data_3I53 # _model_server_result.job_id BDhYlQlYVBj5ezun99bZMw _model_server_result.datetime_utc '2025-01-15 07:14:22' _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 3i53 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":402}' # _entry.id 3I53 # _exptl.entry_id 3I53 _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 90 _cell.angle_beta 90 _cell.angle_gamma 90 _cell.entry_id 3I53 _cell.length_a 91.253 _cell.length_b 161.568 _cell.length_c 98.944 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3I53 _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 2 2 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 _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 # _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 # _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 3I53 _atom_sites.fract_transf_matrix[1][1] 0.010959 _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] 0.006189 _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] 0.010107 _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 C 2 SAH A 1 401 1 SAH SAH . D 2 SAH B 1 401 2 SAH SAH . E 3 GOL B 1 402 3 GOL GOL . F 4 HOH A 1 502 2 HOH HOH . F 4 HOH A 2 503 3 HOH HOH . F 4 HOH A 3 504 4 HOH HOH . F 4 HOH A 4 505 5 HOH HOH . F 4 HOH A 5 506 6 HOH HOH . F 4 HOH A 6 508 8 HOH HOH . F 4 HOH A 7 509 9 HOH HOH . F 4 HOH A 8 512 12 HOH HOH . F 4 HOH A 9 515 15 HOH HOH . F 4 HOH A 10 517 17 HOH HOH . F 4 HOH A 11 518 18 HOH HOH . F 4 HOH A 12 519 19 HOH HOH . F 4 HOH A 13 520 20 HOH HOH . F 4 HOH A 14 522 22 HOH HOH . F 4 HOH A 15 523 23 HOH HOH . F 4 HOH A 16 524 24 HOH HOH . F 4 HOH A 17 527 27 HOH HOH . F 4 HOH A 18 528 28 HOH HOH . F 4 HOH A 19 530 30 HOH HOH . F 4 HOH A 20 531 31 HOH HOH . F 4 HOH A 21 532 32 HOH HOH . F 4 HOH A 22 533 33 HOH HOH . F 4 HOH A 23 534 34 HOH HOH . F 4 HOH A 24 535 35 HOH HOH . F 4 HOH A 25 536 36 HOH HOH . F 4 HOH A 26 537 37 HOH HOH . F 4 HOH A 27 538 38 HOH HOH . F 4 HOH A 28 540 40 HOH HOH . F 4 HOH A 29 542 42 HOH HOH . F 4 HOH A 30 543 43 HOH HOH . F 4 HOH A 31 544 44 HOH HOH . F 4 HOH A 32 545 45 HOH HOH . F 4 HOH A 33 546 46 HOH HOH . F 4 HOH A 34 547 47 HOH HOH . F 4 HOH A 35 549 49 HOH HOH . F 4 HOH A 36 550 50 HOH HOH . F 4 HOH A 37 552 52 HOH HOH . F 4 HOH A 38 553 53 HOH HOH . F 4 HOH A 39 554 54 HOH HOH . F 4 HOH A 40 556 56 HOH HOH . F 4 HOH A 41 557 57 HOH HOH . F 4 HOH A 42 558 58 HOH HOH . F 4 HOH A 43 559 59 HOH HOH . F 4 HOH A 44 560 60 HOH HOH . F 4 HOH A 45 561 61 HOH HOH . F 4 HOH A 46 562 62 HOH HOH . F 4 HOH A 47 564 64 HOH HOH . F 4 HOH A 48 566 66 HOH HOH . F 4 HOH A 49 567 67 HOH HOH . F 4 HOH A 50 568 68 HOH HOH . F 4 HOH A 51 571 71 HOH HOH . F 4 HOH A 52 573 73 HOH HOH . F 4 HOH A 53 576 76 HOH HOH . F 4 HOH A 54 577 77 HOH HOH . F 4 HOH A 55 578 78 HOH HOH . F 4 HOH A 56 579 79 HOH HOH . F 4 HOH A 57 580 80 HOH HOH . F 4 HOH A 58 582 82 HOH HOH . F 4 HOH A 59 584 84 HOH HOH . F 4 HOH A 60 585 85 HOH HOH . F 4 HOH A 61 586 86 HOH HOH . F 4 HOH A 62 587 87 HOH HOH . F 4 HOH A 63 589 89 HOH HOH . F 4 HOH A 64 591 91 HOH HOH . F 4 HOH A 65 592 92 HOH HOH . F 4 HOH A 66 594 94 HOH HOH . F 4 HOH A 67 595 95 HOH HOH . F 4 HOH A 68 596 96 HOH HOH . F 4 HOH A 69 597 97 HOH HOH . F 4 HOH A 70 600 100 HOH HOH . F 4 HOH A 71 601 101 HOH HOH . F 4 HOH A 72 604 104 HOH HOH . F 4 HOH A 73 607 107 HOH HOH . F 4 HOH A 74 609 109 HOH HOH . F 4 HOH A 75 610 110 HOH HOH . F 4 HOH A 76 611 111 HOH HOH . F 4 HOH A 77 612 112 HOH HOH . F 4 HOH A 78 616 116 HOH HOH . F 4 HOH A 79 620 120 HOH HOH . F 4 HOH A 80 623 123 HOH HOH . F 4 HOH A 81 631 131 HOH HOH . F 4 HOH A 82 633 133 HOH HOH . F 4 HOH A 83 635 135 HOH HOH . F 4 HOH A 84 638 138 HOH HOH . F 4 HOH A 85 640 140 HOH HOH . F 4 HOH A 86 644 144 HOH HOH . F 4 HOH A 87 646 146 HOH HOH . F 4 HOH A 88 648 148 HOH HOH . F 4 HOH A 89 649 149 HOH HOH . F 4 HOH A 90 651 151 HOH HOH . F 4 HOH A 91 653 153 HOH HOH . F 4 HOH A 92 654 154 HOH HOH . F 4 HOH A 93 658 158 HOH HOH . F 4 HOH A 94 660 160 HOH HOH . F 4 HOH A 95 661 161 HOH HOH . F 4 HOH A 96 662 162 HOH HOH . F 4 HOH A 97 663 163 HOH HOH . F 4 HOH A 98 665 165 HOH HOH . F 4 HOH A 99 667 167 HOH HOH . F 4 HOH A 100 668 168 HOH HOH . F 4 HOH A 101 669 169 HOH HOH . F 4 HOH A 102 671 171 HOH HOH . F 4 HOH A 103 672 172 HOH HOH . F 4 HOH A 104 674 174 HOH HOH . F 4 HOH A 105 675 175 HOH HOH . F 4 HOH A 106 677 177 HOH HOH . F 4 HOH A 107 678 178 HOH HOH . F 4 HOH A 108 679 179 HOH HOH . F 4 HOH A 109 680 180 HOH HOH . F 4 HOH A 110 681 181 HOH HOH . F 4 HOH A 111 682 182 HOH HOH . F 4 HOH A 112 683 183 HOH HOH . F 4 HOH A 113 684 184 HOH HOH . F 4 HOH A 114 686 186 HOH HOH . F 4 HOH A 115 687 187 HOH HOH . F 4 HOH A 116 688 188 HOH HOH . F 4 HOH A 117 689 189 HOH HOH . F 4 HOH A 118 691 191 HOH HOH . F 4 HOH A 119 692 192 HOH HOH . F 4 HOH A 120 695 195 HOH HOH . F 4 HOH A 121 696 196 HOH HOH . F 4 HOH A 122 697 197 HOH HOH . F 4 HOH A 123 698 198 HOH HOH . F 4 HOH A 124 699 199 HOH HOH . F 4 HOH A 125 701 201 HOH HOH . F 4 HOH A 126 702 202 HOH HOH . F 4 HOH A 127 703 203 HOH HOH . F 4 HOH A 128 704 204 HOH HOH . F 4 HOH A 129 705 205 HOH HOH . F 4 HOH A 130 706 206 HOH HOH . F 4 HOH A 131 708 208 HOH HOH . F 4 HOH A 132 709 209 HOH HOH . F 4 HOH A 133 710 210 HOH HOH . F 4 HOH A 134 711 211 HOH HOH . F 4 HOH A 135 712 212 HOH HOH . F 4 HOH A 136 714 214 HOH HOH . F 4 HOH A 137 716 216 HOH HOH . F 4 HOH A 138 718 218 HOH HOH . F 4 HOH A 139 720 220 HOH HOH . F 4 HOH A 140 722 222 HOH HOH . F 4 HOH A 141 725 225 HOH HOH . F 4 HOH A 142 726 226 HOH HOH . F 4 HOH A 143 727 227 HOH HOH . F 4 HOH A 144 728 228 HOH HOH . F 4 HOH A 145 729 229 HOH HOH . F 4 HOH A 146 731 231 HOH HOH . F 4 HOH A 147 732 232 HOH HOH . F 4 HOH A 148 733 233 HOH HOH . F 4 HOH A 149 734 234 HOH HOH . F 4 HOH A 150 735 235 HOH HOH . F 4 HOH A 151 737 237 HOH HOH . F 4 HOH A 152 738 238 HOH HOH . F 4 HOH A 153 741 241 HOH HOH . F 4 HOH A 154 744 244 HOH HOH . F 4 HOH A 155 745 245 HOH HOH . F 4 HOH A 156 751 251 HOH HOH . F 4 HOH A 157 752 252 HOH HOH . F 4 HOH A 158 756 256 HOH HOH . F 4 HOH A 159 757 257 HOH HOH . F 4 HOH A 160 759 259 HOH HOH . F 4 HOH A 161 760 260 HOH HOH . F 4 HOH A 162 761 261 HOH HOH . F 4 HOH A 163 763 263 HOH HOH . F 4 HOH A 164 764 264 HOH HOH . F 4 HOH A 165 769 269 HOH HOH . F 4 HOH A 166 771 271 HOH HOH . F 4 HOH A 167 772 272 HOH HOH . F 4 HOH A 168 773 273 HOH HOH . F 4 HOH A 169 775 275 HOH HOH . F 4 HOH A 170 776 276 HOH HOH . F 4 HOH A 171 777 277 HOH HOH . F 4 HOH A 172 779 279 HOH HOH . F 4 HOH A 173 781 281 HOH HOH . F 4 HOH A 174 784 284 HOH HOH . F 4 HOH A 175 785 285 HOH HOH . F 4 HOH A 176 790 290 HOH HOH . F 4 HOH A 177 791 291 HOH HOH . F 4 HOH A 178 792 292 HOH HOH . F 4 HOH A 179 793 293 HOH HOH . F 4 HOH A 180 794 294 HOH HOH . F 4 HOH A 181 795 295 HOH HOH . F 4 HOH A 182 796 296 HOH HOH . F 4 HOH A 183 797 297 HOH HOH . F 4 HOH A 184 800 300 HOH HOH . F 4 HOH A 185 801 301 HOH HOH . F 4 HOH A 186 802 302 HOH HOH . F 4 HOH A 187 803 303 HOH HOH . F 4 HOH A 188 804 304 HOH HOH . G 4 HOH B 1 501 1 HOH HOH . G 4 HOH B 2 507 7 HOH HOH . G 4 HOH B 3 510 10 HOH HOH . G 4 HOH B 4 511 11 HOH HOH . G 4 HOH B 5 513 13 HOH HOH . G 4 HOH B 6 514 14 HOH HOH . G 4 HOH B 7 516 16 HOH HOH . G 4 HOH B 8 521 21 HOH HOH . G 4 HOH B 9 525 25 HOH HOH . G 4 HOH B 10 526 26 HOH HOH . G 4 HOH B 11 529 29 HOH HOH . G 4 HOH B 12 539 39 HOH HOH . G 4 HOH B 13 541 41 HOH HOH . G 4 HOH B 14 548 48 HOH HOH . G 4 HOH B 15 551 51 HOH HOH . G 4 HOH B 16 555 55 HOH HOH . G 4 HOH B 17 563 63 HOH HOH . G 4 HOH B 18 565 65 HOH HOH . G 4 HOH B 19 569 69 HOH HOH . G 4 HOH B 20 570 70 HOH HOH . G 4 HOH B 21 572 72 HOH HOH . G 4 HOH B 22 574 74 HOH HOH . G 4 HOH B 23 575 75 HOH HOH . G 4 HOH B 24 581 81 HOH HOH . G 4 HOH B 25 583 83 HOH HOH . G 4 HOH B 26 588 88 HOH HOH . G 4 HOH B 27 590 90 HOH HOH . G 4 HOH B 28 593 93 HOH HOH . G 4 HOH B 29 598 98 HOH HOH . G 4 HOH B 30 599 99 HOH HOH . G 4 HOH B 31 602 102 HOH HOH . G 4 HOH B 32 603 103 HOH HOH . G 4 HOH B 33 605 105 HOH HOH . G 4 HOH B 34 606 106 HOH HOH . G 4 HOH B 35 608 108 HOH HOH . G 4 HOH B 36 613 113 HOH HOH . G 4 HOH B 37 614 114 HOH HOH . G 4 HOH B 38 615 115 HOH HOH . G 4 HOH B 39 617 117 HOH HOH . G 4 HOH B 40 618 118 HOH HOH . G 4 HOH B 41 619 119 HOH HOH . G 4 HOH B 42 621 121 HOH HOH . G 4 HOH B 43 622 122 HOH HOH . G 4 HOH B 44 624 124 HOH HOH . G 4 HOH B 45 625 125 HOH HOH . G 4 HOH B 46 626 126 HOH HOH . G 4 HOH B 47 627 127 HOH HOH . G 4 HOH B 48 628 128 HOH HOH . G 4 HOH B 49 629 129 HOH HOH . G 4 HOH B 50 630 130 HOH HOH . G 4 HOH B 51 632 132 HOH HOH . G 4 HOH B 52 634 134 HOH HOH . G 4 HOH B 53 636 136 HOH HOH . G 4 HOH B 54 637 137 HOH HOH . G 4 HOH B 55 639 139 HOH HOH . G 4 HOH B 56 641 141 HOH HOH . G 4 HOH B 57 642 142 HOH HOH . G 4 HOH B 58 643 143 HOH HOH . G 4 HOH B 59 645 145 HOH HOH . G 4 HOH B 60 647 147 HOH HOH . G 4 HOH B 61 650 150 HOH HOH . G 4 HOH B 62 652 152 HOH HOH . G 4 HOH B 63 655 155 HOH HOH . G 4 HOH B 64 656 156 HOH HOH . G 4 HOH B 65 657 157 HOH HOH . G 4 HOH B 66 659 159 HOH HOH . G 4 HOH B 67 664 164 HOH HOH . G 4 HOH B 68 666 166 HOH HOH . G 4 HOH B 69 670 170 HOH HOH . G 4 HOH B 70 673 173 HOH HOH . G 4 HOH B 71 676 176 HOH HOH . G 4 HOH B 72 685 185 HOH HOH . G 4 HOH B 73 690 190 HOH HOH . G 4 HOH B 74 693 193 HOH HOH . G 4 HOH B 75 694 194 HOH HOH . G 4 HOH B 76 700 200 HOH HOH . G 4 HOH B 77 707 207 HOH HOH . G 4 HOH B 78 713 213 HOH HOH . G 4 HOH B 79 715 215 HOH HOH . G 4 HOH B 80 717 217 HOH HOH . G 4 HOH B 81 719 219 HOH HOH . G 4 HOH B 82 721 221 HOH HOH . G 4 HOH B 83 723 223 HOH HOH . G 4 HOH B 84 724 224 HOH HOH . G 4 HOH B 85 730 230 HOH HOH . G 4 HOH B 86 736 236 HOH HOH . G 4 HOH B 87 739 239 HOH HOH . G 4 HOH B 88 740 240 HOH HOH . G 4 HOH B 89 742 242 HOH HOH . G 4 HOH B 90 743 243 HOH HOH . G 4 HOH B 91 746 246 HOH HOH . G 4 HOH B 92 747 247 HOH HOH . G 4 HOH B 93 748 248 HOH HOH . G 4 HOH B 94 749 249 HOH HOH . G 4 HOH B 95 750 250 HOH HOH . G 4 HOH B 96 753 253 HOH HOH . G 4 HOH B 97 754 254 HOH HOH . G 4 HOH B 98 755 255 HOH HOH . G 4 HOH B 99 758 258 HOH HOH . G 4 HOH B 100 762 262 HOH HOH . G 4 HOH B 101 765 265 HOH HOH . G 4 HOH B 102 766 266 HOH HOH . G 4 HOH B 103 767 267 HOH HOH . G 4 HOH B 104 768 268 HOH HOH . G 4 HOH B 105 770 270 HOH HOH . G 4 HOH B 106 774 274 HOH HOH . G 4 HOH B 107 778 278 HOH HOH . G 4 HOH B 108 780 280 HOH HOH . G 4 HOH B 109 782 282 HOH HOH . G 4 HOH B 110 783 283 HOH HOH . G 4 HOH B 111 786 286 HOH HOH . G 4 HOH B 112 787 287 HOH HOH . G 4 HOH B 113 788 288 HOH HOH . G 4 HOH B 114 789 289 HOH HOH . G 4 HOH B 115 798 298 HOH HOH . G 4 HOH B 116 799 299 HOH HOH . G 4 HOH B 117 805 305 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 29.023 19.185 21.339 1 73.43 ? C1 GOL 402 B 1 HETATM 2 O O1 GOL . . . E 3 27.651 19.542 21.531 1 73.52 ? O1 GOL 402 B 1 HETATM 3 C C2 GOL . . . E 3 29.312 19.077 19.842 1 73.3 ? C2 GOL 402 B 1 HETATM 4 O O2 GOL . . . E 3 29.045 20.343 19.221 1 72.94 ? O2 GOL 402 B 1 HETATM 5 C C3 GOL . . . E 3 30.777 18.686 19.621 1 71.83 ? C3 GOL 402 B 1 HETATM 6 O O3 GOL . . . E 3 31.035 18.575 18.22 1 69.98 ? O3 GOL 402 B 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 10 _model_server_stats.query_time_ms 337 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 6 #