{ "model": { "rank": 6304, "code": "thing-q186521", "model_id": "vr.tr.l-threonine", "name": "L-threonine", "purpose": "Enable an AI agent to recognise L-threonine, assess the identity and condition of a particular material, and determine whether it is suitable for a specified use.", "family": "Thing Registry", "category": "Physical world and living systems", "status": "research-draft", "kind": "thing", "plane": "PHY", "domain": "PHY.MAT", "industry": "", "version": "", "url": "/models/thing/q186521/", "tier": 2, "score": 61, "payload": { "layer": "wikidata", "aliases": [], "aliasCount": 0, "merged": 0, "knownIn": 61, "facets": null, "markers": [], "lexicalClass": "", "senseRank": null, "alsoRegisteredAs": null, "source": { "dataset": "wikidata", "item": "Q186521", "url": "https://www.wikidata.org/wiki/Q186521", "license": "CC0 1.0" } }, "research": { "vercy": "1.0-draft", "publication": { "status": "research-draft", "adjudicationStatus": "unreviewed", "publishableCanonical": false, "generatedAt": "2026-09-07T13:42:14Z", "providers": [ "Codex", "Grok" ], "missingProviders": [], "pass": 2, "cost": { "grok": { "usd": 0.00376788, "turns": 1, "seconds": 49.9, "error": null }, "codex": { "seconds": 68.5, "error": "Reading additional input from stdin...\nOpenAI Codex v0.153.3\n--------\nworkdir: R:\\02_PROJECTS\\02_Meta_Models_Platforms\\Ver.cy\\current\\thing-registry-backlog\nmodel: gpt-6-astra\nprovider: openai\napproval: never\nsandbox: read-only\nreasoning effort: none\nreasoning summaries: none\nsession id: 01a07c19-e310-7d82-9015-774425f01d93\n--------\nuser\nYou are drafting a Vercy meta-model for one registered thing. Answer as JSON only, no prose around it.\n\nThing: L-threonine\nRegistry id: vr.tr.l-threonine\nPlane / domain: PHY / PHY.MAT\nRegistry definition: (none recorded)\nNames folded into this entry: (none)\n\nA" } } }, "metaModel": { "id": "THING-Q186521", "registryId": "vr.tr.l-threonine", "name": "L-threonine", "version": "0.1.0-research.1", "entryKind": "thing", "family": "Thing Registry", "domain": [ "PHY.MAT" ], "status": "research-draft" }, "canonicalUrl": "https://ver.cy/models/thing/q186521/", "model": { "registry_id": "vr.tr.l-threonine", "name": "L-threonine", "purpose": "Enable an AI agent to recognise L-threonine, assess the identity and condition of a particular material, and determine whether it is suitable for a specified use.", "definition": "L-Threonine is the (2S,3R) stereoisomer of 2-amino-3-hydroxybutanoic acid, an essential proteinogenic amino acid that cannot be synthesized de novo in humans and other animals and must be obtained from diet or microbial/industrial production.", "scope_statement": "This model owns the chemical identity of vr.tr.l-threonine and the evidence needed to assess free L-threonine in lots, samples and solutions; it links to models of mixtures, processes and biological systems without owning their behaviour.", "in_scope": [ "L-threonine molecular identity and stereochemical discrimination", "Evidence connecting a sample or lot to the registered substance", "L-threonine content, stereochemical purity and relevant impurities", "Solid or dissolved state and conditions affecting material usability", "Evidence supporting handling, preparation and use-specific acceptance" ], "out_of_scope": [ "D-threonine, allothreonine and other amino acids as independently modelled substances", "Covalently modified L-threonine derivatives and separately identified salts", "Peptide and protein structures containing threonine residues", "Complete formulations, foods, feeds and culture media containing L-threonine", "Organism metabolism, nutritional requirements and clinical treatment decisions", "Manufacturing equipment and complete fermentation or synthesis processes" ], "distinguishing_features": [ "Require evidence for (2S,3R)-2-amino-3-hydroxybutanoic acid; a label saying only 'threonine' does not establish this stereochemical identity. Reference: [PubChem L-Threonine](https://pubchem.ncbi.nlm.nih.gov/compound/6288).", "Use an identity method capable of establishing molecular connectivity; molecular formula or mass alone cannot establish L-threonine identity.", "Require a stereochemically discriminating method to distinguish L-threonine from D-threonine, allothreonine and stereoisomer mixtures.", "Distinguish free L-threonine measurements from threonine measured after peptide or protein hydrolysis.", "Check whether the material is free L-threonine, a solution containing it, or a separately identified salt or covalent derivative before assigning the registry identity." ], "characteristics": [ { "name": "Chemical identity evidence", "kind": "relation", "unit_or_values": "Sample-linked identity results, reference material and analytical method", "why_it_matters": "Connects the registered substance to observed material rather than relying on a product name." }, { "name": "Stereochemical identity", "kind": "category", "unit_or_values": "Confirmed (2S,3R), mixed stereoisomers, inconsistent or unresolved", "why_it_matters": "Determines whether the material matches L-threonine specifically." }, { "name": "L-threonine assay", "kind": "measurement", "unit_or_values": "Mass fraction in %, with as-received or dry basis and method stated", "why_it_matters": "Supports quantity calculations without confusing material mass with L-threonine mass." }, { "name": "Stereoisomer impurity profile", "kind": "measurement", "unit_or_values": "Fraction of each resolved stereoisomer, with reporting basis and detection limits", "why_it_matters": "A total threonine assay may not establish the fraction that is L-threonine." }, { "name": "Water content", "kind": "measurement", "unit_or_values": "Mass fraction in %, with method and sampling date", "why_it_matters": "Affects assay interpretation and preparation of quantities by weighing." }, { "name": "Material presentation", "kind": "state", "unit_or_values": "Solid, dissolved, partially dissolved or unresolved; solvent recorded where applicable", "why_it_matters": "Determines how the material can be sampled, transferred and prepared." }, { "name": "Dissolved L-threonine concentration", "kind": "measurement", "unit_or_values": "g/L or mol/L, with solvent, temperature and preparation basis", "why_it_matters": "Supports reproducible use of solutions." }, { "name": "Solution pH", "kind": "measurement", "unit_or_values": "pH with temperature and solution composition", "why_it_matters": "Provides context for solution behaviour and compatibility." }, { "name": "Non-stereoisomer impurities", "kind": "measurement", "unit_or_values": "Named analytes in mg/kg or %, with method and reporting limits", "why_it_matters": "Supports acceptance against the requirements of the intended use." }, { "name": "Lot evidence", "kind": "relation", "unit_or_values": "Supplier, lot, sample, certificate, test results and storage history", "why_it_matters": "Establishes which material the identity and quality claims describe." }, { "name": "Use-specific disposition", "kind": "state", "unit_or_values": "Unassessed, accepted, restricted, quarantined or rejected against a named specification", "why_it_matters": "Prevents acceptance for one use from becoming unrestricted permission." } ], "affordances": [ "Match a labelled material to L-threonine using chemical and stereochemical evidence.", "Request additional analysis when identity, assay basis or stereoisomer resolution is insufficient.", "Calculate a required material quantity from verified L-threonine content and water basis.", "Prepare and verify an L-threonine solution under documented conditions.", "Accept, restrict or quarantine a lot against requirements for a specified use.", "Trigger reassessment after storage excursions, contamination or unexplained changes." ] }, "sources": [ { "id": "pubchem-threonine", "title": "Threonine", "url": "https://pubchem.ncbi.nlm.nih.gov/compound/Threonine", "what_it_supports": "Identity, formula, stereochemistry, identifiers, and physicochemical properties of L-threonine.", "url_status": "live" }, { "id": "who-fcc-threonine", "title": "L-Threonine (FAO/WHO food additive / amino acid specification)", "url": "", "what_it_supports": "Food-grade specification, assay, and impurity limits used in regulation.", "url_status": "dead" } ], "structure": { "bundles": [ { "id": "l-threonine-identity", "name": "L-threonine identity", "description": "Establish whether an observed material contains the registered stereochemical substance.", "rationale": "The name threonine and a matching molecular mass do not establish L-threonine identity.", "layers": [ { "id": "molecular-connectivity", "name": "Molecular connectivity", "description": "Assess evidence for the chemical structure represented by the registry entry.", "findings": [ { "id": "structure-supported-identity", "name": "Structure-supported identity", "description": "Record the identity conclusion together with the method, reference and sample to which it applies.", "questions": [ { "text": "What evidence establishes the amino, hydroxyl and carboxyl connectivity of the claimed L-threonine?", "kind": "definition", "id": "structure-supported-identity-q01" }, { "text": "Which sample and reference material support the identity result?", "kind": "provenance", "id": "structure-supported-identity-q02" } ] } ] }, { "id": "stereochemical-discrimination", "name": "Stereochemical discrimination", "description": "Separate an L-threonine assignment from unresolved threonine stereochemistry.", "findings": [ { "id": "l-threonine-stereoisomer-evidence", "name": "L-threonine stereoisomer evidence", "description": "Record which stereoisomers the method can distinguish and what uncertainty remains.", "questions": [ { "text": "Does the method distinguish L-threonine from D-threonine and allothreonine stereoisomers?", "kind": "measurement", "id": "l-threonine-stereoisomer-evidence-q01" }, { "text": "What unresolved stereoisomer contribution prevents an unqualified L-threonine assignment?", "kind": "boundary", "id": "l-threonine-stereoisomer-evidence-q02" } ] } ] } ] }, { "id": "free-threonine-and-content", "name": "Free threonine and content", "description": "Determine what chemical form and quantity a reported threonine result represents.", "rationale": "Free L-threonine, hydrolysis-derived threonine and gross product mass support different decisions.", "layers": [ { "id": "free-versus-bound", "name": "Free versus bound", "description": "Define the boundary between this substance and residues or derivatives.", "findings": [ { "id": "analytical-form-boundary", "name": "Analytical form boundary", "description": "Record whether the result concerns free material or material released or transformed during preparation.", "questions": [ { "text": "Was threonine measured directly or after hydrolysis or another chemical transformation?", "kind": "provenance", "id": "analytical-form-boundary-q01" }, { "text": "Does the specimen represent free L-threonine, a mixture component, a salt or a covalent derivative requiring a neighbouring model?", "kind": "boundary", "id": "analytical-form-boundary-q02" } ] } ] }, { "id": "assay-and-impurities", "name": "Assay and impurities", "description": "Interpret L-threonine content against water, analytical selectivity and impurity evidence.", "findings": [ { "id": "usable-l-threonine-quantity", "name": "Usable L-threonine quantity", "description": "Retain enough measurement context to calculate content without overstating purity.", "questions": [ { "text": "What is the L-threonine mass fraction, on which water basis, and does the assay exclude other stereoisomers?", "kind": "measurement", "id": "usable-l-threonine-quantity-q01" }, { "text": "Which impurities were measured, with what reporting limits, and which required impurity checks remain missing?", "kind": "measurement", "id": "usable-l-threonine-quantity-q02" } ] } ] } ] }, { "id": "l-threonine-material-condition", "name": "L-threonine material condition", "description": "Assess the current solid or solution state and whether preparation or storage has changed usability.", "rationale": "An identity match alone cannot establish that a weighed portion or prepared solution delivers the intended amount.", "layers": [ { "id": "solid-and-solution-state", "name": "Solid and solution state", "description": "Capture observations that govern sampling and solution preparation.", "findings": [ { "id": "preparation-state-evidence", "name": "Preparation state evidence", "description": "Record water basis for solids and actual dissolution conditions for solutions.", "questions": [ { "text": "For a solid, what water measurement supports the mass used to calculate L-threonine content?", "kind": "measurement", "id": "preparation-state-evidence-q01" }, { "text": "For a solution, what solvent, temperature, pH and concentration apply, and is dissolution complete?", "kind": "measurement", "id": "preparation-state-evidence-q02" } ] } ] }, { "id": "storage-and-change", "name": "Storage and change", "description": "Link condition changes to evidence for retaining or reassessing the material.", "findings": [ { "id": "continued-material-suitability", "name": "Continued material suitability", "description": "Assess storage and post-preparation history without assuming a universal shelf life.", "questions": [ { "text": "What storage, opening and solution-preparation history applies to this L-threonine material?", "kind": "provenance", "id": "continued-material-suitability-q01" }, { "text": "Which observed changes or excursions require renewed assay, impurity testing or quarantine under the applicable specification?", "kind": "action", "id": "continued-material-suitability-q02" } ] } ] } ] }, { "id": "l-threonine-use-disposition", "name": "L-threonine use disposition", "description": "Connect lot evidence and measured content to a specific proposed operation.", "rationale": "Suitability for analytical, formulation or other uses depends on evidence and requirements beyond the substance name.", "layers": [ { "id": "lot-and-specification", "name": "Lot and specification", "description": "Determine whether the available evidence supports acceptance for the intended use.", "findings": [ { "id": "use-specific-acceptance", "name": "Use-specific acceptance", "description": "Record an explicit disposition tied to a lot and a named set of requirements.", "questions": [ { "text": "Which lot-linked records support the claimed L-threonine identity, assay and grade?", "kind": "provenance", "id": "use-specific-acceptance-q01" }, { "text": "Which requirements for the proposed use are met, failed or still unverified?", "kind": "action", "id": "use-specific-acceptance-q02" } ] } ] }, { "id": "quantity-and-operation", "name": "Quantity and operation", "description": "Translate accepted material evidence into a controlled preparation or transfer.", "findings": [ { "id": "evidence-based-preparation", "name": "Evidence-based preparation", "description": "Base the proposed operation on verified content, relevant handling information and an observable completion criterion.", "questions": [ { "text": "What mass or volume supplies the target L-threonine amount after accounting for assay, water basis and existing dilution?", "kind": "measurement", "id": "evidence-based-preparation-q01" }, { "text": "What material-specific handling instructions and preparation checks must be satisfied before the portion or solution is released for use?", "kind": "action", "id": "evidence-based-preparation-q02" } ] } ] } ] }, { "id": "evidence-and-external-alignment", "name": "Evidence and external alignment", "description": "What the world already says about this thing, gathered so the model can be checked against it.", "rationale": "A model that cannot be lined up against existing standards, identifiers and practice cannot be adopted by anyone who already uses them.", "layers": [ { "id": "reported-evidence", "name": "Reported evidence", "description": "Findings from the breadth pass, kept separate from the structural claims.", "findings": [ { "id": "evidence-kinds", "name": "Kinds and varieties", "description": "Reported by the breadth pass; each item needs checking against its source before it becomes normative.", "evidence": [ "Feed-grade L-threonine (fermentation, typically ≥98.5%)", "Pharmaceutical/USP-grade L-threonine", "Food/FCC-grade L-threonine", "Cell-culture / reagent-grade L-threonine", "L-Threonine hydrochloride / salts", "N-Acetyl-L-threonine and other protected derivatives", "Isotopically labelled L-threonine (e.g. 13C, 15N)", "L-Allothreonine (diastereomer, distinguished in stereochemistry work)" ], "questions": [ { "id": "evidence-kinds-q01", "text": "Which of these kinds and varieties hold for the sense of L-threonine this model covers, and on what evidence?", "kind": "provenance" } ] }, { "id": "evidence-identifiers", "name": "Identifiers and schemes", "description": "Reported by the breadth pass; each item needs checking against its source before it becomes normative.", "evidence": [ { "scheme": "CAS Registry Number", "value_or_pattern": "72-19-5", "note": "L-Threonine (not the racemate)." }, { "scheme": "PubChem CID", "value_or_pattern": "6288", "note": "L-Threonine." }, { "scheme": "IUPAC InChIKey", "value_or_pattern": "AYFVYJQAPQTCCC-GBXIJSLDSA-N", "note": "Stereospecific key for (2S,3R)-threonine." }, { "scheme": "EC / EINECS", "value_or_pattern": "200-774-1", "note": "L-Threonine." }, { "scheme": "ChEBI", "value_or_pattern": "CHEBI:16857", "note": "L-threonine." }, { "scheme": "Wikidata", "value_or_pattern": "Q186521", "note": "L-threonine item." }, { "scheme": "UNII", "value_or_pattern": "2ZD004190S", "note": "FDA Unique Ingredient Identifier." } ], "questions": [ { "id": "evidence-identifiers-q01", "text": "Which of these identifiers and schemes hold for the sense of L-threonine this model covers, and on what evidence?", "kind": "provenance" } ] }, { "id": "evidence-standards-and-regulation", "name": "Standards and regulation", "description": "Reported by the breadth pass; each item needs checking against its source before it becomes normative.", "evidence": [ "USP / NF monograph: Threonine", "FCC (Food Chemicals Codex) specification for L-Threonine", "JECFA / FAO-WHO specification for L-threonine as a food additive and nutrient", "EU feed additive authorisation of L-threonine produced by fermentation (Reg. (EC) No 1831/2003 framework)", "Codex / national pharmacopoeias (JP, Ph. Eur.) amino-acid monographs where listed", "GRAS / food-use notifications in the US for amino-acid nutrient supplementation" ], "questions": [ { "id": "evidence-standards-and-regulation-q01", "text": "Which of these standards and regulation hold for the sense of L-threonine this model covers, and on what evidence?", "kind": "provenance" } ] }, { "id": "evidence-real-world-use", "name": "Real-world use", "description": "Reported by the breadth pass; each item needs checking against its source before it becomes normative.", "evidence": [ "Essential amino-acid supplementation of cereal-based livestock and aquaculture feeds, especially swine and poultry, to meet threonine requirements after lysine.", "Parenteral and enteral nutrition formulas and amino-acid infusion solutions.", "Cell-culture media component for recombinant protein and vaccine production.", "Food and dietary-supplement ingredient (protein fortification, medical foods).", "Starting material or intermediate in peptide synthesis and specialty chemicals.", "Research reagent for metabolism, translation, and kinase (e.g. threonine phosphorylation) studies." ], "questions": [ { "id": "evidence-real-world-use-q01", "text": "Which of these real-world use hold for the sense of L-threonine this model covers, and on what evidence?", "kind": "provenance" } ] }, { "id": "evidence-measurements", "name": "Typical measurements", "description": "Reported by the breadth pass; each item needs checking against its source before it becomes normative.", "evidence": [ { "quantity": "Assay (purity, dry basis)", "typical_range": "98.5-101.5 (pharm/feed grades often ≥98.5)", "unit": "%" }, { "quantity": "Specific optical rotation [α]D20 (c=6, water)", "typical_range": "−26 to −29 (L-form levorotatory in water under USP conditions)", "unit": "°" }, { "quantity": "Melting / decomposition point", "typical_range": "255-257 (decomposes)", "unit": "°C" }, { "quantity": "Aqueous solubility at 25 °C", "typical_range": "about 90-100", "unit": "g/L" }, { "quantity": "Molecular mass", "typical_range": "119.12", "unit": "g/mol" }, { "quantity": "pKa (carboxyl / amino)", "typical_range": "~2.1 / ~9.1", "unit": "pKa units" }, { "quantity": "Dietary requirement (adult humans, WHO/FAO)", "typical_range": "about 15 (mg/kg body weight/day; values vary by reference)", "unit": "mg·kg⁻¹·d⁻¹" } ], "questions": [ { "id": "evidence-measurements-q01", "text": "Which of these typical measurements hold for the sense of L-threonine this model covers, and on what evidence?", "kind": "provenance" } ] }, { "id": "evidence-failure-modes-and-hazards", "name": "Failure modes and hazards", "description": "Reported by the breadth pass; each item needs checking against its source before it becomes normative.", "evidence": [ "Hygroscopic caking and microbial contamination of bulk powder if stored damp.", "Racemization or Maillard browning when heated with reducing sugars in feeds and foods.", "Over-supplementation in animal diets can unbalance the amino-acid profile and reduce performance.", "Inborn errors (e.g. threonine dehydratase / metabolism disorders) and rare hypersensitivity in medical nutrition.", "Dust explosion / inhalation nuisance in industrial handling of fine crystalline powder.", "Impurity risk: other amino acids, heavy metals, residual fermentation biomass or endotoxin in poorly purified lots." ], "questions": [ { "id": "evidence-failure-modes-and-hazards-q01", "text": "Which of these failure modes and hazards hold for the sense of L-threonine this model covers, and on what evidence?", "kind": "provenance" } ] }, { "id": "evidence-regional-variation", "name": "Regional variation", "description": "Reported by the breadth pass; each item needs checking against its source before it becomes normative.", "evidence": [ "Feed-grade L-threonine dominates production and trade in China, the EU, and North America; pharmaceutical grade is a smaller, more tightly specified stream.", "Labelling as 'threonine' vs 'L-threonine' vs E-number / INS 641 in food additive lists differs by jurisdiction.", "Japanese and European pharmacopoeial optical-rotation and impurity limits are not identical to USP.", "Some markets still quote DL-threonine historically, though commercial feed and food product is almost entirely the L-isomer from fermentation." ], "questions": [ { "id": "evidence-regional-variation-q01", "text": "Which of these regional variation hold for the sense of L-threonine this model covers, and on what evidence?", "kind": "provenance" } ] }, { "id": "evidence-neighbours", "name": "Neighbouring kinds and how to tell them apart", "description": "Reported by the breadth pass; each item needs checking against its source before it becomes normative.", "evidence": [ { "name": "D-Threonine", "difference": "Opposite configuration at both stereocentres; distinguished by specific rotation sign/magnitude and chiral HPLC or enzymatic L-amino-acid oxidase assays." }, { "name": "L-Allothreonine", "difference": "Diastereomer with (2S,3S) configuration; separated by chromatography and by melting point / NMR coupling of the β-proton." }, { "name": "L-Serine", "difference": "One-carbon shorter β-hydroxy amino acid (C3 vs C4); mass spectrometry (m/z 105 vs 119) or ninhydrin/HPLC amino-acid analysis." }, { "name": "L-Homoserine", "difference": "γ-hydroxy rather than β-hydroxy amino acid; different biosynthetic role (methionine/threonine pathway intermediate) and chromatographic retention." }, { "name": "DL-Threonine (racemate)", "difference": "Optical rotation near zero; CAS 80-68-2 vs 72-19-5 for the L-isomer." } ], "questions": [ { "id": "evidence-neighbours-q01", "text": "Which of these neighbouring kinds and how to tell them apart hold for the sense of L-threonine this model covers, and on what evidence?", "kind": "provenance" } ] } ] } ] } ] }, "openQuestions": [ "Does an existing Vercy world model already own L-threonine, and how should this registry entry link to it?", "Which authoritative analytical methods establish L-threonine identity and resolve relevant stereoisomer impurities at the limits needed for each intended use?", "Which use-specific specifications govern assay basis, impurity limits and acceptance, and what evidence is required beyond a supplier grade label?", "What measured solubility and stability evidence applies across the actual solvents, pH values, temperatures and storage durations to be modelled?", "How should registry boundaries represent protonation states and separately supplied salts while preserving a single source of truth for L-threonine?" ], "statistics": { "bundles": 5, "layers": 9, "findings": 16, "questions": 24 } }, "draft": { "generator": "vr.draft.v3", "status": "draft-generated", "researched": false, "archetype": "chemical substance or material", "method": "Written from the archetype playbook - what this kind of thing needs beyond identity and provenance - and from the structure that recurred across 6,333 models already researched by two engines. Applied to this entry by rule. No source was read for this thing and no claim here is researched. This entry carries no facets of its own, so they were inferred from its domain - a guess about a whole domain applied to one thing.", "facetsInferred": true, "nextPass": "A researcher replaces this draft with a sourced specification. Treat every sentence below as a proposal to argue with.", "purpose": "Give an agent a durable, checkable way to recognise a L-threonine, record what state it is in, and decide what may be done with it.", "whatItIs": "Enable an AI agent to recognise L-threonine, assess the identity and condition of a particular material, and determine whether it is suitable for a specified use.", "characteristics": { "substance": "material", "origin": "natural", "agency": "inert", "mobility": "varies" }, "whatYouCanDoWithIt": [ "observed and measured", "consumed or used up" ], "distinguishingFeatures": [ "Described in 61 Wikipedia languages, which is a measure of how widely the thing is known, not of how important it is." ], "openQuestionsForResearch": [ "Which of the bundles below does a real task actually need, and which are ceremony?", "What does this thing have that the facets do not capture at all?", "Which neighbouring kind is most often confused with a L-threonine, and on what evidence are they told apart?" ], "whatItIsMadeOf": "matter you can touch", "physicalCharacter": [ "Mobility varies between examples.", "Does nothing on its own; everything it does, something else did to it.", "These come from the domain this entry sits in rather than from the entry itself, so treat them as a first guess about the whole domain applied to one thing." ], "whatCanBeDoneWithIt": [ "observe it, measure it, record its state", "use it up, and then need more of it" ], "howItIsRecognised": [ "Not recognisable by sight in any reliable way. Appearance varies with grade, form and additives; identification is by label, by documentation, or by assay." ], "relatedModels": [], "standing": "Described in 61 Wikipedia languages, which measures how widely it is written about rather than how important or how common it is.", "structure": { "bundles": [ { "id": "identity-and-classification", "name": "Identity, naming and classification", "description": "How an agent tells one L-threonine from another, and a L-threonine from things that resemble it.", "rationale": "Recognition comes before every other claim. Without stable identity nothing else in the model can be trusted to be about the same thing twice.", "layers": [ { "id": "naming-and-identifiers", "name": "Names and identifiers", "description": "The names this thing goes by and the identifiers that survive translation and time.", "findings": [ { "id": "preferred-name-and-aliases", "name": "Preferred name, aliases and local names", "description": "Which name to use, which names mean the same thing, and which merely sound similar.", "questions": [ { "id": "preferred-name-and-aliases-q01", "text": "What identifies and describes the name of a L-threonine, and in what units or vocabulary?", "kind": "definition", "answer_data": [ "identifiers", "types and classes", "values with units", "explicit unknowns" ] }, { "id": "preferred-name-and-aliases-q02", "text": "Who or what asserted this about the name of a L-threonine, by which method, and when was it true?", "kind": "provenance", "answer_data": [ "authority", "method", "evidence", "event time", "knowledge time" ] }, { "id": "preferred-name-and-aliases-q03", "text": "What may an agent decide or do once the name of a L-threonine is known, and what must it refuse?", "kind": "action", "answer_data": [ "permitted actions", "preconditions", "refusals", "escalation" ] } ] }, { "id": "stable-identifiers", "name": "Stable identifiers and external keys", "description": "Identifiers that keep pointing at this kind of thing across systems and languages.", "questions": [ { "id": "stable-identifiers-q01", "text": "What identifies and describes an identifier for a L-threonine, and in what units or vocabulary?", "kind": "definition", "answer_data": [ "identifiers", "types and classes", "values with units", "explicit unknowns" ] }, { "id": "stable-identifiers-q02", "text": "Who or what asserted this about an identifier for a L-threonine, by which method, and when was it true?", "kind": "provenance", "answer_data": [ "authority", "method", "evidence", "event time", "knowledge time" ] }, { "id": "stable-identifiers-q03", "text": "What may an agent decide or do once an identifier for a L-threonine is known, and what must it refuse?", "kind": "action", "answer_data": [ "permitted actions", "preconditions", "refusals", "escalation" ] } ] } ] }, { "id": "classification-and-granularity", "name": "Classification and granularity", "description": "Where a L-threonine sits among kinds, and how finely a task needs to cut it.", "findings": [ { "id": "kind-and-parents", "name": "Kind, parents and neighbouring kinds", "description": "The classes this thing belongs to and the ones it is next to.", "questions": [ { "id": "kind-and-parents-q01", "text": "What identifies and describes the kind of a L-threonine, and in what units or vocabulary?", "kind": "definition", "answer_data": [ "identifiers", "types and classes", "values with units", "explicit unknowns" ] }, { "id": "kind-and-parents-q02", "text": "Who or what asserted this about the kind of a L-threonine, by which method, and when was it true?", "kind": "provenance", "answer_data": [ "authority", "method", "evidence", "event time", "knowledge time" ] }, { "id": "kind-and-parents-q03", "text": "What may an agent decide or do once the kind of a L-threonine is known, and what must it refuse?", "kind": "action", "answer_data": [ "permitted actions", "preconditions", "refusals", "escalation" ] } ] }, { "id": "distinguishing-features", "name": "Distinguishing features", "description": "What separates a L-threonine from the things most often confused with it.", "questions": [ { "id": "distinguishing-features-q01", "text": "What identifies and describes what distinguishes a L-threonine, and in what units or vocabulary?", "kind": "definition", "answer_data": [ "identifiers", "types and classes", "values with units", "explicit unknowns" ] }, { "id": "distinguishing-features-q02", "text": "Who or what asserted this about what distinguishes a L-threonine, by which method, and when was it true?", "kind": "provenance", "answer_data": [ "authority", "method", "evidence", "event time", "knowledge time" ] }, { "id": "distinguishing-features-q03", "text": "What may an agent decide or do once what distinguishes a L-threonine is known, and what must it refuse?", "kind": "action", "answer_data": [ "permitted actions", "preconditions", "refusals", "escalation" ] } ] } ] } ] }, { "id": "form-and-composition", "name": "Form, composition and condition", "description": "What a L-threonine is made of, what shape and size it takes, and what state it is in.", "rationale": "A physical thing can be measured, and a model that cannot record its measurements cannot support any decision that depends on them.", "layers": [ { "id": "form-and-dimensions", "name": "Form and dimensions", "description": "Shape, size, mass and the ranges these take across examples.", "findings": [ { "id": "measurable-dimensions", "name": "Measurable dimensions and their units", "description": "The quantities worth recording and the units they are recorded in.", "questions": [ { "id": "measurable-dimensions-q01", "text": "What identifies and describes the dimensions of a L-threonine, and in what units or vocabulary?", "kind": "definition", "answer_data": [ "identifiers", "types and classes", "values with units", "explicit unknowns" ] }, { "id": "measurable-dimensions-q02", "text": "Who or what asserted this about the dimensions of a L-threonine, by which method, and when was it true?", "kind": "provenance", "answer_data": [ "authority", "method", "evidence", "event time", "knowledge time" ] }, { "id": "measurable-dimensions-q03", "text": "What may an agent decide or do once the dimensions of a L-threonine is known, and what must it refuse?", "kind": "action", "answer_data": [ "permitted actions", "preconditions", "refusals", "escalation" ] } ] } ] }, { "id": "material-and-composition", "name": "Material and composition", "description": "Materials, parts and how they are put together.", "findings": [ { "id": "parts-and-materials", "name": "Parts and materials", "description": "What a L-threonine is built from and which parts are replaceable.", "questions": [ { "id": "parts-and-materials-q01", "text": "What identifies and describes the composition of a L-threonine, and in what units or vocabulary?", "kind": "definition", "answer_data": [ "identifiers", "types and classes", "values with units", "explicit unknowns" ] }, { "id": "parts-and-materials-q02", "text": "Who or what asserted this about the composition of a L-threonine, by which method, and when was it true?", "kind": "provenance", "answer_data": [ "authority", "method", "evidence", "event time", "knowledge time" ] }, { "id": "parts-and-materials-q03", "text": "What may an agent decide or do once the composition of a L-threonine is known, and what must it refuse?", "kind": "action", "answer_data": [ "permitted actions", "preconditions", "refusals", "escalation" ] } ] } ] }, { "id": "condition-and-integrity", "name": "Condition and integrity", "description": "Wear, damage, health and the difference between working and broken.", "findings": [ { "id": "condition-assessment", "name": "Condition, damage and health", "description": "How the condition of a L-threonine is judged and by whom.", "questions": [ { "id": "condition-assessment-q01", "text": "What identifies and describes the condition of a L-threonine, and in what units or vocabulary?", "kind": "definition", "answer_data": [ "identifiers", "types and classes", "values with units", "explicit unknowns" ] }, { "id": "condition-assessment-q02", "text": "Who or what asserted this about the condition of a L-threonine, by which method, and when was it true?", "kind": "provenance", "answer_data": [ "authority", "method", "evidence", "event time", "knowledge time" ] }, { "id": "condition-assessment-q03", "text": "What may an agent decide or do once the condition of a L-threonine is known, and what must it refuse?", "kind": "action", "answer_data": [ "permitted actions", "preconditions", "refusals", "escalation" ] } ] } ] } ] }, { "id": "place-and-movement", "name": "Place and movement", "description": "Where a L-threonine is, how it got there and where it may go (varies).", "rationale": "A thing that can move needs its position recorded with a time, or every later claim about it is about a place it has left.", "layers": [ { "id": "location-and-placement", "name": "Location and placement", "description": "Position, containment and the reference frame the position is given in.", "findings": [ { "id": "position-and-frame", "name": "Position, container and reference frame", "description": "Where a L-threonine is, and what that position is measured against.", "questions": [ { "id": "position-and-frame-q01", "text": "What identifies and describes the location of a L-threonine, and in what units or vocabulary?", "kind": "definition", "answer_data": [ "identifiers", "types and classes", "values with units", "explicit unknowns" ] }, { "id": "position-and-frame-q02", "text": "Who or what asserted this about the location of a L-threonine, by which method, and when was it true?", "kind": "provenance", "answer_data": [ "authority", "method", "evidence", "event time", "knowledge time" ] }, { "id": "position-and-frame-q03", "text": "What may an agent decide or do once the location of a L-threonine is known, and what must it refuse?", "kind": "action", "answer_data": [ "permitted actions", "preconditions", "refusals", "escalation" ] } ] } ] }, { "id": "movement-and-transfer", "name": "Movement and transfer", "description": "How a L-threonine is carried, installed or relocated.", "findings": [ { "id": "movement-events", "name": "Movement events and constraints", "description": "What counts as a movement, what records it and what limits it.", "questions": [ { "id": "movement-events-q01", "text": "What identifies and describes the movement of a L-threonine, and in what units or vocabulary?", "kind": "definition", "answer_data": [ "identifiers", "types and classes", "values with units", "explicit unknowns" ] }, { "id": "movement-events-q02", "text": "Who or what asserted this about the movement of a L-threonine, by which method, and when was it true?", "kind": "provenance", "answer_data": [ "authority", "method", "evidence", "event time", "knowledge time" ] }, { "id": "movement-events-q03", "text": "What may an agent decide or do once the movement of a L-threonine is known, and what must it refuse?", "kind": "action", "answer_data": [ "permitted actions", "preconditions", "refusals", "escalation" ] } ] } ] } ] }, { "id": "state-and-lifecycle", "name": "State and lifecycle", "description": "The states a L-threonine passes through and the events that move it between them.", "rationale": "Most decisions about a thing depend on what state it is in now, which is a claim with a time on it, not a property.", "layers": [ { "id": "lifecycle-stages", "name": "Lifecycle stages", "description": "From coming into existence to ceasing to be one of these.", "findings": [ { "id": "stages-and-transitions", "name": "Stages and transitions", "description": "The stages worth naming and what moves a L-threonine between them.", "questions": [ { "id": "stages-and-transitions-q01", "text": "What identifies and describes the lifecycle of a L-threonine, and in what units or vocabulary?", "kind": "definition", "answer_data": [ "identifiers", "types and classes", "values with units", "explicit unknowns" ] }, { "id": "stages-and-transitions-q02", "text": "Who or what asserted this about the lifecycle of a L-threonine, by which method, and when was it true?", "kind": "provenance", "answer_data": [ "authority", "method", "evidence", "event time", "knowledge time" ] }, { "id": "stages-and-transitions-q03", "text": "What may an agent decide or do once the lifecycle of a L-threonine is known, and what must it refuse?", "kind": "action", "answer_data": [ "permitted actions", "preconditions", "refusals", "escalation" ] } ] } ] }, { "id": "observations-and-status", "name": "Observations and current status", "description": "What is observed about a L-threonine, how often and by whom.", "findings": [ { "id": "observation-record", "name": "Observation record", "description": "How an observation of a L-threonine is recorded so that it can be superseded rather than overwritten.", "questions": [ { "id": "observation-record-q01", "text": "What identifies and describes an observation of a L-threonine, and in what units or vocabulary?", "kind": "definition", "answer_data": [ "identifiers", "types and classes", "values with units", "explicit unknowns" ] }, { "id": "observation-record-q02", "text": "Who or what asserted this about an observation of a L-threonine, by which method, and when was it true?", "kind": "provenance", "answer_data": [ "authority", "method", "evidence", "event time", "knowledge time" ] }, { "id": "observation-record-q03", "text": "What may an agent decide or do once an observation of a L-threonine is known, and what must it refuse?", "kind": "action", "answer_data": [ "permitted actions", "preconditions", "refusals", "escalation" ] } ] } ] } ] }, { "id": "use-and-operation", "name": "Use and operation", "description": "What can be done with a L-threonine and what it takes to do it.", "rationale": "An agent that can recognise a thing but not act on it has only half a model.", "layers": [ { "id": "intended-use", "name": "Intended use and function", "description": "What a L-threonine is for, and what it is used for anyway.", "findings": [ { "id": "function-and-purpose", "name": "Function, purpose and misuse", "description": "The function a L-threonine performs and the uses that fall outside it.", "questions": [ { "id": "function-and-purpose-q01", "text": "What identifies and describes the use of a L-threonine, and in what units or vocabulary?", "kind": "definition", "answer_data": [ "identifiers", "types and classes", "values with units", "explicit unknowns" ] }, { "id": "function-and-purpose-q02", "text": "Who or what asserted this about the use of a L-threonine, by which method, and when was it true?", "kind": "provenance", "answer_data": [ "authority", "method", "evidence", "event time", "knowledge time" ] }, { "id": "function-and-purpose-q03", "text": "What may an agent decide or do once the use of a L-threonine is known, and what must it refuse?", "kind": "action", "answer_data": [ "permitted actions", "preconditions", "refusals", "escalation" ] } ] } ] }, { "id": "handling-and-procedure", "name": "Handling and procedure", "description": "The steps, skills and tools involved in using a L-threonine.", "findings": [ { "id": "procedures-and-skills", "name": "Procedures, skills and required tools", "description": "What an agent needs before it can act on a L-threonine at all.", "questions": [ { "id": "procedures-and-skills-q01", "text": "What identifies and describes handling a L-threonine, and in what units or vocabulary?", "kind": "definition", "answer_data": [ "identifiers", "types and classes", "values with units", "explicit unknowns" ] }, { "id": "procedures-and-skills-q02", "text": "Who or what asserted this about handling a L-threonine, by which method, and when was it true?", "kind": "provenance", "answer_data": [ "authority", "method", "evidence", "event time", "knowledge time" ] }, { "id": "procedures-and-skills-q03", "text": "What may an agent decide or do once handling a L-threonine is known, and what must it refuse?", "kind": "action", "answer_data": [ "permitted actions", "preconditions", "refusals", "escalation" ] } ] } ] }, { "id": "supply-and-consumption", "name": "Supply and consumption", "description": "Quantities, rates and what running out means.", "findings": [ { "id": "consumption-and-stock", "name": "Consumption, stock and replenishment", "description": "How much of a L-threonine there is and how fast it goes.", "questions": [ { "id": "consumption-and-stock-q01", "text": "What identifies and describes the supply of a L-threonine, and in what units or vocabulary?", "kind": "definition", "answer_data": [ "identifiers", "types and classes", "values with units", "explicit unknowns" ] }, { "id": "consumption-and-stock-q02", "text": "Who or what asserted this about the supply of a L-threonine, by which method, and when was it true?", "kind": "provenance", "answer_data": [ "authority", "method", "evidence", "event time", "knowledge time" ] }, { "id": "consumption-and-stock-q03", "text": "What may an agent decide or do once the supply of a L-threonine is known, and what must it refuse?", "kind": "action", "answer_data": [ "permitted actions", "preconditions", "refusals", "escalation" ] } ] } ] } ] }, { "id": "composition-and-identity", "name": "Composition, grade and chemical identity", "description": "What L-threonine is made of and how pure the thing in hand is.", "rationale": "Grade decides what a substance may be used for, so a model that records only the name cannot support any decision about use.", "layers": [ { "id": "chemical-identity", "name": "Chemical identity", "description": "Formula, structure and the registry numbers that name it unambiguously.", "findings": [ { "id": "identity-record", "name": "Identity and registry numbers", "description": "What identifies this substance across suppliers and regulators.", "questions": [ { "id": "identity-record-q01", "text": "What formula, structure and registry identifiers name L-threonine unambiguously?", "kind": "definition" }, { "id": "identity-record-q02", "text": "Which related substances share a name in common use but not an identifier?", "kind": "boundary" } ] } ] }, { "id": "grade-and-impurities", "name": "Grade, purity and impurities", "description": "The specification a batch meets and what else is in it.", "findings": [ { "id": "specification", "name": "Specification and assay", "description": "How purity is stated and measured, and which impurities matter.", "questions": [ { "id": "specification-q01", "text": "What grades of L-threonine exist, how is purity assayed, and which impurities are limited?", "kind": "measurement" }, { "id": "specification-q02", "text": "Which use requires which grade, and what happens when a lower grade is substituted?", "kind": "action" } ] } ] } ] }, { "id": "properties-and-behaviour", "name": "Properties and behaviour", "description": "How L-threonine behaves under conditions an agent can measure or change.", "rationale": "Physical constants are the part of a substance model that transfers between contexts, and each needs its unit and its conditions.", "layers": [ { "id": "physical-constants", "name": "Physical constants", "description": "Values that hold for the pure substance, with their conditions.", "findings": [ { "id": "constants-record", "name": "Constants and conditions", "description": "The quantities worth recording and the state they apply in.", "questions": [ { "id": "constants-record-q01", "text": "What are the defining physical constants of L-threonine, in what units and under what conditions?", "kind": "measurement" }, { "id": "constants-record-q02", "text": "Which of these values change with grade or form rather than being fixed?", "kind": "boundary" } ] } ] }, { "id": "stability-and-reactivity", "name": "Stability and reactivity", "description": "What it reacts with, degrades into, and how it is stored.", "findings": [ { "id": "incompatibilities", "name": "Incompatibilities and degradation", "description": "What must not meet it, and what it becomes over time.", "questions": [ { "id": "incompatibilities-q01", "text": "What is L-threonine incompatible with, and what does it degrade into under storage?", "kind": "definition" }, { "id": "incompatibilities-q02", "text": "What storage and handling does that require, and who is competent to do it?", "kind": "action" } ] } ] } ] }, { "id": "hazard-and-regulation", "name": "Hazard classification and regulation", "description": "How L-threonine can harm, and what the law says about holding and moving it.", "rationale": "A substance model without its hazard class and its regulatory identity is unusable in exactly the situations that matter.", "layers": [ { "id": "hazard-class", "name": "Hazard classification", "description": "Classified hazards, exposure limits and protective measures.", "findings": [ { "id": "classified-hazards", "name": "Classified hazards and limits", "description": "The classification, the scheme it belongs to, and the limits set.", "questions": [ { "id": "classified-hazards-q01", "text": "How is L-threonine classified for hazard, under which scheme, and what exposure limits apply?", "kind": "definition" }, { "id": "classified-hazards-q02", "text": "What protection does handling require, and what must an agent refuse to do without it?", "kind": "action" } ] } ] }, { "id": "regulatory-identity", "name": "Regulatory identity and control", "description": "Registration, restriction and transport rules by jurisdiction.", "findings": [ { "id": "controls", "name": "Controls and jurisdiction", "description": "Where it is restricted and what the restriction attaches to.", "questions": [ { "id": "controls-q01", "text": "Which registrations, restrictions or transport rules cover L-threonine, and where?", "kind": "provenance" }, { "id": "controls-q02", "text": "Does the control attach to the substance, its concentration, or its intended use?", "kind": "boundary" } ] } ] } ] }, { "id": "provenance-and-evidence", "name": "Provenance, evidence and time", "description": "Where every claim about a L-threonine came from and when it held.", "rationale": "A claim without a source and a time cannot be superseded, only overwritten, and an agent that overwrites loses the ability to explain itself.", "layers": [ { "id": "source-and-authority", "name": "Source and authority", "description": "Who said it, on what evidence, and how strongly.", "findings": [ { "id": "claim-provenance", "name": "Claim provenance and confidence", "description": "The authority behind each claim about a L-threonine and how confident it is.", "questions": [ { "id": "claim-provenance-q01", "text": "What identifies and describes a claim about a L-threonine, and in what units or vocabulary?", "kind": "definition", "answer_data": [ "identifiers", "types and classes", "values with units", "explicit unknowns" ] }, { "id": "claim-provenance-q02", "text": "Who or what asserted this about a claim about a L-threonine, by which method, and when was it true?", "kind": "provenance", "answer_data": [ "authority", "method", "evidence", "event time", "knowledge time" ] }, { "id": "claim-provenance-q03", "text": "What may an agent decide or do once a claim about a L-threonine is known, and what must it refuse?", "kind": "action", "answer_data": [ "permitted actions", "preconditions", "refusals", "escalation" ] } ] } ] }, { "id": "time-and-versions", "name": "Time, versions and supersession", "description": "When a claim was true, when it was learnt, and what replaced it.", "findings": [ { "id": "validity-and-supersession", "name": "Validity period and supersession", "description": "How an old claim about a L-threonine is retired without being erased.", "questions": [ { "id": "validity-and-supersession-q01", "text": "What identifies and describes the validity of a claim about a L-threonine, and in what units or vocabulary?", "kind": "definition", "answer_data": [ "identifiers", "types and classes", "values with units", "explicit unknowns" ] }, { "id": "validity-and-supersession-q02", "text": "Who or what asserted this about the validity of a claim about a L-threonine, by which method, and when was it true?", "kind": "provenance", "answer_data": [ "authority", "method", "evidence", "event time", "knowledge time" ] }, { "id": "validity-and-supersession-q03", "text": "What may an agent decide or do once the validity of a claim about a L-threonine is known, and what must it refuse?", "kind": "action", "answer_data": [ "permitted actions", "preconditions", "refusals", "escalation" ] } ] } ] } ] } ] }, "statistics": { "bundles": 9, "layers": 20, "findings": 22, "questions": 60 } } } }