data_6D07 # _model_server_result.job_id jNYJXQzZYleEfknW6HWFug _model_server_result.datetime_utc '2024-11-22 09:17:08' _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 6d07 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":101}' # _entry.id 6D07 # _exptl.entry_id 6D07 _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 99.05 _cell.angle_beta 106.2 _cell.angle_gamma 102.42 _cell.entry_id 6D07 _cell.length_a 32.016 _cell.length_b 32.124 _cell.length_c 34.053 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6D07 _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,C,E,F,H 1 1 B,D,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 E _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 C C ARG 8 C ARG 8 1_555 C N M3L 9 C M3L 9 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? covale ? covale2 C C M3L 9 C M3L 9 1_555 C N SER 10 C SER 10 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale3 D C ARG 8 D ARG 8 1_555 D N M3L 9 D M3L 9 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale4 D C M3L 9 D M3L 9 1_555 D N SER 10 D SER 10 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? # _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 6D07 _atom_sites.fract_transf_matrix[1][1] 0.031235 _atom_sites.fract_transf_matrix[1][2] 0.006881 _atom_sites.fract_transf_matrix[1][3] 0.010972 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.031876 _atom_sites.fract_transf_matrix[2][3] 0.007596 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.031438 _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 4 HOH A 1 201 86 HOH HOH . F 4 HOH A 2 202 43 HOH HOH . F 4 HOH A 3 203 4 HOH HOH . F 4 HOH A 4 204 40 HOH HOH . F 4 HOH A 5 205 30 HOH HOH . F 4 HOH A 6 206 2 HOH HOH . F 4 HOH A 7 207 16 HOH HOH . F 4 HOH A 8 208 45 HOH HOH . F 4 HOH A 9 209 36 HOH HOH . F 4 HOH A 10 210 12 HOH HOH . F 4 HOH A 11 211 39 HOH HOH . F 4 HOH A 12 212 92 HOH HOH . F 4 HOH A 13 213 21 HOH HOH . F 4 HOH A 14 214 18 HOH HOH . F 4 HOH A 15 215 79 HOH HOH . F 4 HOH A 16 216 54 HOH HOH . F 4 HOH A 17 217 48 HOH HOH . F 4 HOH A 18 218 15 HOH HOH . F 4 HOH A 19 219 75 HOH HOH . F 4 HOH A 20 220 28 HOH HOH . F 4 HOH A 21 221 94 HOH HOH . F 4 HOH A 22 222 27 HOH HOH . F 4 HOH A 23 223 77 HOH HOH . F 4 HOH A 24 224 3 HOH HOH . F 4 HOH A 25 225 55 HOH HOH . F 4 HOH A 26 226 38 HOH HOH . F 4 HOH A 27 227 42 HOH HOH . F 4 HOH A 28 228 47 HOH HOH . F 4 HOH A 29 229 20 HOH HOH . F 4 HOH A 30 230 14 HOH HOH . F 4 HOH A 31 231 76 HOH HOH . F 4 HOH A 32 232 85 HOH HOH . F 4 HOH A 33 233 19 HOH HOH . F 4 HOH A 34 234 34 HOH HOH . F 4 HOH A 35 235 87 HOH HOH . F 4 HOH A 36 236 73 HOH HOH . F 4 HOH A 37 237 100 HOH HOH . F 4 HOH A 38 238 67 HOH HOH . F 4 HOH A 39 239 59 HOH HOH . F 4 HOH A 40 240 9 HOH HOH . F 4 HOH A 41 241 95 HOH HOH . F 4 HOH A 42 242 71 HOH HOH . F 4 HOH A 43 243 33 HOH HOH . F 4 HOH A 44 244 22 HOH HOH . F 4 HOH A 45 245 63 HOH HOH . F 4 HOH A 46 246 72 HOH HOH . F 4 HOH A 47 247 99 HOH HOH . G 4 HOH B 1 101 29 HOH HOH . G 4 HOH B 2 102 64 HOH HOH . G 4 HOH B 3 103 1 HOH HOH . G 4 HOH B 4 104 44 HOH HOH . G 4 HOH B 5 105 10 HOH HOH . G 4 HOH B 6 106 58 HOH HOH . G 4 HOH B 7 107 11 HOH HOH . G 4 HOH B 8 108 24 HOH HOH . G 4 HOH B 9 109 56 HOH HOH . G 4 HOH B 10 110 17 HOH HOH . G 4 HOH B 11 111 23 HOH HOH . G 4 HOH B 12 112 6 HOH HOH . G 4 HOH B 13 113 26 HOH HOH . G 4 HOH B 14 114 37 HOH HOH . G 4 HOH B 15 115 31 HOH HOH . G 4 HOH B 16 116 78 HOH HOH . G 4 HOH B 17 117 7 HOH HOH . G 4 HOH B 18 118 57 HOH HOH . G 4 HOH B 19 119 65 HOH HOH . G 4 HOH B 20 120 35 HOH HOH . G 4 HOH B 21 121 69 HOH HOH . G 4 HOH B 22 122 46 HOH HOH . G 4 HOH B 23 123 51 HOH HOH . G 4 HOH B 24 124 83 HOH HOH . G 4 HOH B 25 125 5 HOH HOH . G 4 HOH B 26 126 32 HOH HOH . G 4 HOH B 27 127 50 HOH HOH . G 4 HOH B 28 128 66 HOH HOH . G 4 HOH B 29 129 96 HOH HOH . G 4 HOH B 30 130 60 HOH HOH . G 4 HOH B 31 131 80 HOH HOH . G 4 HOH B 32 132 52 HOH HOH . G 4 HOH B 33 133 89 HOH HOH . G 4 HOH B 34 134 74 HOH HOH . G 4 HOH B 35 135 90 HOH HOH . G 4 HOH B 36 136 41 HOH HOH . G 4 HOH B 37 137 25 HOH HOH . G 4 HOH B 38 138 84 HOH HOH . G 4 HOH B 39 139 98 HOH HOH . G 4 HOH B 40 140 82 HOH HOH . G 4 HOH B 41 141 88 HOH HOH . G 4 HOH B 42 142 81 HOH HOH . H 4 HOH C 1 101 61 HOH HOH . H 4 HOH C 2 102 68 HOH HOH . H 4 HOH C 3 103 53 HOH HOH . H 4 HOH C 4 104 8 HOH HOH . H 4 HOH C 5 105 91 HOH HOH . H 4 HOH C 6 106 97 HOH HOH . H 4 HOH C 7 107 93 HOH HOH . I 4 HOH D 1 101 49 HOH HOH . I 4 HOH D 2 102 13 HOH HOH . I 4 HOH D 3 103 62 HOH HOH . I 4 HOH D 4 104 70 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 . . . E 3 -6.98 16.763 25.113 1 32.77 ? C1 GOL 101 A 1 HETATM 2 O O1 GOL . . . E 3 -6.227 16.435 26.245 1 43.44 ? O1 GOL 101 A 1 HETATM 3 C C2 GOL . . . E 3 -7.543 18.173 25.349 1 36.79 ? C2 GOL 101 A 1 HETATM 4 O O2 GOL . . . E 3 -8.684 18.127 26.12 1 44.59 ? O2 GOL 101 A 1 HETATM 5 C C3 GOL . . . E 3 -6.419 18.911 26.078 1 33.7 ? C3 GOL 101 A 1 HETATM 6 O O3 GOL . . . E 3 -6.625 20.261 25.852 1 35.41 ? O3 GOL 101 A 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 1 _model_server_stats.query_time_ms 254 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 6 #