9: Describe DNA-Molecule as a kind of Container

Shaken formulation:

Describe a DNA-Molecule as a kind of Container ?

Answer

played-by
in-event
has-region
structural basic unit
encloses
does-not-enclose
is-between
purpose
part


Question in KM

Template

Describe <instance> as a kind of <class>?

Parameters

INSTANCE
CLASS Container

Code

	 ("p6b: "Describe <instance> as a kind of <class>"
 (defun answer-p6b-data (instance class)
  (setq instance (okbc:coerce-to-frame instance  :kb *base-kb*))
  (setq class (okbc:coerce-to-frame class  :kb *base-kb*))
  `(answer
    (question-type p6b)
    (instance ,instance)
    (class ,class)
    (slot-values ,@(loop for slot in (question-slot-options class)
		  when (okbc:get-slot-values instance slot
					     :kb *base-kb* :inference-level :all-inferable)
		  collect (cons slot 
				(okbc:get-slot-values instance slot
					     :kb *base-kb* :inference-level :all-inferable))))))

)

	 

Raw Answer

((question-type p6b) (instance _dna-molecule1060)
 (class container)
 (slot-values (played-by _entity1061)
  (in-event _be-contained1064)
  (has-region _replication-origin1066)
  (has-basic-structural-unit _base-pair1065)
  (encloses _spatial-entity1063)
  (does-not-enclose _spatial-entity1062)
  (is-between
   (args _spatial-entity1063 _spatial-entity1062))
  (purpose _container1068)
  (has-part _base-pair1065 _dna-strand1069
   _dna-strand1070))
 (explanations
  ((_dna-molecule1060 played-by _entity1061
    ((a entity with
      (instrument-of
       ((the in-event of _dna-molecule1060
         (@ instrument played-by entity instrument-of))))
      (@ instrument played-by))))
   (_dna-molecule1060 in-event _be-contained1064
    ((a be-contained with
      (object
       ((the content of _dna-molecule1060
         (@ container in-event be-contained object))))
      (@ container in-event))))
   (_dna-molecule1060 has-region _replication-origin1066
    ((a replication-origin (@ dna-molecule has-region))))
   (_dna-molecule1060 has-basic-structural-unit
    _base-pair1065
    ((a base-pair
      (@ dna-molecule has-basic-structural-unit))))
   (_dna-molecule1060 encloses _spatial-entity1063
    ((a spatial-entity with (is-inside (_dna-molecule1060))
      (@ container encloses))))
   (_dna-molecule1060 does-not-enclose _spatial-entity1062
    ((a spatial-entity with
      (is-outside (_dna-molecule1060))
      (@ container does-not-enclose))))
   (_dna-molecule1060 purpose _container1068
    ((a container with
      (in-event
       ((a genetic-information-storage with
         (object
          ((a genome
            (@ dna-molecule purpose container in-event
             genetic-information-storage object))))
         (@ dna-molecule purpose container in-event))))
      (@ dna-molecule purpose))))
   (_dna-molecule1060 has-part _base-pair1065
    ((the has-basic-structural-unit of _dna-molecule1060)))
   (_dna-molecule1060 has-part _dna-strand1069
    ((a nucleotide-sequence)
     (a dna-strand called DNA-Strand-1 with
      (complement
       (((the dna-strand has-part of _dna-molecule1060)
         called DNA-Strand-2)))
      (object-of
       ((a be-attached-to with
         (object
          (((the has-part of _dna-molecule1060) called
            DNA-Strand-2)))
         (instrument
          ((a chemical-sequence with
            (element-type (hydrogen-bond)))))))))))
   (_dna-molecule1060 has-part _dna-strand1070
    ((a dna-strand called DNA-Strand-2))))))
	      

Explanation

The Tangible-Entity is played-by of the DNA-Molecule The Be-Contained is in-event of the DNA-Molecule The Replication-Origin is has-region of the DNA-Molecule The Base-Pair is structural basic unit of the DNA-Molecule The Spatial-Entity is encloses of the DNA-Molecule The Spatial-Entity is does-not-enclose of the DNA-Molecule The Container is purpose of the DNA-Molecule The Base-Pair is part of the DNA-Molecule The DNA-Strand is part of the DNA-Molecule The DNA-Strand is part of the DNA-Molecule

Terms

Terms Definitions
  the Base-Pair       An instance of Base-Pair
  the Be-Contained       An instance of Be-Contained
  the Container       An instance of Container
  the DNA-Molecule       An instance of DNA-Molecule
  the DNA-Strand       An instance of DNA-Strand
  the DNA-Strand       An instance of DNA-Strand
  the Tangible-Entity       An instance of Tangible-Entity
  the Replication-Origin       An instance of Replication-Origin
  the Spatial-Entity       An instance of Spatial-Entity
  the Spatial-Entity       An instance of Spatial-Entity
 Base-Pair   Two nucleotides in an RNA or a DNA molecule that are paired by hydrogen bonds - for example, G with C, and A with T or U. Alberts:ECB:G-3.
 Be-Attached-To   one object attached to another
 Be-Contained   an object is contained in a container
 Chemical-Sequence   A sequence of monomers that form a chain, e.g. polymers. Souther:2001
 Container   Things that have contents. A container is the Instrument in a Be-Contained state.
 DNA-Molecule   Double-stranded polynucleotide formed from two separate chains of deoxyribonucleotide units; serves as the carrier of genetic information. Alberts:ECB:G-6
 DNA-Strand   One of two complementary anti-parallel chains that make up the DNA double helical molecule. Souther.
 Entity   Things that are, such as Objects and Substances, as opposed to Things that happen.
 Genetic-Information-Storage  
 Genome   The total genetic information carried by a cell or an organism (or the DNA molecules that carry this information. Alberts:ECB:G-8.
 Hydrogen-Bond   A weak chemical bond between an electronegative atom such as nitrogen or oxygen and a hydrogen atom bound to another electronegative atom. Alberts:ECB:G-9.
 Instrument   Things, such as tools, used by an Agent in some Event.
 Nucleotide-Sequence   A sequence of nucleotides which forms a nucleotide polymer. Souther:2001
 Replication-Origin   Site on a chromosome at which DNA replication begins. Alberts:ECB:G-16.
 Spatial-Entity   No Textual Definition
 Tangible-Entity   an Entity with physical extent
 called   No Textual Definition
 complement   an Entity has a complement another Entity.
 content   an Entity contains another Entity.
 does-not-enclose   No Textual Definition
 element-type   No Textual Definition
 encloses   No Textual Definition
 has-basic-structural-unit   the many identical physical things that make up a whole structurally (as opposed to functionally).
 has-part   the parts that comprise a whole.
 has-region   No Textual Definition
 in-event   the entity that plays this Role participates in Event
 instrument   the entity that is used (by the agent if there is one) to perform an event.
 instrument-of   No Textual Definition
 is-between   a place or object separates two others
 is-inside   One place or object is completely inside another.
 is-outside   a place or object being on or toward the outer side or surface of another
 object   the entity that is acted upon by an Event. The main passive participant in the Event.
 object-of   No Textual Definition
 played-by   No Textual Definition
 purpose   The default purpose of an entity.