Class: Compound

URI: img_core_v400:Compound

classDiagram class Compound click Compound href "../Compound/" Compound : add_date Compound : cas_number Compound : class Compound : common_name Compound : compound_name Compound : db_source Compound --> "0..1" DbSource : db_source click DbSource href "../DbSource/" Compound : ext_accession Compound : family Compound : formula Compound : inchi Compound : inchi_key Compound : mol_weight Compound : num_atoms Compound : parent Compound : smiles Compound : status

Slots

Name	Cardinality and Range	Description	Inheritance
ext_accession	0..1 String		direct
db_source	0..1 DbSource	Foreign key to db_source	direct
compound_name	0..1 String		direct
common_name	0..1 String		direct
class	0..1 String		direct
formula	0..1 String		direct
parent	0..1 String		direct
status	0..1 String		direct
add_date	0..1 Datetime		direct
family	0..1 String		direct
mol_weight	0..1 Float		direct
num_atoms	0..1 Float		direct
smiles	0..1 String		direct
inchi	0..1 String		direct
inchi_key	0..1 String		direct
cas_number	0..1 String		direct

Usages

used by	used in	type	used
CompoundAliases	ext_accession	range	Compound
CompoundExtLinks	ext_accession	range	Compound
EnzymeProducts	products	range	Compound
EnzymeSubstrates	substrates	range	Compound
ImageRoiCompounds	compounds	range	Compound
KeggModuleCompounds	compounds	range	Compound
ReactionCompounds	compounds	range	Compound

Identifier and Mapping Information

Schema Source

from schema: https://w3id.org/jgi/img_core_v400

Mappings

Mapping Type	Mapped Value
self	img_core_v400:Compound
native	img_core_v400:Compound

LinkML Source

Direct

name: compound
from_schema: https://w3id.org/jgi/img_core_v400
attributes:
  ext_accession:
    name: ext_accession
    from_schema: https://w3id.org/jgi/img_core_v400
    domain_of:
    - alt_transcript
    - compound
    - compound_aliases
    - compound_ext_links
    - gene_tigrfams
    - interpro
    - interpro_go_terms
    - pfam_clan
    - pfam_clan_pfam_families
    - pfam_family
    - pfam_family_cogs
    - pfam_family_ext_links
    - pfam_family_genome_properties
    - reaction
    - reaction_compounds
    - reaction_enzymes
    - reaction_ext_links
    - scaffold
    - tigrfam
    - tigrfam_enzymes
    - tigrfam_genome_properties
    - tigrfam_roles
    range: string
    required: false
  db_source:
    name: db_source
    description: Foreign key to db_source
    from_schema: https://w3id.org/jgi/img_core_v400
    domain_of:
    - biocyc_comp
    - cog
    - compound
    - go_term
    - kegg_pathway
    - kog
    - pfam_family
    - scaffold
    range: db_source
    required: false
  compound_name:
    name: compound_name
    from_schema: https://w3id.org/jgi/img_core_v400
    rank: 1000
    domain_of:
    - compound
    range: string
    required: false
  common_name:
    name: common_name
    from_schema: https://w3id.org/jgi/img_core_v400
    domain_of:
    - biocyc_class
    - biocyc_comp
    - biocyc_enzrxn
    - biocyc_pathway
    - biocyc_protein
    - biocyc_reaction
    - compound
    - gene_biocyc_rxns
    range: string
    required: false
  class:
    name: class
    from_schema: https://w3id.org/jgi/img_core_v400
    rank: 1000
    domain_of:
    - compound
    - ko_term_classes
    range: string
    required: false
  formula:
    name: formula
    from_schema: https://w3id.org/jgi/img_core_v400
    domain_of:
    - biocyc_comp
    - compound
    range: string
    required: false
  parent:
    name: parent
    from_schema: https://w3id.org/jgi/img_core_v400
    rank: 1000
    domain_of:
    - compound
    - dt_taxon_node_lite
    - go_term_parents
    - taxon_node_lite
    range: string
    required: false
  status:
    name: status
    from_schema: https://w3id.org/jgi/img_core_v400
    rank: 1000
    domain_of:
    - compound
    range: string
    required: false
  add_date:
    name: add_date
    from_schema: https://w3id.org/jgi/img_core_v400
    domain_of:
    - bcg_taxons
    - cog
    - cog_function
    - cog_species
    - compound
    - enzyme
    - enzyme_transferred
    - gene
    - gene_biocyc_rxns
    - genome_property
    - go_graph_path
    - go_term
    - image_roi
    - kegg_pathway
    - km_image_roi
    - ko_term
    - kog
    - kog_function
    - paralog_group
    - pfam_clan
    - pfam_family
    - positional_cluster
    - property_step
    - reaction
    - scaffold
    - taxon
    - taxon_prod_vw
    - tigr_role
    - tigrfam
    range: datetime
    required: false
  family:
    name: family
    from_schema: https://w3id.org/jgi/img_core_v400
    rank: 1000
    domain_of:
    - compound
    - imgnr_taxons_062123
    - taxon
    - taxon_prod_vw
    range: string
    required: false
  mol_weight:
    name: mol_weight
    from_schema: https://w3id.org/jgi/img_core_v400
    rank: 1000
    domain_of:
    - compound
    range: float
    required: false
  num_atoms:
    name: num_atoms
    from_schema: https://w3id.org/jgi/img_core_v400
    rank: 1000
    domain_of:
    - compound
    range: float
    required: false
  smiles:
    name: smiles
    from_schema: https://w3id.org/jgi/img_core_v400
    domain_of:
    - biocyc_comp
    - compound
    range: string
    required: false
  inchi:
    name: inchi
    from_schema: https://w3id.org/jgi/img_core_v400
    rank: 1000
    domain_of:
    - compound
    range: string
    required: false
  inchi_key:
    name: inchi_key
    from_schema: https://w3id.org/jgi/img_core_v400
    rank: 1000
    domain_of:
    - compound
    range: string
    required: false
  cas_number:
    name: cas_number
    from_schema: https://w3id.org/jgi/img_core_v400
    rank: 1000
    domain_of:
    - compound
    - enzyme
    - enzyme_transferred
    range: string
    required: false

Induced

name: compound
from_schema: https://w3id.org/jgi/img_core_v400
attributes:
  ext_accession:
    name: ext_accession
    from_schema: https://w3id.org/jgi/img_core_v400
    alias: ext_accession
    owner: compound
    domain_of:
    - alt_transcript
    - compound
    - compound_aliases
    - compound_ext_links
    - gene_tigrfams
    - interpro
    - interpro_go_terms
    - pfam_clan
    - pfam_clan_pfam_families
    - pfam_family
    - pfam_family_cogs
    - pfam_family_ext_links
    - pfam_family_genome_properties
    - reaction
    - reaction_compounds
    - reaction_enzymes
    - reaction_ext_links
    - scaffold
    - tigrfam
    - tigrfam_enzymes
    - tigrfam_genome_properties
    - tigrfam_roles
    range: string
    required: false
  db_source:
    name: db_source
    description: Foreign key to db_source
    from_schema: https://w3id.org/jgi/img_core_v400
    alias: db_source
    owner: compound
    domain_of:
    - biocyc_comp
    - cog
    - compound
    - go_term
    - kegg_pathway
    - kog
    - pfam_family
    - scaffold
    range: db_source
    required: false
  compound_name:
    name: compound_name
    from_schema: https://w3id.org/jgi/img_core_v400
    rank: 1000
    alias: compound_name
    owner: compound
    domain_of:
    - compound
    range: string
    required: false
  common_name:
    name: common_name
    from_schema: https://w3id.org/jgi/img_core_v400
    alias: common_name
    owner: compound
    domain_of:
    - biocyc_class
    - biocyc_comp
    - biocyc_enzrxn
    - biocyc_pathway
    - biocyc_protein
    - biocyc_reaction
    - compound
    - gene_biocyc_rxns
    range: string
    required: false
  class:
    name: class
    from_schema: https://w3id.org/jgi/img_core_v400
    rank: 1000
    alias: class
    owner: compound
    domain_of:
    - compound
    - ko_term_classes
    range: string
    required: false
  formula:
    name: formula
    from_schema: https://w3id.org/jgi/img_core_v400
    alias: formula
    owner: compound
    domain_of:
    - biocyc_comp
    - compound
    range: string
    required: false
  parent:
    name: parent
    from_schema: https://w3id.org/jgi/img_core_v400
    rank: 1000
    alias: parent
    owner: compound
    domain_of:
    - compound
    - dt_taxon_node_lite
    - go_term_parents
    - taxon_node_lite
    range: string
    required: false
  status:
    name: status
    from_schema: https://w3id.org/jgi/img_core_v400
    rank: 1000
    alias: status
    owner: compound
    domain_of:
    - compound
    range: string
    required: false
  add_date:
    name: add_date
    from_schema: https://w3id.org/jgi/img_core_v400
    alias: add_date
    owner: compound
    domain_of:
    - bcg_taxons
    - cog
    - cog_function
    - cog_species
    - compound
    - enzyme
    - enzyme_transferred
    - gene
    - gene_biocyc_rxns
    - genome_property
    - go_graph_path
    - go_term
    - image_roi
    - kegg_pathway
    - km_image_roi
    - ko_term
    - kog
    - kog_function
    - paralog_group
    - pfam_clan
    - pfam_family
    - positional_cluster
    - property_step
    - reaction
    - scaffold
    - taxon
    - taxon_prod_vw
    - tigr_role
    - tigrfam
    range: datetime
    required: false
  family:
    name: family
    from_schema: https://w3id.org/jgi/img_core_v400
    rank: 1000
    alias: family
    owner: compound
    domain_of:
    - compound
    - imgnr_taxons_062123
    - taxon
    - taxon_prod_vw
    range: string
    required: false
  mol_weight:
    name: mol_weight
    from_schema: https://w3id.org/jgi/img_core_v400
    rank: 1000
    alias: mol_weight
    owner: compound
    domain_of:
    - compound
    range: float
    required: false
  num_atoms:
    name: num_atoms
    from_schema: https://w3id.org/jgi/img_core_v400
    rank: 1000
    alias: num_atoms
    owner: compound
    domain_of:
    - compound
    range: float
    required: false
  smiles:
    name: smiles
    from_schema: https://w3id.org/jgi/img_core_v400
    alias: smiles
    owner: compound
    domain_of:
    - biocyc_comp
    - compound
    range: string
    required: false
  inchi:
    name: inchi
    from_schema: https://w3id.org/jgi/img_core_v400
    rank: 1000
    alias: inchi
    owner: compound
    domain_of:
    - compound
    range: string
    required: false
  inchi_key:
    name: inchi_key
    from_schema: https://w3id.org/jgi/img_core_v400
    rank: 1000
    alias: inchi_key
    owner: compound
    domain_of:
    - compound
    range: string
    required: false
  cas_number:
    name: cas_number
    from_schema: https://w3id.org/jgi/img_core_v400
    rank: 1000
    alias: cas_number
    owner: compound
    domain_of:
    - compound
    - enzyme
    - enzyme_transferred
    range: string
    required: false