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Class: CrystallizationConditions

Crystal growth conditions for X-ray crystallography (NSLS2 Crystallization mapping)

URI: lambdaber:CrystallizationConditions

classDiagram class CrystallizationConditions click CrystallizationConditions href "../CrystallizationConditions/" AttributeGroup <|-- CrystallizationConditions click AttributeGroup href "../AttributeGroup/" CrystallizationConditions : cryo_protectant CrystallizationConditions : crystal_id CrystallizationConditions : crystal_size_um CrystallizationConditions : crystallization_conditions CrystallizationConditions : description CrystallizationConditions : drop_ratio_protein_to_reservoir CrystallizationConditions : drop_volume CrystallizationConditions : method CrystallizationConditions --> "0..1" CrystallizationMethodEnum : method click CrystallizationMethodEnum href "../CrystallizationMethodEnum/" CrystallizationConditions : protein_concentration CrystallizationConditions : reservoir_volume_ul CrystallizationConditions : screen_name CrystallizationConditions : seed_stock_dilution CrystallizationConditions : seeding_type CrystallizationConditions : temperature_c

Inheritance

Slots

Name Cardinality and Range Description Inheritance
method 0..1
CrystallizationMethodEnum		 Crystallization method used direct
crystallization_conditions 0..1
String		 Complete description of crystallization conditions including precipitant, pH,... direct
drop_volume 0..1
Float		 Total drop volume in nanoliters direct
protein_concentration 0..1
Float		 Protein concentration for crystallization in mg/mL direct
crystal_size_um 0..1
String		 Crystal dimensions in micrometers (length x width x height) direct
cryo_protectant 0..1
String		 Cryoprotectant used for crystal cooling direct
crystal_id 0..1
String		 Identifier for the specific crystal used direct
screen_name 0..1
String		 Name of crystallization screen used direct
temperature_c 0..1
Float		 Crystallization temperature in Celsius direct
drop_ratio_protein_to_reservoir 0..1
String		 Ratio of protein to reservoir solution in drop (e direct
reservoir_volume_ul 0..1
Float		 Reservoir volume in microliters direct
seeding_type 0..1
String		 Type of seeding used (micro, macro, streak) direct
seed_stock_dilution 0..1
String		 Dilution factor for seed stock direct
description 0..1
String		 AttributeGroup

Usages

used by used in type used
XRayPreparation crystallization_conditions range CrystallizationConditions

Identifier and Mapping Information

Schema Source

  • from schema: https://w3id.org/lambda-ber-schema/

Mappings

Mapping Type Mapped Value
self lambdaber:CrystallizationConditions
native lambdaber:CrystallizationConditions

LinkML Source

Direct

name: CrystallizationConditions
description: Crystal growth conditions for X-ray crystallography (NSLS2 Crystallization
  mapping)
from_schema: https://w3id.org/lambda-ber-schema/
is_a: AttributeGroup
attributes:
  method:
    name: method
    description: Crystallization method used
    comments:
    - 'Maps to NSLS2 spreadsheet: Method'
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    slot_uri: nsls2:Method
    domain_of:
    - CrystallizationConditions
    range: CrystallizationMethodEnum
  crystallization_conditions:
    name: crystallization_conditions
    description: Complete description of crystallization conditions including precipitant,
      pH, salts
    comments:
    - 'Maps to NSLS2 spreadsheet: Conditions'
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    slot_uri: nsls2:Conditions
    domain_of:
    - CrystallizationConditions
    - XRayPreparation
    range: string
  drop_volume:
    name: drop_volume
    description: Total drop volume in nanoliters
    comments:
    - 'Maps to NSLS2 spreadsheet: Drop_Volume'
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    slot_uri: nsls2:Drop_Volume
    domain_of:
    - CrystallizationConditions
    range: float
  protein_concentration:
    name: protein_concentration
    description: Protein concentration for crystallization in mg/mL
    comments:
    - 'Maps to NSLS2 spreadsheet: Protein_Concentration'
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    slot_uri: nsls2:Protein_Concentration
    domain_of:
    - CrystallizationConditions
    range: float
  crystal_size_um:
    name: crystal_size_um
    description: Crystal dimensions in micrometers (length x width x height)
    comments:
    - 'Maps to NSLS2 spreadsheet: Crystal_Size'
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    slot_uri: nsls2:Crystal_Size
    domain_of:
    - CrystallizationConditions
    - XRayPreparation
    range: string
  cryo_protectant:
    name: cryo_protectant
    description: Cryoprotectant used for crystal cooling
    comments:
    - 'Maps to NSLS2 spreadsheet: Cryo_Protectant'
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    slot_uri: nsls2:Cryo_Protectant
    domain_of:
    - CrystallizationConditions
    range: string
  crystal_id:
    name: crystal_id
    description: Identifier for the specific crystal used
    comments:
    - 'Maps to NSLS2 spreadsheet: Crystal_ID'
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    slot_uri: nsls2:Crystal_ID
    domain_of:
    - CrystallizationConditions
    range: string
  screen_name:
    name: screen_name
    description: Name of crystallization screen used
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    domain_of:
    - CrystallizationConditions
    - XRayPreparation
  temperature_c:
    name: temperature_c
    description: Crystallization temperature in Celsius
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    domain_of:
    - CrystallizationConditions
    - XRayPreparation
    range: float
  drop_ratio_protein_to_reservoir:
    name: drop_ratio_protein_to_reservoir
    description: Ratio of protein to reservoir solution in drop (e.g., 1:1, 2:1)
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    domain_of:
    - CrystallizationConditions
    - XRayPreparation
  reservoir_volume_ul:
    name: reservoir_volume_ul
    description: Reservoir volume in microliters
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    domain_of:
    - CrystallizationConditions
    - XRayPreparation
    range: float
  seeding_type:
    name: seeding_type
    description: Type of seeding used (micro, macro, streak)
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    domain_of:
    - CrystallizationConditions
    - XRayPreparation
  seed_stock_dilution:
    name: seed_stock_dilution
    description: Dilution factor for seed stock
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    domain_of:
    - CrystallizationConditions
    - XRayPreparation

Induced

name: CrystallizationConditions
description: Crystal growth conditions for X-ray crystallography (NSLS2 Crystallization
  mapping)
from_schema: https://w3id.org/lambda-ber-schema/
is_a: AttributeGroup
attributes:
  method:
    name: method
    description: Crystallization method used
    comments:
    - 'Maps to NSLS2 spreadsheet: Method'
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    slot_uri: nsls2:Method
    alias: method
    owner: CrystallizationConditions
    domain_of:
    - CrystallizationConditions
    range: CrystallizationMethodEnum
  crystallization_conditions:
    name: crystallization_conditions
    description: Complete description of crystallization conditions including precipitant,
      pH, salts
    comments:
    - 'Maps to NSLS2 spreadsheet: Conditions'
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    slot_uri: nsls2:Conditions
    alias: crystallization_conditions
    owner: CrystallizationConditions
    domain_of:
    - CrystallizationConditions
    - XRayPreparation
    range: string
  drop_volume:
    name: drop_volume
    description: Total drop volume in nanoliters
    comments:
    - 'Maps to NSLS2 spreadsheet: Drop_Volume'
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    slot_uri: nsls2:Drop_Volume
    alias: drop_volume
    owner: CrystallizationConditions
    domain_of:
    - CrystallizationConditions
    range: float
  protein_concentration:
    name: protein_concentration
    description: Protein concentration for crystallization in mg/mL
    comments:
    - 'Maps to NSLS2 spreadsheet: Protein_Concentration'
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    slot_uri: nsls2:Protein_Concentration
    alias: protein_concentration
    owner: CrystallizationConditions
    domain_of:
    - CrystallizationConditions
    range: float
  crystal_size_um:
    name: crystal_size_um
    description: Crystal dimensions in micrometers (length x width x height)
    comments:
    - 'Maps to NSLS2 spreadsheet: Crystal_Size'
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    slot_uri: nsls2:Crystal_Size
    alias: crystal_size_um
    owner: CrystallizationConditions
    domain_of:
    - CrystallizationConditions
    - XRayPreparation
    range: string
  cryo_protectant:
    name: cryo_protectant
    description: Cryoprotectant used for crystal cooling
    comments:
    - 'Maps to NSLS2 spreadsheet: Cryo_Protectant'
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    slot_uri: nsls2:Cryo_Protectant
    alias: cryo_protectant
    owner: CrystallizationConditions
    domain_of:
    - CrystallizationConditions
    range: string
  crystal_id:
    name: crystal_id
    description: Identifier for the specific crystal used
    comments:
    - 'Maps to NSLS2 spreadsheet: Crystal_ID'
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    slot_uri: nsls2:Crystal_ID
    alias: crystal_id
    owner: CrystallizationConditions
    domain_of:
    - CrystallizationConditions
    range: string
  screen_name:
    name: screen_name
    description: Name of crystallization screen used
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    alias: screen_name
    owner: CrystallizationConditions
    domain_of:
    - CrystallizationConditions
    - XRayPreparation
    range: string
  temperature_c:
    name: temperature_c
    description: Crystallization temperature in Celsius
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    alias: temperature_c
    owner: CrystallizationConditions
    domain_of:
    - CrystallizationConditions
    - XRayPreparation
    range: float
  drop_ratio_protein_to_reservoir:
    name: drop_ratio_protein_to_reservoir
    description: Ratio of protein to reservoir solution in drop (e.g., 1:1, 2:1)
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    alias: drop_ratio_protein_to_reservoir
    owner: CrystallizationConditions
    domain_of:
    - CrystallizationConditions
    - XRayPreparation
    range: string
  reservoir_volume_ul:
    name: reservoir_volume_ul
    description: Reservoir volume in microliters
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    alias: reservoir_volume_ul
    owner: CrystallizationConditions
    domain_of:
    - CrystallizationConditions
    - XRayPreparation
    range: float
  seeding_type:
    name: seeding_type
    description: Type of seeding used (micro, macro, streak)
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    alias: seeding_type
    owner: CrystallizationConditions
    domain_of:
    - CrystallizationConditions
    - XRayPreparation
    range: string
  seed_stock_dilution:
    name: seed_stock_dilution
    description: Dilution factor for seed stock
    from_schema: https://w3id.org/lambda-ber-schema/
    rank: 1000
    alias: seed_stock_dilution
    owner: CrystallizationConditions
    domain_of:
    - CrystallizationConditions
    - XRayPreparation
    range: string
  description:
    name: description
    from_schema: https://w3id.org/lambda-ber-schema/
    alias: description
    owner: CrystallizationConditions
    domain_of:
    - NamedThing
    - AttributeGroup
    range: string