Protein Help

JJJ3 / YJR097W 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
DPH4 7
Feature Type
ORF , Verified

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.


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

No half-life data available for JJJ3.

Protein Abundance

Increase the total number of rows showing on this page by using the pull-down located below the table, or use the page scroll at the table's top right to browse through its pages; use the arrows to the right of a column header to sort by that column; filter the table using the "Filter" box at the top of the table.

Abundance (molecules/cell)MediaTreatmentTreatment timeFold ChangeVisualizationStrain backgroundOriginal ReferenceReference
3849SDuntreatedconfocal microscopy evidenceS288CBreker M, et al. (2013)Ho B, et al. (2018)
1866SD2 mM 1,4-dithiothreitol2 hrconfocal microscopy evidenceS288CBreker M, et al. (2013)Ho B, et al. (2018)
1906SD1 mM hydrogen peroxide1 hrconfocal microscopy evidenceS288CBreker M, et al. (2013)Ho B, et al. (2018)
1333SD minus nitrogencellular response to nitrogen starvation15 hr0.35confocal microscopy evidenceS288CBreker M, et al. (2013)Ho B, et al. (2018)
2531SDuntreatedconfocal microscopy evidenceS288CChong YT, et al. (2015)Ho B, et al. (2018)
Showing 1 to 5 of 10 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.


jjj3-Δ

View all JJJ3 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 MSLVNSLTHY EILRIPSDAT QDEIKKAYRN RLLNTHPDKL SKSIHDTVSN VTINKIQDAY
61 KILSNIKTRR EYDRLILENY KRQGFHNCGD GLDEFSLDDF SFDEDKLEFM MNCPRCQFVG
121 GFHFSESLLD ECIDNVDAME RSHSGYQLLT QCSACSLWLK VNFDIEEEQE GQ*

* 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.

0 entries for 0 sites

Increase the total number of rows showing on this page by using the pull-down located below the table, or use the page scroll at the table's top right to browse through its pages; use the arrows to the right of a column header to sort by that column; filter the table using the "Filter" box at the top of the table.

SiteModificationModifierReference
No post-translational data for this strain.
Showing 0 to 0 of 0 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
A52.91
C63.49
D169.30
E148.14
F95.23
G74.07
H63.49
I116.40
K105.81
L1810.47
M42.33
N116.40
P31.74
Q84.65
R95.23
S158.72
T74.07
V63.49
W10.58
Y63.49

Physical Details

Length (a.a): 172
Molecular Weight (Da): 20016.6
Isoelectric Point (pl): 4.7
Formula: C873H1344N241O280S10
Aliphatic Index: 74.33
Instability Index: 47.94

Coding Region Translation Calculations

Codon Bias: -0.09
Codon Adaptation Index: 0.13
Frequence of Optimal Codons: 0.38
Hydropathicity of Protein: -0.6
Aromaticity Score: 0.09

Extinction Coefficients at 280nm

ALL Cys residues appear as half cystines: 14815.0
NO Cys residues appear as half cystines: 14440.0

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.

20 entries for 10 sources


Increase the total number of rows showing on this page by using the pull-down located below the table, or use the page scroll at the table's top right to browse through its pages; use the arrows to the right of a column header to sort by that column; filter the table using the "Filter" box at the top of the table.

External IDSource
AN10224AspGD
orf19.2018CGD
4356DIP
CAA89627.1GenBank/EMBL/DDBJ
AAS56868.1GenBank/EMBL/DDBJ
AY558542GenBank/EMBL/DDBJ
Z49597GenBank/EMBL/DDBJ
398365323GenBank/EMBL/DDBJ
45270974GenBank/EMBL/DDBJ
1015798GenBank/EMBL/DDBJ
Showing 1 to 10 of 20 entries

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