SWI1

Existing Annotations Review

Gene Description

Existing Annotations Review

Core Functions

SWI/SNF chromatin remodeling complex subunit essential for nucleosome repositioning and transcriptional activation through chromatin accessibility

Binds RNA polymerase II-specific DNA-binding transcription factors to mediate complex recruitment and targeting to promoters

References

Deep Research

Falcon

Perplexity

📚 Additional Documentation

Curation Summary

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GO Term	Evidence	Action	Reason
GO:0031491 nucleosome binding	IDA PMID:32188938 Cryo-EM structure of SWI/SNF complex bound to a nucleosome.	NEW	Summary: Proposed new molecular function annotation. In the cryo-EM structures of yeast SWI/SNF bound to a mononucleosome (Han et al. 2020, PMID:32188938; He et al. 2021, PMID:33907182), Swi1 contributes to the substrate recruitment module (SRM) and the DNA-binding lobe (DBL) located near nucleosomal exit DNA, helping engage nucleosomal DNA directly (via its ARID domain) or indirectly via coactivators. In the Han 2020 structure, the extranucleosomal DNA required for stable nucleosome binding by SWI/SNF coincides with the trajectory of the Swi1 N-terminus. This nucleosome-engaging structural role is Swi1's core molecular function within the complex and is better captured by nucleosome binding than by the generic protein binding or sequence-specific cis-regulatory DNA binding terms. Reason: Captures the core molecular function of Swi1 as a non-catalytic subunit that engages nucleosomal DNA within the SWI/SNF substrate recruitment module/DNA-binding lobe, as resolved by cryo-EM. Cited to the primary cryo-EM structure of the yeast SWI/SNF-nucleosome complex (PMID:32188938; corroborated by PMID:33907182), where Swi1's N-terminal region coincides with the extranucleosomal DNA important for nucleosome binding. This grounds core_function[0] and is more informative than protein binding (GO:0005515). Supporting Evidence: PMID:32188938 the importance of the extranucleosomal DNA in nucleosome binding to SWI/SNF in our experimental setup. Interestingly, this extranucleosomal DNA also coincides with the possible trajectories of the N-terminal regions of both Swi1 and Snf5 PMID:33907182 DBL of SWI/SNF is composed of multiple elements, including Snf6, the N-termini of Swi1 and Snf5, and Snf12, which directly or indirectly bind to the DNA file:yeast/SWI1/SWI1-deep-research-falcon.md Swi1 (construct residues 251–1336) contributes to the substrate recruitment module (SRM) and specifically to the DNA-binding lobe (DBL) located near the exit DNA**; Swi1 is proposed to help bind nucleosomal DNA either directly (via ARID) or indirectly (via coactivators)
GO:0006357 regulation of transcription by RNA polymerase II	IBA GO_REF:0000033	ACCEPT	Summary: IBA annotation from phylogenetic inference to mammalian orthologs. SWI1 is a core component of the SWI/SNF complex which is recruited to promoters by transcription factors and drives regulation of transcription initiation through nucleosome remodeling. The IBA evidence is high-quality and reflects the well-characterized role of SWI1 orthologs across eukaryotes. Reason: The SWI/SNF complex is fundamentally a transcriptional regulator that functions by remodeling chromatin at promoters and regulatory regions to facilitate transcription initiation. SWI1 is an essential component of this process through its role in complex assembly and targeting. This is a core function of the protein. The IBA evidence reflects strong phylogenetic conservation of this function across eukaryotes, including mammalian ARID1A/ARID1B and other orthologs. Supporting Evidence: PMID:1339306 Characterization of the yeast SWI1, SWI2, and SWI3 genes, which encode a global activator of transcription PMID:18644858 Architecture of the SWI/SNF-nucleosome complex
GO:0005634 nucleus	IBA GO_REF:0000033	KEEP AS NON CORE	Summary: IBA annotation indicating nuclear localization, consistent with SWI1 being a component of the nuclear SWI/SNF complex. This annotation is correct but represents a cellular component rather than a functional role. Reason: While SWI1 is indeed localized to the nucleus where it functions as part of the SWI/SNF complex, this is a location annotation rather than a functional annotation. The core function is nucleosome remodeling and transcriptional regulation, not simply being in the nucleus. This should be retained for completeness but marked as non-core. Supporting Evidence: PMID:3143101 The yeast ADR6 gene encodes homopolymeric amino acid sequences and a potential metal-binding domain file:yeast/SWI1/SWI1-deep-research-falcon.md Swi1 acts in the nucleus, associated with the SWI/SNF complex on chromatin/nucleosomes
GO:0000976 transcription cis-regulatory region binding	IBA GO_REF:0000033	REMOVE	Summary: IBA annotation indicating DNA binding to cis-regulatory regions. However, SWI1 itself exhibits weak DNA binding; within the complex, DNA binding appears to occur primarily through minor groove contacts by other subunits, not through the major groove contacts typical of cis-regulatory region binding. Reason: Multiple lines of evidence indicate this annotation is misleading. The isolated SWI1 ARID domain binds DNA non-specifically and exhibits markedly weak DNA-binding affinity compared to other ARID family members, lacking proper major-groove contact residues (falcon deep research). Within the SWI/SNF complex, sequence-specific recruitment to cis-regulatory regions is driven by DNA-bound transcription factors and coactivators that engage Swi1 activator-interaction surfaces, not by Swi1 binding cis-regulatory DNA itself. The annotation conflates complex-level targeting with an individual-protein sequence-specific DNA-binding function that Swi1 does not have. Supporting Evidence: PMID:18644858 Architecture of the SWI/SNF-nucleosome complex file:yeast/SWI1/SWI1-deep-research-falcon.md an ARID region has been experimentally mapped and reported to bind DNA non-specifically
GO:0016514 SWI/SNF complex	IBA GO_REF:0000033	ACCEPT	Summary: IBA annotation correctly identifying SWI1 as a component of the SWI/SNF complex. This is a core structural component annotation reflecting the obligate membership of SWI1 in the complex. Reason: SWI1 is definitively a core subunit of the yeast SWI/SNF chromatin remodeling complex. The complex is composed of 12 subunits including SWI1, and structural and biochemical studies demonstrate that SWI1 is essential for complex assembly and function. This represents a core structural and functional role. Supporting Evidence: PMID:8127913 A multisubunit complex containing the SWI1/ADR6, SWI2/SNF2, SWI3, SNF5, and SNF6 gene products isolated from yeast PMID:18644858 Architecture of the SWI/SNF-nucleosome complex file:yeast/SWI1/SWI1-deep-research-perplexity.md SWI1 (also known as ADR6, GAM3, YPL016W) is a key subunit of the SWI/SNF ATP-dependent chromatin remodeling complex in the budding yeast Saccharomyces cerevisiae file:yeast/SWI1/SWI1-deep-research-falcon.md the N-termini of Swi1 and Snf5 interact and that Swi1 contributes to the SRM DNA-binding lobe together with Snf6, Snf12, and Snf5 N-terminus
GO:0003677 DNA binding	IEA GO_REF:0000120	KEEP AS NON CORE	Summary: IEA annotation based on InterPro domain mapping. SWI1 contains an ARID (AT-rich interaction domain) that is structurally capable of DNA binding, but exhibits markedly weak DNA-binding affinity compared to other ARID proteins. Within the intact complex, SWI1 participates in nucleosome and DNA recognition, but the primary DNA-binding function appears to be mediated by other subunits. Reason: While SWI1 does contain a DNA-binding domain (ARID) and can bind DNA weakly in vitro, this is not a core function of the protein in vivo. The weak affinity and apparent non-specificity suggest this domain's primary role is in protein-protein interactions and nucleosome positioning rather than sequence-specific DNA recognition. Within the complex context, SWI1 contributes to nucleosome recognition but other subunits provide the primary DNA-binding function. This annotation should be retained as it is technically correct but marked as non-core. Supporting Evidence: PMID:18644858 Architecture of the SWI/SNF-nucleosome complex file:yeast/SWI1/SWI1-deep-research-falcon.md an ARID region has been experimentally mapped and reported to bind DNA non-specifically
GO:0005634 nucleus	IEA GO_REF:0000044	KEEP AS NON CORE	Summary: IEA annotation based on UniProtKB subcellular location mapping. SWI1 is correctly localized to the nucleus where it functions as part of the SWI/SNF complex. However, note that prionized [SWI+] aggregates may be cytoplasmic. Reason: SWI1 is indeed a nuclear protein, functioning as part of the nuclear SWI/SNF complex. However, this is a location annotation, not a functional one, and should be marked as non-core. The distinction from the IBA nucleus annotation is minimal. Supporting Evidence: PMID:3143101 The yeast ADR6 gene encodes homopolymeric amino acid sequences and a potential metal-binding domain file:yeast/SWI1/SWI1-deep-research-falcon.md Swi1 acts in the nucleus, associated with the SWI/SNF complex on chromatin/nucleosomes
GO:0006351 DNA-templated transcription	IEA GO_REF:0000043	ACCEPT	Summary: IEA annotation based on UniProtKB keyword mapping. SWI1 is involved in DNA-templated transcription as a component of the SWI/SNF complex that facilitates transcription initiation and regulation. Reason: SWI1 is fundamentally involved in DNA-templated transcription through its role in the SWI/SNF complex. The complex is recruited to promoters and coding regions where it facilitates transcription initiation by remodeling nucleosomes. This represents a core biological process in which SWI1 participates. The IEA evidence is appropriate for this broad process annotation. Supporting Evidence: PMID:1339306 Characterization of the yeast SWI1, SWI2, and SWI3 genes, which encode a global activator of transcription
GO:0008270 zinc ion binding	IEA GO_REF:0000043	KEEP AS NON CORE	Summary: IEA annotation based on UniProtKB keyword mapping indicating presence of a zinc-binding domain. SWI1 contains a C4-type zinc finger (residues 1241-1258) that may participate in protein-protein interactions or nucleosome recognition. Reason: SWI1 does contain a zinc finger motif and the zinc ion binding is biochemically demonstrable. However, the specific functional role of this zinc finger in SWI1's mechanism is not well characterized. It likely contributes to protein-protein interactions within the complex or nucleosome binding, but zinc binding per se is not a primary functional annotation. Should be retained for structural completeness but marked as non-core. Supporting Evidence: PMID:30358795 The cellular economy of the Saccharomyces cerevisiae zinc proteome
GO:0046872 metal ion binding	IEA GO_REF:0000043	KEEP AS NON CORE	Summary: IEA annotation indicating metal ion binding capacity. SWI1 contains zinc-binding motifs and this annotation is a parent term to GO:0008270 (zinc ion binding). Reason: This is a broader parent term to the more specific zinc ion binding annotation. It is technically correct but provides less informative molecular function annotation than GO:0008270. Should be retained but marked as non-core, and preferably the more specific zinc ion binding term should be used. Supporting Evidence: PMID:30358795 The cellular economy of the Saccharomyces cerevisiae zinc proteome
GO:0005515 protein binding	IPI PMID:14660704 Applicability of tandem affinity purification MudPIT to path...	KEEP AS NON CORE	Summary: IPI annotation from protein-protein interaction evidence (Tandem Affinity Purification). SWI1 makes multiple documented protein-protein interactions with other SWI/SNF subunits and transcription factors. Reason: While SWI1 unquestionably binds proteins as part of the SWI/SNF complex, the generic term protein binding does not specify which proteins, how, or why. The core functional annotations (nucleosome remodeling, transcriptional regulation) capture the relevant biological roles. Multiple protein binding annotations from different interaction studies are redundant and should be consolidated. This term is correct but not informative of core function. Supporting Evidence: PMID:14660704 Applicability of tandem affinity purification MudPIT to pathway proteomics in yeast
GO:0005515 protein binding	IPI PMID:16429126 Proteome survey reveals modularity of the yeast cell machine...	KEEP AS NON CORE	Summary: IPI annotation from large-scale proteome survey showing protein complexes. Consistent with SWI1 being a core component of the SWI/SNF complex. Reason: Same rationale as other protein binding annotations - technically correct but non-specific and redundant. The core functions are better captured by more specific molecular function and biological process terms. Supporting Evidence: PMID:16429126 Proteome survey reveals modularity of the yeast cell machinery
GO:0005515 protein binding	IPI PMID:16554755 Global landscape of protein complexes in the yeast Saccharom...	KEEP AS NON CORE	Summary: IPI annotation from global landscape of yeast protein complexes study. Documents protein interactions in the context of complex isolation. Reason: Consistent with previous protein binding annotations. The redundancy of multiple protein binding annotations with different references should be consolidated into more specific interaction terms or represented through the complex membership annotation. Supporting Evidence: PMID:16554755 Global landscape of protein complexes in the yeast Saccharomyces cerevisiae
GO:0005515 protein binding	IPI PMID:17496903 Swi3p controls SWI/SNF assembly and ATP-dependent H2A-H2B di...	KEEP AS NON CORE	Summary: IPI annotation from study of Swi3p control of SWI/SNF assembly and H2A-H2B displacement. Documents protein interactions related to complex assembly. Reason: Same as other protein binding annotations. While documenting important interactions, the generic protein binding term is less informative than the specific biological processes being studied. Supporting Evidence: PMID:17496903 Swi3p controls SWI/SNF assembly and ATP-dependent H2A-H2B displacement
GO:0005515 protein binding	IPI PMID:32188938 Cryo-EM structure of SWI/SNF complex bound to a nucleosome.	KEEP AS NON CORE	Summary: IPI annotation from cryo-EM structure study of SWI/SNF complex bound to nucleosome. Directly demonstrates protein-protein interactions in structural context. Reason: While this represents high-quality structural evidence, the generic protein binding term does not capture the specific functional role of these interactions in nucleosome recognition and positioning. Supporting Evidence: PMID:32188938 Cryo-EM structure of SWI/SNF complex bound to a nucleosome
GO:0005515 protein binding	IPI PMID:37968396 The social and structural architecture of the yeast protein ...	KEEP AS NON CORE	Summary: IPI annotation from recent study of yeast protein interactome architecture. Comprehensive documentation of protein interactions. Reason: Consistent with other protein binding annotations. Demonstrates the well-documented protein interaction network of SWI1, but the generic term is not informative of core function. Supporting Evidence: PMID:37968396 The social and structural architecture of the yeast protein interactome
GO:0005515 protein binding	IPI PMID:8016655 Stimulation of GAL4 derivative binding to nucleosomal DNA by...	KEEP AS NON CORE	Summary: IPI annotation from early study of GAL4 binding to nucleosomal DNA facilitated by SWI/SNF complex. Demonstrates interaction between SWI1 and transcription factors. Reason: This represents documented interaction with transcription factors, which is functionally important (GO:0061629), but the generic protein binding term obscures this specificity. Supporting Evidence: PMID:8016655 Stimulation of GAL4 derivative binding to nucleosomal DNA by the yeast SWI/SNF complex
GO:0005515 protein binding	IPI PMID:8127913 A multisubunit complex containing the SWI1/ADR6, SWI2/SNF2, ...	KEEP AS NON CORE	Summary: IPI annotation from foundational study of multisubunit SWI/SNF complex composition. Directly demonstrates SWI1 is part of the complex through physical interactions. Reason: While this represents the foundational evidence for SWI1 complex membership, which is captured by GO:0016514, the generic protein binding term is less informative. Supporting Evidence: PMID:8127913 A multisubunit complex containing the SWI1/ADR6, SWI2/SNF2, SWI3, SNF5, and SNF6 gene products isolated from yeast
GO:0005515 protein binding	IPI PMID:8668146 TFG/TAF30/ANC1, a component of the yeast SWI/SNF complex tha...	KEEP AS NON CORE	Summary: IPI annotation from study of TAF30/ANC1 as a SWI/SNF component. Documents interactions with this regulatory subunit. Reason: Consistent with other protein binding annotations. Demonstrates specific interaction with TAF30/ANC1 but generic term obscures specificity. Supporting Evidence: PMID:8668146 TFG/TAF30/ANC1, a component of the yeast SWI/SNF complex that is similar to the leukemogenic proteins ENL and AF-9
GO:0005515 protein binding	IPI PMID:9726966 Subunits of the yeast SWI/SNF complex are members of the act...	KEEP AS NON CORE	Summary: IPI annotation from study showing actin-related proteins are subunits of yeast SWI/SNF complex. Documents SWI1 interactions with ARP subunits. Reason: Documents interactions with actin-related protein subunits, which is correctly captured by complex membership annotation but generic protein binding term is not informative. Supporting Evidence: PMID:9726966 Subunits of the yeast SWI/SNF complex are members of the actin-related protein (ARP) family
GO:0000785 chromatin	NAS PMID:28249159 Composition and Function of Mutant Swi/Snf Complexes.	KEEP AS NON CORE	Summary: NAS (Noncuratable Author Statement) annotation indicating SWI1 is located in or associated with chromatin. This reflects the role of SWI1 as part of the SWI/SNF complex that remodels chromatin structure. Reason: While SWI1 does interact with chromatin through the SWI/SNF complex, this is a cellular component localization statement rather than a functional annotation. The core functions (nucleosome remodeling, transcription regulation) are better captured by biological process terms. This should be retained but marked non-core. Supporting Evidence: PMID:28249159 Composition and Function of Mutant Swi/Snf Complexes
GO:0006338 chromatin remodeling	IDA PMID:11163188 Generation of superhelical torsion by ATP-dependent chromati...	ACCEPT	Summary: IDA annotation documenting chromatin remodeling activity of SWI/SNF complex. SWI1 is essential for this activity as a structural and targeting component. Reason: Chromatin remodeling is a core biological process function of the SWI/SNF complex, and SWI1 is an essential component. While SWI1 itself lacks ATPase activity, it is required for the complex's ability to remodel chromatin through nucleosome repositioning. This represents a primary function of the protein. Supporting Evidence: PMID:11163188 Generation of superhelical torsion by ATP-dependent chromatin remodeling activities PMID:18644858 Architecture of the SWI/SNF-nucleosome complex file:yeast/SWI1/SWI1-deep-research-falcon.md Swi1 is not itself described as an enzyme catalyzing a specific reaction; the ATP hydrolysis and mechanical remodeling is carried by the SWI/SNF ATPase (Snf2/Swi2 in yeast nomenclature)
GO:0006357 regulation of transcription by RNA polymerase II	IDA PMID:28249159 Composition and Function of Mutant Swi/Snf Complexes.	ACCEPT	Summary: IDA annotation documenting role in transcription regulation. SWI1 is essential for the SWI/SNF complex function in regulating transcription initiation and elongation. Reason: This directly demonstrates through experimental data that SWI1 is involved in transcription regulation by RNA polymerase II. The IDA evidence code indicates direct experimental observation. This is a core function of SWI1 within the SWI/SNF complex. Supporting Evidence: PMID:28249159 Composition and Function of Mutant Swi/Snf Complexes PMID:1339306 Characterization of the yeast SWI1, SWI2, and SWI3 genes, which encode a global activator of transcription
GO:0034198 cellular response to amino acid starvation	IMP PMID:10549298 Transcriptional activation by Gcn4p involves independent int...	ACCEPT	Summary: IMP annotation documenting SWI1 requirement for transcriptional response to amino acid starvation. SWI1 participates in SWI/SNF-dependent chromatin remodeling at starvation-responsive genes. Reason: The IMP (Inferred from Mutant Phenotype) evidence demonstrates that SWI1 is required for proper cellular response to amino acid starvation through its role in transcriptional activation of responsive genes. This represents a specific biological process in which SWI1 is functionally involved. While not as broadly central as general transcription regulation, this is a well-documented specific function. Supporting Evidence: PMID:10549298 Transcriptional activation by Gcn4p involves independent interactions with the SWI/SNF complex and the SRB/mediator
GO:0045944 positive regulation of transcription by RNA polymerase II	IMP PMID:10549298 Transcriptional activation by Gcn4p involves independent int...	ACCEPT	Summary: IMP annotation documenting positive regulation of transcription by SWI1 through the SWI/SNF complex. SWI1 is required for activation of transcription in response to various signals. Reason: SWI1 is essential for positive regulation of transcription initiation by RNA polymerase II through its role in the SWI/SNF complex. This is one of the core functions of the protein. The IMP evidence from mutant phenotype experiments directly demonstrates this role. Supporting Evidence: PMID:10549298 Transcriptional activation by Gcn4p involves independent interactions with the SWI/SNF complex and the SRB/mediator PMID:1339306 Characterization of the yeast SWI1, SWI2, and SWI3 genes, which encode a global activator of transcription
GO:0008270 zinc ion binding	RCA PMID:30358795 The cellular economy of the Saccharomyces cerevisiae zinc pr...	KEEP AS NON CORE	Summary: RCA (Reviewed Computational Analysis) annotation indicating zinc ion binding. SWI1 contains a C4-type zinc finger motif. This is consistent with the IEA zinc binding annotation but with higher-confidence curation. Reason: The RCA evidence is higher quality than IEA, confirming zinc ion binding through curated computational analysis. However, as with the IEA zinc binding annotation, the specific functional role of this zinc finger is not well characterized and is likely supporting but not core function. Should be retained but marked non-core. Supporting Evidence: PMID:30358795 The cellular economy of the Saccharomyces cerevisiae zinc proteome
GO:0006338 chromatin remodeling	IDA PMID:8016655 Stimulation of GAL4 derivative binding to nucleosomal DNA by...	ACCEPT	Summary: IDA annotation from early characterization of SWI/SNF complex function in chromatin remodeling. SWI1 was identified as an essential component of the complex facilitating GAL4 binding to nucleosomal DNA. Reason: This is a foundational IDA annotation demonstrating SWI1's role in chromatin remodeling through direct experimental evidence. While this duplicates another chromatin remodeling annotation, retention of multiple independent experimental validations is appropriate. Supporting Evidence: PMID:8016655 Stimulation of GAL4 derivative binding to nucleosomal DNA by the yeast SWI/SNF complex file:yeast/SWI1/SWI1-deep-research-falcon.md Swi1 is not itself described as an enzyme catalyzing a specific reaction; the ATP hydrolysis and mechanical remodeling is carried by the SWI/SNF ATPase (Snf2/Swi2 in yeast nomenclature)
GO:0061629 RNA polymerase II-specific DNA-binding transcription factor binding	IPI PMID:11865042 Transcription activator interactions with multiple SWI/SNF s...	ACCEPT	Summary: IPI annotation documenting physical interaction between SWI1 and RNA polymerase II-specific transcription factors. This is critical for complex recruitment to target genes. Reason: SWI1 (along with other SWI/SNF subunits) directly binds to transcription factors to facilitate complex recruitment to promoters. This is a core mechanism by which SWI/SNF targets its activity to specific genes. The IPI evidence directly demonstrates these interactions. This is an essential molecular function for proper transcription regulation. Supporting Evidence: PMID:11865042 Transcription activator interactions with multiple SWI/SNF subunits file:yeast/SWI1/SWI1-deep-research-falcon.md Swi1 binds activation domains from multiple activators (historic and newly tested), and in 2024 it was shown to bind the Ino2 activation domains relevant to phospholipid gene expression
GO:0061629 RNA polymerase II-specific DNA-binding transcription factor binding	IMP PMID:14580348 Targeting activity is required for SWI/SNF function in vivo ...	ACCEPT	Summary: IMP annotation demonstrating that targeting activity of SWI1 through transcription factor interaction is required for SWI/SNF function in vivo. Reason: The IMP evidence (from mutant phenotype showing targeting is required for function) directly demonstrates that SWI1 interaction with transcription factors is essential for SWI/SNF biological function. This is a core functional requirement. Supporting Evidence: PMID:14580348 Targeting activity is required for SWI/SNF function in vivo and is accomplished through two partially redundant activator-interaction domains file:yeast/SWI1/SWI1-deep-research-falcon.md Swi1 binds activation domains from multiple activators (historic and newly tested), and in 2024 it was shown to bind the Ino2 activation domains relevant to phospholipid gene expression
GO:0061629 RNA polymerase II-specific DNA-binding transcription factor binding	IPI PMID:14580348 Targeting activity is required for SWI/SNF function in vivo ...	ACCEPT	Summary: IPI annotation from the same study documenting direct protein interactions. Complements the IMP evidence with direct interaction data. Reason: Same annotation and function as other GO:0061629 entries. Retention of both IPI and IMP evidence for this critical function is appropriate. Supporting Evidence: PMID:14580348 Targeting activity is required for SWI/SNF function in vivo and is accomplished through two partially redundant activator-interaction domains file:yeast/SWI1/SWI1-deep-research-falcon.md Swi1 binds activation domains from multiple activators (historic and newly tested), and in 2024 it was shown to bind the Ino2 activation domains relevant to phospholipid gene expression
GO:0005634 nucleus	IDA PMID:3143101 The yeast ADR6 gene encodes homopolymeric amino acid sequenc...	KEEP AS NON CORE	Summary: IDA annotation from early characterization identifying ADR6 (SWI1) localization to the nucleus based on direct experimental observation. Reason: Foundational evidence for nuclear localization. While correct and important for context, this is a location annotation not a functional annotation. Should be retained for cellular component information but marked non-core. Supporting Evidence: PMID:3143101 The yeast ADR6 gene encodes homopolymeric amino acid sequences and a potential metal-binding domain file:yeast/SWI1/SWI1-deep-research-falcon.md Swi1 acts in the nucleus, associated with the SWI/SNF complex on chromatin/nucleosomes
GO:0006261 DNA-templated DNA replication	IMP PMID:10198436 A role for the yeast SWI/SNF complex in DNA replication.	KEEP AS NON CORE	Summary: IMP annotation indicating SWI1 is required for DNA replication through its role in the SWI/SNF complex. The complex may facilitate replication by remodeling chromatin at replication origins or through other mechanisms. Reason: While SWI1 is required for DNA replication (based on mutant phenotype), this appears to be an indirect role through chromatin remodeling at replication-relevant loci rather than a primary core function. SWI1's role in replication is secondary to its primary transcriptional and chromatin remodeling functions. Should be retained as documented but marked non-core. Supporting Evidence: PMID:10198436 A role for the yeast SWI/SNF complex in DNA replication
GO:0016514 SWI/SNF complex	IDA PMID:18644858 Architecture of the SWI/SNF-nucleosome complex.	ACCEPT	Summary: IDA annotation from cryo-EM structural study directly demonstrating SWI1 as a component of the SWI/SNF complex with atomic/near-atomic resolution. Reason: High-quality structural evidence directly demonstrating SWI1 as a core component of the SWI/SNF complex. This is essential to retain for proper annotation of SWI1's role. Multiple independent IDA annotations for complex membership are appropriate. Supporting Evidence: PMID:18644858 Architecture of the SWI/SNF-nucleosome complex file:yeast/SWI1/SWI1-deep-research-falcon.md the N-termini of Swi1 and Snf5 interact and that Swi1 contributes to the SRM DNA-binding lobe together with Snf6, Snf12, and Snf5 N-terminus
GO:0016514 SWI/SNF complex	IDA PMID:8016655 Stimulation of GAL4 derivative binding to nucleosomal DNA by...	ACCEPT	Summary: IDA annotation from early biochemical characterization of SWI/SNF complex demonstrating SWI1 as a core component. Reason: Foundational IDA evidence for SWI1 complex membership. Retention of multiple independent experimental validations is appropriate and demonstrates consistency across different experimental approaches. Supporting Evidence: PMID:8016655 Stimulation of GAL4 derivative binding to nucleosomal DNA by the yeast SWI/SNF complex file:yeast/SWI1/SWI1-deep-research-falcon.md the N-termini of Swi1 and Snf5 interact and that Swi1 contributes to the SRM DNA-binding lobe together with Snf6, Snf12, and Snf5 N-terminus
GO:0016514 SWI/SNF complex	IDA PMID:8127913 A multisubunit complex containing the SWI1/ADR6, SWI2/SNF2, ...	ACCEPT	Summary: IDA annotation from foundational biochemical isolation and characterization of the SWI/SNF multisubunit complex. Directly demonstrates SWI1 as a core component. Reason: Historically important IDA evidence from the original characterization of the SWI/SNF complex composition. SWI1 was identified as a stoichiometric component in this work. Supporting Evidence: PMID:8127913 A multisubunit complex containing the SWI1/ADR6, SWI2/SNF2, SWI3, SNF5, and SNF6 gene products isolated from yeast file:yeast/SWI1/SWI1-deep-research-falcon.md the N-termini of Swi1 and Snf5 interact and that Swi1 contributes to the SRM DNA-binding lobe together with Snf6, Snf12, and Snf5 N-terminus
GO:0016514 SWI/SNF complex	IDA PMID:8159677 Five SWI/SNF gene products are components of a large multisu...	ACCEPT	Summary: IDA annotation from early characterization demonstrating that SWI1 is a required component of the complex for transcriptional enhancement function. Reason: Independent IDA evidence confirming SWI1 as a functional component of SWI/SNF complex. Multiple validation studies strengthen this core annotation. Supporting Evidence: PMID:8159677 Five SWI/SNF gene products are components of a large multisubunit complex required for transcriptional enhancement file:yeast/SWI1/SWI1-deep-research-falcon.md the N-termini of Swi1 and Snf5 interact and that Swi1 contributes to the SRM DNA-binding lobe together with Snf6, Snf12, and Snf5 N-terminus
GO:0016514 SWI/SNF complex	IMP PMID:8159677 Five SWI/SNF gene products are components of a large multisu...	ACCEPT	Summary: IMP annotation from same study showing that SWI1 function depends on complex membership and that complex is required for transcriptional enhancement. Reason: IMP evidence complements IDA evidence showing that SWI1's function is inseparable from its role as a SWI/SNF complex component. Both evidence types are appropriate and informative. Supporting Evidence: PMID:8159677 Five SWI/SNF gene products are components of a large multisubunit complex required for transcriptional enhancement file:yeast/SWI1/SWI1-deep-research-falcon.md the N-termini of Swi1 and Snf5 interact and that Swi1 contributes to the SRM DNA-binding lobe together with Snf6, Snf12, and Snf5 N-terminus
GO:0031496 positive regulation of mating type switching	IMP PMID:6436497 Five SWI genes are required for expression of the HO gene in...	ACCEPT	Summary: IMP annotation demonstrating SWI1 is required for mating type switching through activation of the HO locus. This is a specific well-characterized function of the SWI/SNF complex. Reason: Mating type switching is a classical SWI1 function, originally named for its role in swi(tching) mating type through HO locus expression. The IMP evidence (loss of SWI1 blocks mating type switching) directly demonstrates this essential role. This is a well-documented specific function and should be retained. Supporting Evidence: PMID:6436497 Five SWI genes are required for expression of the HO gene in yeast file:yeast/SWI1/SWI1-deep-research-falcon.md SWI1 was reported to be required for expression of the a-specific gene STE6
GO:0045944 positive regulation of transcription by RNA polymerase II	IMP PMID:1339306 Characterization of the yeast SWI1, SWI2, and SWI3 genes, wh...	ACCEPT	Summary: IMP annotation from the foundational characterization showing SWI1 is required for positive regulation of transcription. This is the primary biological role of SWI1. Reason: Core functional annotation with IMP evidence from the original characterization paper. SWI1 is essential for positive regulation of numerous genes through SWI/SNF-mediated nucleosome remodeling and accessibility. This is a primary function. Supporting Evidence: PMID:1339306 Characterization of the yeast SWI1, SWI2, and SWI3 genes, which encode a global activator of transcription
GO:0045944 positive regulation of transcription by RNA polymerase II	IMP PMID:3542227 Cell cycle control of the yeast HO gene, cis- and trans-acti...	ACCEPT	Summary: IMP annotation from study of HO gene cell cycle control showing SWI1 role in positive regulation of the HO locus specifically. Reason: While a specific rather than global function, this represents documented positive regulation of a major inducible gene. Retention of multiple independent validations at different loci strengthens the annotation of this core function. Supporting Evidence: PMID:3542227 Cell cycle control of the yeast HO gene