data_7NPE # _model_server_result.job_id qCZsSvPUvSS1q4V3pHDh-w _model_server_result.datetime_utc '2025-03-18 03:27:53' _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 7npe # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"J","auth_seq_id":500}' # _entry.id 7NPE # _exptl.entry_id 7NPE _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 92.094 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description GLYCEROL _entity.pdbx_number_of_molecules 2 _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 120 _cell.entry_id 7NPE _cell.length_a 199.205 _cell.length_b 199.205 _cell.length_c 260.066 _cell.Z_PDB 48 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7NPE _symmetry.cell_setting ? _symmetry.Int_Tables_number 178 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 61 2 2' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA dimeric 2 author_and_software_defined_assembly 1 PISA dimeric 2 author_and_software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,E,F,G,H,I,J 1 1 C,D,K,L,M,N 2 1 # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1 _pdbx_struct_oper_list.matrix[1][2] 0 _pdbx_struct_oper_list.matrix[1][3] 0 _pdbx_struct_oper_list.matrix[2][1] 0 _pdbx_struct_oper_list.matrix[2][2] 1 _pdbx_struct_oper_list.matrix[2][3] 0 _pdbx_struct_oper_list.matrix[3][1] 0 _pdbx_struct_oper_list.matrix[3][2] 0 _pdbx_struct_oper_list.matrix[3][3] 1 _pdbx_struct_oper_list.vector[1] 0 _pdbx_struct_oper_list.vector[2] 0 _pdbx_struct_oper_list.vector[3] 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 4 G N N ? 4 J N 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 OG SER 125 A SER 125 1_555 F MG MG . A MG 451 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.072 ? metalc ? metalc2 E O2B ADP . A ADP 450 1_555 F MG MG . A MG 451 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.07 ? metalc ? metalc3 E O3B ADP . A ADP 450 1_555 F MG MG . A MG 451 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.615 ? metalc ? metalc4 B OG SER 125 B SER 125 1_555 I MG MG . B MG 451 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.346 ? metalc ? metalc5 H O1B ADP . B ADP 450 1_555 I MG MG . B MG 451 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.079 ? metalc ? metalc6 C OG SER 125 C SER 125 1_555 L MG MG . C MG 451 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.252 ? metalc ? metalc7 K O2B ADP . C ADP 450 1_555 L MG MG . C MG 451 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.167 ? metalc ? metalc8 K O3B ADP . C ADP 450 1_555 L MG MG . C MG 451 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.37 ? metalc ? metalc9 D OG SER 125 D SER 125 1_555 N MG MG . D MG 451 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.151 ? metalc ? metalc10 M O1B ADP . D ADP 450 1_555 N MG MG . D MG 451 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.488 ? # _chem_comp.formula 'C3 H8 O3' _chem_comp.formula_weight 92.094 _chem_comp.id GOL _chem_comp.mon_nstd_flag . _chem_comp.name GLYCEROL _chem_comp.type non-polymer _chem_comp.pdbx_synonyms GLYCERIN;PROPANE-1,2,3-TRIOL # 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 C1 O1 GOL sing 173 n n C1 C2 GOL sing 174 n n C1 H11 GOL sing 175 n n C1 H12 GOL sing 176 n n O1 HO1 GOL sing 177 n n C2 O2 GOL sing 178 n n C2 C3 GOL sing 179 n n C2 H2 GOL sing 180 n n O2 HO2 GOL sing 181 n n C3 O3 GOL sing 182 n n C3 H31 GOL sing 183 n n C3 H32 GOL sing 184 n n O3 HO3 GOL sing 185 n n # _atom_sites.entry_id 7NPE _atom_sites.fract_transf_matrix[1][1] 0.00502 _atom_sites.fract_transf_matrix[1][2] 0.002898 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.005797 _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] 0.003845 _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 E 2 ADP A 1 450 450 ADP ADP . F 3 MG A 1 451 451 MG MG . G 4 GOL A 1 501 501 GOL GOL . H 2 ADP B 1 450 450 ADP ADP . I 3 MG B 1 451 451 MG MG . J 4 GOL B 1 500 500 GOL GOL . K 2 ADP C 1 450 450 ADP ADP . L 3 MG C 1 451 451 MG MG . M 2 ADP D 1 450 450 ADP ADP . N 3 MG D 1 451 451 MG MG . # 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 C C1 GOL . . . J 4 -58.553 61.989 -25.581 1 149.56 ? C1 GOL 500 B 1 HETATM 2 O O1 GOL . . . J 4 -59.47 62.943 -26.018 1 155.61 ? O1 GOL 500 B 1 HETATM 3 C C2 GOL . . . J 4 -57.34 62.76 -25.009 1 148.79 ? C2 GOL 500 B 1 HETATM 4 O O2 GOL . . . J 4 -57.698 63.57 -23.942 1 176.86 ? O2 GOL 500 B 1 HETATM 5 C C3 GOL . . . J 4 -56.33 61.662 -24.598 1 118.35 ? C3 GOL 500 B 1 HETATM 6 O O3 GOL . . . J 4 -55.098 62.291 -24.428 1 103.08 ? O3 GOL 500 B 1 # _model_server_stats.io_time_ms 0 _model_server_stats.parse_time_ms 27 _model_server_stats.create_model_time_ms 12 _model_server_stats.query_time_ms 301 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 6 #