data_1RNL # _model_server_result.job_id hbhbBSWp52a-4ndrl30QWg _model_server_result.datetime_utc '2025-02-14 13:46:10' _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 1rnl # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":307}' # _entry.id 1RNL # _exptl.entry_id 1RNL _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 3 _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 1RNL _cell.length_a 61.037 _cell.length_b 78.321 _cell.length_c 115.72 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1RNL _symmetry.cell_setting ? _symmetry.Int_Tables_number 23 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'I 2 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 ? monomeric 1 author_defined_assembly 1 PISA tetrameric 4 software_defined_assembly 2 PQS dimeric 2 software_defined_assembly 3 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,C,D,E,F,G,H,I,J,K 1 1 A,B,C,D,E,F,G,H,I,J,K 2 1,2,3,4 A,B,C,D,E,F,G,H,I,J,K 3 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' 2_665 -x+1,-y+1,z -1 0 0 0 -1 0 0 0 1 61.037 78.321 0 3 'crystal symmetry operation' 3_656 -x+1,y,-z+1 -1 0 0 0 1 0 0 0 -1 61.037 0 115.72 4 'crystal symmetry operation' 4_566 x,-y+1,-z+1 1 0 0 0 -1 0 0 0 -1 0 78.321 115.72 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 3 H N N ? 3 I N N ? 3 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 SD MET 27 A MET 28 1_555 B PT PT . A PT 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.903 ? metalc ? metalc2 A SD MET 27 A MET 28 1_555 C PT PT . A PT 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.079 ? metalc ? metalc3 A SD MET 27 A MET 28 1_555 D PT PT . A PT 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.794 ? metalc ? metalc4 A OE1 GLU 126 A GLU 127 1_555 E PT PT . A PT 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.11 ? metalc ? metalc5 A SD MET 174 A MET 175 1_555 E PT PT . A PT 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.922 ? metalc ? metalc6 A SD MET 174 A MET 175 1_555 F PT PT . A PT 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.576 ? metalc ? metalc7 A SD MET 174 A MET 175 1_555 G PT PT . A PT 306 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.804 ? metalc ? metalc8 B PT PT . A PT 301 1_555 C PT PT . A PT 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.954 ? metalc ? metalc9 B PT PT . A PT 301 1_555 D PT PT . A PT 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.226 ? metalc ? metalc10 D PT PT . A PT 303 1_555 K O HOH . A HOH 348 2_665 ? ? ? ? ? ? ? ? ? ? ? ? 2.831 ? metalc ? metalc11 E PT PT . A PT 304 1_555 F PT PT . A PT 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.545 ? metalc ? metalc12 E PT PT . A PT 304 1_555 G PT PT . A PT 306 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.232 ? metalc ? metalc13 F PT PT . A PT 305 1_555 G PT PT . A PT 306 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.477 ? # _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 1RNL _atom_sites.fract_transf_matrix[1][1] 0.016384 _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] 0.012768 _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] 0.008642 _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 PT A 1 301 301 PT PT . C 2 PT A 1 302 302 PT PT . D 2 PT A 1 303 303 PT PT . E 2 PT A 1 304 304 PT PT . F 2 PT A 1 305 305 PT PT . G 2 PT A 1 306 306 PT PT . H 3 GOL A 1 307 307 GOL GOL . I 3 GOL A 1 308 308 GOL GOL . J 3 GOL A 1 309 309 GOL GOL . K 4 HOH A 1 310 310 HOH HOH . K 4 HOH A 2 311 311 HOH HOH . K 4 HOH A 3 312 312 HOH HOH . K 4 HOH A 4 313 313 HOH HOH . K 4 HOH A 5 314 314 HOH HOH . K 4 HOH A 6 315 315 HOH HOH . K 4 HOH A 7 316 316 HOH HOH . K 4 HOH A 8 317 317 HOH HOH . K 4 HOH A 9 318 318 HOH HOH . K 4 HOH A 10 319 319 HOH HOH . K 4 HOH A 11 320 320 HOH HOH . K 4 HOH A 12 321 321 HOH HOH . K 4 HOH A 13 322 322 HOH HOH . K 4 HOH A 14 323 323 HOH HOH . K 4 HOH A 15 324 324 HOH HOH . K 4 HOH A 16 325 325 HOH HOH . K 4 HOH A 17 326 326 HOH HOH . K 4 HOH A 18 327 327 HOH HOH . K 4 HOH A 19 328 328 HOH HOH . K 4 HOH A 20 329 329 HOH HOH . K 4 HOH A 21 330 330 HOH HOH . K 4 HOH A 22 331 331 HOH HOH . K 4 HOH A 23 332 332 HOH HOH . K 4 HOH A 24 333 333 HOH HOH . K 4 HOH A 25 334 334 HOH HOH . K 4 HOH A 26 335 335 HOH HOH . K 4 HOH A 27 336 336 HOH HOH . K 4 HOH A 28 337 337 HOH HOH . K 4 HOH A 29 338 338 HOH HOH . K 4 HOH A 30 339 339 HOH HOH . K 4 HOH A 31 340 340 HOH HOH . K 4 HOH A 32 341 341 HOH HOH . K 4 HOH A 33 342 342 HOH HOH . K 4 HOH A 34 343 343 HOH HOH . K 4 HOH A 35 344 344 HOH HOH . K 4 HOH A 36 345 345 HOH HOH . K 4 HOH A 37 346 346 HOH HOH . K 4 HOH A 38 347 347 HOH HOH . K 4 HOH A 39 348 348 HOH HOH . K 4 HOH A 40 349 349 HOH HOH . K 4 HOH A 41 350 350 HOH HOH . K 4 HOH A 42 351 351 HOH HOH . K 4 HOH A 43 352 352 HOH HOH . K 4 HOH A 44 353 353 HOH HOH . K 4 HOH A 45 354 354 HOH HOH . K 4 HOH A 46 355 355 HOH HOH . K 4 HOH A 47 356 356 HOH HOH . K 4 HOH A 48 357 357 HOH HOH . K 4 HOH A 49 358 358 HOH HOH . K 4 HOH A 50 359 359 HOH HOH . K 4 HOH A 51 360 360 HOH HOH . K 4 HOH A 52 361 361 HOH HOH . K 4 HOH A 53 362 362 HOH HOH . K 4 HOH A 54 363 363 HOH HOH . K 4 HOH A 55 364 364 HOH HOH . K 4 HOH A 56 365 365 HOH HOH . K 4 HOH A 57 366 366 HOH HOH . K 4 HOH A 58 367 367 HOH HOH . K 4 HOH A 59 368 368 HOH HOH . K 4 HOH A 60 369 369 HOH HOH . K 4 HOH A 61 370 370 HOH HOH . K 4 HOH A 62 371 371 HOH HOH . K 4 HOH A 63 372 372 HOH HOH . K 4 HOH A 64 373 373 HOH HOH . K 4 HOH A 65 374 374 HOH HOH . K 4 HOH A 66 375 375 HOH HOH . K 4 HOH A 67 376 376 HOH HOH . K 4 HOH A 68 377 377 HOH HOH . K 4 HOH A 69 378 378 HOH HOH . K 4 HOH A 70 379 379 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 . . . H 3 32.248 24.922 59.407 1 85.52 ? C1 GOL 307 A 1 HETATM 2 O O1 GOL . . . H 3 31.893 23.555 59.306 1 83.18 ? O1 GOL 307 A 1 HETATM 3 C C2 GOL . . . H 3 31.015 25.819 59.351 1 88.59 ? C2 GOL 307 A 1 HETATM 4 O O2 GOL . . . H 3 30.164 25.502 60.456 1 93.1 ? O2 GOL 307 A 1 HETATM 5 C C3 GOL . . . H 3 31.379 27.311 59.38 1 88.92 ? C3 GOL 307 A 1 HETATM 6 O O3 GOL . . . H 3 32.278 27.622 60.43 1 89.4 ? O3 GOL 307 A 1 # _model_server_stats.io_time_ms 6 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 269 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 6 #