Protein Help

LAM5 / YFL042C 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
YFL043C , LTC2 2
Feature Type
ORF , Verified
Paralog
LAM6
Summary
One of six StART-like domain-containing proteins in yeast; has both GRAM and StART-like (VASt) domains

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-life5.4 hrChristiano R, et al. (2014)

Protein Abundance

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Abundance (molecules/cell)MediaTreatmentTreatment timeFold ChangeVisualizationStrain backgroundOriginal ReferenceReference
1287SD minus nitrogencellular response to nitrogen starvation15 hrconfocal microscopy evidenceS288CBreker M, et al. (2013)Ho B, et al. (2018)
1258SDuntreatedquantitative mass spectrometry evidenceS288Cde Godoy LM, et al. (2008)Ho B, et al. (2018)
408YEPDuntreatedquantitative mass spectrometry evidenceS288CKulak NA, et al. (2014)Ho B, et al. (2018)
2547YEPDuntreatedquantitative mass spectrometry evidenceOtherLu P, et al. (2007)Ho B, et al. (2018)
807YEPDuntreatedquantitative mass spectrometry evidenceW303Nagaraj N, et al. (2012)Ho B, et al. (2018)
Showing 1 to 5 of 7 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.


lam5-Δ

View all LAM5 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 MSDVDNWEPV SDNEDSTDSV KQLGPPFEHA SNNDNAGDTE AESLQEVPLN TETNDVRKNL
61 VVITNQSAAD EHPTEIKHDQ SRTSSTSSFF SGMISSFKSN VPSPVSRSTT PTSPVSQPSI
121 ISHRREPSMG SKRRSSRRIS NATIAEIGSP LQQVEKPDEV KTRLTPSQMK EDNYDHRRFV
181 EERYMDTPYH YASEQRNKDF HETFKSVPKD DRLLDDFNCG LNRELLYQGK LYITETHLCF
241 NSNVLGWIAK VLIAFEDVTF MEKTSAAGLF PSAISIETKM GKTLFNGFIS RDAAFGLMKE
301 VWSRTLLQKD MASENINTKA EKSGNGKEID DAINSIDEEN NDKDANDNDT NENDDENIST
361 NETTPNSTSS SPDKEKEKAY KLRADSSYQY DGPIYHHSTS FPAEPMANNE FVLKELPFDC
421 APGILFEIMF NSEQNEFLLD FLRGQEGSQI TTIPNFTSID GSSMTLKREY SYEKALHFPA
481 GPKSTTCYVA EVIKRKDPDT YYEVISSIRT PNVPSGGSFS TKTRYLIRWN DEITCLLRVS
541 FWVEWTGSSW IKGMVENGCK NGQLEAAQLM ERILSKFIKN NVEECQITIS KEEEEQDDKE
601 VKNKLKEVDL EQPREAVVTA PAIAEQQGLK VTMETWLFLY LIVVVLLLFN LFYIRSIAVS
661 LHQLVKLQLV ELKL*

* 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.

56 entries for 19 sites

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SiteModificationModifierReference
S11phosphorylated residueLanz MC, et al. (2021) PMID: 33491328
S43phosphorylated residueAlbuquerque CP, et al. (2008) PMID: 18407956
S43phosphorylated residueLanz MC, et al. (2021) PMID: 33491328
K58ubiquitinylated lysineBack S, et al. (2019) PMID: 30489083
S85phosphorylated residueLanz MC, et al. (2021) PMID: 33491328
S99phosphorylated residueZhou X, et al. (2021) PMID: 33481703
S103phosphorylated residueSwaney DL, et al. (2013) PMID: 23749301
S103phosphorylated residueCDC28Holt LJ, et al. (2009) PMID: 19779198
S103phosphorylated residueLanz MC, et al. (2021) PMID: 33491328
S103phosphorylated residueZhou X, et al. (2021) PMID: 33481703
Showing 1 to 10 of 56 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
A345.04
C71.04
D436.38
E639.35
F304.45
G274.01
H121.78
I395.79
K456.68
L517.57
M152.23
N446.53
P324.75
Q243.56
R294.30
S6910.24
T466.82
V385.64
W81.19
Y182.67

Physical Details

Length (a.a): 674
Molecular Weight (Da): 76315.8
Isoelectric Point (pl): 4.66
Formula: C3352H5210N906O1088S22
Aliphatic Index: 69.53
Instability Index: 47.99

Coding Region Translation Calculations

Codon Bias: 0.05
Codon Adaptation Index: 0.13
Frequence of Optimal Codons: 0.46
Hydropathicity of Protein: -0.61
Aromaticity Score: 0.08

Extinction Coefficients at 280nm

ALL Cys residues appear as half cystines: 71195.0
NO Cys residues appear as half cystines: 70820.0

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.

15 entries for 8 sources


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External IDSource
1182DIP
6136704GenBank/EMBL/DDBJ
2804270GenBank/EMBL/DDBJ
14318476GenBank/EMBL/DDBJ
D50617GenBank/EMBL/DDBJ
BAA24424.1GenBank/EMBL/DDBJ
5766LoQAtE
850501NCBI
NP_116611.1NCBI
NM_001179924.1NCBI
Showing 1 to 10 of 15 entries

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