Protein Help

SES1 / YDR023W Protein

Protein abundance data, domains, shared domains with other proteins, protein sequence retrieval for various strains, sequence-based physico-chemical properties, protein modification sites, and external identifiers for the protein.


Aliases
SerRS 2
Protein Product
serine--tRNA ligase SES1
Feature Type
ORF , Verified
EC Number
6.1.1.11

AlphaFold Protein Structure

AlphaFold, developed by DeepMind, is an AI program that accurately predicts protein structures from amino acid sequences, enabling visualization of protein conformations. The predicted structures can be accessed through the Protein Data Bank (PDB) and AlphaFold Protein Structure Database.


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Model Confidence

Very high
Confident
Low
Very low

Experimental Data

Contains experimentally-derived protein half-life data obtained using stable isotope labeling by amino acids (SILAC) coupled with mass spectrometry. This section also contains protein abundance data for both untreated and treated cells obtained from over 20 studies. These data have been normalized and converted to a common unit of molecules per cell.


Protein Half Life

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ExperimentResultReference
half-life10.5 hrChristiano R, et al. (2014)

Protein Abundance

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Abundance (molecules/cell)MediaTreatmentTreatment timeFold ChangeVisualizationStrain backgroundOriginal ReferenceReference
27442SDuntreatedconfocal microscopy evidenceS288CChong YT, et al. (2015)Ho B, et al. (2018)
24426SD0.2 M hydroxyurea160 minconfocal microscopy evidenceS288CChong YT, et al. (2015)Ho B, et al. (2018)
32855YEPDuntreatedflow cytometry evidenceS288CDavidson GS, et al. (2011)Ho B, et al. (2018)
10834YEPDcell quiescence7 d0.33flow cytometry evidenceS288CDavidson GS, et al. (2011)Ho B, et al. (2018)
33020SDuntreatedquantitative mass spectrometry evidenceS288Cde Godoy LM, et al. (2008)Ho B, et al. (2018)
Showing 1 to 5 of 25 entries

Domains and Classification - S288C

Collection of computationally identified domains and motifs, as determined by InterProScan analysis; includes protein coordinates for the domain, a domain Description, a Source and corresponding accession ID, and the number of S. cerevisiae genes that share the same domain.


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Gene Protein Coordinates Accession ID Description Source No. of Genes with Domain

Domain Locations

Visual representation of the locations of the domains within the protein, as listed in the Domains and Classification table. Each row displays the domain(s) derived from a different Source, with domains color-coded according to this Source.

Scroll over a domain to view its exact coordinates and its Description.

Shared Domains

This diagram displays domains (colored squares) shared between the given protein (yellow circle) and other proteins (gray circles); the domains are color-coded according to their source, as displayed in the Domain Locations table, above.

Reset

Click on a gene or domain name to go to its specific page within SGD; drag any of the gene or domain objects around within the visualization for easier viewing; click “Reset” to automatically redraw the diagram.

Alleles

Curated mutant alleles for the specified gene, listed alphabetically. Click on the allele name to open the allele page. Click "SGD search" to view all alleles in search results.


ses1-Δ

View all SES1 alleles in SGD search

Sequence

Protein sequence for the given gene in S288C and other strains, when available. Use the pull-down menu under "Strain" to select the sequence for a specific strain. The displayed sequence can be downloaded in FASTA format as a .txt file. Amino acids displayed in blue represent modification sites. More detailed evidence for these modification sites is presented in the Post-translational Modifications table, located just below the protein sequence.


1 MLDINQFIED KGGNPELIRQ SQKARNASVE IVDEIISDYK DWVKTRFELD ELNKKFNKLQ
61 KDIGLKFKNK EDASGLLAEK EKLTQQKKEL TEKEQQEDKD LKKKVFQVGN IVHPSVVVSN
121 DEENNELVRT WKPEDLEAVG PIASVTGKPA SLSHHEILLR LDGYDPDRGV KICGHRGYFF
181 RNYGVFLNQA LINYGLQFLA AKGYIPLQAP VMMNKELMSK TAQLSEFDEE LYKVIDGEDE
241 KYLIATSEQP ISAYHSGEWF EKPQEQLPIH YVGYSSCFRR EAGSHGKDAW GVFRVHAFEK
301 IEQFVITEPE KSWEEFEKMI SYSEEFYKSL KLPYRIVGIV SGELNNAAAK KYDLEAWFPY
361 QKEYKELVSC SNCTDYQSRN LEIRCGIKKM GDREKKYVHC LNSTLAATQR ALCCILENYQ
421 TEDGLVVPEV LRKYIPGEPE FLPFVNELPK NSTSSKDKKK KN*

* Blue amino acids indicate modification sites. More information below.

Post-translational Modifications - S288C

Modification sites for the protein in the selected strain, based on the presence of a residue in the specific strain, as inferred from experimental evidence.

35 entries for 26 sites

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SiteModificationModifierReference
S37phosphorylated residueLeutert M, et al. (2023) PMID: 37845410
Y39phosphorylated residueLeutert M, et al. (2023) PMID: 37845410
T45phosphorylated residueLeutert M, et al. (2023) PMID: 37845410
K54monoacetylated residueHenriksen P, et al. (2012) PMID: 22865919
K61monoacetylated residueHenriksen P, et al. (2012) PMID: 22865919
K70ubiquitinylated lysineSwaney DL, et al. (2013) PMID: 23749301
K70succinylated residueWeinert BT, et al. (2013) PMID: 23954790
K70ubiquitinylated lysineBack S, et al. (2019) PMID: 30489083
S74phosphorylated residueLanz MC, et al. (2021) PMID: 33491328
K80succinylated residueWeinert BT, et al. (2013) PMID: 23954790
Showing 1 to 10 of 35 entries

Sequence-Based Physico-chemical Properties - S288C

Calculated protein properties, including amino acid composition, length, coding region calculations, and atomic composition.

Amino Acid Composition

Sort table using the arrow to the right of a column header to sort by that column; download all properties as a .txt file using the "Download Properties" button.

Amino AcidFrequencyPercentage
A245.19
C81.73
D245.19
E5111.04
F204.33
G265.63
H91.95
I265.63
K5010.82
L418.87
M61.30
N234.98
P194.11
Q214.55
R173.68
S296.28
T132.81
V286.06
W61.30
Y214.55

Physical Details

Length (a.a): 462
Molecular Weight (Da): 53302.0
Isoelectric Point (pl): 5.94
Formula: C2393H3723N631O720S14
Aliphatic Index: 73.78
Instability Index: 41.0

Coding Region Translation Calculations

Codon Bias: 0.44
Codon Adaptation Index: 0.39
Frequence of Optimal Codons: 0.69
Hydropathicity of Protein: -0.65
Aromaticity Score: 0.1

Extinction Coefficients at 280nm

ALL Cys residues appear as half cystines: 64790.0
NO Cys residues appear as half cystines: 64290.0

Atomic Composition

Sort table using the arrow to the right of a column header to sort by that column; download all properties as a .txt file using the "Download Properties" button.

Atom Frequency Percentage

Data not found or not available for  S288C

External Identifiers

List of external identifiers for the protein from various database sources.

28 entries for 9 sources


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External IDSource
orf19.269CGD
5181DIP
6.1.1.11ExPASy
X95966GenBank/EMBL/DDBJ
Z47814GenBank/EMBL/DDBJ
X04884GenBank/EMBL/DDBJ
L15408GenBank/EMBL/DDBJ
CAA28572.1GenBank/EMBL/DDBJ
CAA98844.1GenBank/EMBL/DDBJ
AAC37412.1GenBank/EMBL/DDBJ
Showing 1 to 10 of 28 entries

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