data_5JWD # _model_server_result.job_id zWjNibxS0JOUClsRKFmmyg _model_server_result.datetime_utc '2025-01-12 14:56:33' _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 5jwd # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":303}' # _entry.id 5JWD # _exptl.entry_id 5JWD _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 3 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 121.9 _cell.angle_gamma 90 _cell.entry_id 5JWD _cell.length_a 90.3 _cell.length_b 108.8 _cell.length_c 58 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5JWD _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 1 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 _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,J _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 4 D N N ? 4 E N N ? 4 F 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 disulf ? disulf1 A SG CYS 101 A CYS 101 1_555 A SG CYS 164 A CYS 164 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.07 ? disulf ? disulf2 A SG CYS 203 A CYS 203 1_555 A SG CYS 259 A CYS 259 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf3 B SG CYS 25 B CYS 25 1_555 B SG CYS 80 B CYS 80 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? # _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 5JWD _atom_sites.fract_transf_matrix[1][1] 0.011074 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.006893 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.009191 _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] 0.020309 _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 D 4 GOL A 1 301 1 GOL GOL . E 4 GOL A 1 302 2 GOL GOL . F 4 GOL A 1 303 3 GOL GOL . G 5 SO4 B 1 101 1 SO4 SO4 . H 6 HOH A 1 401 22 HOH HOH . H 6 HOH A 2 402 44 HOH HOH . H 6 HOH A 3 403 27 HOH HOH . H 6 HOH A 4 404 16 HOH HOH . H 6 HOH A 5 405 17 HOH HOH . H 6 HOH A 6 406 23 HOH HOH . H 6 HOH A 7 407 8 HOH HOH . H 6 HOH A 8 408 57 HOH HOH . H 6 HOH A 9 409 4 HOH HOH . H 6 HOH A 10 410 5 HOH HOH . H 6 HOH A 11 411 54 HOH HOH . H 6 HOH A 12 412 52 HOH HOH . H 6 HOH A 13 413 11 HOH HOH . H 6 HOH A 14 414 1 HOH HOH . H 6 HOH A 15 415 31 HOH HOH . H 6 HOH A 16 416 2 HOH HOH . H 6 HOH A 17 417 21 HOH HOH . H 6 HOH A 18 418 35 HOH HOH . H 6 HOH A 19 419 13 HOH HOH . H 6 HOH A 20 420 10 HOH HOH . H 6 HOH A 21 421 56 HOH HOH . H 6 HOH A 22 422 14 HOH HOH . H 6 HOH A 23 423 36 HOH HOH . H 6 HOH A 24 424 45 HOH HOH . H 6 HOH A 25 425 12 HOH HOH . H 6 HOH A 26 426 42 HOH HOH . H 6 HOH A 27 427 28 HOH HOH . H 6 HOH A 28 428 55 HOH HOH . H 6 HOH A 29 429 38 HOH HOH . H 6 HOH A 30 430 7 HOH HOH . H 6 HOH A 31 431 39 HOH HOH . H 6 HOH A 32 432 48 HOH HOH . H 6 HOH A 33 433 50 HOH HOH . H 6 HOH A 34 434 32 HOH HOH . H 6 HOH A 35 435 24 HOH HOH . H 6 HOH A 36 436 37 HOH HOH . H 6 HOH A 37 437 26 HOH HOH . H 6 HOH A 38 438 18 HOH HOH . I 6 HOH B 1 201 6 HOH HOH . I 6 HOH B 2 202 19 HOH HOH . I 6 HOH B 3 203 53 HOH HOH . I 6 HOH B 4 204 30 HOH HOH . I 6 HOH B 5 205 3 HOH HOH . I 6 HOH B 6 206 9 HOH HOH . I 6 HOH B 7 207 33 HOH HOH . I 6 HOH B 8 208 34 HOH HOH . I 6 HOH B 9 209 49 HOH HOH . I 6 HOH B 10 210 40 HOH HOH . J 6 HOH C 1 101 58 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 4 25.044 -16.93 11.96 1 94.99 ? C1 GOL 303 A 1 HETATM 2 O O1 GOL . . . F 4 26.428 -17.187 11.777 1 96.42 ? O1 GOL 303 A 1 HETATM 3 C C2 GOL . . . F 4 24.7 -16.681 13.432 1 91.17 ? C2 GOL 303 A 1 HETATM 4 O O2 GOL . . . F 4 25.647 -15.797 13.993 1 90.2 ? O2 GOL 303 A 1 HETATM 5 C C3 GOL . . . F 4 24.615 -18.014 14.196 1 85.24 ? C3 GOL 303 A 1 HETATM 6 O O3 GOL . . . F 4 24.47 -17.878 15.605 1 74.12 ? O3 GOL 303 A 1 # _model_server_stats.io_time_ms 34 _model_server_stats.parse_time_ms 14 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 327 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 6 #