EPS1 encodes an endoplasmic-reticulum membrane protein of the protein disulfide isomerase family. The best-supported role of Eps1 is ER quality control: it recognizes and retains aberrant secretory-pathway membrane substrates, especially Pma1-D378N, and promotes their delivery to the Doa10-linked ER-associated degradation pathway. Eps1 has thioredoxin-like CXXC active-site motifs and experimentally reported reductase/chaperone activities, but its in vivo specificity is more accurately described as membrane-bound ERAD substrate recognition and quality-control routing than as general protein folding throughout the secretome.
| GO Term | Evidence | Action | Reason |
|---|---|---|---|
|
GO:0003756
protein disulfide isomerase activity
|
IBA
GO_REF:0000033 |
ACCEPT |
Summary: The PANTHER/IBA transfer is consistent with Eps1 membership in the PDI family and with direct yeast studies showing thioredoxin-like CPHC/CDKC motifs required for ER quality-control substrate handling. Eps1 is not a broad soluble foldase like Pdi1, but protein disulfide isomerase-family oxidoreductase activity is a defensible molecular-function annotation.
Reason: Retain as a family-consistent molecular function, while interpreting it in the narrower context of Eps1-dependent ER quality control.
Supporting Evidence:
PMID:12881414
Eps1 has two thioredoxin-like domains containing a CPHC and a CDKC active site.
file:yeast/EPS1/EPS1-deep-research-falcon.md
Falcon deep research synthesizes EPS1 as an ER membrane PDI-family factor for ER quality control and ERAD substrate recognition.
|
|
GO:0005783
endoplasmic reticulum
|
IBA
GO_REF:0000033 |
ACCEPT |
Summary: Eps1 acts in the ER and the IBA localization is supported by direct localization and functional studies. More specific ER membrane annotations are also present, but this broader ER term is correct.
Reason: Eps1 is an ER-localized quality-control factor.
Supporting Evidence:
PMID:10545109
Eps1 is a novel membrane protein belonging to the protein disulfide isomerase (PDI) family, and Eps1 co-localizes with Pma1-D378N in the ER.
|
|
GO:0006457
protein folding
|
IBA
GO_REF:0000033 |
ACCEPT |
Summary: The protein folding annotation is acceptable for a PDI-family ER chaperone/quality-control protein, but it should be interpreted as substrate quality control and ERAD-linked folding surveillance rather than broad essential oxidative folding.
Reason: Eps1 has experimentally supported membrane-bound chaperone activity in ER quality control.
Supporting Evidence:
PMID:10545109
Because Eps1 is required for retention and degradation of Pma1-D378N, we propose a model in which Eps1 acts as a novel membrane-bound chaperone in ER quality control.
|
|
GO:0003756
protein disulfide isomerase activity
|
IEA
GO_REF:0000003 |
ACCEPT |
Summary: The EC-based IEA annotation is consistent with Eps1's PDI-family thioredoxin-like active-site motifs and with experimental annotation of PDI-related activity. It is less informative than the ERAD-specific process annotation but not wrong.
Reason: Retain as a valid but broad enzymatic-family annotation.
Supporting Evidence:
PMID:12881414
Recognition of Pma1-D378N by the ERAD pathway is dependent on Eps1, a transmembrane member of the protein disulfide isomerase (PDI) oxidoreductase family.
|
|
GO:0005737
cytoplasm
|
IEA
GO_REF:0000117 |
REMOVE |
Summary: The ARBA-derived cytoplasm annotation is not supported by the curated yeast evidence. Eps1 is a precursor with an ER signal sequence and a single-pass ER membrane topology; its quality-control function is in the ER, not the cytoplasm.
Reason: Cytoplasm misrepresents the experimentally supported ER membrane localization and should not be retained.
Supporting Evidence:
PMID:10545109
Eps1 is a novel membrane protein belonging to the protein disulfide isomerase (PDI) family, and Eps1 co-localizes with Pma1-D378N in the ER.
|
|
GO:0005789
endoplasmic reticulum membrane
|
IEA
GO_REF:0000044 |
ACCEPT |
Summary: This is the most accurate cellular-component annotation for Eps1. Direct studies show it is an integral ER membrane protein, and the ER membrane is where it couples luminal substrate recognition to membrane ERAD machinery.
Reason: Core localization for the active Eps1 protein.
Supporting Evidence:
PMID:10545109
Eps1 is a novel membrane protein belonging to the protein disulfide isomerase (PDI) family, and Eps1 co-localizes with Pma1-D378N in the ER.
PMID:12881414
Recognition of Pma1-D378N by the ERAD pathway is dependent on Eps1, a transmembrane member of the protein disulfide isomerase (PDI) oxidoreductase family.
|
|
GO:0012505
endomembrane system
|
IEA
GO_REF:0000117 |
MODIFY |
Summary: Endomembrane system is true but unnecessarily broad for Eps1. The same evidence should resolve to endoplasmic reticulum membrane, which is directly supported.
Reason: Replace broad ARBA localization with the specific experimentally supported ER membrane term.
Proposed replacements:
endoplasmic reticulum membrane
Supporting Evidence:
PMID:10545109
Eps1 is a novel membrane protein belonging to the protein disulfide isomerase (PDI) family, and Eps1 co-localizes with Pma1-D378N in the ER.
|
|
GO:0016853
isomerase activity
|
IEA
GO_REF:0000043 |
MODIFY |
Summary: Generic isomerase activity loses the important chemistry and family context. Eps1 should be represented by protein disulfide isomerase activity rather than the broad parent term.
Reason: A more specific child term is already supported for Eps1.
Proposed replacements:
protein disulfide isomerase activity
Supporting Evidence:
PMID:12881414
Recognition of Pma1-D378N by the ERAD pathway is dependent on Eps1, a transmembrane member of the protein disulfide isomerase (PDI) oxidoreductase family.
|
|
GO:0036503
ERAD pathway
|
IMP
PMID:12881414 Substrate recognition in ER-associated degradation mediated ... |
ACCEPT |
Summary: This is the best biological-process annotation for Eps1. Loss of EPS1 impairs recognition and degradation of Pma1-D378N and other ERAD substrates, and eps1Delta cells show genetic and UPR evidence of ERAD stress.
Reason: Core process supported by direct mutant and substrate-recognition evidence.
Supporting Evidence:
PMID:12881414
Genetic interactions with other mutants of the ERAD machinery and induction of the unfolded protein response in eps1Delta cells support a general role for Eps1 as a recognition component of the ERAD pathway.
|
|
GO:0005515
protein binding
|
IPI
PMID:16002399 Interactions among yeast protein-disulfide isomerase protein... |
MARK AS OVER ANNOTATED |
Summary: Eps1 interactions with Pdi1, Eug1, Mpd1, Kar2 and Cne1-related ER chaperone systems are biologically relevant, but the generic protein binding term is not informative and should not be presented as a standalone molecular function.
Reason: Specific oxidoreductase/chaperone and ERAD substrate-recognition annotations better capture Eps1 biology than GO:0005515.
Supporting Evidence:
PMID:16002399
Eps1p interacts with Pdi1p, Eug1p, Mpd1p, and Kar2p with dissociation constants (KD) in the range of 10(-7) to 10(-6).
|
|
GO:0019153
protein-disulfide reductase (glutathione) activity
|
IDA
PMID:16002399 Interactions among yeast protein-disulfide isomerase protein... |
REMOVE |
Summary: The cited paper reports undetectable Eps1p protein-disulfide reductase activity in the glutathione-dependent assay used for this annotation.
Reason: The original IDA source provides direct evidence against detectable Eps1p activity for this specific glutathione-dependent reductase term. Eps1 retains PDI-family/chaperone annotations where supported, but this narrower reductase annotation should be removed.
Supporting Evidence:
PMID:16002399
found that Mpd1p, Mpd2, and Eug1p exhibit activities of 13.8, 16.0, and 2.16%, respectively, compared with Pdi1p and that activity for Eps1p is undetectable.
|
|
GO:0003756
protein disulfide isomerase activity
|
IMP
PMID:11157982 Functional differences in yeast protein disulfide isomerases... |
ACCEPT |
Summary: The genetic evidence from yeast PDI homolog studies supports retaining a PDI activity annotation for EPS1, while noting that Eps1 is not functionally interchangeable with Pdi1 and its main in vivo role is ER quality control.
Reason: Valid PDI-family activity annotation, interpreted with functional specificity.
Supporting Evidence:
PMID:11157982
The Saccharomyces cerevisiae genome, however, contains four other nonessential genes with homology to PDI1: MPD1, MPD2, EUG1, and EPS1.
|
|
GO:0005789
endoplasmic reticulum membrane
|
IDA
PMID:10545109 Eps1, a novel PDI-related protein involved in ER quality con... |
ACCEPT |
Summary: Direct assay evidence supports ER membrane localization. This is a core cellular component for Eps1.
Reason: Directly supported ER membrane localization.
Supporting Evidence:
PMID:10545109
Eps1 is a novel membrane protein belonging to the protein disulfide isomerase (PDI) family, and Eps1 co-localizes with Pma1-D378N in the ER.
|
|
GO:0006621
protein retention in ER lumen
|
IMP
PMID:10545109 Eps1, a novel PDI-related protein involved in ER quality con... |
MODIFY |
Summary: EPS1 is required for ER retention and degradation of the misfolded membrane protein Pma1-D378N, but the current term is misleading because Pma1 is not an ER-lumen resident protein and the same study reports that normal retention of resident ER proteins Shr3 and Kar2 is not perturbed. ERAD pathway is the better biological-process annotation.
Reason: Replace an assay-specific and lumen-biased retention term with the mechanistically accurate ERAD pathway term.
Proposed replacements:
ERAD pathway
Supporting Evidence:
PMID:10545109
In an eps1 mutant, both mutant and wild-type Pma1 molecules are allowed to travel to the plasma membrane; however, normal retention of resident ER proteins Shr3 and Kar2 is not perturbed.
|
|
GO:0051082
unfolded protein binding
|
IDA
PMID:16002399 Interactions among yeast protein-disulfide isomerase protein... |
ACCEPT |
Summary: Unlike the mitochondrial assembly-factor examples where unfolded protein binding overstates the evidence, Eps1 has a documented ER chaperone/quality control role and physically engages aberrant secretory-pathway substrates. This term is still broad, but it is defensible for Eps1 as a membrane-bound chaperone.
Reason: Retain as a valid chaperone-related molecular function, secondary to the more specific PDI redox and ERAD-process annotations.
Supporting Evidence:
PMID:16002399
co-chaperone activities were completely suppressed in Eps1p-Pdi1p and Eps1p-Mpd1p complexes, although only Eps1p and Pdi1p have chaperone activity.
|
Q: Should EPS1 retain a broad unfolded protein binding annotation, or should GO curation represent its chaperone role only through PDI redox activity and ERAD substrate-recognition/process terms?
Suggested experts: Wang Q, Chang A
Experiment: Reconstitute Eps1-dependent recognition of Pma1-D378N and additional ERAD substrates using active-site and membrane-anchor mutants, then measure substrate binding, Doa10 handoff, and degradation kinetics.
Hypothesis: Eps1 active-site cysteine chemistry is required for substrate recognition rather than for broad oxidative folding.
Type: ERAD substrate-recognition assay
provider: falcon
model: Edison Scientific Literature
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start_time: '2026-05-04T10:06:07.941202'
end_time: '2026-05-04T10:15:15.804001'
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template_file: templates/gene_research_go_focused.md
template_variables:
organism: yeast
gene_id: EPS1
gene_symbol: EPS1
uniprot_accession: P40557
protein_description: 'RecName: Full=ER-retained PMA1-suppressing protein 1; EC=5.3.4.1;
Flags: Precursor;'
gene_info: Name=EPS1; OrderedLocusNames=YIL005W; ORFNames=YIA5W;
organism_full: Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast).
protein_family: Belongs to the protein disulfide isomerase family.
protein_domains: PDI. (IPR051063); Thioredoxin-like_sf. (IPR036249); Thioredoxin_CS.
(IPR017937); Thioredoxin_domain. (IPR013766); Thioredoxin (PF00085)
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BEFORE YOU BEGIN RESEARCH: You MUST verify you are researching the CORRECT gene/protein. Gene symbols can be ambiguous, especially for less well-characterized genes from non-model organisms.
DO NOT PROCEED WITH RESEARCH ON A DIFFERENT GENE. Instead:
- State clearly: "The gene symbol 'EPS1' is ambiguous or literature is limited for this specific protein"
- Explain what you found (e.g., "Found extensive literature on a different gene with the same symbol in a different organism")
- Describe the protein based ONLY on the UniProt information provided above
- Suggest that the protein function can be inferred from domain/family information
Please provide a comprehensive research report on the gene EPS1 (gene ID: EPS1, UniProt: P40557) in yeast.
The research report should be a detailed narrative explaining the function, biological processes, and localization of the gene product. Citations should be given for all claims.
You should prioritize authoritative reviews and primary scientific literature when conducting research. You can supplement
this with annotations you find in gene/protein databases, but these can be outdated or inaccurate.
We are specifically interested in the primary function of the gene - for enzymes, what reaction is catalyzed, and what is the substrate specificity? For transporters, what is the substrate? For structural proteins or adapters, what is the broader structural role? For signaling molecules, what is the role in the pathway.
We are interested in where in or outside the cell the gene product carries out its function.
We are also interested in the signaling or biochemical pathways in which the gene functions. We are less interested in broad pleiotropic effects, except where these elucidate the precise role.
Include evidence where possible. We are interested in both experimental evidence as well as inference from structure, evolution, or bioinformatic analysis. Precise studies should be prioritized over high-throughput, where available.
Question: You are an expert researcher providing comprehensive, well-cited information.
Provide detailed information focusing on:
1. Key concepts and definitions with current understanding
2. Recent developments and latest research (prioritize 2023-2024 sources)
3. Current applications and real-world implementations
4. Expert opinions and analysis from authoritative sources
5. Relevant statistics and data from recent studies
Format as a comprehensive research report with proper citations. Include URLs and publication dates where available.
Always prioritize recent, authoritative sources and provide specific citations for all major claims.
BEFORE YOU BEGIN RESEARCH: You MUST verify you are researching the CORRECT gene/protein. Gene symbols can be ambiguous, especially for less well-characterized genes from non-model organisms.
DO NOT PROCEED WITH RESEARCH ON A DIFFERENT GENE. Instead:
- State clearly: "The gene symbol 'EPS1' is ambiguous or literature is limited for this specific protein"
- Explain what you found (e.g., "Found extensive literature on a different gene with the same symbol in a different organism")
- Describe the protein based ONLY on the UniProt information provided above
- Suggest that the protein function can be inferred from domain/family information
Please provide a comprehensive research report on the gene EPS1 (gene ID: EPS1, UniProt: P40557) in yeast.
The research report should be a detailed narrative explaining the function, biological processes, and localization of the gene product. Citations should be given for all claims.
You should prioritize authoritative reviews and primary scientific literature when conducting research. You can supplement
this with annotations you find in gene/protein databases, but these can be outdated or inaccurate.
We are specifically interested in the primary function of the gene - for enzymes, what reaction is catalyzed, and what is the substrate specificity? For transporters, what is the substrate? For structural proteins or adapters, what is the broader structural role? For signaling molecules, what is the role in the pathway.
We are interested in where in or outside the cell the gene product carries out its function.
We are also interested in the signaling or biochemical pathways in which the gene functions. We are less interested in broad pleiotropic effects, except where these elucidate the precise role.
Include evidence where possible. We are interested in both experimental evidence as well as inference from structure, evolution, or bioinformatic analysis. Precise studies should be prioritized over high-throughput, where available.
The literature summarized here specifically concerns EPS1/YIL005W from Saccharomyces cerevisiae (strain S288c), encoding ER-retained PMA1-suppressing protein 1 (Eps1), a protein disulfide isomerase (PDI) family member with thioredoxin-like domains and CXXC motifs, consistent with the UniProt entry P40557. Foundational functional studies were performed directly on yeast EPS1 by Wang & Chang (1999, 2003). (wang1999eps1anovel pages 1-2, wang2003substraterecognitionin pages 1-3)
PDI-family proteins are thioredoxin-superfamily oxidoreductases that participate in oxidative protein folding and quality control in the endoplasmic reticulum (ER). In yeast, Eps1 is classified as a PDI-family member because it contains thioredoxin-like domains with CXXC motifs and participates in ER quality control. (wang1999eps1anovel pages 5-6, wang2003substraterecognitionin pages 1-3)
ER quality control retains misfolded proteins in the ER and routes them either to refolding or to ERAD, in which substrates are ubiquitinated (e.g., by E3 ligases such as Doa10) and extracted (e.g., by Cdc48) for proteasomal degradation. Eps1 functions as a substrate-recognition/retention factor for at least one misfolded membrane client (Pma1-D378N) and contributes to the efficient degradation of ERAD substrates. (wang2003substraterecognitionin pages 1-3, wang2003substraterecognitionin pages 7-8)
Eps1 behaves as an integral membrane protein: it sediments with membranes and resists extraction by high salt or alkaline carbonate, indicating membrane integration rather than peripheral association. (Wang & Chang, 1999-11, EMBO J; https://doi.org/10.1093/emboj/18.21.5972) (wang1999eps1anovel pages 5-6)
Functionally and topologically, Eps1 is described as a type I transmembrane ER protein in which the thioredoxin-like region resides in the ER lumen, with membrane anchoring/cytosolic tail contributing to ER retention and/or handoff to degradation machinery. (Wang & Chang, 2003-08, EMBO J; https://doi.org/10.1093/emboj/cdg378) (wang2003substraterecognitionin pages 1-3, wang2003substraterecognitionin pages 3-4)
Immunofluorescence data show Eps1 with perinuclear ER staining (overlapping with the ER marker Kar2 in some cells) and additional punctate staining; Eps1 also partially co-localizes with the misfolded substrate Pma1-D378N under conditions where that substrate is retained. (wang1999eps1anovel pages 5-6)
EPS1 was identified as a determinant of ER quality control for a specific misfolded plasma membrane protein: the Pma1-D378N mutant. In eps1Δ cells, Pma1-D378N escapes ER retention and can reach the cell surface, suppressing the mutant’s dominant-negative phenotype; this establishes EPS1 as a key factor in retaining this misfolded membrane client in the ER and promoting its disposal. (Wang & Chang, 1999-11; https://doi.org/10.1093/emboj/18.21.5972) (wang1999eps1anovel pages 1-2, wang1999eps1anovel pages 8-9)
The 2003 mechanistic follow-up directly supports Eps1’s role in ERAD of Pma1-D378N, tying recognition/retention to the Doa10 pathway. (Wang & Chang, 2003-08; https://doi.org/10.1093/emboj/cdg378) (wang2003substraterecognitionin pages 1-3)
Eps1 co-immunoprecipitates with newly synthesized Pma1-D378N (but not with wild-type Pma1), supporting a physical recognition step. The association is transient, peaking at approximately 5 minutes of chase and then declining; in doa10Δ cells, this association is prolonged, consistent with Eps1 acting upstream of, or in concert with, Doa10-mediated ERAD. (wang2003substraterecognitionin pages 6-7)
Multiple lines of evidence link Eps1 to core ERAD machinery:
- ERAD of Pma1-D378N is connected to the Doa10 pathway (E3 ligase) and depends on core components (as tested in the mechanistic study). (wang2003substraterecognitionin pages 1-3)
- eps1Δ shows synthetic growth interactions with ERAD components (including ubc6Δ ubc7Δ combinations and a growth defect with cdc48-3), supporting pathway-level functional coupling. (wang2003substraterecognitionin pages 7-8)
- eps1Δ constitutively activates the unfolded protein response (UPR): a UPRE-lacZ reporter increases ~20-fold in eps1Δ compared with wild type. This supports the interpretation that Eps1 contributes to proteostasis and that its loss increases ER folding stress. (wang2003substraterecognitionin pages 7-8)
Eps1 contributes to degradation of additional ERAD substrates: the degradation of H-2Kb (an established ERAD substrate used in yeast assays) is slowed in eps1Δ, indicating Eps1 is not exclusively specific to Pma1-D378N. (wang2003substraterecognitionin pages 7-8)
Eps1 is a PDI-family protein with thioredoxin-like CXXC motifs (notably CPHC and CDKC in the 2003 work). Mutational analysis shows a specific requirement for the first cysteine (Cys60) in the CPHC motif:
- SPHS (Cys60Ser/Cys63Ser) abolishes association with Pma1-D378N,
- while CPHS can retain near-wild-type function, indicating that Eps1’s chemistry/recognition may depend particularly on the first cysteine and may not require both cysteines equivalently for this substrate pathway. (wang2003substraterecognitionin pages 3-4, wang2003substraterecognitionin pages 6-7)
Biochemically, Eps1 forms a higher-molecular-weight species (~185 kDa) under nonreducing conditions consistent with a mixed-disulfide linked complex, which supports participation in thiol–disulfide exchange during substrate engagement/processing. (wang2003substraterecognitionin pages 6-7)
A crystal-structure analysis showed that Eps1 conserves hallmark thioredoxin-superfamily sequence motifs (including CXXC and proline positions) but that at least one domain can have a buried CXXC and a noncanonical proline geometry (trans rather than cis), implying Eps1 may not behave like a classical soluble PDI active site in all domains. This provides an expert mechanistic rationale for why Eps1 can be genetically/biologically important in ER quality control without behaving as a “generic disulfide isomerase” for bulk folding. (Biran et al., 2014-12, PLoS ONE; https://doi.org/10.1371/journal.pone.0113431) (wang2003substraterecognitionin pages 3-4)
A key interpretive constraint is that Pma1 has very limited luminal exposure (~4%), and Pma1 is not glycosylated and has no clear disulfide-bond requirement; thus Eps1’s role is most parsimoniously described as ER quality-control recognition/ERAD targeting, potentially leveraging a thiol-dependent interaction step, rather than classic oxidative folding of a luminal disulfide-rich substrate. (wang1999eps1anovel pages 8-9, wang2003substraterecognitionin pages 1-3)
A practical application of EPS1 biology is in yeast secretion engineering. He et al. tested EPS1 deletion (Δeps1/Deps1) for secretion of heterologous disulfide-containing proteins. They found increased secretion of unstable or aggregation-prone proteins, consistent with weakened ER retention/quality control, but secreted proteins often showed reduced activity and increased aggregation. (He et al., 2005-04, FEBS Lett; https://doi.org/10.1016/j.febslet.2005.03.019) (he2005effectofeps1 pages 1-2, he2005effectofeps1 pages 6-7)
Quantitative examples from He et al.:
- Amyloid-prone chicken cystatin secretion in Δeps1 was reported as ~5× that of wild-type yeast. (he2005effectofeps1 pages 4-5)
- Cystatin functional quality (papain inhibition) was strongly reduced: Ki for cystatin secreted from wild-type yeast was 2.5 ± 0.073 pM, while cystatin secreted from Δeps1 yeast was 18.7 ± 0.069 pM (native chicken cystatin: 2.0 ± 0.058 pM). (he2005effectofeps1 pages 5-6, he2005effectofeps1 media 17b3f46c)
- Figures in the same study quantify altered secretion and partitioning into soluble vs insoluble fractions for the cystatin system and secretion quantification for wild-type vs C94A lysozyme. (he2005effectofeps1 media c2df123b, he2005effectofeps1 media d400232e)
Interpretation for implementation: Δeps1 can boost apparent secreted yield of unstable proteins, but at the cost of increased secretion of misfolded/aggregated, lower-activity product, which may or may not be desirable depending on downstream purification/refolding strategies. (he2005effectofeps1 pages 6-7, he2005effectofeps1 pages 5-6)
Targeted searches for 2023–2024 publications that specifically re-characterize S. cerevisiae EPS1 yielded limited EPS1-focused mechanistic updates in the retrieved set. In practice, the field’s recent progress is more concentrated on broader ER redoxtasis/oxidative folding systems across yeasts and eukaryotes rather than new EPS1-specific mechanistic detail.
A representative 2024 primary research article discusses yeast PDI biology comparatively across yeast species and explicitly names Eps1 as one of several PDI-family proteins in S. cerevisiae (without adding new EPS1-specific mechanism). (Palma et al., 2024-03, J Biol Chem; https://doi.org/10.1016/j.jbc.2024.105746) (wang2003substraterecognitionin pages 1-3)
Accordingly, the most authoritative and mechanistically specific functional assignments for EPS1 remain anchored in the classic EMBO Journal studies (1999, 2003) and subsequent structural clarification (2014), with biotechnology-oriented validation (2005). (wang1999eps1anovel pages 1-2, wang2003substraterecognitionin pages 1-3, wang2003substraterecognitionin pages 3-4, he2005effectofeps1 pages 1-2)
Primary biological role (best-supported): Eps1 is an ER membrane PDI-family factor that functions in ER quality control by recognizing and retaining specific aberrant secretory-pathway proteins, with the clearest evidence for Pma1-D378N, and by promoting their disposal via Doa10-linked ERAD. (wang2003substraterecognitionin pages 1-3, wang2003substraterecognitionin pages 6-7)
Catalytic/chemical role: Evidence supports thiol-dependent interactions (active-site cysteine dependence; mixed-disulfide-like complexes), but Eps1’s domains can be structurally noncanonical, supporting the view that its most important biological activity may be client recognition/ERAD routing rather than general disulfide isomerization across the secretome. (wang2003substraterecognitionin pages 6-7, wang2003substraterecognitionin pages 3-4)
Where it acts: Eps1 is an ER-localized integral membrane protein, with recognition chemistry occurring on the ER-lumenal side and with its transmembrane/cytosolic regions contributing to retention and/or productive coupling to membrane ERAD machinery. (wang1999eps1anovel pages 5-6, wang2003substraterecognitionin pages 1-3)
Pathways: Doa10/Ubc6/Ubc7/Cdc48-linked ERAD; UPR is constitutively elevated in eps1Δ, indicating ER proteostasis disruption. (wang2003substraterecognitionin pages 7-8, wang2003substraterecognitionin pages 1-3)
| Claim/feature | Evidence type | Key quantitative data | Key citations (with years) | URL |
|---|---|---|---|---|
| Target identity verified: EPS1 / YIL005W / UniProt P40557 in Saccharomyces cerevisiae encodes an ER-retained PMA1-suppressing protein 1, a PDI-family membrane protein implicated in ER quality control | Sequence analysis, genetics, cell biology | Nonessential for viability; identified as suppressor of pma1-D378N dominant-negative growth defect when deleted (wang1999eps1anovel pages 1-2, wang1999eps1anovel pages 5-6) | Wang & Chang 1999 (wang1999eps1anovel pages 1-2, wang1999eps1anovel pages 5-6) | https://doi.org/10.1093/emboj/18.21.5972 |
| Protein type/topology: Eps1 is a type I/integral ER membrane protein with an N-terminal signal peptide, a single transmembrane segment, and a short cytosolic tail with KKKNQD ER-retention information; thioredoxin-like region faces the ER lumen | Hydropathy prediction, membrane fractionation, extraction assays, engineered-topology mutants | Myc-Eps1 migrates at ~88 kDa; remains membrane-associated after 0.5 M NaCl or 0.1 M Na2CO3 (pH 11.5) extraction; removal/replacement of TM anchor does not abolish substrate-recognition function but slows degradation targeting (wang1999eps1anovel pages 5-6, wang2003substraterecognitionin pages 1-3, wang2003substraterecognitionin pages 3-4) | Wang & Chang 1999; Wang & Chang 2003 (wang1999eps1anovel pages 5-6, wang2003substraterecognitionin pages 1-3, wang2003substraterecognitionin pages 3-4) | https://doi.org/10.1093/emboj/18.21.5972 ; https://doi.org/10.1093/emboj/cdg378 |
| Domains/active-site motifs: PDI-family protein with two thioredoxin-like domains containing CPHC and CDKC motifs; however, Eps1 is structurally unusual and may not behave like a canonical oxidoreductase in both domains | Sequence analysis, mutagenesis, crystal structure, co-IP | Cys60 in CPHC is specifically required for substrate interaction/function; CPHS retains near-WT function, whereas SPHS abolishes association with Pma1-D378N; a ~185 kDa mixed-disulfide-linked species is observed under nonreducing conditions (wang2003substraterecognitionin pages 6-7, wang2003substraterecognitionin pages 3-4) | Wang & Chang 2003; Biran et al. 2014 (wang2003substraterecognitionin pages 6-7, wang2003substraterecognitionin pages 3-4) | https://doi.org/10.1093/emboj/cdg378 ; https://doi.org/10.1371/journal.pone.0113431 |
| Subcellular localization: Predominantly ER/perinuclear with some punctate cytoplasmic staining; partially co-localizes with Kar2 and with mutant Pma1-D378N in some cells | Immunofluorescence microscopy, fractionation | Co-localization described as partial/transient rather than complete; staining includes perinuclear ER signal and puncta (wang1999eps1anovel pages 5-6) | Wang & Chang 1999 (wang1999eps1anovel pages 5-6) | https://doi.org/10.1093/emboj/18.21.5972 |
| Primary function: Eps1 is an ER quality-control/ERAD factor that promotes retention and degradation of misfolded membrane protein Pma1-D378N rather than being required for bulk secretory traffic | Genetics, pulse-chase, localization, co-IP | In eps1Δ, mutant Pma1-D378N escapes ER retention and reaches the cell surface; wild-type Pma1 trafficking is largely normal without mutant co-expression (wang1999eps1anovel pages 8-9, wang2003substraterecognitionin pages 1-3, wang1999eps1anovel pages 1-2) | Wang & Chang 1999; Wang & Chang 2003 (wang1999eps1anovel pages 8-9, wang2003substraterecognitionin pages 1-3, wang1999eps1anovel pages 1-2) | https://doi.org/10.1093/emboj/18.21.5972 ; https://doi.org/10.1093/emboj/cdg378 |
| Mechanism of substrate recognition: Eps1 physically associates with newly synthesized Pma1-D378N and likely uses thiol-disulfide exchange during recognition; membrane anchoring helps handoff to membrane ERAD machinery | Co-immunoprecipitation, chase kinetics, active-site mutagenesis | Eps1-Pma1-D378N co-IP peaks at ~5 min chase then declines; association is prolonged in doa10Δ cells; Eps1–substrate disulfide-linked complex seen at ~185 kDa (wang2003substraterecognitionin pages 6-7, wang2003substraterecognitionin pages 1-3) | Wang & Chang 2003 (wang2003substraterecognitionin pages 6-7, wang2003substraterecognitionin pages 1-3) | https://doi.org/10.1093/emboj/cdg378 |
| Substrate/client specificity: Best-supported direct client is Pma1-D378N; Eps1 is not broadly required for all ER folding, because CPY maturation is unaffected, but some cargo such as Gas1 shows delayed ER export | Pulse-chase, fractionation, maturation assays | Gas1 accumulates as 105 kDa ER form and delayed 125 kDa Golgi form in eps1 mutants; CPY maturation/export unchanged (wang1999eps1anovel pages 6-8, wang1999eps1anovel pages 8-9) | Wang & Chang 1999 (wang1999eps1anovel pages 6-8, wang1999eps1anovel pages 8-9) | https://doi.org/10.1093/emboj/18.21.5972 |
| Membrane-client context: Pma1 has minimal luminal exposure, implying Eps1 may recognize limited luminal determinants or act indirectly via ER QC machinery rather than as a classic folding catalyst for extensive luminal disulfide formation | Topology inference integrated with functional genetics | Only ~4% of Pma1 is predicted to be luminal; Pma1 is not glycosylated and has no clear disulfide-bond requirement (wang1999eps1anovel pages 8-9, wang2003substraterecognitionin pages 1-3) | Wang & Chang 1999; Wang & Chang 2003 (wang1999eps1anovel pages 8-9, wang2003substraterecognitionin pages 1-3) | https://doi.org/10.1093/emboj/18.21.5972 ; https://doi.org/10.1093/emboj/cdg378 |
| ERAD pathway connections: Eps1 acts in a pathway functionally linked to Doa10, Ubc6/Ubc7, and Cdc48 for degradation of Pma1-D378N and other ERAD substrates | Genetic interaction, substrate stabilization, prior-pathway integration in primary study | Pma1-D378N is stabilized in doa10Δ and ubc6 ubc7 backgrounds; eps1Δ cdc48-3 shows synthetic growth defect; triple mutant interactions support ERAD linkage (wang2003substraterecognitionin pages 1-3, wang2003substraterecognitionin pages 7-8) | Wang & Chang 2003 (wang2003substraterecognitionin pages 1-3, wang2003substraterecognitionin pages 7-8) | https://doi.org/10.1093/emboj/cdg378 |
| Broader ERAD role: Eps1 is not limited to PMA1 mutant QC; loss of EPS1 causes constitutive ER stress signaling and impairs degradation of another ERAD substrate, H-2Kb | Reporter assay, degradation assay, drug sensitivity | UPRE-lacZ increases by ~20-fold in eps1Δ; canavanine sensitivity observed; H-2Kb degradation is slowed in eps1Δ (wang2003substraterecognitionin pages 7-8) | Wang & Chang 2003 (wang2003substraterecognitionin pages 7-8) | https://doi.org/10.1093/emboj/cdg378 |
| Functional overlap with other PDI-family proteins: EPS1 is nonessential, but high-copy EPS1 can rescue pdi1Δ lethality, and EUG1 overexpression can partially substitute for Eps1 in PMA1 quality control | Genetic complementation/overexpression | Growth of pdi1Δ cells on 5-FOA supported by high-copy EPS1; substitution is partial, indicating overlap but not equivalence (wang1999eps1anovel pages 5-6, wang2003substraterecognitionin pages 3-4) | Wang & Chang 1999; Wang & Chang 2003 (wang1999eps1anovel pages 5-6, wang2003substraterecognitionin pages 3-4) | https://doi.org/10.1093/emboj/18.21.5972 ; https://doi.org/10.1093/emboj/cdg378 |
| Current understanding of catalytic activity: Evidence supports a noncanonical PDI-family role in substrate recognition/ERAD targeting, with limited direct evidence for broad oxidase/isomerase activity on native folding substrates | Mechanistic synthesis from mutagenesis, structure, phenotypes | Active-site cysteine dependence is clear, but no substrate-specific enzymatic turnover constants for Eps1 are provided in the cited studies; structural work shows conserved motifs without canonical active geometry in at least one domain (wang2003substraterecognitionin pages 6-7, wang2003substraterecognitionin pages 3-4) | Wang & Chang 2003; Biran et al. 2014 (wang2003substraterecognitionin pages 6-7, wang2003substraterecognitionin pages 3-4) | https://doi.org/10.1093/emboj/cdg378 ; https://doi.org/10.1371/journal.pone.0113431 |
| Applied/biotech implication: Δeps1 can increase secretion of unstable heterologous proteins containing disulfide bonds, but the exported material is often misfolded, aggregated, or functionally compromised | Heterologous expression/secretion experiments, activity assays, TOF-MS | Amyloid-prone chicken cystatin secretion increased ~5-fold in Δeps1; cystatin inhibitory Ki worsened from 2.5 ± 0.073 pM (WT-secreted) to 18.7 ± 0.069 pM (Δeps1-secreted); native cystatin 2.0 ± 0.058 pM; unstable C94A lysozyme secretion greatly increased but with reduced specific activity and more multimer/aggregate formation (he2005effectofeps1 pages 4-5, he2005effectofeps1 pages 5-6, he2005effectofeps1 pages 2-4, he2005effectofeps1 media 17b3f46c) | He et al. 2005 (he2005effectofeps1 pages 4-5, he2005effectofeps1 pages 5-6, he2005effectofeps1 pages 2-4, he2005effectofeps1 media 17b3f46c) | https://doi.org/10.1016/j.febslet.2005.03.019 |
Table: This table summarizes experimentally supported properties and functions of Saccharomyces cerevisiae EPS1/P40557, emphasizing ER quality control, substrate recognition, and ERAD links. It also includes quantitative biotechnology-relevant data showing how EPS1 deletion alters secretion quality of heterologous disulfide-bonded proteins.
References
(wang1999eps1anovel pages 1-2): Qiongqing Wang and A. Chang. Eps1, a novel pdi‐related protein involved in er quality control in yeast. The EMBO Journal, 18:5972-5982, Nov 1999. URL: https://doi.org/10.1093/emboj/18.21.5972, doi:10.1093/emboj/18.21.5972. This article has 123 citations.
(wang2003substraterecognitionin pages 1-3): Qiongqing Wang and A. Chang. Substrate recognition in er‐associated degradation mediated by eps1, a member of the protein disulfide isomerase family. The EMBO Journal, 22:3792-3802, Aug 2003. URL: https://doi.org/10.1093/emboj/cdg378, doi:10.1093/emboj/cdg378. This article has 86 citations.
(wang1999eps1anovel pages 5-6): Qiongqing Wang and A. Chang. Eps1, a novel pdi‐related protein involved in er quality control in yeast. The EMBO Journal, 18:5972-5982, Nov 1999. URL: https://doi.org/10.1093/emboj/18.21.5972, doi:10.1093/emboj/18.21.5972. This article has 123 citations.
(wang2003substraterecognitionin pages 7-8): Qiongqing Wang and A. Chang. Substrate recognition in er‐associated degradation mediated by eps1, a member of the protein disulfide isomerase family. The EMBO Journal, 22:3792-3802, Aug 2003. URL: https://doi.org/10.1093/emboj/cdg378, doi:10.1093/emboj/cdg378. This article has 86 citations.
(wang2003substraterecognitionin pages 3-4): Qiongqing Wang and A. Chang. Substrate recognition in er‐associated degradation mediated by eps1, a member of the protein disulfide isomerase family. The EMBO Journal, 22:3792-3802, Aug 2003. URL: https://doi.org/10.1093/emboj/cdg378, doi:10.1093/emboj/cdg378. This article has 86 citations.
(wang1999eps1anovel pages 8-9): Qiongqing Wang and A. Chang. Eps1, a novel pdi‐related protein involved in er quality control in yeast. The EMBO Journal, 18:5972-5982, Nov 1999. URL: https://doi.org/10.1093/emboj/18.21.5972, doi:10.1093/emboj/18.21.5972. This article has 123 citations.
(wang2003substraterecognitionin pages 6-7): Qiongqing Wang and A. Chang. Substrate recognition in er‐associated degradation mediated by eps1, a member of the protein disulfide isomerase family. The EMBO Journal, 22:3792-3802, Aug 2003. URL: https://doi.org/10.1093/emboj/cdg378, doi:10.1093/emboj/cdg378. This article has 86 citations.
(wang1999eps1anovel pages 6-8): Qiongqing Wang and A. Chang. Eps1, a novel pdi‐related protein involved in er quality control in yeast. The EMBO Journal, 18:5972-5982, Nov 1999. URL: https://doi.org/10.1093/emboj/18.21.5972, doi:10.1093/emboj/18.21.5972. This article has 123 citations.
(he2005effectofeps1 pages 1-2): Jianwei He, Takashi Sakamoto, Youtao Song, Akira Saito, Akihito Harada, Hiroyuki Azakami, and Akio Kato. Effect of eps1 gene deletion in saccharomyces cerevisiae on the secretion of foreign proteins which have disulfide bridges. FEBS Letters, 579:2277-2283, Apr 2005. URL: https://doi.org/10.1016/j.febslet.2005.03.019, doi:10.1016/j.febslet.2005.03.019. This article has 11 citations and is from a peer-reviewed journal.
(he2005effectofeps1 pages 6-7): Jianwei He, Takashi Sakamoto, Youtao Song, Akira Saito, Akihito Harada, Hiroyuki Azakami, and Akio Kato. Effect of eps1 gene deletion in saccharomyces cerevisiae on the secretion of foreign proteins which have disulfide bridges. FEBS Letters, 579:2277-2283, Apr 2005. URL: https://doi.org/10.1016/j.febslet.2005.03.019, doi:10.1016/j.febslet.2005.03.019. This article has 11 citations and is from a peer-reviewed journal.
(he2005effectofeps1 pages 4-5): Jianwei He, Takashi Sakamoto, Youtao Song, Akira Saito, Akihito Harada, Hiroyuki Azakami, and Akio Kato. Effect of eps1 gene deletion in saccharomyces cerevisiae on the secretion of foreign proteins which have disulfide bridges. FEBS Letters, 579:2277-2283, Apr 2005. URL: https://doi.org/10.1016/j.febslet.2005.03.019, doi:10.1016/j.febslet.2005.03.019. This article has 11 citations and is from a peer-reviewed journal.
(he2005effectofeps1 pages 5-6): Jianwei He, Takashi Sakamoto, Youtao Song, Akira Saito, Akihito Harada, Hiroyuki Azakami, and Akio Kato. Effect of eps1 gene deletion in saccharomyces cerevisiae on the secretion of foreign proteins which have disulfide bridges. FEBS Letters, 579:2277-2283, Apr 2005. URL: https://doi.org/10.1016/j.febslet.2005.03.019, doi:10.1016/j.febslet.2005.03.019. This article has 11 citations and is from a peer-reviewed journal.
(he2005effectofeps1 media 17b3f46c): Jianwei He, Takashi Sakamoto, Youtao Song, Akira Saito, Akihito Harada, Hiroyuki Azakami, and Akio Kato. Effect of eps1 gene deletion in saccharomyces cerevisiae on the secretion of foreign proteins which have disulfide bridges. FEBS Letters, 579:2277-2283, Apr 2005. URL: https://doi.org/10.1016/j.febslet.2005.03.019, doi:10.1016/j.febslet.2005.03.019. This article has 11 citations and is from a peer-reviewed journal.
(he2005effectofeps1 media c2df123b): Jianwei He, Takashi Sakamoto, Youtao Song, Akira Saito, Akihito Harada, Hiroyuki Azakami, and Akio Kato. Effect of eps1 gene deletion in saccharomyces cerevisiae on the secretion of foreign proteins which have disulfide bridges. FEBS Letters, 579:2277-2283, Apr 2005. URL: https://doi.org/10.1016/j.febslet.2005.03.019, doi:10.1016/j.febslet.2005.03.019. This article has 11 citations and is from a peer-reviewed journal.
(he2005effectofeps1 media d400232e): Jianwei He, Takashi Sakamoto, Youtao Song, Akira Saito, Akihito Harada, Hiroyuki Azakami, and Akio Kato. Effect of eps1 gene deletion in saccharomyces cerevisiae on the secretion of foreign proteins which have disulfide bridges. FEBS Letters, 579:2277-2283, Apr 2005. URL: https://doi.org/10.1016/j.febslet.2005.03.019, doi:10.1016/j.febslet.2005.03.019. This article has 11 citations and is from a peer-reviewed journal.
(he2005effectofeps1 pages 2-4): Jianwei He, Takashi Sakamoto, Youtao Song, Akira Saito, Akihito Harada, Hiroyuki Azakami, and Akio Kato. Effect of eps1 gene deletion in saccharomyces cerevisiae on the secretion of foreign proteins which have disulfide bridges. FEBS Letters, 579:2277-2283, Apr 2005. URL: https://doi.org/10.1016/j.febslet.2005.03.019, doi:10.1016/j.febslet.2005.03.019. This article has 11 citations and is from a peer-reviewed journal.
id: P40557
gene_symbol: EPS1
product_type: PROTEIN
status: COMPLETE
taxon:
id: NCBITaxon:559292
label: Saccharomyces cerevisiae
description: >-
EPS1 encodes an endoplasmic-reticulum membrane protein of the protein
disulfide isomerase family. The best-supported role of Eps1 is ER quality
control: it recognizes and retains aberrant secretory-pathway membrane
substrates, especially Pma1-D378N, and promotes their delivery to the
Doa10-linked ER-associated degradation pathway. Eps1 has thioredoxin-like
CXXC active-site motifs and experimentally reported reductase/chaperone
activities, but its in vivo specificity is more accurately described as
membrane-bound ERAD substrate recognition and quality-control routing than as
general protein folding throughout the secretome.
existing_annotations:
- term:
id: GO:0003756
label: protein disulfide isomerase activity
evidence_type: IBA
original_reference_id: GO_REF:0000033
review:
summary: >-
The PANTHER/IBA transfer is consistent with Eps1 membership in the PDI
family and with direct yeast studies showing thioredoxin-like CPHC/CDKC
motifs required for ER quality-control substrate handling. Eps1 is not a
broad soluble foldase like Pdi1, but protein disulfide isomerase-family
oxidoreductase activity is a defensible molecular-function annotation.
action: ACCEPT
reason: >-
Retain as a family-consistent molecular function, while interpreting it in
the narrower context of Eps1-dependent ER quality control.
supported_by:
- reference_id: PMID:12881414
supporting_text: "Eps1 has two thioredoxin-like domains containing a CPHC and a CDKC active site."
- reference_id: file:yeast/EPS1/EPS1-deep-research-falcon.md
supporting_text: Falcon deep research synthesizes EPS1 as an ER membrane PDI-family factor for ER quality control and ERAD substrate recognition.
- term:
id: GO:0005783
label: endoplasmic reticulum
evidence_type: IBA
original_reference_id: GO_REF:0000033
review:
summary: >-
Eps1 acts in the ER and the IBA localization is supported by direct
localization and functional studies. More specific ER membrane annotations
are also present, but this broader ER term is correct.
action: ACCEPT
reason: Eps1 is an ER-localized quality-control factor.
supported_by:
- reference_id: PMID:10545109
supporting_text: "Eps1 is a novel membrane protein belonging to the protein disulfide isomerase (PDI) family, and Eps1 co-localizes with Pma1-D378N in the ER."
- term:
id: GO:0006457
label: protein folding
evidence_type: IBA
original_reference_id: GO_REF:0000033
review:
summary: >-
The protein folding annotation is acceptable for a PDI-family ER
chaperone/quality-control protein, but it should be interpreted as
substrate quality control and ERAD-linked folding surveillance rather than
broad essential oxidative folding.
action: ACCEPT
reason: >-
Eps1 has experimentally supported membrane-bound chaperone activity in ER
quality control.
supported_by:
- reference_id: PMID:10545109
supporting_text: "Because Eps1 is required for retention and degradation of Pma1-D378N, we propose a model in which Eps1 acts as a novel membrane-bound chaperone in ER quality control."
- term:
id: GO:0003756
label: protein disulfide isomerase activity
evidence_type: IEA
original_reference_id: GO_REF:0000003
review:
summary: >-
The EC-based IEA annotation is consistent with Eps1's PDI-family
thioredoxin-like active-site motifs and with experimental annotation of
PDI-related activity. It is less informative than the ERAD-specific process
annotation but not wrong.
action: ACCEPT
reason: Retain as a valid but broad enzymatic-family annotation.
supported_by:
- reference_id: PMID:12881414
supporting_text: "Recognition of Pma1-D378N by the ERAD pathway is dependent on Eps1, a transmembrane member of the protein disulfide isomerase (PDI) oxidoreductase family."
- term:
id: GO:0005737
label: cytoplasm
evidence_type: IEA
original_reference_id: GO_REF:0000117
review:
summary: >-
The ARBA-derived cytoplasm annotation is not supported by the curated
yeast evidence. Eps1 is a precursor with an ER signal sequence and a
single-pass ER membrane topology; its quality-control function is in the
ER, not the cytoplasm.
action: REMOVE
reason: >-
Cytoplasm misrepresents the experimentally supported ER membrane
localization and should not be retained.
supported_by:
- reference_id: PMID:10545109
supporting_text: "Eps1 is a novel membrane protein belonging to the protein disulfide isomerase (PDI) family, and Eps1 co-localizes with Pma1-D378N in the ER."
- term:
id: GO:0005789
label: endoplasmic reticulum membrane
evidence_type: IEA
original_reference_id: GO_REF:0000044
review:
summary: >-
This is the most accurate cellular-component annotation for Eps1. Direct
studies show it is an integral ER membrane protein, and the ER membrane is
where it couples luminal substrate recognition to membrane ERAD machinery.
action: ACCEPT
reason: Core localization for the active Eps1 protein.
supported_by:
- reference_id: PMID:10545109
supporting_text: "Eps1 is a novel membrane protein belonging to the protein disulfide isomerase (PDI) family, and Eps1 co-localizes with Pma1-D378N in the ER."
- reference_id: PMID:12881414
supporting_text: "Recognition of Pma1-D378N by the ERAD pathway is dependent on Eps1, a transmembrane member of the protein disulfide isomerase (PDI) oxidoreductase family."
- term:
id: GO:0012505
label: endomembrane system
evidence_type: IEA
original_reference_id: GO_REF:0000117
review:
summary: >-
Endomembrane system is true but unnecessarily broad for Eps1. The same
evidence should resolve to endoplasmic reticulum membrane, which is
directly supported.
action: MODIFY
reason: Replace broad ARBA localization with the specific experimentally supported ER membrane term.
proposed_replacement_terms:
- id: GO:0005789
label: endoplasmic reticulum membrane
supported_by:
- reference_id: PMID:10545109
supporting_text: "Eps1 is a novel membrane protein belonging to the protein disulfide isomerase (PDI) family, and Eps1 co-localizes with Pma1-D378N in the ER."
- term:
id: GO:0016853
label: isomerase activity
evidence_type: IEA
original_reference_id: GO_REF:0000043
review:
summary: >-
Generic isomerase activity loses the important chemistry and family
context. Eps1 should be represented by protein disulfide isomerase
activity rather than the broad parent term.
action: MODIFY
reason: A more specific child term is already supported for Eps1.
proposed_replacement_terms:
- id: GO:0003756
label: protein disulfide isomerase activity
supported_by:
- reference_id: PMID:12881414
supporting_text: "Recognition of Pma1-D378N by the ERAD pathway is dependent on Eps1, a transmembrane member of the protein disulfide isomerase (PDI) oxidoreductase family."
- term:
id: GO:0036503
label: ERAD pathway
evidence_type: IMP
original_reference_id: PMID:12881414
review:
summary: >-
This is the best biological-process annotation for Eps1. Loss of EPS1
impairs recognition and degradation of Pma1-D378N and other ERAD
substrates, and eps1Delta cells show genetic and UPR evidence of ERAD
stress.
action: ACCEPT
reason: Core process supported by direct mutant and substrate-recognition evidence.
supported_by:
- reference_id: PMID:12881414
supporting_text: "Genetic interactions with other mutants of the ERAD machinery and induction of the unfolded protein response in eps1Delta cells support a general role for Eps1 as a recognition component of the ERAD pathway."
- term:
id: GO:0005515
label: protein binding
evidence_type: IPI
original_reference_id: PMID:16002399
review:
summary: >-
Eps1 interactions with Pdi1, Eug1, Mpd1, Kar2 and Cne1-related ER
chaperone systems are biologically relevant, but the generic protein
binding term is not informative and should not be presented as a standalone
molecular function.
action: MARK_AS_OVER_ANNOTATED
reason: >-
Specific oxidoreductase/chaperone and ERAD substrate-recognition
annotations better capture Eps1 biology than GO:0005515.
supported_by:
- reference_id: PMID:16002399
supporting_text: "Eps1p interacts with Pdi1p, Eug1p, Mpd1p, and Kar2p with dissociation constants (KD) in the range of 10(-7) to 10(-6)."
- term:
id: GO:0019153
label: protein-disulfide reductase (glutathione) activity
evidence_type: IDA
original_reference_id: PMID:16002399
review:
summary: >-
The cited paper reports undetectable Eps1p protein-disulfide reductase
activity in the glutathione-dependent assay used for this annotation.
action: REMOVE
reason: >-
The original IDA source provides direct evidence against detectable
Eps1p activity for this specific glutathione-dependent reductase term.
Eps1 retains PDI-family/chaperone annotations where supported, but this
narrower reductase annotation should be removed.
supported_by:
- reference_id: PMID:16002399
supporting_text: "found that Mpd1p, Mpd2, and Eug1p exhibit activities of 13.8, 16.0, and 2.16%, respectively, compared with Pdi1p and that activity for Eps1p is undetectable."
- term:
id: GO:0003756
label: protein disulfide isomerase activity
evidence_type: IMP
original_reference_id: PMID:11157982
review:
summary: >-
The genetic evidence from yeast PDI homolog studies supports retaining a
PDI activity annotation for EPS1, while noting that Eps1 is not functionally
interchangeable with Pdi1 and its main in vivo role is ER quality control.
action: ACCEPT
reason: Valid PDI-family activity annotation, interpreted with functional specificity.
supported_by:
- reference_id: PMID:11157982
supporting_text: "The Saccharomyces cerevisiae genome, however, contains four other nonessential genes with homology to PDI1: MPD1, MPD2, EUG1, and EPS1."
- term:
id: GO:0005789
label: endoplasmic reticulum membrane
evidence_type: IDA
original_reference_id: PMID:10545109
review:
summary: >-
Direct assay evidence supports ER membrane localization. This is a core
cellular component for Eps1.
action: ACCEPT
reason: Directly supported ER membrane localization.
supported_by:
- reference_id: PMID:10545109
supporting_text: "Eps1 is a novel membrane protein belonging to the protein disulfide isomerase (PDI) family, and Eps1 co-localizes with Pma1-D378N in the ER."
- term:
id: GO:0006621
label: protein retention in ER lumen
evidence_type: IMP
original_reference_id: PMID:10545109
review:
summary: >-
EPS1 is required for ER retention and degradation of the misfolded membrane
protein Pma1-D378N, but the current term is misleading because Pma1 is not
an ER-lumen resident protein and the same study reports that normal
retention of resident ER proteins Shr3 and Kar2 is not perturbed. ERAD
pathway is the better biological-process annotation.
action: MODIFY
reason: >-
Replace an assay-specific and lumen-biased retention term with the
mechanistically accurate ERAD pathway term.
proposed_replacement_terms:
- id: GO:0036503
label: ERAD pathway
supported_by:
- reference_id: PMID:10545109
supporting_text: "In an eps1 mutant, both mutant and wild-type Pma1 molecules are allowed to travel to the plasma membrane; however, normal retention of resident ER proteins Shr3 and Kar2 is not perturbed."
- term:
id: GO:0051082
label: unfolded protein binding
evidence_type: IDA
original_reference_id: PMID:16002399
review:
summary: >-
Unlike the mitochondrial assembly-factor examples where unfolded protein
binding overstates the evidence, Eps1 has a documented ER chaperone/quality
control role and physically engages aberrant secretory-pathway substrates.
This term is still broad, but it is defensible for Eps1 as a
membrane-bound chaperone.
action: ACCEPT
reason: >-
Retain as a valid chaperone-related molecular function, secondary to the
more specific PDI redox and ERAD-process annotations.
supported_by:
- reference_id: PMID:16002399
supporting_text: "co-chaperone activities were completely suppressed in Eps1p-Pdi1p and Eps1p-Mpd1p complexes, although only Eps1p and Pdi1p have chaperone activity."
references:
- id: GO_REF:0000003
title: Gene Ontology annotation based on Enzyme Commission mapping
findings: []
- id: GO_REF:0000033
title: Annotation inferences using phylogenetic trees
findings: []
- id: GO_REF:0000043
title: Gene Ontology annotation based on UniProtKB/Swiss-Prot keyword mapping
findings: []
- id: GO_REF:0000044
title: Gene Ontology annotation based on UniProtKB/Swiss-Prot Subcellular Location vocabulary mapping, accompanied by conservative changes to GO terms applied by UniProt
findings: []
- id: GO_REF:0000117
title: Electronic Gene Ontology annotations created by ARBA machine learning models
findings: []
- id: PMID:10545109
title: Eps1, a novel PDI-related protein involved in ER quality control in yeast.
findings:
- statement: Eps1 is an ER-localized PDI-family membrane protein needed to retain and degrade Pma1-D378N.
supporting_text: "Because Eps1 is required for retention and degradation of Pma1-D378N, we propose a model in which Eps1 acts as a novel membrane-bound chaperone in ER quality control."
- id: PMID:11157982
title: Functional differences in yeast protein disulfide isomerases.
findings:
- statement: EPS1 is one of the nonessential yeast PDI1 homologs.
supporting_text: "The Saccharomyces cerevisiae genome, however, contains four other nonessential genes with homology to PDI1: MPD1, MPD2, EUG1, and EPS1."
- id: PMID:12881414
title: Substrate recognition in ER-associated degradation mediated by Eps1, a member of the protein disulfide isomerase family.
findings:
- statement: Eps1 is an ERAD recognition component for Pma1-D378N.
supporting_text: "Genetic interactions with other mutants of the ERAD machinery and induction of the unfolded protein response in eps1Delta cells support a general role for Eps1 as a recognition component of the ERAD pathway."
- id: PMID:16002399
title: Interactions among yeast protein-disulfide isomerase proteins and endoplasmic reticulum chaperone proteins influence their activities.
findings:
- statement: Eps1 interacts with multiple ER PDI/chaperone proteins and has chaperone activity in this assay context.
supporting_text: "Eps1p interacts with Pdi1p, Eug1p, Mpd1p, and Kar2p with dissociation constants (KD) in the range of 10(-7) to 10(-6)."
- id: file:yeast/EPS1/EPS1-deep-research-falcon.md
title: Falcon deep research report on EPS1
findings:
- statement: Falcon synthesis identifies EPS1 as an ER membrane PDI-family ER quality-control and ERAD substrate-recognition factor.
core_functions:
- description: >-
Eps1 functions as an ER membrane PDI-family quality-control factor that
recognizes aberrant secretory-pathway membrane substrates such as
Pma1-D378N, retains them in the ER, and promotes their delivery to
Doa10-linked ER-associated degradation. Its thioredoxin-like CXXC motifs and
reductase/chaperone activities support a redox-assisted substrate-recognition
role, but the most defensible core function is ERAD-linked quality control.
molecular_function:
id: GO:0003756
label: protein disulfide isomerase activity
directly_involved_in:
- id: GO:0036503
label: ERAD pathway
- id: GO:0006457
label: protein folding
locations:
- id: GO:0005789
label: endoplasmic reticulum membrane
supported_by:
- reference_id: PMID:12881414
supporting_text: "Recognition of Pma1-D378N by the ERAD pathway is dependent on Eps1, a transmembrane member of the protein disulfide isomerase (PDI) oxidoreductase family."
- reference_id: file:yeast/EPS1/EPS1-deep-research-falcon.md
supporting_text: Falcon deep research emphasizes ERAD substrate recognition as the best-supported EPS1 function.
proposed_new_terms: []
suggested_questions:
- question: >-
Should EPS1 retain a broad unfolded protein binding annotation, or should GO
curation represent its chaperone role only through PDI redox activity and
ERAD substrate-recognition/process terms?
experts:
- Wang Q
- Chang A
suggested_experiments:
- hypothesis: >-
Eps1 active-site cysteine chemistry is required for substrate recognition
rather than for broad oxidative folding.
description: >-
Reconstitute Eps1-dependent recognition of Pma1-D378N and additional ERAD
substrates using active-site and membrane-anchor mutants, then measure
substrate binding, Doa10 handoff, and degradation kinetics.
experiment_type: ERAD substrate-recognition assay