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PRP42 / YDR235W 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
MUD16 , SNU65
Protein Product
mRNA splicing protein PRP42
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.

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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-life14.3 hrChristiano R, et al. (2014)

Protein Abundance

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Abundance (molecules/cell)MediaTreatmentTreatment timeFold ChangeVisualizationStrain backgroundOriginal ReferenceReference
2051SDuntreatedconfocal microscopy evidenceS288CBreker M, et al. (2013)Ho B, et al. (2018)
1884SD2 mM 1,4-dithiothreitol2 hrconfocal microscopy evidenceS288CBreker M, et al. (2013)Ho B, et al. (2018)
1797SD1 mM hydrogen peroxide1 hrconfocal microscopy evidenceS288CBreker M, et al. (2013)Ho B, et al. (2018)
2006SD minus nitrogencellular response to nitrogen starvation15 hrconfocal microscopy evidenceS288CBreker M, et al. (2013)Ho B, et al. (2018)
1746SDuntreatedconfocal microscopy evidenceS288CChong YT, et al. (2015)Ho B, et al. (2018)
Showing 1 to 5 of 20 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.

prp42-5001 | prp42-ts | prp42-Δ

View all PRP42 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 MDKYTALIHD ENFSTLTLNV SRYPKSLAYW EKLLNYIVKA SAPICKSTEP QLLKLIRCTY 
 61 SSMLNEFPYL ENYYIDFALL EYKLGNVSMS HKIFQRGLQA FNQRSLLLWT SYLKFCNNVI 
121 SHQKQLFKKY ETAEEYVGLH FFSGEFWDLY LEQISSRCTS SKKYWNVLRK ILEIPLHSFS 
181 KFYALWLQRI DDIMDLKQLS QLTSKDELLK KLKIDINYSG RKGPYLQDAK KKLKKITKEM 
241 YMVVQYQVLE IYSIFESKIY INYYTSPETL VSSDEIETWI KYLDYTITLQ TDSLTHLNFQ 
301 RALLPLAHYD LVWIKYSKWL INSKNDLLGA KNVLLMGLKF SLKKTEIIKL LYSVICKLNE 
361 YVLLRNLLEK IESSYSDNVE NVDDFEIFWD YLQFKTFCQN SLYSSRYSDS QSNGLLNKEL 
421 FDKVWKRLSC KEKKSGQEIL LNNLVQFYSK DTVEFVEKNI FQKIIEFGWE YYLQNGMFWN 
481 CYCRLIYFDT SRSYLDKRQY IVRKIWPQID KKFAQSVLPS LTEFCESYFP EEMDTLEEMF 
541 TEEP*

* 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.

2 entries for 2 sites

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SiteModificationModifierReference
S410phosphorylated residueLanz MC, et al. (2021) PMID: 33491328
S412phosphorylated residueLanz MC, et al. (2021) PMID: 33491328
Showing 1 to 2 of 2 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
A132.39
C101.84
D264.78
E407.35
F305.51
G122.21
H71.29
I376.80
K549.93
L7513.79
M101.84
N285.15
P122.21
Q254.60
R162.94
S499.01
T244.41
V224.04
W132.39
Y417.54

Physical Details

Length (a.a): 544
Molecular Weight (Da): 65149.7
Isoelectric Point (pl): 8.18
Formula: C3013H4610N726O844S20
Aliphatic Index: 86.99
Instability Index: 40.88

Coding Region Translation Calculations

Codon Bias: -
Codon Adaptation Index: 0.13
Frequence of Optimal Codons: 0.43
Hydropathicity of Protein: -0.31
Aromaticity Score: 0.15

Extinction Coefficients at 280nm

ALL Cys residues appear as half cystines: 133215.0
NO Cys residues appear as half cystines: 132590.0

Atomic Composition

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Atom Frequency Percentage

Data not found or not available for  S288C

External Identifiers

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

18 entries for 8 sources

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External IDSource
orf19.4374CGD
2836DIP
6320441GenBank/EMBL/DDBJ
AAB81948.1GenBank/EMBL/DDBJ
CAA89721.1GenBank/EMBL/DDBJ
AF020682GenBank/EMBL/DDBJ
Z49701GenBank/EMBL/DDBJ
74627182GenBank/EMBL/DDBJ
2444426GenBank/EMBL/DDBJ
817821GenBank/EMBL/DDBJ
Showing 1 to 10 of 18 entries

Resources

Homologs

AGD | AnalogYeast | BLASTP at NCBI | CGD | FungiDB | PhylomeDB | YGOB | YOGY

Protein Databases

AlphaFold Protein Structure | GPMDB | ModelArchive | Pfam domains | SUPERFAMILY | TopologYeast | UniProtKB

Localization

CYCLoPs | dHITS | LoQAtE | YeastGFP | YeastRC Public Images | YeastRGB | YPL+

Post-translational Modifications

CoSMoS.c. | PhosphoGRID | PhosphoPep