data_3NOM # _model_server_result.job_id 7D8P4sAmLqwaj240P4PehA _model_server_result.datetime_utc '2024-11-27 06:00:04' _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 3nom # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":264}' # _entry.id 3NOM # _exptl.entry_id 3NOM _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 92.094 _entity.id 3 _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 108.16 _cell.angle_gamma 90 _cell.entry_id 3NOM _cell.length_a 58.38 _cell.length_b 85.04 _cell.length_c 64.86 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3NOM _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # 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 monomeric 1 author_and_software_defined_assembly 1 PISA monomeric 1 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,C,D,E,H 1 1 B,F,G,I 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 # _struct_asym.details ? _struct_asym.entity_id 3 _struct_asym.id D _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 O PHE 48 A PHE 48 1_555 C CA CA . A CA 263 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.19 ? metalc ? metalc2 A OE2 GLU 176 A GLU 176 1_555 C CA CA . A CA 263 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.398 ? metalc ? metalc3 A OE1 GLU 176 A GLU 176 1_555 C CA CA . A CA 263 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.567 ? metalc ? metalc4 A O LEU 177 A LEU 177 1_555 C CA CA . A CA 263 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.222 ? metalc ? metalc5 A OE2 GLU 178 A GLU 178 1_555 C CA CA . A CA 263 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.163 ? metalc ? metalc6 A O ILE 230 A ILE 230 1_555 C CA CA . A CA 263 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.369 ? metalc ? metalc7 C CA CA . A CA 263 1_555 H O HOH . A HOH 314 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.329 ? metalc ? metalc8 B O PHE 48 B PHE 48 1_555 F CA CA . B CA 263 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.271 ? metalc ? metalc9 B OE1 GLU 176 B GLU 176 1_555 F CA CA . B CA 263 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.476 ? metalc ? metalc10 B OE2 GLU 176 B GLU 176 1_555 F CA CA . B CA 263 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.629 ? metalc ? metalc11 B O LEU 177 B LEU 177 1_555 F CA CA . B CA 263 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.367 ? metalc ? metalc12 B OE2 GLU 178 B GLU 178 1_555 F CA CA . B CA 263 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.271 ? metalc ? metalc13 B O ILE 230 B ILE 230 1_555 F CA CA . B CA 263 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.403 ? # _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 116 n n C1 C2 GOL sing 117 n n C1 H11 GOL sing 118 n n C1 H12 GOL sing 119 n n O1 HO1 GOL sing 120 n n C2 O2 GOL sing 121 n n C2 C3 GOL sing 122 n n C2 H2 GOL sing 123 n n O2 HO2 GOL sing 124 n n C3 O3 GOL sing 125 n n C3 H31 GOL sing 126 n n C3 H32 GOL sing 127 n n O3 HO3 GOL sing 128 n n # _atom_sites.entry_id 3NOM _atom_sites.fract_transf_matrix[1][1] 0.017129 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.005619 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.011759 _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] 0.016226 _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 C 2 CA A 1 263 1 CA CA . D 3 GOL A 1 264 1 GOL GOL . E 4 SO4 A 1 265 1 SO4 SO4 . F 2 CA B 1 263 1 CA CA . G 4 SO4 B 1 264 2 SO4 SO4 . H 5 HOH A 1 266 10 HOH HOH . H 5 HOH A 2 267 15 HOH HOH . H 5 HOH A 3 268 16 HOH HOH . H 5 HOH A 4 269 17 HOH HOH . H 5 HOH A 5 270 21 HOH HOH . H 5 HOH A 6 271 22 HOH HOH . H 5 HOH A 7 272 24 HOH HOH . H 5 HOH A 8 273 25 HOH HOH . H 5 HOH A 9 274 27 HOH HOH . H 5 HOH A 10 275 30 HOH HOH . H 5 HOH A 11 276 33 HOH HOH . H 5 HOH A 12 277 34 HOH HOH . H 5 HOH A 13 278 36 HOH HOH . H 5 HOH A 14 279 40 HOH HOH . H 5 HOH A 15 280 41 HOH HOH . H 5 HOH A 16 281 42 HOH HOH . H 5 HOH A 17 282 45 HOH HOH . H 5 HOH A 18 283 46 HOH HOH . H 5 HOH A 19 284 47 HOH HOH . H 5 HOH A 20 285 50 HOH HOH . H 5 HOH A 21 286 51 HOH HOH . H 5 HOH A 22 287 52 HOH HOH . H 5 HOH A 23 288 55 HOH HOH . H 5 HOH A 24 289 57 HOH HOH . H 5 HOH A 25 290 58 HOH HOH . H 5 HOH A 26 291 62 HOH HOH . H 5 HOH A 27 292 65 HOH HOH . H 5 HOH A 28 293 68 HOH HOH . H 5 HOH A 29 294 69 HOH HOH . H 5 HOH A 30 295 74 HOH HOH . H 5 HOH A 31 296 75 HOH HOH . H 5 HOH A 32 297 77 HOH HOH . H 5 HOH A 33 298 78 HOH HOH . H 5 HOH A 34 299 83 HOH HOH . H 5 HOH A 35 300 84 HOH HOH . H 5 HOH A 36 301 85 HOH HOH . H 5 HOH A 37 302 86 HOH HOH . H 5 HOH A 38 303 90 HOH HOH . H 5 HOH A 39 304 91 HOH HOH . H 5 HOH A 40 305 93 HOH HOH . H 5 HOH A 41 306 94 HOH HOH . H 5 HOH A 42 307 96 HOH HOH . H 5 HOH A 43 308 100 HOH HOH . H 5 HOH A 44 309 101 HOH HOH . H 5 HOH A 45 310 102 HOH HOH . H 5 HOH A 46 311 103 HOH HOH . H 5 HOH A 47 312 117 HOH HOH . H 5 HOH A 48 313 118 HOH HOH . H 5 HOH A 49 314 119 HOH HOH . H 5 HOH A 50 315 120 HOH HOH . I 5 HOH B 1 265 6 HOH HOH . I 5 HOH B 2 266 7 HOH HOH . I 5 HOH B 3 267 8 HOH HOH . I 5 HOH B 4 268 9 HOH HOH . I 5 HOH B 5 269 11 HOH HOH . I 5 HOH B 6 270 12 HOH HOH . I 5 HOH B 7 271 13 HOH HOH . I 5 HOH B 8 272 18 HOH HOH . I 5 HOH B 9 273 20 HOH HOH . I 5 HOH B 10 274 23 HOH HOH . I 5 HOH B 11 275 26 HOH HOH . I 5 HOH B 12 276 28 HOH HOH . I 5 HOH B 13 277 29 HOH HOH . I 5 HOH B 14 278 32 HOH HOH . I 5 HOH B 15 279 35 HOH HOH . I 5 HOH B 16 280 37 HOH HOH . I 5 HOH B 17 281 38 HOH HOH . I 5 HOH B 18 282 39 HOH HOH . I 5 HOH B 19 283 43 HOH HOH . I 5 HOH B 20 284 44 HOH HOH . I 5 HOH B 21 285 48 HOH HOH . I 5 HOH B 22 286 49 HOH HOH . I 5 HOH B 23 287 56 HOH HOH . I 5 HOH B 24 288 59 HOH HOH . I 5 HOH B 25 289 60 HOH HOH . I 5 HOH B 26 290 61 HOH HOH . I 5 HOH B 27 291 63 HOH HOH . I 5 HOH B 28 292 64 HOH HOH . I 5 HOH B 29 293 66 HOH HOH . I 5 HOH B 30 294 67 HOH HOH . I 5 HOH B 31 295 70 HOH HOH . I 5 HOH B 32 296 72 HOH HOH . I 5 HOH B 33 297 73 HOH HOH . I 5 HOH B 34 298 76 HOH HOH . I 5 HOH B 35 299 79 HOH HOH . I 5 HOH B 36 300 81 HOH HOH . I 5 HOH B 37 301 82 HOH HOH . I 5 HOH B 38 302 87 HOH HOH . I 5 HOH B 39 303 88 HOH HOH . I 5 HOH B 40 304 89 HOH HOH . I 5 HOH B 41 305 92 HOH HOH . I 5 HOH B 42 306 95 HOH HOH . I 5 HOH B 43 307 97 HOH HOH . I 5 HOH B 44 308 98 HOH HOH . I 5 HOH B 45 309 99 HOH HOH . I 5 HOH B 46 310 104 HOH HOH . I 5 HOH B 47 311 105 HOH HOH . I 5 HOH B 48 312 106 HOH HOH . I 5 HOH B 49 313 107 HOH HOH . I 5 HOH B 50 314 108 HOH HOH . I 5 HOH B 51 315 109 HOH HOH . I 5 HOH B 52 316 110 HOH HOH . I 5 HOH B 53 317 111 HOH HOH . I 5 HOH B 54 318 112 HOH HOH . I 5 HOH B 55 319 113 HOH HOH . I 5 HOH B 56 320 114 HOH HOH . I 5 HOH B 57 321 115 HOH HOH . I 5 HOH B 58 322 116 HOH HOH . I 5 HOH B 59 323 121 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 . . . D 3 1.791 -16.733 -18.242 1 30.04 ? C1 GOL 264 A 1 HETATM 2 O O1 GOL . . . D 3 2.562 -16.383 -19.371 1 30.15 ? O1 GOL 264 A 1 HETATM 3 C C2 GOL . . . D 3 1.363 -15.44 -17.588 1 31.43 ? C2 GOL 264 A 1 HETATM 4 O O2 GOL . . . D 3 2.063 -15.353 -16.375 1 29.57 ? O2 GOL 264 A 1 HETATM 5 C C3 GOL . . . D 3 -0.123 -15.413 -17.288 1 32.25 ? C3 GOL 264 A 1 HETATM 6 O O3 GOL . . . D 3 -0.353 -14.538 -16.196 1 30.14 ? O3 GOL 264 A 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 268 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 6 #