data_6D08 # _model_server_result.job_id XHjiUJ4ugCHrQ941T0ilmg _model_server_result.datetime_utc '2024-11-06 17:40:16' _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 6d08 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":101}' # _entry.id 6D08 # _exptl.entry_id 6D08 _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 4 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 76.79 _cell.angle_beta 89.89 _cell.angle_gamma 65.1 _cell.entry_id 6D08 _cell.length_a 33.191 _cell.length_b 34.052 _cell.length_c 35.267 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6D08 _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 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 dimeric 2 author_and_software_defined_assembly 1 PISA dimeric 2 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,B,E,F,G,K,L 1 1 C,D,H,I,J,M,N 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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 3 E N N ? 3 F N N ? 3 H N N ? 3 I 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 covale ? covale1 B C ARG 8 C ARG 8 1_555 B N FQA 9 C FQA 9 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale2 B C FQA 9 C FQA 9 1_555 B N SER 10 C SER 10 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale3 D C ARG 8 D ARG 8 1_555 D N FQA 9 D FQA 9 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale4 D C FQA 9 D FQA 9 1_555 D N SER 10 D SER 10 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? # _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 166 n n C1 C2 GOL sing 167 n n C1 H11 GOL sing 168 n n C1 H12 GOL sing 169 n n O1 HO1 GOL sing 170 n n C2 O2 GOL sing 171 n n C2 C3 GOL sing 172 n n C2 H2 GOL sing 173 n n O2 HO2 GOL sing 174 n n C3 O3 GOL sing 175 n n C3 H31 GOL sing 176 n n C3 H32 GOL sing 177 n n O3 HO3 GOL sing 178 n n # _atom_sites.entry_id 6D08 _atom_sites.fract_transf_matrix[1][1] 0.030128 _atom_sites.fract_transf_matrix[1][2] -0.013983 _atom_sites.fract_transf_matrix[1][3] 0.003568 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.032375 _atom_sites.fract_transf_matrix[2][3] -0.008394 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.029293 _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 E 3 GOL A 1 101 1 GOL GOL . F 3 GOL A 1 102 3 GOL GOL . G 4 SO4 C 1 101 2 SO4 SO4 . H 3 GOL B 1 101 2 GOL GOL . I 3 GOL B 1 102 4 GOL GOL . J 4 SO4 D 1 101 1 SO4 SO4 . K 5 HOH A 1 201 26 HOH HOH . K 5 HOH A 2 202 8 HOH HOH . K 5 HOH A 3 203 12 HOH HOH . K 5 HOH A 4 204 20 HOH HOH . K 5 HOH A 5 205 37 HOH HOH . K 5 HOH A 6 206 13 HOH HOH . K 5 HOH A 7 207 39 HOH HOH . K 5 HOH A 8 208 14 HOH HOH . K 5 HOH A 9 209 5 HOH HOH . K 5 HOH A 10 210 7 HOH HOH . K 5 HOH A 11 211 22 HOH HOH . K 5 HOH A 12 212 2 HOH HOH . K 5 HOH A 13 213 31 HOH HOH . K 5 HOH A 14 214 3 HOH HOH . K 5 HOH A 15 215 6 HOH HOH . K 5 HOH A 16 216 32 HOH HOH . L 5 HOH C 1 201 28 HOH HOH . M 5 HOH B 1 201 15 HOH HOH . M 5 HOH B 2 202 29 HOH HOH . M 5 HOH B 3 203 18 HOH HOH . M 5 HOH B 4 204 27 HOH HOH . M 5 HOH B 5 205 21 HOH HOH . M 5 HOH B 6 206 4 HOH HOH . M 5 HOH B 7 207 25 HOH HOH . M 5 HOH B 8 208 24 HOH HOH . M 5 HOH B 9 209 11 HOH HOH . M 5 HOH B 10 210 34 HOH HOH . M 5 HOH B 11 211 33 HOH HOH . M 5 HOH B 12 212 36 HOH HOH . M 5 HOH B 13 213 23 HOH HOH . M 5 HOH B 14 214 38 HOH HOH . M 5 HOH B 15 215 19 HOH HOH . M 5 HOH B 16 216 9 HOH HOH . M 5 HOH B 17 217 10 HOH HOH . M 5 HOH B 18 218 40 HOH HOH . M 5 HOH B 19 219 17 HOH HOH . N 5 HOH D 1 201 16 HOH HOH . N 5 HOH D 2 202 41 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 15.101 -53.414 20.468 1 57.58 ? C1 GOL 101 B 1 HETATM 2 O O1 GOL . . . H 3 14.074 -53.258 21.398 1 60.71 ? O1 GOL 101 B 1 HETATM 3 C C2 GOL . . . H 3 14.778 -52.484 19.274 1 51.74 ? C2 GOL 101 B 1 HETATM 4 O O2 GOL . . . H 3 13.488 -52.682 18.794 1 60.79 ? O2 GOL 101 B 1 HETATM 5 C C3 GOL . . . H 3 15.848 -52.819 18.211 1 48.68 ? C3 GOL 101 B 1 HETATM 6 O O3 GOL . . . H 3 17.088 -52.534 18.779 1 52.23 ? O3 GOL 101 B 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 24 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 272 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 6 #