data_3UB5 # _model_server_result.job_id Uo-VZxd9RuCIIA6ciZUPbA _model_server_result.datetime_utc '2024-11-09 02:32:57' _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 3ub5 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":140}' # _entry.id 3UB5 # _exptl.entry_id 3UB5 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 92.094 _entity.id 5 _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 3UB5 _cell.length_a 38 _cell.length_b 72 _cell.length_c 186.8 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3UB5 _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _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,H,I _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 5 _struct_asym.id F _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 B C ACE 1 P ACE 0 1_555 B N ALA 2 P ALA 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.341 ? metalc ? metalc1 A O SER 198 A SER 199 1_555 E CA CA . A CA 378 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.334 ? metalc ? metalc2 A OG1 THR 200 A THR 201 1_555 E CA CA . A CA 378 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.333 ? metalc ? metalc3 A OE2 GLU 204 A GLU 205 1_555 E CA CA . A CA 378 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.323 ? metalc ? metalc4 C O2B ATP . A ATP 376 1_555 D CA CA . A CA 377 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.324 ? metalc ? metalc5 C O1B ATP . A ATP 376 1_555 D CA CA . A CA 377 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.572 ? # _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 184 n n C1 C2 GOL sing 185 n n C1 H11 GOL sing 186 n n C1 H12 GOL sing 187 n n O1 HO1 GOL sing 188 n n C2 O2 GOL sing 189 n n C2 C3 GOL sing 190 n n C2 H2 GOL sing 191 n n O2 HO2 GOL sing 192 n n C3 O3 GOL sing 193 n n C3 H31 GOL sing 194 n n C3 H32 GOL sing 195 n n O3 HO3 GOL sing 196 n n # _atom_sites.entry_id 3UB5 _atom_sites.fract_transf_matrix[1][1] 0.026316 _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] 0.013889 _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] 0.005353 _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 3 ATP A 1 376 376 ATP ATP . D 4 CA A 1 377 377 CA CA . E 4 CA A 1 378 378 CA CA . F 5 GOL P 1 140 140 GOL GOL . G 6 CL P 1 141 141 CL CL . H 7 HOH A 1 379 4 HOH HOH . H 7 HOH A 2 380 5 HOH HOH . H 7 HOH A 3 381 11 HOH HOH . H 7 HOH A 4 382 12 HOH HOH . H 7 HOH A 5 383 14 HOH HOH . H 7 HOH A 6 384 20 HOH HOH . H 7 HOH A 7 385 21 HOH HOH . H 7 HOH A 8 386 24 HOH HOH . H 7 HOH A 9 387 25 HOH HOH . H 7 HOH A 10 388 27 HOH HOH . H 7 HOH A 11 389 35 HOH HOH . H 7 HOH A 12 390 36 HOH HOH . H 7 HOH A 13 391 37 HOH HOH . H 7 HOH A 14 392 38 HOH HOH . H 7 HOH A 15 393 39 HOH HOH . H 7 HOH A 16 394 41 HOH HOH . H 7 HOH A 17 395 42 HOH HOH . H 7 HOH A 18 396 46 HOH HOH . H 7 HOH A 19 397 47 HOH HOH . H 7 HOH A 20 398 48 HOH HOH . H 7 HOH A 21 399 49 HOH HOH . H 7 HOH A 22 400 50 HOH HOH . H 7 HOH A 23 401 54 HOH HOH . H 7 HOH A 24 402 55 HOH HOH . H 7 HOH A 25 403 57 HOH HOH . H 7 HOH A 26 404 58 HOH HOH . H 7 HOH A 27 405 60 HOH HOH . H 7 HOH A 28 406 62 HOH HOH . H 7 HOH A 29 407 64 HOH HOH . H 7 HOH A 30 408 66 HOH HOH . H 7 HOH A 31 409 70 HOH HOH . H 7 HOH A 32 410 74 HOH HOH . H 7 HOH A 33 411 76 HOH HOH . H 7 HOH A 34 412 78 HOH HOH . H 7 HOH A 35 413 89 HOH HOH . H 7 HOH A 36 414 90 HOH HOH . H 7 HOH A 37 415 94 HOH HOH . H 7 HOH A 38 416 98 HOH HOH . H 7 HOH A 39 417 99 HOH HOH . H 7 HOH A 40 418 100 HOH HOH . H 7 HOH A 41 419 103 HOH HOH . H 7 HOH A 42 420 106 HOH HOH . H 7 HOH A 43 421 108 HOH HOH . H 7 HOH A 44 422 113 HOH HOH . H 7 HOH A 45 423 114 HOH HOH . H 7 HOH A 46 424 116 HOH HOH . H 7 HOH A 47 425 125 HOH HOH . H 7 HOH A 48 426 130 HOH HOH . H 7 HOH A 49 427 142 HOH HOH . H 7 HOH A 50 428 146 HOH HOH . H 7 HOH A 51 429 150 HOH HOH . H 7 HOH A 52 430 151 HOH HOH . H 7 HOH A 53 431 154 HOH HOH . H 7 HOH A 54 432 155 HOH HOH . H 7 HOH A 55 433 156 HOH HOH . I 7 HOH P 1 142 3 HOH HOH . I 7 HOH P 2 143 6 HOH HOH . I 7 HOH P 3 144 7 HOH HOH . I 7 HOH P 4 145 145 HOH HOH . I 7 HOH P 5 146 8 HOH HOH . I 7 HOH P 6 147 147 HOH HOH . I 7 HOH P 7 148 148 HOH HOH . I 7 HOH P 8 149 15 HOH HOH . I 7 HOH P 9 150 16 HOH HOH . I 7 HOH P 10 151 19 HOH HOH . I 7 HOH P 11 152 152 HOH HOH . I 7 HOH P 12 153 23 HOH HOH . I 7 HOH P 13 154 28 HOH HOH . I 7 HOH P 14 155 32 HOH HOH . I 7 HOH P 15 156 33 HOH HOH . I 7 HOH P 16 157 157 HOH HOH . I 7 HOH P 17 158 40 HOH HOH . I 7 HOH P 18 159 43 HOH HOH . I 7 HOH P 19 160 45 HOH HOH . I 7 HOH P 20 161 51 HOH HOH . I 7 HOH P 21 162 69 HOH HOH . I 7 HOH P 22 163 73 HOH HOH . I 7 HOH P 23 164 96 HOH HOH . I 7 HOH P 24 165 97 HOH HOH . I 7 HOH P 25 166 111 HOH HOH . I 7 HOH P 26 167 112 HOH HOH . I 7 HOH P 27 168 119 HOH HOH . I 7 HOH P 28 169 138 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 . . . F 5 -22.736 27.851 28.872 1 56.47 ? C1 GOL 140 P 1 HETATM 2 O O1 GOL . . . F 5 -22.76 26.557 29.488 1 52.26 ? O1 GOL 140 P 1 HETATM 3 C C2 GOL . . . F 5 -21.31 28.391 28.972 1 62.2 ? C2 GOL 140 P 1 HETATM 4 O O2 GOL . . . F 5 -21.263 29.77 29.367 1 63.49 ? O2 GOL 140 P 1 HETATM 5 C C3 GOL . . . F 5 -20.501 27.547 29.944 1 60.48 ? C3 GOL 140 P 1 HETATM 6 O O3 GOL . . . F 5 -19.728 26.702 29.093 1 66.86 ? O3 GOL 140 P 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 316 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 6 #