data_5DDU # _model_server_result.job_id SQq-UnE_PnXg6y3idgnI8w _model_server_result.datetime_utc '2024-11-29 14:30:00' _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 5ddu # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"L","auth_seq_id":604}' # _entry.id 5DDU # _exptl.entry_id 5DDU _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 9 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 106.66 _cell.angle_beta 109.25 _cell.angle_gamma 94.84 _cell.entry_id 5DDU _cell.length_a 83.874 _cell.length_b 83.858 _cell.length_c 88.438 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5DDU _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,H,I,J,K,L,S,T 1 1 C,D,M,N,O,P,Q,R,U,V 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 F N N ? 3 G N N ? 3 J N N ? 3 K N N ? 3 L N N ? 3 N N N ? 3 O N N ? 3 P N N ? 3 Q N N # _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 5DDU _atom_sites.fract_transf_matrix[1][1] 0.011923 _atom_sites.fract_transf_matrix[1][2] 0.001009 _atom_sites.fract_transf_matrix[1][3] 0.004776 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.011968 _atom_sites.fract_transf_matrix[2][3] 0.004246 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.012709 _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 2 PMP A 1 601 524 PMP PMP . F 3 GOL A 1 602 4 GOL GOL . G 3 GOL A 1 603 8 GOL GOL . H 4 PGE A 1 604 1 PGE PE5 . I 2 PMP B 1 601 524 PMP PMP . J 3 GOL B 1 602 2 GOL GOL . K 3 GOL B 1 603 3 GOL GOL . L 3 GOL B 1 604 5 GOL GOL . M 2 PMP C 1 601 524 PMP PMP . N 3 GOL C 1 602 1 GOL GOL . O 3 GOL C 1 603 6 GOL GOL . P 3 GOL C 1 604 10 GOL GOL . Q 3 GOL C 1 605 11 GOL GOL . R 2 PMP D 1 601 524 PMP PMP . S 5 HOH A 1 701 226 HOH HOH . S 5 HOH A 2 702 207 HOH HOH . S 5 HOH A 3 703 37 HOH HOH . S 5 HOH A 4 704 1 HOH HOH . S 5 HOH A 5 705 57 HOH HOH . S 5 HOH A 6 706 184 HOH HOH . S 5 HOH A 7 707 318 HOH HOH . S 5 HOH A 8 708 161 HOH HOH . S 5 HOH A 9 709 19 HOH HOH . S 5 HOH A 10 710 45 HOH HOH . S 5 HOH A 11 711 174 HOH HOH . S 5 HOH A 12 712 348 HOH HOH . S 5 HOH A 13 713 76 HOH HOH . S 5 HOH A 14 714 311 HOH HOH . S 5 HOH A 15 715 192 HOH HOH . S 5 HOH A 16 716 272 HOH HOH . S 5 HOH A 17 717 6 HOH HOH . S 5 HOH A 18 718 277 HOH HOH . S 5 HOH A 19 719 62 HOH HOH . S 5 HOH A 20 720 165 HOH HOH . S 5 HOH A 21 721 310 HOH HOH . S 5 HOH A 22 722 119 HOH HOH . S 5 HOH A 23 723 120 HOH HOH . S 5 HOH A 24 724 78 HOH HOH . S 5 HOH A 25 725 194 HOH HOH . S 5 HOH A 26 726 267 HOH HOH . S 5 HOH A 27 727 205 HOH HOH . S 5 HOH A 28 728 84 HOH HOH . S 5 HOH A 29 729 203 HOH HOH . S 5 HOH A 30 730 235 HOH HOH . S 5 HOH A 31 731 312 HOH HOH . S 5 HOH A 32 732 308 HOH HOH . S 5 HOH A 33 733 201 HOH HOH . S 5 HOH A 34 734 36 HOH HOH . S 5 HOH A 35 735 94 HOH HOH . S 5 HOH A 36 736 24 HOH HOH . S 5 HOH A 37 737 343 HOH HOH . S 5 HOH A 38 738 63 HOH HOH . S 5 HOH A 39 739 290 HOH HOH . S 5 HOH A 40 740 304 HOH HOH . S 5 HOH A 41 741 168 HOH HOH . S 5 HOH A 42 742 51 HOH HOH . S 5 HOH A 43 743 232 HOH HOH . S 5 HOH A 44 744 44 HOH HOH . S 5 HOH A 45 745 149 HOH HOH . S 5 HOH A 46 746 183 HOH HOH . S 5 HOH A 47 747 338 HOH HOH . S 5 HOH A 48 748 230 HOH HOH . S 5 HOH A 49 749 98 HOH HOH . S 5 HOH A 50 750 246 HOH HOH . T 5 HOH B 1 701 211 HOH HOH . T 5 HOH B 2 702 271 HOH HOH . T 5 HOH B 3 703 25 HOH HOH . T 5 HOH B 4 704 80 HOH HOH . T 5 HOH B 5 705 167 HOH HOH . T 5 HOH B 6 706 189 HOH HOH . T 5 HOH B 7 707 213 HOH HOH . T 5 HOH B 8 708 273 HOH HOH . T 5 HOH B 9 709 204 HOH HOH . T 5 HOH B 10 710 4 HOH HOH . T 5 HOH B 11 711 155 HOH HOH . T 5 HOH B 12 712 2 HOH HOH . T 5 HOH B 13 713 176 HOH HOH . T 5 HOH B 14 714 143 HOH HOH . T 5 HOH B 15 715 257 HOH HOH . T 5 HOH B 16 716 39 HOH HOH . T 5 HOH B 17 717 74 HOH HOH . T 5 HOH B 18 718 50 HOH HOH . T 5 HOH B 19 719 306 HOH HOH . T 5 HOH B 20 720 307 HOH HOH . T 5 HOH B 21 721 10 HOH HOH . T 5 HOH B 22 722 91 HOH HOH . T 5 HOH B 23 723 13 HOH HOH . T 5 HOH B 24 724 72 HOH HOH . T 5 HOH B 25 725 278 HOH HOH . T 5 HOH B 26 726 169 HOH HOH . T 5 HOH B 27 727 115 HOH HOH . T 5 HOH B 28 728 67 HOH HOH . T 5 HOH B 29 729 345 HOH HOH . T 5 HOH B 30 730 224 HOH HOH . T 5 HOH B 31 731 182 HOH HOH . T 5 HOH B 32 732 12 HOH HOH . T 5 HOH B 33 733 16 HOH HOH . T 5 HOH B 34 734 150 HOH HOH . T 5 HOH B 35 735 209 HOH HOH . T 5 HOH B 36 736 133 HOH HOH . T 5 HOH B 37 737 129 HOH HOH . T 5 HOH B 38 738 117 HOH HOH . T 5 HOH B 39 739 99 HOH HOH . T 5 HOH B 40 740 136 HOH HOH . T 5 HOH B 41 741 166 HOH HOH . T 5 HOH B 42 742 244 HOH HOH . T 5 HOH B 43 743 33 HOH HOH . T 5 HOH B 44 744 20 HOH HOH . T 5 HOH B 45 745 274 HOH HOH . T 5 HOH B 46 746 125 HOH HOH . T 5 HOH B 47 747 142 HOH HOH . T 5 HOH B 48 748 218 HOH HOH . T 5 HOH B 49 749 242 HOH HOH . T 5 HOH B 50 750 349 HOH HOH . T 5 HOH B 51 751 177 HOH HOH . T 5 HOH B 52 752 231 HOH HOH . T 5 HOH B 53 753 75 HOH HOH . T 5 HOH B 54 754 193 HOH HOH . T 5 HOH B 55 755 280 HOH HOH . T 5 HOH B 56 756 256 HOH HOH . T 5 HOH B 57 757 227 HOH HOH . T 5 HOH B 58 758 303 HOH HOH . T 5 HOH B 59 759 110 HOH HOH . T 5 HOH B 60 760 73 HOH HOH . T 5 HOH B 61 761 178 HOH HOH . T 5 HOH B 62 762 313 HOH HOH . T 5 HOH B 63 763 111 HOH HOH . T 5 HOH B 64 764 301 HOH HOH . T 5 HOH B 65 765 329 HOH HOH . T 5 HOH B 66 766 233 HOH HOH . T 5 HOH B 67 767 210 HOH HOH . T 5 HOH B 68 768 101 HOH HOH . T 5 HOH B 69 769 263 HOH HOH . T 5 HOH B 70 770 330 HOH HOH . U 5 HOH C 1 701 139 HOH HOH . U 5 HOH C 2 702 327 HOH HOH . U 5 HOH C 3 703 29 HOH HOH . U 5 HOH C 4 704 196 HOH HOH . U 5 HOH C 5 705 105 HOH HOH . U 5 HOH C 6 706 337 HOH HOH . U 5 HOH C 7 707 87 HOH HOH . U 5 HOH C 8 708 141 HOH HOH . U 5 HOH C 9 709 299 HOH HOH . U 5 HOH C 10 710 279 HOH HOH . U 5 HOH C 11 711 64 HOH HOH . U 5 HOH C 12 712 128 HOH HOH . U 5 HOH C 13 713 137 HOH HOH . U 5 HOH C 14 714 81 HOH HOH . U 5 HOH C 15 715 130 HOH HOH . U 5 HOH C 16 716 265 HOH HOH . U 5 HOH C 17 717 8 HOH HOH . U 5 HOH C 18 718 34 HOH HOH . U 5 HOH C 19 719 70 HOH HOH . U 5 HOH C 20 720 65 HOH HOH . U 5 HOH C 21 721 58 HOH HOH . U 5 HOH C 22 722 181 HOH HOH . U 5 HOH C 23 723 323 HOH HOH . U 5 HOH C 24 724 42 HOH HOH . U 5 HOH C 25 725 17 HOH HOH . U 5 HOH C 26 726 121 HOH HOH . U 5 HOH C 27 727 7 HOH HOH . U 5 HOH C 28 728 21 HOH HOH . U 5 HOH C 29 729 40 HOH HOH . U 5 HOH C 30 730 245 HOH HOH . U 5 HOH C 31 731 240 HOH HOH . U 5 HOH C 32 732 41 HOH HOH . U 5 HOH C 33 733 118 HOH HOH . U 5 HOH C 34 734 134 HOH HOH . U 5 HOH C 35 735 11 HOH HOH . U 5 HOH C 36 736 214 HOH HOH . U 5 HOH C 37 737 195 HOH HOH . U 5 HOH C 38 738 108 HOH HOH . U 5 HOH C 39 739 28 HOH HOH . U 5 HOH C 40 740 152 HOH HOH . U 5 HOH C 41 741 225 HOH HOH . U 5 HOH C 42 742 314 HOH HOH . U 5 HOH C 43 743 15 HOH HOH . U 5 HOH C 44 744 18 HOH HOH . U 5 HOH C 45 745 127 HOH HOH . U 5 HOH C 46 746 222 HOH HOH . U 5 HOH C 47 747 255 HOH HOH . U 5 HOH C 48 748 200 HOH HOH . U 5 HOH C 49 749 236 HOH HOH . U 5 HOH C 50 750 49 HOH HOH . U 5 HOH C 51 751 175 HOH HOH . U 5 HOH C 52 752 22 HOH HOH . U 5 HOH C 53 753 247 HOH HOH . U 5 HOH C 54 754 14 HOH HOH . U 5 HOH C 55 755 237 HOH HOH . U 5 HOH C 56 756 113 HOH HOH . U 5 HOH C 57 757 131 HOH HOH . U 5 HOH C 58 758 252 HOH HOH . U 5 HOH C 59 759 3 HOH HOH . U 5 HOH C 60 760 258 HOH HOH . U 5 HOH C 61 761 61 HOH HOH . U 5 HOH C 62 762 164 HOH HOH . U 5 HOH C 63 763 54 HOH HOH . U 5 HOH C 64 764 216 HOH HOH . U 5 HOH C 65 765 114 HOH HOH . U 5 HOH C 66 766 88 HOH HOH . U 5 HOH C 67 767 160 HOH HOH . U 5 HOH C 68 768 53 HOH HOH . U 5 HOH C 69 769 268 HOH HOH . U 5 HOH C 70 770 95 HOH HOH . U 5 HOH C 71 771 55 HOH HOH . U 5 HOH C 72 772 112 HOH HOH . U 5 HOH C 73 773 126 HOH HOH . U 5 HOH C 74 774 97 HOH HOH . U 5 HOH C 75 775 190 HOH HOH . U 5 HOH C 76 776 79 HOH HOH . U 5 HOH C 77 777 350 HOH HOH . U 5 HOH C 78 778 347 HOH HOH . U 5 HOH C 79 779 116 HOH HOH . U 5 HOH C 80 780 282 HOH HOH . U 5 HOH C 81 781 241 HOH HOH . U 5 HOH C 82 782 250 HOH HOH . U 5 HOH C 83 783 344 HOH HOH . U 5 HOH C 84 784 261 HOH HOH . U 5 HOH C 85 785 296 HOH HOH . U 5 HOH C 86 786 285 HOH HOH . U 5 HOH C 87 787 284 HOH HOH . U 5 HOH C 88 788 325 HOH HOH . U 5 HOH C 89 789 328 HOH HOH . V 5 HOH D 1 701 331 HOH HOH . V 5 HOH D 2 702 123 HOH HOH . V 5 HOH D 3 703 85 HOH HOH . V 5 HOH D 4 704 82 HOH HOH . V 5 HOH D 5 705 320 HOH HOH . V 5 HOH D 6 706 140 HOH HOH . V 5 HOH D 7 707 47 HOH HOH . V 5 HOH D 8 708 162 HOH HOH . V 5 HOH D 9 709 163 HOH HOH . V 5 HOH D 10 710 135 HOH HOH . V 5 HOH D 11 711 146 HOH HOH . V 5 HOH D 12 712 26 HOH HOH . V 5 HOH D 13 713 202 HOH HOH . V 5 HOH D 14 714 27 HOH HOH . V 5 HOH D 15 715 221 HOH HOH . V 5 HOH D 16 716 215 HOH HOH . V 5 HOH D 17 717 89 HOH HOH . V 5 HOH D 18 718 297 HOH HOH . V 5 HOH D 19 719 96 HOH HOH . V 5 HOH D 20 720 30 HOH HOH . V 5 HOH D 21 721 86 HOH HOH . V 5 HOH D 22 722 239 HOH HOH . V 5 HOH D 23 723 9 HOH HOH . V 5 HOH D 24 724 138 HOH HOH . V 5 HOH D 25 725 103 HOH HOH . V 5 HOH D 26 726 158 HOH HOH . V 5 HOH D 27 727 186 HOH HOH . V 5 HOH D 28 728 219 HOH HOH . V 5 HOH D 29 729 106 HOH HOH . V 5 HOH D 30 730 305 HOH HOH . V 5 HOH D 31 731 31 HOH HOH . V 5 HOH D 32 732 276 HOH HOH . V 5 HOH D 33 733 179 HOH HOH . V 5 HOH D 34 734 23 HOH HOH . V 5 HOH D 35 735 132 HOH HOH . V 5 HOH D 36 736 122 HOH HOH . V 5 HOH D 37 737 35 HOH HOH . V 5 HOH D 38 738 5 HOH HOH . V 5 HOH D 39 739 147 HOH HOH . V 5 HOH D 40 740 185 HOH HOH . V 5 HOH D 41 741 148 HOH HOH . V 5 HOH D 42 742 93 HOH HOH . V 5 HOH D 43 743 71 HOH HOH . V 5 HOH D 44 744 324 HOH HOH . V 5 HOH D 45 745 59 HOH HOH . V 5 HOH D 46 746 217 HOH HOH . V 5 HOH D 47 747 77 HOH HOH . V 5 HOH D 48 748 38 HOH HOH . V 5 HOH D 49 749 238 HOH HOH . V 5 HOH D 50 750 32 HOH HOH . V 5 HOH D 51 751 229 HOH HOH . V 5 HOH D 52 752 198 HOH HOH . V 5 HOH D 53 753 92 HOH HOH . V 5 HOH D 54 754 102 HOH HOH . V 5 HOH D 55 755 316 HOH HOH . V 5 HOH D 56 756 309 HOH HOH . V 5 HOH D 57 757 68 HOH HOH . V 5 HOH D 58 758 104 HOH HOH . V 5 HOH D 59 759 342 HOH HOH . V 5 HOH D 60 760 260 HOH HOH . V 5 HOH D 61 761 100 HOH HOH . V 5 HOH D 62 762 157 HOH HOH . V 5 HOH D 63 763 124 HOH HOH . V 5 HOH D 64 764 107 HOH HOH . V 5 HOH D 65 765 154 HOH HOH . V 5 HOH D 66 766 270 HOH HOH . V 5 HOH D 67 767 281 HOH HOH . V 5 HOH D 68 768 223 HOH HOH . V 5 HOH D 69 769 264 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 . . . L 3 14.466 -29.635 -37.597 1 48.43 ? C1 GOL 604 B 1 HETATM 2 O O1 GOL . . . L 3 14.57 -28.217 -37.348 1 44 ? O1 GOL 604 B 1 HETATM 3 C C2 GOL . . . L 3 15.712 -30.373 -37.096 1 49.8 ? C2 GOL 604 B 1 HETATM 4 O O2 GOL . . . L 3 15.309 -31.468 -36.271 1 46.51 ? O2 GOL 604 B 1 HETATM 5 C C3 GOL . . . L 3 16.554 -30.897 -38.253 1 53.56 ? C3 GOL 604 B 1 HETATM 6 O O3 GOL . . . L 3 17.646 -31.685 -37.751 1 49.54 ? O3 GOL 604 B 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 19 _model_server_stats.create_model_time_ms 187 _model_server_stats.query_time_ms 427 _model_server_stats.encode_time_ms 10 _model_server_stats.element_count 6 #