https://w3id.org/np/RALJKysR8vqqqZYXPGHcsI_J0BvPFUmzwOnV9WCGvUjcY
.trig | .trig.txt | .jelly | .jelly.txt | .jsonld | .jsonld.txt | .nq | .nq.txt | .xml | .xml.txt
@prefix this: <https://w3id.org/np/RALJKysR8vqqqZYXPGHcsI_J0BvPFUmzwOnV9WCGvUjcY> .
@prefix sub: <https://w3id.org/np/RALJKysR8vqqqZYXPGHcsI_J0BvPFUmzwOnV9WCGvUjcY/> .
@prefix np: <http://www.nanopub.org/nschema#> .
@prefix dct: <http://purl.org/dc/terms/> .
@prefix rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#> .
@prefix nt: <https://w3id.org/np/o/ntemplate/> .
@prefix xsd: <http://www.w3.org/2001/XMLSchema#> .
@prefix rdfs: <http://www.w3.org/2000/01/rdf-schema#> .
@prefix orcid: <https://orcid.org/> .
@prefix prov: <http://www.w3.org/ns/prov#> .
@prefix mac: <https://w3id.org/spaces/mac/r/ontology/> .
@prefix npx: <http://purl.org/nanopub/x/> .
sub:Head {
this: a np:Nanopublication;
np:hasAssertion sub:assertion;
np:hasProvenance sub:provenance;
np:hasPublicationInfo sub:pubinfo .
}
sub:assertion {
dct:contributor rdfs:label "has contributor" .
dct:creator rdfs:label "has creator" .
dct:isPartOf rdfs:label "is part of" .
dct:license rdfs:label "data usage license" .
dct:publisher rdfs:label "has publisher" .
dct:references rdfs:label "references" .
dct:source rdfs:label "has source" .
dct:subject rdfs:label "has domain" .
<http://purl.org/spar/cito/citesAsAuthority> rdfs:label "cites as authority" .
rdf:type rdfs:label "is a" .
rdfs:comment rdfs:label "has description" .
rdfs:label rdfs:label "has the label" .
<https://creativecommons.org/licenses/by/4.0/> rdfs:label "Attribution 4.0 International (CC BY 4.0)" .
<https://doi.org/10.3389/fbinf.2025.1634111> rdfs:label "FAIR² data article (Frontiers in Bioinformatics)" .
<https://doi.org/10.71728/hw56-vj34> rdfs:label "FAIR² Data Package DOI" .
<https://w3id.org/fair/fip/terms/implements> rdfs:label "implements" .
<https://w3id.org/fdof/ontology#FAIRDigitalObject> rdfs:label "FAIR Digital Object (FDO)" .
<https://w3id.org/fdof/ontology#hasEncodingFormat> rdfs:label "has format" .
<https://w3id.org/fdof/ontology#hasMetadata> rdfs:label "has its metadata in" .
<https://w3id.org/fdof/ontology#materializes> rdfs:label "is a concrete materialization of" .
sub:assertion a nt:AssertionTemplate;
dct:description "Computational prediction of the Root Mean Square Deviation (RMSD, in Angstroms) of a SARS-CoV-2 Spike RBD variant relative to the wild-type structure, produced by a named computational method (e.g., ESM, AlphaFold II). Links via mac:isObservationOf to the variant FDO it observes and via mac:hasPredictionMethod to the Type 9 method FDO. The nanopublication self-materializes (assertion graph is the FDO).";
rdfs:label "Declaring a Computational Prediction — RMSD (MAC FDT Type 3)";
nt:hasNanopubLabelPattern "RMSD = ${value} A (${predictionMethod})";
nt:hasStatement sub:st0, sub:st1, sub:st2, sub:st3, sub:st4, sub:st5, sub:st5b, sub:st5c,
sub:st5d, sub:st6, sub:st7, sub:st8, sub:st91, sub:st92, sub:st95, sub:st_obs, sub:st_oc,
sub:st_pm, sub:st_pp, sub:st_src, sub:st_val;
nt:hasTag "MAC" .
sub:authority a nt:ExternalUriPlaceholder;
rdfs:label "observation-specific authority (DOI or URL)" .
sub:contact a nt:LiteralPlaceholder;
rdfs:label "contact email" .
sub:contributor a nt:AgentPlaceholder;
rdfs:label "ORCID of contributor" .
sub:creator a nt:AgentPlaceholder;
rdfs:label "ORCID of creator";
nt:hasDefaultValue nt:CREATOR .
sub:description a nt:LongLiteralPlaceholder;
rdfs:label "free-text description of this RMSD observation" .
sub:domain a nt:RestrictedChoicePlaceholder;
rdfs:label "domain";
nt:possibleValuesFrom <https://w3id.org/np/RACXDZHEowTYDAzZvdmD0qIGpXZwY5ghMRBBlt6N8Iu5s> .
sub:fdo a nt:IntroducedResource, nt:LocalResource, nt:UriPlaceholder;
rdfs:label "full URI or short suffix for this RMSD observation FDO" .
sub:fip a nt:GuidedChoicePlaceholder;
rdfs:label "FAIR Implementation Profile";
nt:possibleValuesFromApi "http://purl.org/nanopub/api/find_signed_things?type=https%3A%2F%2Fw3id.org%2Ffair%2Ffip%2Fterms%2FFAIR-Implementation-Profile&searchterm=" .
sub:label a nt:LiteralPlaceholder;
rdfs:label "label for this observation (e.g. \"Alpha RMSD - AlphaFold II\")" .
sub:predictionMethod a nt:ExternalUriPlaceholder;
rdfs:label "Computational Method FDO referent URI (Type 9)" .
sub:project a nt:GuidedChoicePlaceholder;
rdfs:label "project";
nt:possibleValuesFromApi "https://w3id.org/np/l/nanopub-query-1.1/api/RAFTZ8GqPOOJQOBcEo5IB8lg5vZCFiIyr_RVLKZDQBHMk/get-projects?searchterm=" .
sub:publisher a nt:ExternalUriPlaceholder;
rdfs:label "ROR of the publishing entity" .
sub:source a nt:ExternalUriPlaceholder;
rdfs:label "FAIR² Package DOI or FAIR² resource URL or OSF URL" .
sub:st0 rdf:object <https://w3id.org/fdof/ontology#FAIRDigitalObject>;
rdf:predicate rdf:type;
rdf:subject sub:fdo .
sub:st1 a nt:OptionalStatement;
rdf:object sub:label;
rdf:predicate rdfs:label;
rdf:subject sub:fdo .
sub:st2 a nt:OptionalStatement;
rdf:object sub:description;
rdf:predicate rdfs:comment;
rdf:subject sub:fdo .
sub:st3 rdf:object mac:ComputationalPredictionRMSD;
rdf:predicate rdf:type;
rdf:subject sub:fdo .
sub:st4 rdf:object nt:NANOPUB;
rdf:predicate <https://w3id.org/fdof/ontology#hasMetadata>;
rdf:subject sub:fdo .
sub:st5 rdf:object sub:fdo;
rdf:predicate <https://w3id.org/fdof/ontology#materializes>;
rdf:subject nt:NANOPUB .
sub:st5b rdf:object <https://www.iana.org/assignments/media-types/application/trig>;
rdf:predicate <https://w3id.org/fdof/ontology#hasEncodingFormat>;
rdf:subject nt:NANOPUB .
sub:st5c rdf:object <https://creativecommons.org/licenses/by/4.0/>;
rdf:predicate dct:license;
rdf:subject nt:NANOPUB .
sub:st5d rdf:object nt:NANOPUB;
rdf:predicate <https://www.w3.org/ns/dcat#accessURL>;
rdf:subject nt:NANOPUB .
sub:st6 a nt:RepeatableStatement;
rdf:object sub:creator;
rdf:predicate dct:creator;
rdf:subject sub:fdo .
sub:st7 a nt:OptionalStatement, nt:RepeatableStatement;
rdf:object sub:contributor;
rdf:predicate dct:contributor;
rdf:subject sub:fdo .
sub:st8 rdf:object sub:contact;
rdf:predicate <https://www.w3.org/ns/dcat#contactPoint>;
rdf:subject sub:fdo .
sub:st91 a nt:OptionalStatement;
rdf:object sub:domain;
rdf:predicate dct:subject;
rdf:subject sub:fdo .
sub:st92 rdf:object sub:publisher;
rdf:predicate dct:publisher;
rdf:subject sub:fdo .
sub:st95 a nt:OptionalStatement;
rdf:object sub:fip;
rdf:predicate <https://w3id.org/fair/fip/terms/implements>;
rdf:subject sub:fdo .
sub:st_obs rdf:object sub:variant;
rdf:predicate mac:isObservationOf;
rdf:subject sub:fdo .
sub:st_oc a nt:OptionalStatement, nt:RepeatableStatement;
rdf:object sub:authority;
rdf:predicate <http://purl.org/spar/cito/citesAsAuthority>;
rdf:subject sub:fdo .
sub:st_pm rdf:object sub:predictionMethod;
rdf:predicate mac:hasPredictionMethod;
rdf:subject sub:fdo .
sub:st_pp rdf:object sub:project;
rdf:predicate dct:isPartOf;
rdf:subject sub:fdo .
sub:st_src a nt:RepeatableStatement;
rdf:object sub:source;
rdf:predicate dct:source;
rdf:subject sub:fdo .
sub:st_val rdf:object sub:value;
rdf:predicate mac:hasRMSD;
rdf:subject sub:fdo .
sub:value a nt:LiteralPlaceholder;
rdfs:label "RMSD value (Angstroms)" .
sub:variant a nt:ExternalUriPlaceholder;
rdfs:label "Spike RBD Variant FDO referent URI" .
mac:ComputationalPredictionRMSD rdfs:label "Computational Prediction — RMSD" .
mac:hasPredictionMethod rdfs:label "has prediction method" .
mac:hasRMSD rdfs:label "has RMSD (Root Mean Square Deviation)" .
mac:isObservationOf rdfs:label "is observation of" .
<https://www.iana.org/assignments/media-types/application/trig> rdfs:label "TriG (RDF named-graph serialization)" .
<https://www.w3.org/ns/dcat#accessURL> rdfs:label "has access URL" .
<https://www.w3.org/ns/dcat#contactPoint> rdfs:label "has contact point" .
}
sub:provenance {
sub:assertion prov:wasAttributedTo orcid:0000-0001-8888-635X .
}
sub:pubinfo {
this: dct:created "2026-05-27T20:19:06Z"^^xsd:dateTime;
dct:creator orcid:0000-0001-8888-635X;
dct:license <https://creativecommons.org/licenses/by/4.0/>;
rdfs:label "Template: Declaring a Computational Prediction — RMSD (MAC FDT Type 3)";
nt:wasCreatedFromProvenanceTemplate <https://w3id.org/np/RA7lSq6MuK_TIC6JMSHvLtee3lpLoZDOqLJCLXevnrPoU>;
nt:wasCreatedFromPubinfoTemplate <https://w3id.org/np/RA0J4vUn_dekg-U1kK3AOEt02p9mT2WO03uGxLDec1jLw>,
<https://w3id.org/np/RAMEgudZsQ1bh1fZhfYnkthqH6YSXpghSE_DEN1I-6eAI>, <https://w3id.org/np/RARW4MsFkHuwjycNElvEVtuMjpf4yWDL10-0C5l2MqqRQ>,
<https://w3id.org/np/RAukAcWHRDlkqxk7H2XNSegc1WnHI569INvNr-xdptDGI>;
nt:wasCreatedFromTemplate <https://w3id.org/np/RA5reLVXOCPQFWr2UiCJb19ES7NwOpQRmudb17e2iB0c4> .
sub:sig npx:hasAlgorithm "RSA";
npx:hasPublicKey "MIGfMA0GCSqGSIb3DQEBAQUAA4GNADCBiQKBgQD3w/IUb755GIzp3ueODYkgELhyq4Clygb5Kspge50xo+n8uC/IvXwi+ukRjEpdfX/JZ09yKUCJ2AMMr/QchrsP1Xhg9Q3fEZ4E12XqFd5jX00Qs0K5XZwjBaV8NdDTJW9I4gpcyh0cry7hSBAWHkXEkqbK+lQvR4UFAKejFq6u/wIDAQAB";
npx:hasSignature "HLVzJxLWrdB7LO8wTHGkU41106n1uqoAqvX2/GJPvYOT1VVPNH8FUmCo/nfcAOTZaFJJUCEsdyuZ25fifU+aenqUgQKmnJt5JFLbn6w2SGXXDw0CYgsAG2lwqUhPBBdyVjyrveN9QyI4M0tRTYyGzH+R9jeRwz/b+wRah9+3LW8=";
npx:hasSignatureTarget this:;
npx:signedBy orcid:0000-0001-8888-635X .
}