data_1ZS6 # _model_server_result.job_id NoYffar2V7Dz_ZyMIYBfKQ _model_server_result.datetime_utc '2024-12-21 14:20:34' _model_server_result.server_version 0.9.12 _model_server_result.query_name ligand _model_server_result.source_id pdb-bcif _model_server_result.entry_id 1zs6 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":201}' # _entry.id 1ZS6 # _exptl.entry_id 1ZS6 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 427.201 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "ADENOSINE-5'-DIPHOSPHATE" _entity.pdbx_number_of_molecules 3 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 90 _cell.angle_gamma 90 _cell.entry_id 1ZS6 _cell.length_a 86.614 _cell.length_b 86.614 _cell.length_c 126.856 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1ZS6 _symmetry.cell_setting ? _symmetry.Int_Tables_number 96 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 43 21 2' # _pdbx_struct_assembly.method_details PISA,PQS _pdbx_struct_assembly.oligomeric_details hexameric _pdbx_struct_assembly.oligomeric_count 6 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 7_555 y,x,-z 0 1 0 1 0 0 0 0 -1 0 0 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 D N N ? 2 E N N ? 2 F N N # _chem_comp.formula 'C10 H15 N5 O10 P2' _chem_comp.formula_weight 427.201 _chem_comp.id ADP _chem_comp.mon_nstd_flag n _chem_comp.name "ADENOSINE-5'-DIPHOSPHATE" _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # loop_ _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.comp_id _chem_comp_bond.value_order _chem_comp_bond.pdbx_ordinal _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_aromatic_flag PB O1B ADP doub 1 n n PB O2B ADP sing 2 n n PB O3B ADP sing 3 n n PB O3A ADP sing 4 n n O2B HOB2 ADP sing 5 n n O3B HOB3 ADP sing 6 n n PA O1A ADP doub 7 n n PA O2A ADP sing 8 n n PA O3A ADP sing 9 n n PA O5' ADP sing 10 n n O2A HOA2 ADP sing 11 n n O5' C5' ADP sing 12 n n C5' C4' ADP sing 13 n n C5' "H5'1" ADP sing 14 n n C5' "H5'2" ADP sing 15 n n C4' O4' ADP sing 16 n n C4' C3' ADP sing 17 n n C4' H4' ADP sing 18 n n O4' C1' ADP sing 19 n n C3' O3' ADP sing 20 n n C3' C2' ADP sing 21 n n C3' H3' ADP sing 22 n n O3' HO3' ADP sing 23 n n C2' O2' ADP sing 24 n n C2' C1' ADP sing 25 n n C2' H2' ADP sing 26 n n O2' HO2' ADP sing 27 n n C1' N9 ADP sing 28 n n C1' H1' ADP sing 29 n n N9 C8 ADP sing 30 n y N9 C4 ADP sing 31 n y C8 N7 ADP doub 32 n y C8 H8 ADP sing 33 n n N7 C5 ADP sing 34 n y C5 C6 ADP sing 35 n y C5 C4 ADP doub 36 n y C6 N6 ADP sing 37 n n C6 N1 ADP doub 38 n y N6 HN61 ADP sing 39 n n N6 HN62 ADP sing 40 n n N1 C2 ADP sing 41 n y C2 N3 ADP doub 42 n y C2 H2 ADP sing 43 n n N3 C4 ADP sing 44 n y # _atom_sites.entry_id 1ZS6 _atom_sites.fract_transf_matrix[1][1] 0.011545 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.011545 _atom_sites.fract_transf_matrix[2][3] 0 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.007883 _atom_sites.fract_transf_vector[1] 0 _atom_sites.fract_transf_vector[2] 0 _atom_sites.fract_transf_vector[3] 0 # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_ins_code D 2 ADP A 1 201 201 ADP ADP . E 2 ADP B 1 202 202 ADP ADP . F 2 ADP D 1 203 203 ADP ADP . G 3 HOH A 1 314 314 HOH HOH . G 3 HOH A 2 320 320 HOH HOH . G 3 HOH A 3 340 340 HOH HOH . G 3 HOH A 4 346 346 HOH HOH . G 3 HOH A 5 347 347 HOH HOH . G 3 HOH A 6 350 350 HOH HOH . G 3 HOH A 7 352 352 HOH HOH . H 3 HOH B 1 301 301 HOH HOH . H 3 HOH B 2 302 302 HOH HOH . H 3 HOH B 3 303 303 HOH HOH . H 3 HOH B 4 304 304 HOH HOH . H 3 HOH B 5 305 305 HOH HOH . H 3 HOH B 6 306 306 HOH HOH . H 3 HOH B 7 308 308 HOH HOH . H 3 HOH B 8 309 309 HOH HOH . H 3 HOH B 9 311 311 HOH HOH . H 3 HOH B 10 317 317 HOH HOH . H 3 HOH B 11 325 325 HOH HOH . H 3 HOH B 12 330 330 HOH HOH . H 3 HOH B 13 331 331 HOH HOH . H 3 HOH B 14 334 334 HOH HOH . H 3 HOH B 15 335 335 HOH HOH . H 3 HOH B 16 336 336 HOH HOH . H 3 HOH B 17 338 338 HOH HOH . H 3 HOH B 18 341 341 HOH HOH . H 3 HOH B 19 344 344 HOH HOH . H 3 HOH B 20 345 345 HOH HOH . H 3 HOH B 21 348 348 HOH HOH . H 3 HOH B 22 349 349 HOH HOH . H 3 HOH B 23 353 353 HOH HOH . I 3 HOH D 1 307 307 HOH HOH . I 3 HOH D 2 310 310 HOH HOH . I 3 HOH D 3 312 312 HOH HOH . I 3 HOH D 4 313 313 HOH HOH . I 3 HOH D 5 315 315 HOH HOH . I 3 HOH D 6 316 316 HOH HOH . I 3 HOH D 7 318 318 HOH HOH . I 3 HOH D 8 319 319 HOH HOH . I 3 HOH D 9 321 321 HOH HOH . I 3 HOH D 10 322 322 HOH HOH . I 3 HOH D 11 323 323 HOH HOH . I 3 HOH D 12 324 324 HOH HOH . I 3 HOH D 13 326 326 HOH HOH . I 3 HOH D 14 327 327 HOH HOH . I 3 HOH D 15 328 328 HOH HOH . I 3 HOH D 16 329 329 HOH HOH . I 3 HOH D 17 332 332 HOH HOH . I 3 HOH D 18 333 333 HOH HOH . I 3 HOH D 19 337 337 HOH HOH . I 3 HOH D 20 339 339 HOH HOH . I 3 HOH D 21 342 342 HOH HOH . I 3 HOH D 22 343 343 HOH HOH . I 3 HOH D 23 351 351 HOH HOH . # loop_ _atom_site.group_PDB _atom_site.id _atom_site.type_symbol _atom_site.label_atom_id _atom_site.label_comp_id _atom_site.label_seq_id _atom_site.label_alt_id _atom_site.pdbx_PDB_ins_code _atom_site.label_asym_id _atom_site.label_entity_id _atom_site.Cartn_x _atom_site.Cartn_y _atom_site.Cartn_z _atom_site.occupancy _atom_site.B_iso_or_equiv _atom_site.pdbx_formal_charge _atom_site.auth_atom_id _atom_site.auth_comp_id _atom_site.auth_seq_id _atom_site.auth_asym_id _atom_site.pdbx_PDB_model_num HETATM 1 P PB ADP . . . D 2 63.282 33.496 -1.626 1 43.72 ? PB ADP 201 A 1 HETATM 2 O O1B ADP . . . D 2 64.093 33.741 -0.37 1 43.48 ? O1B ADP 201 A 1 HETATM 3 O O2B ADP . . . D 2 62.156 32.51 -1.412 1 43.82 ? O2B ADP 201 A 1 HETATM 4 O O3B ADP . . . D 2 62.856 34.751 -2.358 1 42.51 ? O3B ADP 201 A 1 HETATM 5 P PA ADP . . . D 2 65.823 33.018 -2.98 1 43.27 ? PA ADP 201 A 1 HETATM 6 O O1A ADP . . . D 2 66.397 33.944 -1.933 1 43.86 ? O1A ADP 201 A 1 HETATM 7 O O2A ADP . . . D 2 66.485 31.687 -3.247 1 43.69 ? O2A ADP 201 A 1 HETATM 8 O O3A ADP . . . D 2 64.256 32.713 -2.665 1 43.68 ? O3A ADP 201 A 1 HETATM 9 O O5' ADP . . . D 2 65.816 33.797 -4.384 1 41.37 ? O5' ADP 201 A 1 HETATM 10 C C5' ADP . . . D 2 65.297 35.118 -4.494 1 40.15 ? C5' ADP 201 A 1 HETATM 11 C C4' ADP . . . D 2 64.42 35.203 -5.737 1 38.99 ? C4' ADP 201 A 1 HETATM 12 O O4' ADP . . . D 2 65.162 34.762 -6.875 1 38.84 ? O4' ADP 201 A 1 HETATM 13 C C3' ADP . . . D 2 63.187 34.308 -5.679 1 38.33 ? C3' ADP 201 A 1 HETATM 14 O O3' ADP . . . D 2 62.083 34.964 -5.042 1 37.7 ? O3' ADP 201 A 1 HETATM 15 C C2' ADP . . . D 2 62.928 33.96 -7.135 1 38.54 ? C2' ADP 201 A 1 HETATM 16 O O2' ADP . . . D 2 62.055 34.902 -7.783 1 37.35 ? O2' ADP 201 A 1 HETATM 17 C C1' ADP . . . D 2 64.301 34.071 -7.784 1 38.66 ? C1' ADP 201 A 1 HETATM 18 N N9 ADP . . . D 2 64.825 32.71 -8.086 1 38.49 ? N9 ADP 201 A 1 HETATM 19 C C8 ADP . . . D 2 65.283 31.802 -7.196 1 38.45 ? C8 ADP 201 A 1 HETATM 20 N N7 ADP . . . D 2 65.682 30.659 -7.817 1 38.64 ? N7 ADP 201 A 1 HETATM 21 C C5 ADP . . . D 2 65.478 30.835 -9.134 1 38.11 ? C5 ADP 201 A 1 HETATM 22 C C6 ADP . . . D 2 65.683 30.031 -10.356 1 38.46 ? C6 ADP 201 A 1 HETATM 23 N N6 ADP . . . D 2 66.195 28.786 -10.269 1 38.52 ? N6 ADP 201 A 1 HETATM 24 N N1 ADP . . . D 2 65.339 30.581 -11.549 1 38.72 ? N1 ADP 201 A 1 HETATM 25 C C2 ADP . . . D 2 64.826 31.832 -11.636 1 38.68 ? C2 ADP 201 A 1 HETATM 26 N N3 ADP . . . D 2 64.612 32.622 -10.564 1 37.98 ? N3 ADP 201 A 1 HETATM 27 C C4 ADP . . . D 2 64.912 32.186 -9.311 1 38.15 ? C4 ADP 201 A 1 # _model_server_stats.io_time_ms 25 _model_server_stats.parse_time_ms 28 _model_server_stats.create_model_time_ms 18 _model_server_stats.query_time_ms 1249 _model_server_stats.encode_time_ms 8 _model_server_stats.element_count 27 #