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@prefix : <https://w3id.org/pmd/cryo/> .
@prefix co: <https://w3id.org/pmd/co/> .
@prefix dce: <http://purl.org/dc/elements/1.1/> .
@prefix obo: <http://purl.obolibrary.org/obo/> .
@prefix owl: <http://www.w3.org/2002/07/owl#> .
@prefix rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#> .
@prefix xml: <http://www.w3.org/XML/1998/namespace> .
@prefix xsd: <http://www.w3.org/2001/XMLSchema#> .
@prefix cryo: <https://w3id.org/pmd/cryo/> .
@prefix rdfs: <http://www.w3.org/2000/01/rdf-schema#> .
@prefix skos: <http://www.w3.org/2004/02/skos/core#> .
@prefix dcterms: <http://purl.org/dc/terms/> .
@base <https://w3id.org/pmd/cryo/> .
<https://w3id.org/pmd/cryo/> rdf:type owl:Ontology ;
owl:versionIRI <https://w3id.org/pmd/cryo/2026-08-13> ;
dce:type obo:IAO_8000001 ;
dcterms:bibliographicCitation "cryo: Crystallography Subdomain Ontology. Version 2026-08-13, https://w3id.org/pmd/cryo/" ;
dcterms:created "2026-08-13" ;
dcterms:creator <https://orcid.org/0000-0003-0744-8855> ,
<https://orcid.org/0009-0003-1503-4422> ;
dcterms:description "CryO is an subdomain-level ontology based on the PMdco 3.x. It's primary goal to formally describe symmetries of crystal lattices and provide a semantic foundation for the annotation of .cif files." ;
dcterms:license <https://creativecommons.org/licenses/by/4.0/> ;
dcterms:title "CRYO PMD: Crystallography Subdomain Ontology based on PMDco 3.x" ;
owl:priorVersion <https://w3id.org/pmd/cryo/> ;
owl:versionInfo "2026-08-13" .
#################################################################
# Annotation properties
#################################################################
### http://purl.obolibrary.org/obo/IAO_0000114
obo:IAO_0000114 rdf:type owl:AnnotationProperty .
### http://purl.obolibrary.org/obo/IAO_0000117
obo:IAO_0000117 rdf:type owl:AnnotationProperty .
### http://purl.org/dc/elements/1.1/type
dce:type rdf:type owl:AnnotationProperty .
### http://purl.org/dc/terms/bibliographicCitation
dcterms:bibliographicCitation rdf:type owl:AnnotationProperty .
### http://purl.org/dc/terms/created
dcterms:created rdf:type owl:AnnotationProperty .
### http://purl.org/dc/terms/creator
dcterms:creator rdf:type owl:AnnotationProperty .
### http://purl.org/dc/terms/description
dcterms:description rdf:type owl:AnnotationProperty .
### http://purl.org/dc/terms/license
dcterms:license rdf:type owl:AnnotationProperty .
### http://purl.org/dc/terms/title
dcterms:title rdf:type owl:AnnotationProperty .
### http://www.w3.org/2004/02/skos/core#altLabel
skos:altLabel rdf:type owl:AnnotationProperty .
### http://www.w3.org/2004/02/skos/core#definition
skos:definition rdf:type owl:AnnotationProperty .
### http://www.w3.org/2004/02/skos/core#example
skos:example rdf:type owl:AnnotationProperty .
### https://w3id.org/pmd/co/PMD_0000060
co:PMD_0000060 rdf:type owl:AnnotationProperty .
#################################################################
# Object Properties
#################################################################
### http://purl.obolibrary.org/obo/BFO_0000050
obo:BFO_0000050 rdf:type owl:ObjectProperty .
### http://purl.obolibrary.org/obo/BFO_0000051
obo:BFO_0000051 rdf:type owl:ObjectProperty .
### http://purl.obolibrary.org/obo/IAO_0000219
obo:IAO_0000219 rdf:type owl:ObjectProperty .
### http://purl.obolibrary.org/obo/IAO_0000235
obo:IAO_0000235 rdf:type owl:ObjectProperty .
### http://purl.obolibrary.org/obo/OBI_0001927
obo:OBI_0001927 rdf:type owl:ObjectProperty .
### http://purl.obolibrary.org/obo/RO_0000080
obo:RO_0000080 rdf:type owl:ObjectProperty .
### http://purl.obolibrary.org/obo/RO_0000086
obo:RO_0000086 rdf:type owl:ObjectProperty .
### http://purl.obolibrary.org/obo/RO_0001015
obo:RO_0001015 rdf:type owl:ObjectProperty .
### http://purl.obolibrary.org/obo/RO_0001025
obo:RO_0001025 rdf:type owl:ObjectProperty .
### http://purl.obolibrary.org/obo/RO_0002350
obo:RO_0002350 rdf:type owl:ObjectProperty .
### http://purl.obolibrary.org/obo/RO_0002351
obo:RO_0002351 rdf:type owl:ObjectProperty .
### https://w3id.org/pmd/co/PMD_0000004
co:PMD_0000004 rdf:type owl:ObjectProperty ;
obo:IAO_0000114 obo:IAO_0000122 ;
obo:IAO_0000117 "PERSON: Joerg Waitelonis" ;
rdfs:label "is subject of"@en ;
skos:definition "Inverse of 'is about'."@en .
### https://w3id.org/pmd/co/PMD_0000077
co:PMD_0000077 rdf:type owl:ObjectProperty ;
rdfs:subPropertyOf co:PMD_0000004 ;
obo:IAO_0000114 obo:IAO_0000122 ;
obo:IAO_0000117 "PERSON: Joerg Waitelonis" ;
rdfs:label "specified by value"@en ;
skos:definition "A relation between an entity and a value specification which is about this entity."@en .
### https://w3id.org/pmd/co/PMD_0025999
co:PMD_0025999 rdf:type owl:ObjectProperty .
### https://w3id.org/pmd/cryo/CRYO_0000050
cryo:CRYO_0000050 rdf:type owl:ObjectProperty ;
rdfs:subPropertyOf cryo:CRYO_0000053 ;
rdfs:label "is tetragonal"@en ;
skos:definition "is tetragonal is a object property for the inference of family of directions/planes Miller indices notation under tetragonal symmetry. The class crystallographic entity in tetragonal system carries a Self restriction \"is tetragonal\""@en .
### https://w3id.org/pmd/cryo/CRYO_0000051
cryo:CRYO_0000051 rdf:type owl:ObjectProperty ;
rdfs:subPropertyOf cryo:CRYO_0000164 ;
rdfs:domain cryo:CRYO_0000122 ;
owl:propertyChainAxiom ( obo:IAO_0000235
cryo:CRYO_0000050
obo:RO_0002350
cryo:CRYO_0000050
) ;
rdfs:label "denoted by family under tetragonal symmetry"@en ;
skos:definition "denoted by family under tetragonal symmetry is an object property between a crystallographic entity in tetragonal system, i.e., plane or direction, and the family of Miller indices." .
### https://w3id.org/pmd/cryo/CRYO_0000052
cryo:CRYO_0000052 rdf:type owl:ObjectProperty ;
rdfs:subPropertyOf owl:topObjectProperty ;
owl:propertyChainAxiom ( cryo:CRYO_0000050
cryo:CRYO_0000152
) ;
rdfs:label "has Miller indices family under tetragonal symmetry"@en ;
owl:deprecated "true"^^xsd:boolean .
### https://w3id.org/pmd/cryo/CRYO_0000053
cryo:CRYO_0000053 rdf:type owl:ObjectProperty ;
rdfs:subPropertyOf owl:topObjectProperty ;
rdfs:comment """DO NOT USE DIRECTLY
For taxonomy purpose only""" ;
rdfs:label "has symmetry"@de ;
skos:definition "has symmetry is a top-level object property which gathers other symmetry/lattice system-specific object properties for the inference of family of directions/planes Miller indices notation"@en .
### https://w3id.org/pmd/cryo/CRYO_0000054
cryo:CRYO_0000054 rdf:type owl:ObjectProperty ;
rdfs:subPropertyOf cryo:CRYO_0000053 ;
rdfs:label "is triclinic"@de ;
skos:definition "is triclinic is a object property for the inference of family of directions/planes Miller indices notation under triclinic symmetry. The class crystallographic entity in triclinic system carries a Self restriction \"is triclinic\""@en .
### https://w3id.org/pmd/cryo/CRYO_0000055
cryo:CRYO_0000055 rdf:type owl:ObjectProperty ;
rdfs:subPropertyOf cryo:CRYO_0000053 ;
rdfs:label "is monoclinic"@de ;
skos:definition "is monoclinic is a object property for the inference of family of directions/planes Miller indices notation under monoclinic symmetry. The class crystallographic entity in monoclinic system carries a Self restriction \"is monoclinic\""@en .
### https://w3id.org/pmd/cryo/CRYO_0000056
cryo:CRYO_0000056 rdf:type owl:ObjectProperty ;
rdfs:subPropertyOf cryo:CRYO_0000053 ;
rdfs:label "is orthorhombic"@de ;
skos:definition "is orthorhombic is a object property for the inference of family of directions/planes Miller indices notation under orthorhombic symmetry. The class crystallographic entity in orthorhombic system carries a Self restriction \"is orthorhombic\""@en .
### https://w3id.org/pmd/cryo/CRYO_0000057
cryo:CRYO_0000057 rdf:type owl:ObjectProperty ;
rdfs:subPropertyOf cryo:CRYO_0000053 ;
rdfs:label "is rhombohedral"@de ;
skos:definition "is rhombohedral is a object property for the inference of family of directions/planes Miller indices notation under rhombohedral symmetry. The class crystallographic entity in rhombohedral system carries a Self restriction \"is rhombohedral\""@en .
### https://w3id.org/pmd/cryo/CRYO_0000058
cryo:CRYO_0000058 rdf:type owl:ObjectProperty ;
rdfs:subPropertyOf cryo:CRYO_0000053 ;
rdfs:label "is hexagonal"@de ;
skos:definition "is hexagonal is a object property for the inference of family of directions/planes Miller indices notation under hexagonal symmetry. The class crystallographic entity in hexagonal system carries a Self restriction \"is hexagonal\""@en .
### https://w3id.org/pmd/cryo/CRYO_0000059
cryo:CRYO_0000059 rdf:type owl:ObjectProperty ;
rdfs:subPropertyOf cryo:CRYO_0000164 ;
rdfs:domain cryo:CRYO_0000119 ;
owl:propertyChainAxiom ( obo:IAO_0000235
cryo:CRYO_0000054
obo:RO_0002350
cryo:CRYO_0000054
) ;
rdfs:label "denoted by family under triclinic symmetry"@en ;
skos:definition "denoted by family under triclinic symmetry is an object property between a crystallographic entity in triclinic system, i.e., plane or direction, and the family of Miller indices."@en .
### https://w3id.org/pmd/cryo/CRYO_0000060
cryo:CRYO_0000060 rdf:type owl:ObjectProperty ;
rdfs:subPropertyOf cryo:CRYO_0000164 ;
rdfs:domain cryo:CRYO_0000120 ;
owl:propertyChainAxiom ( obo:IAO_0000235
cryo:CRYO_0000055
obo:RO_0002350
cryo:CRYO_0000055
) ;
rdfs:label "denoted by family under monoclinic symmetry"@de ;
skos:definition "denoted by family under monoclinic symmetry is an object property between a crystallographic entity in monoclinic system, i.e., plane or direction, and the family of Miller indices."@en .
### https://w3id.org/pmd/cryo/CRYO_0000061
cryo:CRYO_0000061 rdf:type owl:ObjectProperty ;
rdfs:subPropertyOf cryo:CRYO_0000164 ;
rdfs:domain cryo:CRYO_0000121 ;
owl:propertyChainAxiom ( obo:IAO_0000235
cryo:CRYO_0000056
obo:RO_0002350
cryo:CRYO_0000056
) ;
rdfs:label "denoted by family under orthorhombic symmetry"@de ;
skos:definition "denoted by family under orthorhombic symmetry is an object property between a crystallographic entity in orthorhombic system, i.e., plane or direction, and the family of Miller indices."@en .
### https://w3id.org/pmd/cryo/CRYO_0000062
cryo:CRYO_0000062 rdf:type owl:ObjectProperty ;
rdfs:subPropertyOf cryo:CRYO_0000164 ;
rdfs:domain cryo:CRYO_0000123 ;
owl:propertyChainAxiom ( obo:IAO_0000235
cryo:CRYO_0000057
obo:RO_0002350
cryo:CRYO_0000057
) ;
rdfs:label "denoted by family under rhombohedral symmetry"@de ;
skos:definition "denoted by family under rhombohedral symmetry is an object property between a crystallographic entity in rhombohedral system, i.e., plane or direction, and the family of Miller indices."@en .
### https://w3id.org/pmd/cryo/CRYO_0000063
cryo:CRYO_0000063 rdf:type owl:ObjectProperty ;
rdfs:subPropertyOf cryo:CRYO_0000164 ;
rdfs:domain cryo:CRYO_0000129 ;
owl:propertyChainAxiom ( obo:IAO_0000235
cryo:CRYO_0000058
obo:RO_0002350
cryo:CRYO_0000058
) ;
rdfs:label "denoted by family under hexagonal symmetry"@de ;
skos:definition "denoted by family under hexagonal symmetry is an object property between a crystallographic entity in hexagonal system, i.e., plane or direction, and the family of Miller indices."@en .
### https://w3id.org/pmd/cryo/CRYO_0000152
cryo:CRYO_0000152 rdf:type owl:ObjectProperty ;
owl:inverseOf cryo:CRYO_0000157 ;
rdfs:domain cryo:CRYO_0000124 ;
rdfs:range [ rdf:type owl:Class ;
owl:unionOf ( cryo:CRYO_0000021
cryo:CRYO_0000023
)
] ;
rdfs:label "has Miller indices family"@en ;
owl:deprecated "true"^^xsd:boolean .
### https://w3id.org/pmd/cryo/CRYO_0000157
cryo:CRYO_0000157 rdf:type owl:ObjectProperty ;
rdfs:subPropertyOf owl:topObjectProperty ;
rdfs:label "Miller indices family of"@en ;
owl:deprecated "true"^^xsd:boolean .
### https://w3id.org/pmd/cryo/CRYO_0000158
cryo:CRYO_0000158 rdf:type owl:ObjectProperty ;
rdfs:subPropertyOf owl:topObjectProperty ;
rdfs:domain cryo:CRYO_0000124 ;
rdfs:range cryo:CRYO_0000028 ;
rdfs:label "under symmetry"@en ;
owl:deprecated "true"^^xsd:boolean .
### https://w3id.org/pmd/cryo/CRYO_0000162
cryo:CRYO_0000162 rdf:type owl:ObjectProperty ;
rdfs:subPropertyOf owl:topObjectProperty ;
rdfs:domain cryo:CRYO_0000143 ,
[ owl:intersectionOf ( cryo:CRYO_0000124
[ rdf:type owl:Restriction ;
owl:onProperty cryo:CRYO_0000158 ;
owl:hasValue cryo:CRYO_0000035
]
) ;
rdf:type owl:Class
] ;
owl:propertyChainAxiom ( cryo:CRYO_0000170
cryo:CRYO_0000152
) ;
rdfs:label "has Miller indices family under cubic symmetry"@en ;
owl:deprecated "true"^^xsd:boolean .
### https://w3id.org/pmd/cryo/CRYO_0000164
cryo:CRYO_0000164 rdf:type owl:ObjectProperty ;
rdfs:subPropertyOf owl:topObjectProperty ;
rdfs:range [ rdf:type owl:Class ;
owl:unionOf ( cryo:CRYO_0000021
cryo:CRYO_0000023
)
] ;
rdfs:comment "Intentially not a sub-property of \"denoted by\" as this rescticts using \"denoted by\" in property chains of its sub-properties" ,
"The sub-properties are inferrable through corresponding property chains" ;
rdfs:label "denoted by family"@en ;
skos:definition "denoted by family is a top-level object property between a crystallographic entity, i.e., plane or direction, and the family of Miller indices"@en ;
skos:example "Consider a (011) crystallographic plane in cubic lattice, i.e., the instance of the plane is denoted by (011) instance. The instance of the plane is be inferred to be of type \"crystallographic entity in cubic system\" and carries \"is cubic\" reftexive triple. The (011) is a member of {110} family of Miller indices. The property chain \"is cubic + denoted by + member of\" will infer that the plane is denoted by {110} in a cubic lattice."@en .
### https://w3id.org/pmd/cryo/CRYO_0000168
cryo:CRYO_0000168 rdf:type owl:ObjectProperty ;
rdfs:subPropertyOf cryo:CRYO_0000164 ;
rdfs:domain cryo:CRYO_0000041 ;
owl:propertyChainAxiom ( cryo:CRYO_0000170
obo:IAO_0000235
obo:RO_0002350
) ;
rdfs:label "denoted by family under cubic symmetry" ;
skos:definition "denoted by family under cubic symmetry is an object property between a crystallographic entity in cubic system, i.e., plane or direction, and the family of Miller indices."@en .
### https://w3id.org/pmd/cryo/CRYO_0000170
cryo:CRYO_0000170 rdf:type owl:ObjectProperty ;
rdfs:subPropertyOf cryo:CRYO_0000053 ;
rdfs:label "is cubic" ;
skos:definition "is cubic is a object property for the inference of family of directions/planes Miller indices notation. The class crystallographic entity in cubic system carries a Self restriction \"is cubic\""@en .
#################################################################
# Data properties
#################################################################
### https://w3id.org/pmd/co/PMD_0000006
co:PMD_0000006 rdf:type owl:DatatypeProperty ;
rdfs:range xsd:double .
### https://w3id.org/pmd/cryo/CRYO_0000016
cryo:CRYO_0000016 rdf:type owl:DatatypeProperty ;
rdfs:domain cryo:CRYO_0000014 ;
rdfs:range xsd:string ;
rdfs:label "has Miller indices"@en ;
skos:definition "has Miller indices is an annotation property to specify Miller indices of crystallographic plane, direction, or family of equivalent planes or directions"@en .
### https://w3id.org/pmd/cryo/CRYO_0000019
cryo:CRYO_0000019 rdf:type owl:DatatypeProperty ;
rdfs:subPropertyOf co:PMD_0000006 ;
rdfs:domain [ rdf:type owl:Class ;
owl:unionOf ( cryo:CRYO_0000020
cryo:CRYO_0000022
)
] ;
rdfs:comment "Top-level data property, do not use directly"@en ;
rdfs:label "has Miller index"@en ;
skos:definition "data property to point only to individual integers in the Miller indices notation only for single planes and directions"@en .
### https://w3id.org/pmd/cryo/CRYO_0000144
cryo:CRYO_0000144 rdf:type owl:DatatypeProperty ;
rdfs:label "has space group notation"@en .
### https://w3id.org/pmd/cryo/CRYO_0000145
cryo:CRYO_0000145 rdf:type owl:DatatypeProperty ;
rdfs:subPropertyOf cryo:CRYO_0000144 ;
rdfs:range xsd:integer ;
rdfs:label "has international space group number"@en .
### https://w3id.org/pmd/cryo/CRYO_0000146
cryo:CRYO_0000146 rdf:type owl:DatatypeProperty ;
rdfs:subPropertyOf cryo:CRYO_0000144 ;
rdfs:range xsd:string ;
rdfs:label "has Hermann-Mauguin symbol"@en .
### https://w3id.org/pmd/cryo/CRYO_0000147
cryo:CRYO_0000147 rdf:type owl:DatatypeProperty ;
rdfs:subPropertyOf cryo:CRYO_0000144 ;
rdfs:range xsd:string ;
rdfs:label "has Hall symbol"@en .
### https://w3id.org/pmd/cryo/CRYO_0000148
cryo:CRYO_0000148 rdf:type owl:DatatypeProperty ;
rdfs:subPropertyOf cryo:CRYO_0000144 ;
rdfs:range xsd:string ;
rdfs:label "has Schoenflies symbol"@en .
### https://w3id.org/pmd/cryo/CRYO_0000398
cryo:CRYO_0000398 rdf:type owl:DatatypeProperty ;
rdfs:subPropertyOf cryo:CRYO_0000019 ;
rdfs:range xsd:integer ;
rdfs:label "has h"@en ;
skos:definition "has h is a data property that associates a crystallographic plane with an integer representing its Miller index along the x-axis of the unit cell"@en .
### https://w3id.org/pmd/cryo/CRYO_0000399
cryo:CRYO_0000399 rdf:type owl:DatatypeProperty ;
rdfs:subPropertyOf cryo:CRYO_0000019 ;
rdfs:range xsd:integer ;
rdfs:label "has l"@en ;
skos:definition "has l is a data property that associates a crystallographic plane with an integer representing its Miller index along the z-axis of the unit cell"@en .
### https://w3id.org/pmd/cryo/CRYO_0000400
cryo:CRYO_0000400 rdf:type owl:DatatypeProperty ;
rdfs:subPropertyOf cryo:CRYO_0000019 ;
rdfs:range xsd:integer ;
rdfs:label "has k"@en ;
skos:definition "has k is a data property that associates a crystallographic plane with an integer representing its Miller index along the y-axis of the unit cell"@en .
### https://w3id.org/pmd/cryo/CRYO_0000401
cryo:CRYO_0000401 rdf:type owl:DatatypeProperty ;
rdfs:subPropertyOf co:PMD_0000006 ;
rdfs:domain cryo:CRYO_0000024 ;
rdfs:label "has coordinate"@en ;
skos:definition "has coordinate is a top-level data property to point to values of x-, y-, and z-coordinates in cortesian coordinate system"@en .
### https://w3id.org/pmd/cryo/CRYO_0000402
cryo:CRYO_0000402 rdf:type owl:DatatypeProperty ;
rdfs:subPropertyOf cryo:CRYO_0000401 ;
rdfs:label "has x"@en ;
skos:definition "has x is a data property that specifies the position of a point along the x-axis in cartesian coordinate system"@en .
### https://w3id.org/pmd/cryo/CRYO_0000403
cryo:CRYO_0000403 rdf:type owl:DatatypeProperty ;
rdfs:subPropertyOf cryo:CRYO_0000401 ;
rdfs:label "has y"@en ;
skos:definition "has y is a data property that specifies the position of a point along the y-axis in cartesian coordinate system" .
### https://w3id.org/pmd/cryo/CRYO_0000404
cryo:CRYO_0000404 rdf:type owl:DatatypeProperty ;
rdfs:subPropertyOf cryo:CRYO_0000401 ;
rdfs:label "has z"@en ;
skos:definition "has z is a data property that specifies the position of a point along the z-axis in cartesian coordinate system" .
#################################################################
# Classes
#################################################################
### http://purl.obolibrary.org/obo/BFO_0000019
obo:BFO_0000019 rdf:type owl:Class .
### http://purl.obolibrary.org/obo/BFO_0000024
obo:BFO_0000024 rdf:type owl:Class .
### http://purl.obolibrary.org/obo/BFO_0000027
obo:BFO_0000027 rdf:type owl:Class .
### http://purl.obolibrary.org/obo/BFO_0000029
obo:BFO_0000029 rdf:type owl:Class .
### http://purl.obolibrary.org/obo/BFO_0000030
obo:BFO_0000030 rdf:type owl:Class .
### http://purl.obolibrary.org/obo/BFO_0000141
obo:BFO_0000141 rdf:type owl:Class .
### http://purl.obolibrary.org/obo/BFO_0000142
obo:BFO_0000142 rdf:type owl:Class .
### http://purl.obolibrary.org/obo/BFO_0000145
obo:BFO_0000145 rdf:type owl:Class .
### http://purl.obolibrary.org/obo/BFO_0000146
obo:BFO_0000146 rdf:type owl:Class .
### http://purl.obolibrary.org/obo/BFO_0000147
obo:BFO_0000147 rdf:type owl:Class .
### http://purl.obolibrary.org/obo/CHEBI_33250
obo:CHEBI_33250 rdf:type owl:Class .
### http://purl.obolibrary.org/obo/IAO_0000027
obo:IAO_0000027 rdf:type owl:Class .
### http://purl.obolibrary.org/obo/IAO_0000030
obo:IAO_0000030 rdf:type owl:Class .
### http://purl.obolibrary.org/obo/OBI_0001930
obo:OBI_0001930 rdf:type owl:Class .
### http://purl.obolibrary.org/obo/OBI_0001933
obo:OBI_0001933 rdf:type owl:Class .
### https://w3id.org/pmd/co/PMD_0000663
co:PMD_0000663 rdf:type owl:Class ;
rdfs:subClassOf co:PMD_0020003 ;
rdfs:label "crystallite"@en ,
"kristallit"@de ;
skos:altLabel "Korn"@de ,
"grain"@en ;
skos:definition "A crystal grain is a crystal that is part of a polycrystal."@en ;
co:PMD_0000060 "true"^^xsd:boolean .
### https://w3id.org/pmd/co/PMD_0020003
co:PMD_0020003 rdf:type owl:Class ;
rdfs:subClassOf obo:BFO_0000030 ;
obo:IAO_0000114 obo:IAO_0000122 ;
obo:IAO_0000117 "PERSON: Philipp von Hartrott" ;
rdfs:label "crystal"@en ;
skos:definition "A crystal is an object that has a quality \"crystal structure\"."@en ;
co:PMD_0000060 "true"^^xsd:boolean .
### https://w3id.org/pmd/co/PMD_0020197
co:PMD_0020197 rdf:type owl:Class .
### https://w3id.org/pmd/cryo/CRYO_0000000
cryo:CRYO_0000000 rdf:type owl:Class ;
rdfs:subClassOf obo:BFO_0000029 ;
rdfs:label "unit cell"@en ;
skos:definition "Unit cell is a site which is a part of a crystal lattice and represents the smallest volume, from which the lattice can be constructed by translational displacements. Unit cell is characterized by the length of its sides and their angular relations."@en .
### https://w3id.org/pmd/cryo/CRYO_0000001
cryo:CRYO_0000001 rdf:type owl:Class ;
rdfs:subClassOf obo:BFO_0000029 ,
[ rdf:type owl:Restriction ;
owl:onProperty obo:BFO_0000051 ;
owl:someValuesFrom cryo:CRYO_0000000
] ,
[ rdf:type owl:Restriction ;
owl:onProperty obo:RO_0001015 ;
owl:someValuesFrom co:PMD_0020003
] ;
rdfs:comment """TODO:
1. check if located in is meant to be used this way
2. Is there a better alternative to has part?"""@en ;
rdfs:label "crystal lattice"@en ;
skos:definition "Crystal lattice is a site which has unit cell as part and is location of a crystal. It represents a periodic array of points in space, which describe the arrangement of atoms or molecules in a crystal."@en .
### https://w3id.org/pmd/cryo/CRYO_0000002
cryo:CRYO_0000002 rdf:type owl:Class ;
rdfs:subClassOf obo:BFO_0000019 ,
[ rdf:type owl:Restriction ;
owl:onProperty obo:RO_0000080 ;
owl:allValuesFrom cryo:CRYO_0000000
] ;
rdfs:label "lattice parameter"@en ;
skos:definition "Lattice parameter is a quality of a unit cell which describes the length of (three) dimensions along of the unit cell's x-, y-, and z-directions."@en .
### https://w3id.org/pmd/cryo/CRYO_0000003
cryo:CRYO_0000003 rdf:type owl:Class ;
rdfs:subClassOf cryo:CRYO_0000002 ;
rdfs:label "a lattice parameter"@en ;
skos:definition "A length of a unit cell along its x-axis"@en .
### https://w3id.org/pmd/cryo/CRYO_0000004
cryo:CRYO_0000004 rdf:type owl:Class ;
rdfs:subClassOf cryo:CRYO_0000002 ;
rdfs:label "b lattice parameter"@en ;
skos:definition "A length of a unit cell along its y-axis"@en .
### https://w3id.org/pmd/cryo/CRYO_0000005
cryo:CRYO_0000005 rdf:type owl:Class ;
rdfs:subClassOf cryo:CRYO_0000002 ;
rdfs:label "c lattice parameter"@en ;
skos:definition "A length of a unit cell along its z-axis"@en .
### https://w3id.org/pmd/cryo/CRYO_0000006
cryo:CRYO_0000006 rdf:type owl:Class ;
rdfs:subClassOf obo:BFO_0000145 ,
[ rdf:type owl:Restriction ;
owl:onProperty obo:RO_0000080 ;
owl:allValuesFrom cryo:CRYO_0000000
] ;
rdfs:comment "TODO check the naming conventions" ;
rdfs:label "angular lattice parameter"@en ;
skos:definition "Angular lattice parameter is a relational quality between two axes in a unit cell"@en .
### https://w3id.org/pmd/cryo/CRYO_0000007
cryo:CRYO_0000007 rdf:type owl:Class ;
rdfs:subClassOf cryo:CRYO_0000006 ;
rdfs:label "α lattice parameter"@en ;
skos:definition "α lattice parameter is an anlge between y- and z-directions in a unit cell"@en .
### https://w3id.org/pmd/cryo/CRYO_0000008
cryo:CRYO_0000008 rdf:type owl:Class ;
rdfs:subClassOf cryo:CRYO_0000006 ;
rdfs:label "β lattice parameter"@en ;
skos:definition "β lattice parameter is an anlge between x- and z-directions in a unit cell"@en .
### https://w3id.org/pmd/cryo/CRYO_0000009
cryo:CRYO_0000009 rdf:type owl:Class ;
rdfs:subClassOf cryo:CRYO_0000006 ;
rdfs:label "γ lattice parameter"@en ;
skos:definition "γ lattice parameter is an anlge between x- and z-directions in a unit cell"@en .
### https://w3id.org/pmd/cryo/CRYO_0000010
cryo:CRYO_0000010 rdf:type owl:Class ;
rdfs:subClassOf obo:BFO_0000027 ,
[ rdf:type owl:Restriction ;
owl:onProperty obo:RO_0001025 ;
owl:allValuesFrom cryo:CRYO_0000000
] ;
rdfs:label "basis"@en ;
skos:definition "Basis is a object aggregate which has one or more atoms or molecules as parts. It defines the minimal number of atoms or molecules to form a unit cell."@en .
### https://w3id.org/pmd/cryo/CRYO_0000011
cryo:CRYO_0000011 rdf:type owl:Class ;
rdfs:subClassOf obo:BFO_0000146 ,
[ rdf:type owl:Restriction ;
owl:onProperty obo:BFO_0000050 ;
owl:someValuesFrom cryo:CRYO_0000001
] ;
rdfs:label "crystallographic plane"@en ;
skos:definition "Crystallographic plane is a fiat surface which is part of a crystal lattice and which is denoted by Miller indices of a plane."@en .
### https://w3id.org/pmd/cryo/CRYO_0000012
cryo:CRYO_0000012 rdf:type owl:Class ;
rdfs:subClassOf obo:BFO_0000142 ,
[ rdf:type owl:Restriction ;
owl:onProperty obo:BFO_0000050 ;
owl:someValuesFrom cryo:CRYO_0000001
] ;
rdfs:label "crystallographic direction"@en ;
skos:definition "Crystallographic direction is a fiat line which is part of a crystal lattice and which is denoted by Miller indices of a direction."@en .
### https://w3id.org/pmd/cryo/CRYO_0000013
cryo:CRYO_0000013 rdf:type owl:Class ;
rdfs:subClassOf obo:BFO_0000145 ,
[ rdf:type owl:Restriction ;
owl:onProperty co:PMD_0025999 ;
owl:someValuesFrom cryo:CRYO_0000011
] ;
rdfs:comment "TODO add symbol annotation property" ;
rdfs:label "interplanar spacing"@en .
### https://w3id.org/pmd/cryo/CRYO_0000014
cryo:CRYO_0000014 rdf:type owl:Class ;
rdfs:subClassOf obo:IAO_0000027 ,
[ rdf:type owl:Restriction ;
owl:onProperty cryo:CRYO_0000016 ;
owl:cardinality "3"^^xsd:nonNegativeInteger
] ;
rdfs:comment """TODO
1. think if its actually 1D..
2. Review the definitions of sublcasses"""@en ;
rdfs:label "Miller indices"@en ;
skos:definition "Miller indices is an information content entity which denotes crystallographic direction, crystallographic plane, or lattice point, i.e., defines their position in respect to the coordinate system of a crystal lattice, and has exactly 3 interger literals, namely h, k. and l."@en .
### https://w3id.org/pmd/cryo/CRYO_0000015
cryo:CRYO_0000015 rdf:type owl:Class ;
rdfs:subClassOf obo:BFO_0000019 ,
[ rdf:type owl:Restriction ;
owl:onProperty obo:RO_0000080 ;
owl:someValuesFrom cryo:CRYO_0000000
] ;
rdfs:label "lattice angle"@en ;
skos:definition "Lattice angle is a quality of a unit cell which describes the angle between three axes in a unit cell."@en .
### https://w3id.org/pmd/cryo/CRYO_0000017
cryo:CRYO_0000017 rdf:type owl:Class ;
rdfs:subClassOf cryo:CRYO_0000000 ,
[ rdf:type owl:Restriction ;
owl:onProperty obo:BFO_0000051 ;
owl:qualifiedCardinality "1"^^xsd:nonNegativeInteger ;
owl:onClass cryo:CRYO_0000405
] ;
rdfs:label "primitive unit cell"@en ;
skos:definition "primitive unit cell is a unit cell that contains only single lattice point and has the smallest possible unit cell volume."@en .
### https://w3id.org/pmd/cryo/CRYO_0000018
cryo:CRYO_0000018 rdf:type owl:Class ;
rdfs:subClassOf cryo:CRYO_0000000 ;
rdfs:label "conventional unit cell"@en ;
skos:definition "conventional unit cell is a unit cell with the full symmetry of the crystal lattice, i.e., it may contain more that one lattice point."@en .
### https://w3id.org/pmd/cryo/CRYO_0000020
cryo:CRYO_0000020 rdf:type owl:Class ;
rdfs:subClassOf cryo:CRYO_0000014 ,
[ rdf:type owl:Restriction ;
owl:onProperty obo:IAO_0000219 ;
owl:someValuesFrom cryo:CRYO_0000012
] ;
rdfs:label "direction Miller indices"@en ;
skos:definition "Direction Miller indices define the components of a sinlge vector in the given direction in a crystal's conventional unit cell. Usually, direction Miller indices are reduced to the lowest set of integers. Direction Miller indices must be written in square brackets, e.g., [hkl]."@en ;
skos:example "[111]" .
### https://w3id.org/pmd/cryo/CRYO_0000021
cryo:CRYO_0000021 rdf:type owl:Class ;
rdfs:subClassOf cryo:CRYO_0000014 ,
[ rdf:type owl:Restriction ;
owl:onProperty obo:IAO_0000219 ;
owl:someValuesFrom cryo:CRYO_0000012
] ;
rdfs:label "family of directions Miller indices"@en ;
skos:definition "Set of directions Miller indices define the components of symmetrically equivalent directions in a crystal lattice. Set of directions Miller indices must be written as <hkl>."@en ,
"<111>" .
### https://w3id.org/pmd/cryo/CRYO_0000022
cryo:CRYO_0000022 rdf:type owl:Class ;
rdfs:subClassOf cryo:CRYO_0000014 ,
[ rdf:type owl:Restriction ;
owl:onProperty obo:IAO_0000219 ;
owl:someValuesFrom cryo:CRYO_0000011
] ;
rdfs:label "plane Miller indices"@en ;
skos:definition """Plane Miller indices define the reciprocals of the fractional intercepts the plane makes with the crystallographic axes, reduced to the lowest set of integers.
For example, if a plane crosses [100] axis at 1/h, [010 ] axis at 1/k, and [001] axis at 1/l, then such plane is denoted as (hkl) plane. If a plane is parallel to one of the axes, then the corresponding Miller index is 0.
Plane Miller indices must be written in round brackets, e.g., (hkl)."""@en ;
skos:example "(hkl)" .
### https://w3id.org/pmd/cryo/CRYO_0000023
cryo:CRYO_0000023 rdf:type owl:Class ;
rdfs:subClassOf cryo:CRYO_0000014 ,
[ rdf:type owl:Restriction ;
owl:onProperty obo:IAO_0000219 ;
owl:someValuesFrom cryo:CRYO_0000011
] ;
rdfs:label "family of planes Miller indices"@en ;
skos:definition "Set of planes Miller indices define set of symmetrically equivalent planes. Set of planes must be written in curly brackets, e.g., {hkl}."@en ;
skos:example "{111}" .
### https://w3id.org/pmd/cryo/CRYO_0000024
cryo:CRYO_0000024 rdf:type owl:Class ;
rdfs:subClassOf obo:IAO_0000027 ;
rdfs:comment "Current decision is not to import 'cartesian spatial coordinate datum' (http://purl.obolibrary.org/obo/IAO_0000400) cause it denotes spatial regions, and we model lattice points and atoms in voids as sites."@en ;
rdfs:label "point coordinate datum"@en ;
skos:definition "Point coordinate datum define the coordinates of a point within a conventional unit cell of a crystal. Point Miller indices must be given in round brackets separated by commas, e.g., (x, y, z)."@en ;
skos:example "(1,1,1)" .
### https://w3id.org/pmd/cryo/CRYO_0000025
cryo:CRYO_0000025 rdf:type owl:Class ;
rdfs:subClassOf obo:BFO_0000024 ,
[ rdf:type owl:Restriction ;
owl:onProperty obo:BFO_0000051 ;
owl:someValuesFrom obo:CHEBI_33250
] ,
[ rdf:type owl:Restriction ;
owl:onProperty obo:RO_0001025 ;
owl:someValuesFrom cryo:CRYO_0000011
] ;
rdfs:label "atomic plane"@en ;
skos:definition "Atomic plane is a 2D fiat object part which has atoms as it parts and is located in some crystallogphic plane, i.e., the positions of atoms relative to each other are defined via the characterisitics of the crystallogphic plane."@en .
### https://w3id.org/pmd/cryo/CRYO_0000026
cryo:CRYO_0000026 rdf:type owl:Class ;
rdfs:subClassOf obo:BFO_0000019 ,
[ rdf:type owl:Restriction ;
owl:onProperty obo:RO_0000080 ;
owl:someValuesFrom co:PMD_0020003
] ,
[ rdf:type owl:Restriction ;
owl:onProperty co:PMD_0000077 ;
owl:qualifiedCardinality "1"^^xsd:nonNegativeInteger ;
owl:onClass cryo:CRYO_0000028
] ;
rdfs:label "crystal system"@en ;
skos:definition "Crystal system is a quality of a (real) crystal which defines its symmetry based on the rotational and mirror symmetries of the actual atomic arrangements."@en .
### https://w3id.org/pmd/cryo/CRYO_0000027
cryo:CRYO_0000027 rdf:type owl:Class ;
rdfs:subClassOf obo:BFO_0000019 ,
[ owl:intersectionOf ( [ rdf:type owl:Restriction ;
owl:onProperty obo:RO_0000080 ;
owl:someValuesFrom cryo:CRYO_0000001
]
[ rdf:type owl:Restriction ;
owl:onProperty co:PMD_0000077 ;
owl:qualifiedCardinality "1"^^xsd:nonNegativeInteger ;
owl:onClass cryo:CRYO_0000036
]
) ;
rdf:type owl:Class
] ;
rdfs:label "lattice centering"@en ;
skos:definition "Lattice centering is an intensive quality ofa crystal lattice which the geometric arrangement of lattice points in a unit cell. It is specified by one of the 4 lattice centering value."@en .
### https://w3id.org/pmd/cryo/CRYO_0000028
cryo:CRYO_0000028 rdf:type owl:Class ;
owl:equivalentClass [ rdf:type owl:Class ;
owl:oneOf ( cryo:CRYO_0000029
cryo:CRYO_0000030
cryo:CRYO_0000031
cryo:CRYO_0000032
cryo:CRYO_0000034
cryo:CRYO_0000035
cryo:CRYO_0000391
)
] ;
rdfs:subClassOf obo:OBI_0001930 ;
rdfs:label "crystal system value"@en ;
skos:definition """crystal system value is a categorical value specification which describes the grouping of
crystal system based on the rotational and mirror symmetries of their actual atomic arrangements in the crystal. The specific values are triclinic, monoclinic, orthorhombic, tetragonal, trigonal, hexagonal, and cubic."""@en .
### https://w3id.org/pmd/cryo/CRYO_0000036
cryo:CRYO_0000036 rdf:type owl:Class ;
owl:equivalentClass [ rdf:type owl:Class ;
owl:oneOf ( cryo:CRYO_0000043
cryo:CRYO_0000044
cryo:CRYO_0000045
cryo:CRYO_0000046
)
] ;
rdfs:subClassOf obo:OBI_0001930 ;
rdfs:label "lattice centering value"@en ;
skos:definition "Lattice centering value is a categorical value specification which describes th geometric arrangement of lattice points in a unit cell with one of the values: primitive, body centered, face centered, base centered."@en .
### https://w3id.org/pmd/cryo/CRYO_0000037
cryo:CRYO_0000037 rdf:type owl:Class ;
rdfs:subClassOf cryo:CRYO_0000015 ;
rdfs:label "alpha angle"@en ;
skos:altLabel "α anlge"@en ;
skos:definition "α anlge is an angle in a unit cell between y- and z-axes."@en .
### https://w3id.org/pmd/cryo/CRYO_0000038
cryo:CRYO_0000038 rdf:type owl:Class ;
rdfs:subClassOf cryo:CRYO_0000015 ;
rdfs:label "beta angle"@en ;
skos:altLabel "β anlge"@en ;
skos:definition "β anlge is an angle in a unit cell between x- and z-axes."@en .
### https://w3id.org/pmd/cryo/CRYO_0000039
cryo:CRYO_0000039 rdf:type owl:Class ;
rdfs:subClassOf cryo:CRYO_0000015 ;
rdfs:label "gamma angle"@en ;
skos:altLabel "γ angle"@en ;
skos:definition "γ anlge is an angle in a unit cell between x- and y-axes." .
### https://w3id.org/pmd/cryo/CRYO_0000041
cryo:CRYO_0000041 rdf:type owl:Class ;
owl:equivalentClass [ rdf:type owl:Class ;
owl:unionOf ( [ owl:intersectionOf ( obo:BFO_0000141
[ rdf:type owl:Restriction ;
owl:onProperty obo:BFO_0000050 ;
owl:someValuesFrom [ owl:intersectionOf ( cryo:CRYO_0000001
[ rdf:type owl:Restriction ;
owl:onProperty obo:RO_0000086 ;
owl:someValuesFrom [ owl:intersectionOf ( cryo:CRYO_0000390
[ rdf:type owl:Restriction ;
owl:onProperty co:PMD_0000077 ;
owl:hasValue cryo:CRYO_0000035
]
) ;
rdf:type owl:Class
]
]
) ;
rdf:type owl:Class
]
]
) ;
rdf:type owl:Class
]
[ owl:intersectionOf ( obo:BFO_0000141
[ rdf:type owl:Restriction ;
owl:onProperty obo:RO_0000086 ;
owl:someValuesFrom [ owl:intersectionOf ( cryo:CRYO_0000390
[ rdf:type owl:Restriction ;
owl:onProperty co:PMD_0000077 ;
owl:hasValue cryo:CRYO_0000035
]
) ;
rdf:type owl:Class
]
]
) ;
rdf:type owl:Class
]
)
] ;
rdfs:subClassOf obo:BFO_0000141 ,
[ rdf:type owl:Restriction ;
owl:onProperty cryo:CRYO_0000170 ;
owl:hasSelf "true"^^xsd:boolean
] ;
rdfs:comment "Note that this class is not meant for instantiation but is needed for formulation of other logical axioms and inferences." ;
rdfs:label "crystallographic entity in cubic system"@en ;
skos:definition "Crystallographic entity in cubic system is an immaterial entity that either itself has cubic lattice system or is a part of crystal lattice with cubic lattice system."@en .
### https://w3id.org/pmd/cryo/CRYO_0000042
cryo:CRYO_0000042 rdf:type owl:Class ;
rdfs:subClassOf obo:BFO_0000019 ,
[ rdf:type owl:Restriction ;
owl:onProperty obo:RO_0000080 ;
owl:someValuesFrom co:PMD_0000663
] ;
rdfs:label "grain orientation"@en ;
skos:definition """Grain orientation is an intensive quality of grains in material's microstructure, which describes the crystallographic orientation in respect to the external (sample's) reference frame. Grain orientation can be a quality of an individual grain / crystallite or of a polycrystal, i.e., several grains with similar crystallographic orientations.
Grain orientation can be specified by either texture fibers or texture components. When several grains exhibit similar orientations, then the material exhibits a specific crystallographic texture."""@en .
### https://w3id.org/pmd/cryo/CRYO_0000047
cryo:CRYO_0000047 rdf:type owl:Class ;
owl:equivalentClass [ owl:intersectionOf ( cryo:CRYO_0000001
[ rdf:type owl:Restriction ;
owl:onProperty obo:RO_0000086 ;
owl:someValuesFrom [ owl:intersectionOf ( cryo:CRYO_0000027
[ rdf:type owl:Restriction ;
owl:onProperty co:PMD_0000077 ;
owl:hasValue cryo:CRYO_0000043
]
) ;
rdf:type owl:Class
]
]
[ rdf:type owl:Restriction ;