data_5CG6 # _model_server_result.job_id vBnDHeOgGTn8MnyvA1ZjwA _model_server_result.datetime_utc '2025-03-06 21:58:11' _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 5cg6 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":404}' # _entry.id 5CG6 # loop_ _exptl.entry_id _exptl.method 5CG6 'X-RAY DIFFRACTION' 5CG6 'NEUTRON DIFFRACTION' # _entity.details ? _entity.formula_weight 283.112 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '1-HYDROXY-2-(3-PYRIDINYL)ETHYLIDENE BIS-PHOSPHONIC ACID' _entity.pdbx_number_of_molecules 1 _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 5CG6 _cell.length_a 111.627 _cell.length_b 111.627 _cell.length_c 72.553 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5CG6 _symmetry.cell_setting ? _symmetry.Int_Tables_number 92 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 41 21 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 _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' 8_554 -y,-x,-z-1/2 0 -1 0 -1 0 0 0 0 -1 0 0 -36.2765 # _struct_asym.details ? _struct_asym.entity_id 3 _struct_asym.id E _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # loop_ _struct_conn.conn_type_id _struct_conn.details _struct_conn.id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_PDB_id _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order metalc ? metalc1 A OD1 ASP 97 A ASP 103 1_555 B MG MG . A MG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.07 ? metalc ? metalc2 A OD2 ASP 97 A ASP 103 1_555 C MG MG . A MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.116 ? metalc ? metalc3 A OD2 ASP 101 A ASP 107 1_555 B MG MG . A MG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.128 ? metalc ? metalc4 A OD2 ASP 101 A ASP 107 1_555 C MG MG . A MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.245 ? metalc ? metalc5 A OD2 ASP 237 A ASP 243 1_555 D MG MG . A MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.137 ? metalc ? metalc6 B MG MG . A MG 401 1_555 E O17 RIS . A RIS 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.125 ? metalc ? metalc7 B MG MG . A MG 401 1_555 G O DOD . A DOD 505 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? metalc ? metalc8 B MG MG . A MG 401 1_555 G O DOD . A DOD 526 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.099 ? metalc ? metalc9 B MG MG . A MG 401 1_555 G O DOD . A DOD 539 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.073 ? metalc ? metalc10 C MG MG . A MG 402 1_555 E O12 RIS . A RIS 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? metalc ? metalc11 C MG MG . A MG 402 1_555 E O17 RIS . A RIS 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.096 ? metalc ? metalc12 C MG MG . A MG 402 1_555 G O DOD . A DOD 507 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.062 ? metalc ? metalc13 C MG MG . A MG 402 1_555 G O DOD . A DOD 541 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? metalc ? metalc14 D MG MG . A MG 403 1_555 E O10 RIS . A RIS 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.93 ? metalc ? metalc15 D MG MG . A MG 403 1_555 E O15 RIS . A RIS 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? metalc ? metalc16 D MG MG . A MG 403 1_555 G O DOD . A DOD 514 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.087 ? metalc ? metalc17 D MG MG . A MG 403 1_555 G O DOD . A DOD 517 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.217 ? metalc ? metalc18 D MG MG . A MG 403 1_555 G O DOD . A DOD 521 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.265 ? # _chem_comp.formula 'C7 H11 N O7 P2' _chem_comp.formula_weight 283.112 _chem_comp.id RIS _chem_comp.mon_nstd_flag . _chem_comp.name '1-HYDROXY-2-(3-PYRIDINYL)ETHYLIDENE BIS-PHOSPHONIC ACID' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms Risedronate # 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 O12 P9 RIS sing 302 n n O12 H12 RIS sing 303 n n P9 O11 RIS doub 304 n n P9 O10 RIS sing 305 n n P9 C8 RIS sing 306 n n C8 O13 RIS sing 307 n n C8 P14 RIS sing 308 n n C8 C7 RIS sing 309 n n O13 H13 RIS sing 310 n n P14 O16 RIS sing 311 n n P14 O15 RIS sing 312 n n P14 O17 RIS doub 313 n n O16 H16 RIS sing 314 n n O15 H15 RIS sing 315 n n C7 C2 RIS sing 316 n n C7 HC71 RIS sing 317 n n C7 HC72 RIS sing 318 n n C2 C1 RIS doub 319 n y C2 C3 RIS sing 320 n y C1 C6 RIS sing 321 n y C1 HC1 RIS sing 322 n n C6 C5 RIS doub 323 n y C6 HC6 RIS sing 324 n n C5 N4 RIS sing 325 n y C5 HC5 RIS sing 326 n n N4 C3 RIS doub 327 n y C3 HC3 RIS sing 328 n n HO1 O10 RIS sing 329 n n # _atom_sites.entry_id 5CG6 _atom_sites.fract_transf_matrix[1][1] 0.008958 _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] 0.008958 _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] 0.013783 _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 B 2 MG A 1 401 401 MG MG . C 2 MG A 1 402 402 MG MG . D 2 MG A 1 403 403 MG MG . E 3 RIS A 1 404 400 RIS DRG . F 4 IPE A 1 406 404 IPE IPP . G 5 DOD A 1 501 534 DOD DOD . G 5 DOD A 2 502 526 DOD DOD . G 5 DOD A 3 503 544 DOD DOD . G 5 DOD A 4 504 545 DOD DOD . G 5 DOD A 5 505 501 DOD DOD . G 5 DOD A 6 506 529 DOD DOD . G 5 DOD A 7 507 505 DOD DOD . G 5 DOD A 8 508 527 DOD DOD . G 5 DOD A 9 509 524 DOD DOD . G 5 DOD A 10 510 518 DOD DOD . G 5 DOD A 11 511 547 DOD DOD . G 5 DOD A 12 512 559 DOD DOD . G 5 DOD A 13 513 536 DOD DOD . G 5 DOD A 14 514 506 DOD DOD . G 5 DOD A 15 515 558 DOD DOD . G 5 DOD A 16 516 521 DOD DOD . G 5 DOD A 17 517 508 DOD DOD . G 5 DOD A 18 518 592 DOD DOD . G 5 DOD A 19 519 537 DOD DOD . G 5 DOD A 20 520 550 DOD DOD . G 5 DOD A 21 521 507 DOD DOD . G 5 DOD A 22 522 530 DOD DOD . G 5 DOD A 23 523 525 DOD DOD . G 5 DOD A 24 524 551 DOD DOD . G 5 DOD A 25 525 554 DOD DOD . G 5 DOD A 26 526 502 DOD DOD . G 5 DOD A 27 527 515 DOD DOD . G 5 DOD A 28 528 516 DOD DOD . G 5 DOD A 29 529 607 DOD DOD . G 5 DOD A 30 530 519 DOD DOD . G 5 DOD A 31 531 546 DOD DOD . G 5 DOD A 32 532 532 DOD DOD . G 5 DOD A 33 533 552 DOD DOD . G 5 DOD A 34 534 528 DOD DOD . G 5 DOD A 35 535 523 DOD DOD . G 5 DOD A 36 536 522 DOD DOD . G 5 DOD A 37 537 533 DOD DOD . G 5 DOD A 38 538 549 DOD DOD . G 5 DOD A 39 539 503 DOD DOD . G 5 DOD A 40 540 531 DOD DOD . G 5 DOD A 41 541 504 DOD DOD . G 5 DOD A 42 542 514 DOD DOD . G 5 DOD A 43 543 553 DOD DOD . G 5 DOD A 44 544 520 DOD DOD . G 5 DOD A 45 545 538 DOD DOD . G 5 DOD A 46 546 517 DOD DOD . G 5 DOD A 47 547 535 DOD DOD . # 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 O O12 RIS . . . E 3 17.464 -36.308 -10.951 1 16.14 ? O12 RIS 404 A 1 HETATM 2 P P9 RIS . . . E 3 16.084 -36.337 -10.23 1 16.85 ? P9 RIS 404 A 1 HETATM 3 O O11 RIS . . . E 3 14.965 -36.423 -11.355 1 17.36 ? O11 RIS 404 A 1 HETATM 4 O O10 RIS . . . E 3 15.99 -37.552 -9.299 1 16.16 ? O10 RIS 404 A 1 HETATM 5 C C8 RIS . . . E 3 15.801 -34.74 -9.307 1 15.9 ? C8 RIS 404 A 1 HETATM 6 O O13 RIS . . . E 3 14.521 -34.863 -8.632 1 16.8 ? O13 RIS 404 A 1 HETATM 7 P P14 RIS . . . E 3 17.199 -34.512 -8.098 1 16.94 ? P14 RIS 404 A 1 HETATM 8 O O16 RIS . . . E 3 16.858 -33.337 -7.147 1 16.93 ? O16 RIS 404 A 1 HETATM 9 O O15 RIS . . . E 3 17.148 -35.809 -7.186 1 14.64 ? O15 RIS 404 A 1 HETATM 10 O O17 RIS . . . E 3 18.504 -34.426 -8.816 1 15.96 ? O17 RIS 404 A 1 HETATM 11 C C7 RIS . . . E 3 15.805 -33.617 -10.363 1 14.71 ? C7 RIS 404 A 1 HETATM 12 C C2 RIS . . . E 3 15.612 -32.275 -9.875 1 15.69 ? C2 RIS 404 A 1 HETATM 13 C C1 RIS . . . E 3 16.214 -31.194 -10.511 1 16.76 ? C1 RIS 404 A 1 HETATM 14 C C6 RIS . . . E 3 16.008 -29.9 -10.078 1 16.49 ? C6 RIS 404 A 1 HETATM 15 C C5 RIS . . . E 3 15.163 -29.64 -9.014 1 13.72 ? C5 RIS 404 A 1 HETATM 16 N N4 RIS . . . E 3 14.568 -30.691 -8.397 1 16.39 ? N4 RIS 404 A 1 HETATM 17 C C3 RIS . . . E 3 14.766 -31.983 -8.82 1 17.59 ? C3 RIS 404 A 1 HETATM 18 D D13 RIS . . . E 3 14.502 -34.234 -7.846 1 16.13 ? D13 RIS 404 A 1 HETATM 19 H HC71 RIS . . . E 3 14.984 -33.695 -10.995 1 17.65 ? HC71 RIS 404 A 1 HETATM 20 H HC72 RIS . . . E 3 16.698 -33.545 -10.857 1 15.37 ? HC72 RIS 404 A 1 HETATM 21 H HC1 RIS . . . E 3 16.874 -31.354 -11.363 1 18.22 ? HC1 RIS 404 A 1 HETATM 22 H HC6 RIS . . . E 3 16.513 -29.07 -10.584 1 15.84 ? HC6 RIS 404 A 1 HETATM 23 H HC5 RIS . . . E 3 15.036 -28.614 -8.677 1 16.28 ? HC5 RIS 404 A 1 HETATM 24 H HC3 RIS . . . E 3 14.256 -32.796 -8.316 1 17.83 ? HC3 RIS 404 A 1 HETATM 25 D DRS RIS . . . E 3 13.912 -30.522 -7.556 1 17.34 ? DRS RIS 404 A 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 254 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 25 #