XmlmmCIF equivalent: entity
Data items in the ENTITY category record details (such as
chemical composition, name, and source) about the molecular
entities that are present in the crystallographic structure.
Items in the various ENTITY sub-categories provide a full
chemical description of these molecular entities.
Entities are of three types: polymer, non-polymer and water.
Note that the water category includes only water; ordered
solvent such as sulfate ion or acetone would be described as
individual non-polymer entities.
The ENTITY category is specific to macromolecular CIF
applications, and replaces the function of the CHEMICAL category
in the CIF core.
It is important to remember that the ENTITY data are not the
result of the crystallographic experiment; those results are
represented in the ATOM_SITE data items. ENTITY data items
describe the chemistry of the molecules under investigation,
and can most usefully be thought of as the ideal groups to which
the structure is restrained or constrained during refinement.
It is also important to remember that entities do not correspond
directly to the enumeration of the contents of the asymmetric
unit. Entities are described only once, even in those structures
that contain multiple observations of an entity. The
STRUCT_ASYM data items, which reference the entity list,
describe and label the contents of the asymmetric unit.
XmlmmCIF equivalent: entity/details
A description of special aspects of the entity.
XmlmmCIF equivalent: entity/formula_weight
Formula mass in daltons of the entity.
XmlmmCIF equivalent: entity/pdbx_description
A description of the entity, with the name of the entity
in parenthesis.
Maps to PDB compound name.
XmlmmCIF equivalent: entity/pdbx_ec
Enzyme Commission (EC) number(s)
XmlmmCIF equivalent: entity/pdbx_formula_weight_exptl
Experimentally determined formula mass in daltons of the entity
XmlmmCIF equivalent: entity/pdbx_formula_weight_exptl_meth
Method used to determine _entity.pdbx_formula_weight_exptl.
XmlmmCIF equivalent: entity/pdbx_fragment
Entity fragment description(s).
XmlmmCIF equivalent: entity/pdbx_modification
Description(s) of any chemical or post-translational modifications
XmlmmCIF equivalent: entity/pdbx_mutation
Details about any entity mutation(s).
XmlmmCIF equivalent: entity/pdbx_number_of_molecules
A place holder for the number of molecules of the entity in
the entry.
XmlmmCIF equivalent: entity/pdbx_parent_entity_id
An identifier for the parent entity if this entity
is part of a complex entity. For instance a chimeric
entity may be decomposed into several independent
chemical entities where each component entity was
obtained from a different source.
XmlmmCIF equivalent: entity/src_method
The method by which the sample for the entity was produced.
Entities isolated directly from natural sources (tissues, soil
samples, etc.) are expected to have further information in the
ENTITY_SRC_NAT category. Entities isolated from genetically
manipulated sources are expected to have further information in
the ENTITY_SRC_GEN category.
XmlmmCIF equivalent: entity/target_id
The value of _entity.target_id points to a target idenitifier
from which this entity was generated.
XmlmmCIF equivalent: entity/type
Defines the type of the entity.
Polymer entities are expected to have corresponding
ENTITY_POLY and associated entries.
Non-polymer entities are expected to have corresponding
CHEM_COMP and associated entries.
Water entities are not expected to have corresponding
entries in the ENTITY category.
XmlmmCIF equivalent: entity/id
The value of _entity.id must uniquely identify a record in the
ENTITY list.
Note that this item need not be a number; it can be any unique
identifier.