNA ligase activity Source: SGD

GO - Biological processi

  • selenocysteinyl-tRNA(Sec) biosynthetic process Source: UniProtKB-UniPathway
  • seryl-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-29640-MONOMER.
UniPathwayiUPA00906; UER00895.

Names & Taxonomyi

Protein namesi
Recommended name:
Serine--tRNA ligase, cytoplasmic (EC:6.1.1.11)
Alternative name(s):
Seryl-tRNA synthetase
Short name:
SerRS
Seryl-tRNA(Ser/Sec) synthetase
Gene namesi
Name:SES1
Synonyms:SERS
Ordered Locus Names:YDR023W
ORF Names:YD9813.01
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
Proteomesi
  • UP000002311 Componenti: Chromosome IV

Organism-specific databases

EuPathDBiFungiDB:YDR023W.
SGDiS000002430. SES1.

Subcellular locationi

GO - Cellular componenti

  • cytoplasmic stress granule Source: SGD
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001221991 – 462Serine--tRNA ligase, cytoplasmicAdd BLAST462

Proteomic databases

MaxQBiP07284.
PRIDEiP07284.

PTM databases

iPTMnetiP07284.

Interactioni

Subunit structurei

Homodimer. The tRNA molecule probably binds across the dimer.1 Publication

Protein-protein interaction databases

BioGridi32074. 48 interactors.
DIPiDIP-5181N.
IntActiP07284. 3 interactors.
MINTiMINT-513156.

Structurei

3D structure databases

ProteinModelPortaliP07284.
SMRiP07284.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni246 – 248Serine bindingBy similarity3

Domaini

Consists of two distinct domains, a catalytic core and a N-terminal extension that is involved in tRNA binding.By similarity

Sequence similaritiesi

Phylogenomic databases

GeneTreeiENSGT00790000123098.
HOGENOMiHOG000035937.
InParanoidiP07284.
KOiK01875.
OMAiRYVGYSS.
OrthoDBiEOG092C513S.

Family and domain databases

CDDicd00770. SerRS_core. 1 hit.
Gene3Di1.10.287.40. 1 hit.
InterProiIPR002314. aa-tRNA-synt_IIb.
IPR006195. aa-tRNA-synth_II.
IPR002317. Ser-tRNA-ligase_type_1.
IPR015866. Ser-tRNA-synth_1_N.
IPR033729. SerRS_core.
IPR010978. tRNA-bd_arm.
[Graphical view]
PANTHERiPTHR11778. PTHR11778. 1 hit.
PfamiPF02403. Seryl_tRNA_N. 1 hit.
PF00587. tRNA-synt_2b. 1 hit.
[Graphical view]
PIRSFiPIRSF001529. Ser-tRNA-synth_IIa. 1 hit.
PRINTSiPR00981. TRNASYNTHSER.
SUPFAMiSSF46589. SSF46589. 1 hit.
TIGRFAMsiTIGR00414. serS. 1 hit.
PROSITEiPS50862. AA_TRNA_LIGASE_II. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P07284-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MLDINQFIED KGGNPELIRQ SQKARNASVE IVDEIISDYK DWVKTRFELD
60 70 80 90 100
ELNKKFNKLQ KDIGLKFKNK EDASGLLAEK EKLTQQKKEL TEKEQQEDKD
110 120 130 140 150
LKKKVFQVGN IVHPSVVVSN DEENNELVRT WKPEDLEAVG PIASVTGKPA
160 170 180 190 200
SLSHHEILLR LDGYDPDRGV KICGHRGYFF RNYGVFLNQA LINYGLQFLA
210 220 230 240 250
AKGYIPLQAP VMMNKELMSK TAQLSEFDEE LYKVIDGEDE KYLIATSEQP
260 270 280 290 300
ISAYHSGEWF EKPQEQLPIH YVGYSSCFRR EAGSHGKDAW GVFRVHAFEK
310 320 330 340 350
IEQFVITEPE KSWEEFEKMI SYSEEFYKSL KLPYRIVGIV SGELNNAAAK
360 370 380 390 400
KYDLEAWFPY QKEYKELVSC SNCTDYQSRN LEIRCGIKKM GDREKKYVHC
410 420 430 440 450
LNSTLAATQR ALCCILENYQ TEDGLVVPEV LRKYIPGEPE FLPFVNELPK
460
NSTSSKDKKK KN
Length:462
Mass (Da):53,310
Last modified:October 1, 1996 - v2
Checksum:iBBED6EA47E6F547B
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti224L → P in CAA28572 (PubMed:3031581).Curated1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X04884 Genomic DNA. Translation: CAA28572.1.
Z47814 Genomic DNA. Translation: CAA87802.1.
X95966 Genomic DNA. Translation: CAA65216.1.
Z74319 Genomic DNA. Translation: CAA98844.1.
L15408 Genomic DNA. Translation: AAC37412.1.
BK006938 Genomic DNA. Translation: DAA11869.1.
PIRiS50930. YSBYC.
RefSeqiNP_010306.1. NM_001180331.1.

Genome annotation databases

EnsemblFungiiYDR023W; YDR023W; YDR023W.
GeneIDi851587.
KEGGisce:YDR023W.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X04884 Genomic DNA. Translation: CAA28572.1.
Z47814 Genomic DNA. Translation: CAA87802.1.
X95966 Genomic DNA. Translation: CAA65216.1.
Z74319 Genomic DNA. Translation: CAA98844.1.
L15408 Genomic DNA. Translation: AAC37412.1.
BK006938 Genomic DNA. Translation: DAA11869.1.
PIRiS50930. YSBYC.
RefSeqiNP_010306.1. NM_001180331.1.

3D structure databases

ProteinModelPortaliP07284.
SMRiP07284.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi32074. 48 interactors.
DIPiDIP-5181N.
IntActiP07284. 3 interactors.
MINTiMINT-513156.

PTM databases

iPTMnetiP07284.

Proteomic databases

MaxQBiP07284.
PRIDEiP07284.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblFungiiYDR023W; YDR023W; YDR023W.
GeneIDi851587.
KEGGisce:YDR023W.

Organism-specific databases

EuPathDBiFungiDB:YDR023W.
SGDiS000002430. SES1.

Phylogenomic databases

GeneTreeiENSGT00790000123098.
HOGENOMiHOG000035937.
InParanoidiP07284.
KOiK01875.
OMAiRYVGYSS.
OrthoDBiEOG092C513S.

Enzyme and pathway databases

UniPathwayiUPA00906; UER00895.
BioCyciYEAST:G3O-29640-MONOMER.

Miscellaneous databases

PROiP07284.

Family and domain databases

CDDicd00770. SerRS_core. 1 hit.
Gene3Di1.10.287.40. 1 hit.
InterProiIPR002314. aa-tRNA-synt_IIb.
IPR006195. aa-tRNA-synth_II.
IPR002317. Ser-tRNA-ligase_type_1.
IPR015866. Ser-tRNA-synth_1_N.
IPR033729. SerRS_core.
IPR010978. tRNA-bd_arm.
[Graphical view]
PANTHERiPTHR11778. PTHR11778. 1 hit.
PfamiPF02403. Seryl_tRNA_N. 1 hit.
PF00587. tRNA-synt_2b. 1 hit.
[Graphical view]
PIRSFiPIRSF001529. Ser-tRNA-synth_IIa. 1 hit.
PRINTSiPR00981. TRNASYNTHSER.
SUPFAMiSSF46589. SSF46589. 1 hit.
TIGRFAMsiTIGR00414. serS. 1 hit.
PROSITEiPS50862. AA_TRNA_LIGASE_II. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiSYSC_YEAST
AccessioniPrimary (citable) accession number: P07284
Secondary accession number(s): D6VS09
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 1, 1988
Last sequence update: October 1, 1996
Last modified: November 2, 2016
This is version 160 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

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