#NDB Fri Oct 11 14:00:34 1996 # Standard geometries for phosphate group data_PO4 _chem_comp.type phosphate _chem_comp.id PO4 _chem_comp.parent PO4 _chem_comp.name PO4 # ################ # NDB_DBSEARCH # ################ _ndb_dbsearch.id PO4_1 _ndb_dbsearch.sample_size 15 _ndb_dbsearch.time . _ndb_dbsearch.db ndb _ndb_dbsearch.dbversion . _ndb_dbsearch.dbreleasedate . # ######### # ATOMS # ######### # The hydrogen atoms are added so that only the deoxy sugar is picked up; # ndbdict_csd must be run with the switch to flush explicit hydrogens. # loop_ _chem_comp_atom.comp_id _chem_comp_atom.atom_id _chem_comp_atom.type_symbol _chem_comp_atom.substruct_code _chem_comp_atom.charge _chem_comp_atom.model_cartn_x _chem_comp_atom.model_cartn_y _chem_comp_atom.model_cartn_z PO4 P P phosphate 0 0.224 -4.365 2.383 PO4 O1P O phosphate 0 1.336 -3.982 3.290 PO4 O2P O phosphate -1 0.278 -5.664 1.666 PO4 O O phosphate -1 0.042 -3.205 1.307 PO4 O3* O phosphate -1 0.272 -1.450 -2.624 # ######### # BONDS # ######### # loop_ _chem_comp_bond.comp_id _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.value_order _chem_comp_bond.value_dist _chem_comp_bond.value_dist_esd PO4 P O3* sing 1.485 0.017 PO4 P O1P doub 1.485 0.017 PO4 P O2P sing 1.485 0.017 PO4 P O sing 1.485 0.017 # ###################### # NDB_CHEM_COMP_BOND # ###################### loop_ _ndb_chem_comp_bond.comp_id _ndb_chem_comp_bond.atom_id_1 _ndb_chem_comp_bond.atom_id_2 _ndb_chem_comp_bond.csd_bond_order _ndb_chem_comp_bond.dbsearch_id PO4 P O3* '1' PO4_1 PO4 P O1P '1' PO4_1 PO4 P O2P '1' PO4_1 PO4 P O '1' PO4_1 # ################### # CHEM_COMP_ANGLE # ################### loop_ _chem_comp_angle.comp_id _chem_comp_angle.atom_id_1 _chem_comp_angle.atom_id_2 _chem_comp_angle.atom_id_3 _chem_comp_angle.value_angle _chem_comp_angle.value_angle_esd PO4 O1P P O2P 119.6 1.5 PO4 O1P P O 108.3 3.2 PO4 O2P P O 107.3 3.2 # ################### # NDB_CHEM_COMP_ANGLE # ################### loop_ _ndb_chem_comp_angle.comp_id _ndb_chem_comp_angle.atom_id_1 _ndb_chem_comp_angle.atom_id_2 _ndb_chem_comp_angle.atom_id_3 _ndb_chem_comp_angle.dbsearch_id PO4 O1P P O2P PO4_1 PO4 O1P P O PO4_1 PO4 O2P P O PO4_1 ############### # NDB_REFCODE # ############## loop_ _ndb_dbitem.id _ndb_dbitem.dbsearch_id _ndb_dbitem.molecule_id _ndb_dbitem.r_factor _ndb_dbitem.sigma _ndb_dbitem.compound _ndb_dbitem.citation . PO4_1 . . . . . . PO4_1 . . . . . . PO4_1 . . . . . . PO4_1 . . . . . . PO4_1 . . . . . . PO4_1 . . . . . . PO4_1 . . . . . . PO4_1 . . . . . . PO4_1 . . . . . . PO4_1 . . . . . . PO4_1 . . . . . . PO4_1 . . . . . . PO4_1 . . . . . . PO4_1 . . . . . . PO4_1 . . . . .