Protein Help

MDS3 / YGL197W 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.


Feature Type
ORF , Verified
Paralog
PMD1 4

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

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.

ExperimentResultReference
half-life7.4 hrChristiano R, et al. (2014)

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
1729SDuntreatedconfocal microscopy evidenceS288CBreker M, et al. (2013)Ho B, et al. (2018)
1696SD2 mM 1,4-dithiothreitol2 hrconfocal microscopy evidenceS288CBreker M, et al. (2013)Ho B, et al. (2018)
1812SD1 mM hydrogen peroxide1 hrconfocal microscopy evidenceS288CBreker M, et al. (2013)Ho B, et al. (2018)
1943SD minus nitrogencellular response to nitrogen starvation15 hrconfocal microscopy evidenceS288CBreker M, et al. (2013)Ho B, et al. (2018)
1499SDuntreatedconfocal microscopy evidenceS288CChong YT, et al. (2015)Ho B, et al. (2018)
Showing 1 to 5 of 16 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.


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.

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.


mds3-Δ

View all MDS3 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 MPLLQPSTCF CYPLKLPPLP LTSDSNEFDE CARKRLTLDY RTGSAVTLTR SNIFVHGGLT
61 IPLNLPVVNS MQLQKELILF FAKEKNNGSS FRNLNEWISK ETFFLDLMSR TWYRVKTSFD
121 QRTEELLKAE SSSAKADNDT NEIRTDIKKG KSLESPLKER LFHSLCYLDG CLYIFGGLTV
181 SPQSGYELIA TNELWKLDLN TKKWSLLSDD PQIARRFNHT MHVKNENNDN RDTKLIIVGG
241 LNNMDQPVKK IDIYNISQNC WQSETIPKQP MEITTNVNGI PLALSKDQNF SILVENNEAN
301 VPALAFYMRS DQIDEYLGKD SSKIKENSPI VALPLLSESQ GIRMPSNPAL PKKLLNVPYE
361 LLAPTGDYFG FNIIIGGFHP NYQSSNFHCF IYDINSGKWS RVATACPDCD INKHRFWRVF
421 VWKSHHQTIL LGTKTDDYYS PSVQRFDHLS TFGLPLVNIF NKTIQLPHHK ISASSLPIPI
481 ENFAKHKDTP LKKVSFTSSA TSQFENYIRY IAPPLEMSSI QSVFPPYAMV LGKDALEIYG
541 KPLSDFEFIT SEGDSIGIPC YLLRKRWGRY FDMLLSQSYT KVCADYETTD TQSTLIKFSP
601 HSSRNSSKAV RQEGRLSSSG SLDNYFEKNF PIFARTSVSE AQNTQPQVAN ADAKAPNTPS
661 TSDEPSSSSS SDLYSTPHYQ RNNDEEDDED PVSPKPVSKS NSIYRPIRKT ESSSTTSSSN
721 GMIFRVPFKE KAAVTSNTEA LLESNLSLQE LSRRRSSLMS IPSGELLRSS ISEAEHQRRA
781 SHPLTSSPLF EDSGTPCGKQ LQQLQQHTIQ NPHNHLSPRR FSRSARSSIS YVSSSSDRRG
841 NSISSRSTSD SFGTPPVLGV LNVPLPPQTR EPNEPPPPCP AMSTGSNTRR SNTLTDYMHS
901 NKASPFSSRR SSHIGRRSST PETENAFSAT PRASLDGQML GKSLKEGSTS QYTQPRMNSF
961 PKANETIQTP TSSNNEWSRQ SVTSNTDSFD SLQSNFALEL EPLLTPRSLY MPWPTSTVRA
1021 FAEFFYTGQV NSKWLLAPVA LDLLVMAKIY EIPLLYKLIL EVLYSILAKK EESLSLICTS
1081 LMETFRTKTL NSYKGDEEKT NTYLTSNDNY QELLKLKVSL ENIDNGYYDP DLLRKQSRAQ
1141 SSSTQESSGS ANGEKTATGA GSLETSSTNV PTVFAGGPRD SHNSVGSIGF PNSMNIQGSR
1201 RSTSGFSPRV KMKSSLSKEI DPKTFYEEYE PKEGKSFDDN DDQQTNIGSF NLHLFDMNYG
1261 SISSSSTNSI SSSDLEEKEE QEQLQDLLEI EREDSAEILD ARFRNKEDDK VTKDISNDKK
1321 RNYLPHEKNN LKAKEGKETR DVREEEEEFD FGLGMLSLNK IKREAKHVDK VDDSVDPLFK
1381 SSAFPQSPIR AYGSTTRTSS ASGKPFRDNR SFNAFSVLTL ENMASANALP PVDYVIKSIY
1441 RTTVLVNDIR LMVRCMDCIE LSKNLRALKK KTMEDISKLK GISKPSP*

* 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.

306 entries for 121 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
T102phosphorylated residueSwaney DL, et al. (2013) PMID: 23749301
S109phosphorylated residueSwaney DL, et al. (2013) PMID: 23749301
K128ubiquitinylated lysineSwaney DL, et al. (2013) PMID: 23749301
S133phosphorylated residueSwaney DL, et al. (2013) PMID: 23749301
S133phosphorylated residueLanz MC, et al. (2021) PMID: 33491328
K135ubiquitinylated lysineSwaney DL, et al. (2013) PMID: 23749301
S155phosphorylated residueLanz MC, et al. (2021) PMID: 33491328
K319ubiquitinylated lysineSwaney DL, et al. (2013) PMID: 23749301
S328phosphorylated residueLanz MC, et al. (2021) PMID: 33491328
S472phosphorylated residueChen YC, et al. (2018) PMID: 30516470
Showing 1 to 10 of 306 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
A674.51
C161.08
D815.45
E956.39
F644.30
G624.17
H261.75
I765.11
K976.52
L1409.41
M281.88
N956.39
P946.32
Q533.56
R785.25
S20313.65
T976.52
V563.77
W120.81
Y473.16

Physical Details

Length (a.a): 1487
Molecular Weight (Da): 166972.2
Isoelectric Point (pl): 7.47
Formula: C7337H11551N2030O2335S44
Aliphatic Index: 69.58
Instability Index: 57.97

Coding Region Translation Calculations

Codon Bias: 0.04
Codon Adaptation Index: 0.13
Frequence of Optimal Codons: 0.44
Hydropathicity of Protein: -0.62
Aromaticity Score: 0.08

Extinction Coefficients at 280nm

ALL Cys residues appear as half cystines: 137030.0
NO Cys residues appear as half cystines: 136030.0

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 9 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
orf19.6760CGD
6381DIP
Z72719GenBank/EMBL/DDBJ
330443546GenBank/EMBL/DDBJ
347595677GenBank/EMBL/DDBJ
1177631GenBank/EMBL/DDBJ
1322825GenBank/EMBL/DDBJ
1723950GenBank/EMBL/DDBJ
X91837GenBank/EMBL/DDBJ
CAA62947.1GenBank/EMBL/DDBJ
Showing 1 to 10 of 20 entries

Resources