data_3NBM # _model_server_result.job_id Cj4PyRI5PMIL4UC1x64CiQ _model_server_result.datetime_utc '2025-08-03 17:50:15' _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 3nbm # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":1}' # _entry.id 3NBM # _exptl.entry_id 3NBM _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 92.094 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description GLYCEROL _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 3NBM _cell.length_a 41.372 _cell.length_b 41.372 _cell.length_c 98.527 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3NBM _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 _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 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 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id B _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 covale ? covale1 A C ILE 50 A ILE 499 1_555 A N MSE 51 A MSE 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? covale ? covale2 A C MSE 51 A MSE 500 1_555 A N GLY 52 A GLY 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.337 ? covale ? covale3 A C GLU 69 A GLU 518 1_555 A N MSE 70 A MSE 519 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? covale ? covale4 A C MSE 70 A MSE 519 1_555 A N LYS 71 A LYS 520 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.337 ? covale ? covale5 A C GLY 86 A GLY 535 1_555 A N MSE 87 A MSE 536 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale6 A C MSE 87 A MSE 536 1_555 A N GLU 88 A GLU 537 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? # _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 129 n n C1 C2 GOL sing 130 n n C1 H11 GOL sing 131 n n C1 H12 GOL sing 132 n n O1 HO1 GOL sing 133 n n C2 O2 GOL sing 134 n n C2 C3 GOL sing 135 n n C2 H2 GOL sing 136 n n O2 HO2 GOL sing 137 n n C3 O3 GOL sing 138 n n C3 H31 GOL sing 139 n n C3 H32 GOL sing 140 n n O3 HO3 GOL sing 141 n n # _atom_sites.entry_id 3NBM _atom_sites.fract_transf_matrix[1][1] 0.024171 _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] 0.024171 _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] 0.01015 _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 GOL A 1 1 1 GOL GOL . C 3 HOH A 1 2 2 HOH HOH . C 3 HOH A 2 3 3 HOH HOH . C 3 HOH A 3 4 4 HOH HOH . C 3 HOH A 4 5 5 HOH HOH . C 3 HOH A 5 6 6 HOH HOH . C 3 HOH A 6 7 7 HOH HOH . C 3 HOH A 7 8 8 HOH HOH . C 3 HOH A 8 9 9 HOH HOH . C 3 HOH A 9 10 10 HOH HOH . C 3 HOH A 10 11 11 HOH HOH . C 3 HOH A 11 12 12 HOH HOH . C 3 HOH A 12 13 13 HOH HOH . C 3 HOH A 13 14 14 HOH HOH . C 3 HOH A 14 15 15 HOH HOH . C 3 HOH A 15 16 16 HOH HOH . C 3 HOH A 16 17 17 HOH HOH . C 3 HOH A 17 18 18 HOH HOH . C 3 HOH A 18 19 19 HOH HOH . C 3 HOH A 19 20 20 HOH HOH . C 3 HOH A 20 21 21 HOH HOH . C 3 HOH A 21 22 22 HOH HOH . C 3 HOH A 22 23 23 HOH HOH . C 3 HOH A 23 24 24 HOH HOH . C 3 HOH A 24 25 25 HOH HOH . C 3 HOH A 25 26 26 HOH HOH . C 3 HOH A 26 27 27 HOH HOH . C 3 HOH A 27 28 28 HOH HOH . C 3 HOH A 28 29 29 HOH HOH . C 3 HOH A 29 30 30 HOH HOH . C 3 HOH A 30 31 31 HOH HOH . C 3 HOH A 31 32 32 HOH HOH . C 3 HOH A 32 33 33 HOH HOH . C 3 HOH A 33 34 34 HOH HOH . C 3 HOH A 34 35 35 HOH HOH . C 3 HOH A 35 36 36 HOH HOH . C 3 HOH A 36 37 37 HOH HOH . C 3 HOH A 37 38 38 HOH HOH . C 3 HOH A 38 39 39 HOH HOH . C 3 HOH A 39 40 40 HOH HOH . C 3 HOH A 40 41 41 HOH HOH . C 3 HOH A 41 42 42 HOH HOH . C 3 HOH A 42 43 43 HOH HOH . C 3 HOH A 43 44 44 HOH HOH . C 3 HOH A 44 45 45 HOH HOH . C 3 HOH A 45 46 46 HOH HOH . C 3 HOH A 46 47 47 HOH HOH . C 3 HOH A 47 48 48 HOH HOH . C 3 HOH A 48 49 49 HOH HOH . C 3 HOH A 49 50 50 HOH HOH . C 3 HOH A 50 51 51 HOH HOH . C 3 HOH A 51 52 52 HOH HOH . C 3 HOH A 52 53 53 HOH HOH . C 3 HOH A 53 54 54 HOH HOH . C 3 HOH A 54 55 55 HOH HOH . C 3 HOH A 55 56 56 HOH HOH . C 3 HOH A 56 57 57 HOH HOH . C 3 HOH A 57 58 58 HOH HOH . C 3 HOH A 58 59 59 HOH HOH . C 3 HOH A 59 60 60 HOH HOH . C 3 HOH A 60 61 61 HOH HOH . C 3 HOH A 61 62 62 HOH HOH . C 3 HOH A 62 63 63 HOH HOH . C 3 HOH A 63 64 64 HOH HOH . C 3 HOH A 64 65 65 HOH HOH . C 3 HOH A 65 66 66 HOH HOH . C 3 HOH A 66 67 67 HOH HOH . C 3 HOH A 67 68 68 HOH HOH . C 3 HOH A 68 69 69 HOH HOH . C 3 HOH A 69 70 70 HOH HOH . C 3 HOH A 70 71 71 HOH HOH . C 3 HOH A 71 72 72 HOH HOH . C 3 HOH A 72 73 73 HOH HOH . C 3 HOH A 73 74 74 HOH HOH . C 3 HOH A 74 75 75 HOH HOH . C 3 HOH A 75 76 76 HOH HOH . C 3 HOH A 76 77 77 HOH HOH . C 3 HOH A 77 78 78 HOH HOH . C 3 HOH A 78 79 79 HOH HOH . C 3 HOH A 79 80 80 HOH HOH . C 3 HOH A 80 81 81 HOH HOH . C 3 HOH A 81 82 82 HOH HOH . C 3 HOH A 82 83 83 HOH HOH . C 3 HOH A 83 84 84 HOH HOH . C 3 HOH A 84 85 85 HOH HOH . C 3 HOH A 85 86 86 HOH HOH . C 3 HOH A 86 87 87 HOH HOH . C 3 HOH A 87 88 88 HOH HOH . C 3 HOH A 88 89 89 HOH HOH . C 3 HOH A 89 90 90 HOH HOH . C 3 HOH A 90 91 91 HOH HOH . C 3 HOH A 91 92 92 HOH HOH . C 3 HOH A 92 93 93 HOH HOH . C 3 HOH A 93 94 94 HOH HOH . C 3 HOH A 94 95 95 HOH HOH . C 3 HOH A 95 96 96 HOH HOH . C 3 HOH A 96 97 97 HOH HOH . C 3 HOH A 97 98 98 HOH HOH . C 3 HOH A 98 99 99 HOH HOH . C 3 HOH A 99 100 100 HOH HOH . C 3 HOH A 100 101 101 HOH HOH . C 3 HOH A 101 102 102 HOH HOH . C 3 HOH A 102 103 103 HOH HOH . C 3 HOH A 103 104 104 HOH HOH . C 3 HOH A 104 105 105 HOH HOH . C 3 HOH A 105 106 106 HOH HOH . C 3 HOH A 106 107 107 HOH HOH . C 3 HOH A 107 108 108 HOH HOH . C 3 HOH A 108 109 109 HOH HOH . C 3 HOH A 109 110 110 HOH HOH . C 3 HOH A 110 111 111 HOH HOH . C 3 HOH A 111 112 112 HOH HOH . C 3 HOH A 112 113 113 HOH HOH . C 3 HOH A 113 114 114 HOH HOH . C 3 HOH A 114 115 115 HOH HOH . C 3 HOH A 115 116 116 HOH HOH . C 3 HOH A 116 117 117 HOH HOH . C 3 HOH A 117 118 118 HOH HOH . C 3 HOH A 118 119 119 HOH HOH . C 3 HOH A 119 120 120 HOH HOH . C 3 HOH A 120 121 121 HOH HOH . C 3 HOH A 121 122 122 HOH HOH . C 3 HOH A 122 123 123 HOH HOH . C 3 HOH A 123 124 124 HOH HOH . C 3 HOH A 124 125 125 HOH HOH . C 3 HOH A 125 126 126 HOH HOH . C 3 HOH A 126 127 127 HOH HOH . C 3 HOH A 127 128 128 HOH HOH . C 3 HOH A 128 129 129 HOH HOH . C 3 HOH A 129 130 130 HOH HOH . C 3 HOH A 130 131 131 HOH HOH . C 3 HOH A 131 132 132 HOH HOH . C 3 HOH A 132 133 133 HOH HOH . C 3 HOH A 133 134 134 HOH HOH . C 3 HOH A 134 135 135 HOH HOH . C 3 HOH A 135 136 136 HOH HOH . C 3 HOH A 136 137 137 HOH HOH . C 3 HOH A 137 138 138 HOH HOH . C 3 HOH A 138 139 139 HOH HOH . C 3 HOH A 139 140 140 HOH HOH . C 3 HOH A 140 141 141 HOH HOH . C 3 HOH A 141 142 142 HOH HOH . C 3 HOH A 142 143 143 HOH HOH . C 3 HOH A 143 144 144 HOH HOH . C 3 HOH A 144 145 145 HOH HOH . C 3 HOH A 145 146 146 HOH HOH . C 3 HOH A 146 147 147 HOH HOH . C 3 HOH A 147 148 148 HOH HOH . C 3 HOH A 148 149 149 HOH HOH . C 3 HOH A 149 150 150 HOH HOH . C 3 HOH A 150 558 1 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 C C1 GOL . . . B 2 7.734 4.899 22.75 1 15.34 ? C1 GOL 1 A 1 HETATM 2 O O1 GOL . . . B 2 7.177 5.884 23.603 1 17.03 ? O1 GOL 1 A 1 HETATM 3 C C2 GOL . . . B 2 7.676 3.592 23.527 1 14.71 ? C2 GOL 1 A 1 HETATM 4 O O2 GOL . . . B 2 8.442 3.611 24.701 1 15.49 ? O2 GOL 1 A 1 HETATM 5 C C3 GOL . . . B 2 8.143 2.427 22.662 1 14.37 ? C3 GOL 1 A 1 HETATM 6 O O3 GOL . . . B 2 9.501 2.665 22.286 1 13.58 ? O3 GOL 1 A 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 334 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 6 #