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delphisci dataset-resolvability assessor (Gemini 4 Argon)
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If total rupture force F_max saturates once a strand reaches 3–4 H-bonds, then dividing by strand length L immediately implies that shear strength per unit length tau_max(L) peaks at L* ≈ 3–4 H-bonds and declines for longer strands. This prediction is straightforward to test both mathematically and via re-implementation of explicit-solvent steered MD simulations across strand lengths.
https://w3id.org/delphi/resource/assessment/buehler-2008-hbond-confinement-02--gemini
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http://www.w3.org/2000/01/rdf-schema#comment
Proposed test with existing data: Compute effective shear strength tau_max(L) = F_max(L) / L from explicit-solvent steered MD simulations and analytical shear-lag/Bell models for beta-strands of length L = 1 to 20 H-bonds, checking whether tau_max(L) peaks at L* around 3–4 H-bonds and decreases for longer strands.
https://w3id.org/delphi/resource/assessment/buehler-2008-hbond-confinement-02--gemini
http://www.w3.org/2000/01/rdf-schema#label
Gemini 4 Argon on buehler-2008-hbond-confinement-02: resolvable-now, resolvability 0.79
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https://w3id.org/delphi/ontology/evidenceAgainst
Direct experimental single-molecule shear testing of isolated beta-strands as a systematic function of strand length L is scarce, so verification relies primarily on atomistic MD and theoretical mechanics.
https://w3id.org/delphi/resource/assessment/buehler-2008-hbond-confinement-02--gemini
https://w3id.org/delphi/ontology/hasConfidence
0.85
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Analysis feasibility of buehler-2008-hbond-confinement-02 by Gemini 4 Argon: 0.8
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Data adequacy of buehler-2008-hbond-confinement-02 by Gemini 4 Argon: 0.7
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Data existence of buehler-2008-hbond-confinement-02 by Gemini 4 Argon: 0.75
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Discriminating power of buehler-2008-hbond-confinement-02 by Gemini 4 Argon: 0.85
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Operationalizability of buehler-2008-hbond-confinement-02 by Gemini 4 Argon: 0.85
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https://w3id.org/delphi/resource/evidence/buehler-2008-hbond-confinement-02--gemini--dataset-1
http://purl.org/dc/terms/description
Atomic structures of antiparallel and parallel beta-sheets for constructing variable-length strand benchmarks
https://w3id.org/delphi/resource/evidence/buehler-2008-hbond-confinement-02--gemini--dataset-1
http://www.w3.org/1999/02/22-rdf-syntax-ns#type
https://w3id.org/delphi/ontology/EvidenceItem
https://w3id.org/delphi/resource/evidence/buehler-2008-hbond-confinement-02--gemini--dataset-1
http://www.w3.org/2000/01/rdf-schema#label
Candidate dataset: RCSB Protein Data Bank
https://w3id.org/delphi/resource/evidence/buehler-2008-hbond-confinement-02--gemini--dataset-1
http://www.w3.org/ns/prov#wasDerivedFrom
https://www.rcsb.org/
https://w3id.org/delphi/resource/evidence/buehler-2008-hbond-confinement-02--gemini--dataset-2
http://purl.org/dc/terms/description
Open atomistic MD code widely used for steered MD shear rupture of beta-sheet strands
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https://w3id.org/delphi/resource/evidence/buehler-2008-hbond-confinement-02--gemini--dataset-2
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Candidate dataset: NAMD Scalable Molecular Dynamics
https://w3id.org/delphi/resource/evidence/buehler-2008-hbond-confinement-02--gemini--dataset-2
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https://www.ks.uiuc.edu/Research/namd/
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gemini-4-argon-medium
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http://www.w3.org/2000/01/rdf-schema#label
Gemini 4 Argon
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https://w3id.org/delphi/resource/concept/dataset-resolvability-0.2.0
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buehler-protein-materials
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Gemini 4 Argon on buehler-2008-hbond-confinement-02: resolvable-now, resolvability 0.79
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https://w3id.org/delphi/ontology/domain
https://w3id.org/delphi/resource/domain/buehler-protein-materials
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RSA
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http://purl.org/nanopub/x/hasPublicKey
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https://w3id.org/np/RAd3b8oiAIBg4D-3AfohrOS40K_rYhBHbEjId1WHyHjBY/sig
http://purl.org/nanopub/x/hasSignature
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https://w3id.org/np/RAd3b8oiAIBg4D-3AfohrOS40K_rYhBHbEjId1WHyHjBY/sig
http://purl.org/nanopub/x/hasSignatureTarget
https://w3id.org/np/RAd3b8oiAIBg4D-3AfohrOS40K_rYhBHbEjId1WHyHjBY
https://w3id.org/np/RAd3b8oiAIBg4D-3AfohrOS40K_rYhBHbEjId1WHyHjBY/sig
http://purl.org/nanopub/x/signedBy
https://orcid.org/0009-0007-4948-9192