Overview Documentation

Documentation

LiteMol Coordinate Server 1.4.9, node v6.9.2



Note:

  • Empty-string values of parameters are ignored by the server, e.g. /entities?entityId=&type=water is the same as /entities?type=water.
  • Names of residues/chains/entities/etc. are case sensitive.


ambientResidues

Identifies all residues within the given radius from the source residue.

  • entityId [ String ] Default value: n/a
  • asymId [ String ] Default value: n/a
  • authAsymId [ String ] Default value: n/a
  • name [ String ] Default value: n/a
  • authName [ String ] Default value: n/a
  • insCode [ String ] Default value: n/a
  • seqNumber [ Integer ] Default value: n/a
  • authSeqNumber [ Integer ] Default value: n/a
  • radius [ Float ] Default value: 5
  • modelId [ String ] Default value: n/a
  • atomSitesOnly [ Integer ] Default value: 0

/1atp/ambientResidues?entityId=&asymId=&authAsymId=&name=&authName=&insCode=&seqNumber=&authSeqNumber=&radius=&modelId=&atomSitesOnly=

Included categories:
_entry, _entity, _struct_conf, _struct_sheet_range, _pdbx_struct_assembly, _pdbx_struct_assembly_gen, _pdbx_struct_oper_list, _cell, _symmetry, _entity_poly, _struct_asym, _pdbx_struct_mod_residue, _chem_comp_bond, _atom_sites, _atom_site


assembly

Constructs assembly with the given id.

  • id [ String ] Default value: 1
  • modelId [ String ] Default value: n/a
  • atomSitesOnly [ Integer ] Default value: 0

/1atp/assembly?id=&modelId=&atomSitesOnly=

Included categories:
_entry, _entity, _cell, _symmetry, _struct_conf, _struct_sheet_range, _entity_poly, _struct_asym, _pdbx_struct_mod_residue, _chem_comp_bond, _atom_sites, _atom_site


backbone

Atoms named N, CA, C, O, P, OP1, OP2, O3', O5', C3', C4', C5' from polymer entities.

  • modelId [ String ] Default value: n/a
  • atomSitesOnly [ Integer ] Default value: 0

/1atp/backbone?modelId=&atomSitesOnly=

Included categories:
_entry, _entity, _struct_conf, _struct_sheet_range, _pdbx_struct_assembly, _pdbx_struct_assembly_gen, _pdbx_struct_oper_list, _cell, _symmetry, _entity_poly, _struct_asym, _pdbx_struct_mod_residue, _chem_comp_bond, _atom_sites, _atom_site


cartoon

Atoms necessary to construct cartoons representation of the molecule (atoms named CA, O, O5', C3', C4', N3 from polymer entities) + HET groups + water.

  • modelId [ String ] Default value: n/a
  • atomSitesOnly [ Integer ] Default value: 0

/1atp/cartoon?modelId=&atomSitesOnly=

Included categories:
_entry, _entity, _struct_conf, _struct_sheet_range, _pdbx_struct_assembly, _pdbx_struct_assembly_gen, _pdbx_struct_oper_list, _cell, _symmetry, _entity_poly, _struct_asym, _pdbx_struct_mod_residue, _chem_comp_bond, _atom_sites, _atom_site


chains

Chains that satisfy the given parameters.

  • entityId [ String ] Default value: n/a
  • asymId [ String ] Default value: n/a
  • authAsymId [ String ] Default value: n/a
  • modelId [ String ] Default value: n/a
  • atomSitesOnly [ Integer ] Default value: 0

/1atp/chains?entityId=&asymId=&authAsymId=&modelId=&atomSitesOnly=

Included categories:
_entry, _entity, _struct_conf, _struct_sheet_range, _pdbx_struct_assembly, _pdbx_struct_assembly_gen, _pdbx_struct_oper_list, _cell, _symmetry, _entity_poly, _struct_asym, _pdbx_struct_mod_residue, _chem_comp_bond, _atom_sites, _atom_site


entities

Entities that satisfy the given parameters.

  • entityId [ String ] Default value: n/a
  • type [ String ] Default value: n/a
  • modelId [ String ] Default value: n/a
  • atomSitesOnly [ Integer ] Default value: 0

/1atp/entities?entityId=&type=&modelId=&atomSitesOnly=

Included categories:
_entry, _entity, _struct_conf, _struct_sheet_range, _pdbx_struct_assembly, _pdbx_struct_assembly_gen, _pdbx_struct_oper_list, _cell, _symmetry, _entity_poly, _struct_asym, _pdbx_struct_mod_residue, _chem_comp_bond, _atom_sites, _atom_site


het

All non-water 'HETATM' records.

  • modelId [ String ] Default value: n/a
  • atomSitesOnly [ Integer ] Default value: 0

/1atp/het?modelId=&atomSitesOnly=

Included categories:
_entry, _entity, _struct_conf, _struct_sheet_range, _pdbx_struct_assembly, _pdbx_struct_assembly_gen, _pdbx_struct_oper_list, _cell, _symmetry, _entity_poly, _struct_asym, _pdbx_struct_mod_residue, _chem_comp_bond, _atom_sites, _atom_site


ligandInteraction

Identifies symmetry mates and returns the specified atom set and all residues within the given radius.

  • entityId [ String ] Default value: n/a
  • asymId [ String ] Default value: n/a
  • authAsymId [ String ] Default value: n/a
  • name [ String ] Default value: n/a
  • authName [ String ] Default value: n/a
  • insCode [ String ] Default value: n/a
  • seqNumber [ Integer ] Default value: n/a
  • authSeqNumber [ Integer ] Default value: n/a
  • radius [ Float ] Default value: 5
  • modelId [ String ] Default value: n/a
  • atomSitesOnly [ Integer ] Default value: 0

/1atp/ligandInteraction?entityId=&asymId=&authAsymId=&name=&authName=&insCode=&seqNumber=&authSeqNumber=&radius=&modelId=&atomSitesOnly=

Included categories:
_entry, _entity, _cell, _symmetry, _struct_conf, _struct_sheet_range, _entity_poly, _struct_asym, _pdbx_struct_mod_residue, _chem_comp_bond, _atom_sites, _atom_site


residues

Residues that satisfy the given parameters.

  • entityId [ String ] Default value: n/a
  • asymId [ String ] Default value: n/a
  • authAsymId [ String ] Default value: n/a
  • name [ String ] Default value: n/a
  • authName [ String ] Default value: n/a
  • insCode [ String ] Default value: n/a
  • seqNumber [ Integer ] Default value: n/a
  • authSeqNumber [ Integer ] Default value: n/a
  • modelId [ String ] Default value: n/a
  • atomSitesOnly [ Integer ] Default value: 0

/1atp/residues?entityId=&asymId=&authAsymId=&name=&authName=&insCode=&seqNumber=&authSeqNumber=&modelId=&atomSitesOnly=

Included categories:
_entry, _entity, _struct_conf, _struct_sheet_range, _pdbx_struct_assembly, _pdbx_struct_assembly_gen, _pdbx_struct_oper_list, _cell, _symmetry, _entity_poly, _struct_asym, _pdbx_struct_mod_residue, _chem_comp_bond, _atom_sites, _atom_site


sidechain

Atoms not named N, CA, C, O, P, OP1, OP2, O3', O5', C3', C5' from polymer entities.

  • modelId [ String ] Default value: n/a
  • atomSitesOnly [ Integer ] Default value: 0

/1atp/sidechain?modelId=&atomSitesOnly=

Included categories:
_entry, _entity, _struct_conf, _struct_sheet_range, _pdbx_struct_assembly, _pdbx_struct_assembly_gen, _pdbx_struct_oper_list, _cell, _symmetry, _entity_poly, _struct_asym, _pdbx_struct_mod_residue, _chem_comp_bond, _atom_sites, _atom_site


symmetryMates

Identifies symmetry mates within the given radius.

  • radius [ Float ] Default value: 5
  • modelId [ String ] Default value: n/a
  • atomSitesOnly [ Integer ] Default value: 0

/1atp/symmetryMates?radius=&modelId=&atomSitesOnly=

Included categories:
_entry, _entity, _cell, _symmetry, _struct_conf, _struct_sheet_range, _entity_poly, _struct_asym, _pdbx_struct_mod_residue, _chem_comp_bond, _atom_sites, _atom_site


water

Atoms from entities with type water.

  • modelId [ String ] Default value: n/a
  • atomSitesOnly [ Integer ] Default value: 0

/1atp/water?modelId=&atomSitesOnly=

Included categories:
_entry, _entity, _struct_conf, _struct_sheet_range, _pdbx_struct_assembly, _pdbx_struct_assembly_gen, _pdbx_struct_oper_list, _cell, _symmetry, _entity_poly, _struct_asym, _pdbx_struct_mod_residue, _chem_comp_bond, _atom_sites, _atom_site