data_4YRK # _model_server_result.job_id 5zy9WAWZbLMp1YKFQ8NilQ _model_server_result.datetime_utc '2024-10-14 23:24:37' _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 4yrk # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"P","auth_seq_id":506}' # _entry.id 4YRK # _exptl.entry_id 4YRK _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 78.133 _entity.id 6 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'DIMETHYL SULFOXIDE' _entity.pdbx_number_of_molecules 4 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 91.45 _cell.angle_gamma 90 _cell.entry_id 4YRK _cell.length_a 89.91 _cell.length_b 118.736 _cell.length_c 93.705 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4YRK _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 dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,D,E,F,G,H,I,J,R 1 1 B,K,L,M,N,O,P,Q,S 1 2 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 4_546 -x+1/2,y-1/2,-z+1 -1 0 0 0 1 0 0 0 -1 42.583835 -59.368 93.674995 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 6 I N N ? 6 J N N ? 6 P N N ? 6 Q N N # _chem_comp.formula 'C2 H6 O S' _chem_comp.formula_weight 78.133 _chem_comp.id DMS _chem_comp.mon_nstd_flag . _chem_comp.name 'DIMETHYL SULFOXIDE' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # 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 S O DMS doub 99 n n S C1 DMS sing 100 n n S C2 DMS sing 101 n n C1 H11 DMS sing 102 n n C1 H12 DMS sing 103 n n C1 H13 DMS sing 104 n n C2 H21 DMS sing 105 n n C2 H22 DMS sing 106 n n C2 H23 DMS sing 107 n n # _atom_sites.entry_id 4YRK _atom_sites.fract_transf_matrix[1][1] 0.011122 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.000281 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.008422 _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] 0.010675 _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 HIS A 1 501 1 HIS HIS . D 3 4JL A 1 502 3 4JL 260 . E 4 EDO A 1 503 2 EDO EDO . F 5 SO4 A 1 504 3 SO4 SO4 . G 5 SO4 A 1 505 5 SO4 SO4 . H 5 SO4 A 1 506 6 SO4 SO4 . I 6 DMS A 1 507 8 DMS DMS . J 6 DMS A 1 508 10 DMS DMS . K 2 HIS B 1 501 2 HIS HIS . L 3 4JL B 1 502 4 4JL 260 . M 4 EDO B 1 503 1 EDO EDO . N 5 SO4 B 1 504 4 SO4 SO4 . O 5 SO4 B 1 505 7 SO4 SO4 . P 6 DMS B 1 506 9 DMS DMS . Q 6 DMS B 1 507 12 DMS DMS . R 7 HOH A 1 601 293 HOH HOH . R 7 HOH A 2 602 255 HOH HOH . R 7 HOH A 3 603 73 HOH HOH . R 7 HOH A 4 604 108 HOH HOH . R 7 HOH A 5 605 144 HOH HOH . R 7 HOH A 6 606 30 HOH HOH . R 7 HOH A 7 607 254 HOH HOH . R 7 HOH A 8 608 43 HOH HOH . R 7 HOH A 9 609 67 HOH HOH . R 7 HOH A 10 610 37 HOH HOH . R 7 HOH A 11 611 275 HOH HOH . R 7 HOH A 12 612 50 HOH HOH . R 7 HOH A 13 613 176 HOH HOH . R 7 HOH A 14 614 40 HOH HOH . R 7 HOH A 15 615 15 HOH HOH . R 7 HOH A 16 616 270 HOH HOH . R 7 HOH A 17 617 84 HOH HOH . R 7 HOH A 18 618 26 HOH HOH . R 7 HOH A 19 619 52 HOH HOH . R 7 HOH A 20 620 103 HOH HOH . R 7 HOH A 21 621 13 HOH HOH . R 7 HOH A 22 622 16 HOH HOH . R 7 HOH A 23 623 4 HOH HOH . R 7 HOH A 24 624 172 HOH HOH . R 7 HOH A 25 625 39 HOH HOH . R 7 HOH A 26 626 263 HOH HOH . R 7 HOH A 27 627 120 HOH HOH . R 7 HOH A 28 628 41 HOH HOH . R 7 HOH A 29 629 72 HOH HOH . R 7 HOH A 30 630 170 HOH HOH . R 7 HOH A 31 631 175 HOH HOH . R 7 HOH A 32 632 152 HOH HOH . R 7 HOH A 33 633 85 HOH HOH . R 7 HOH A 34 634 35 HOH HOH . R 7 HOH A 35 635 268 HOH HOH . R 7 HOH A 36 636 257 HOH HOH . R 7 HOH A 37 637 97 HOH HOH . R 7 HOH A 38 638 218 HOH HOH . R 7 HOH A 39 639 98 HOH HOH . R 7 HOH A 40 640 282 HOH HOH . R 7 HOH A 41 641 34 HOH HOH . R 7 HOH A 42 642 46 HOH HOH . R 7 HOH A 43 643 63 HOH HOH . R 7 HOH A 44 644 82 HOH HOH . R 7 HOH A 45 645 66 HOH HOH . R 7 HOH A 46 646 71 HOH HOH . R 7 HOH A 47 647 90 HOH HOH . R 7 HOH A 48 648 55 HOH HOH . R 7 HOH A 49 649 274 HOH HOH . R 7 HOH A 50 650 107 HOH HOH . R 7 HOH A 51 651 12 HOH HOH . R 7 HOH A 52 652 102 HOH HOH . R 7 HOH A 53 653 287 HOH HOH . R 7 HOH A 54 654 100 HOH HOH . R 7 HOH A 55 655 250 HOH HOH . R 7 HOH A 56 656 178 HOH HOH . R 7 HOH A 57 657 133 HOH HOH . R 7 HOH A 58 658 80 HOH HOH . R 7 HOH A 59 659 247 HOH HOH . R 7 HOH A 60 660 126 HOH HOH . R 7 HOH A 61 661 79 HOH HOH . R 7 HOH A 62 662 44 HOH HOH . R 7 HOH A 63 663 147 HOH HOH . R 7 HOH A 64 664 116 HOH HOH . R 7 HOH A 65 665 42 HOH HOH . R 7 HOH A 66 666 24 HOH HOH . R 7 HOH A 67 667 91 HOH HOH . R 7 HOH A 68 668 115 HOH HOH . R 7 HOH A 69 669 134 HOH HOH . R 7 HOH A 70 670 105 HOH HOH . R 7 HOH A 71 671 113 HOH HOH . R 7 HOH A 72 672 53 HOH HOH . R 7 HOH A 73 673 56 HOH HOH . R 7 HOH A 74 674 11 HOH HOH . R 7 HOH A 75 675 278 HOH HOH . R 7 HOH A 76 676 47 HOH HOH . R 7 HOH A 77 677 114 HOH HOH . R 7 HOH A 78 678 130 HOH HOH . R 7 HOH A 79 679 27 HOH HOH . R 7 HOH A 80 680 271 HOH HOH . R 7 HOH A 81 681 279 HOH HOH . R 7 HOH A 82 682 280 HOH HOH . R 7 HOH A 83 683 93 HOH HOH . R 7 HOH A 84 684 112 HOH HOH . R 7 HOH A 85 685 240 HOH HOH . R 7 HOH A 86 686 166 HOH HOH . R 7 HOH A 87 687 127 HOH HOH . R 7 HOH A 88 688 283 HOH HOH . R 7 HOH A 89 689 14 HOH HOH . R 7 HOH A 90 690 277 HOH HOH . R 7 HOH A 91 691 260 HOH HOH . R 7 HOH A 92 692 61 HOH HOH . R 7 HOH A 93 693 292 HOH HOH . R 7 HOH A 94 694 54 HOH HOH . R 7 HOH A 95 695 162 HOH HOH . R 7 HOH A 96 696 87 HOH HOH . R 7 HOH A 97 697 179 HOH HOH . R 7 HOH A 98 698 185 HOH HOH . R 7 HOH A 99 699 48 HOH HOH . R 7 HOH A 100 700 256 HOH HOH . R 7 HOH A 101 701 155 HOH HOH . R 7 HOH A 102 702 262 HOH HOH . R 7 HOH A 103 703 104 HOH HOH . R 7 HOH A 104 704 284 HOH HOH . R 7 HOH A 105 705 203 HOH HOH . R 7 HOH A 106 706 190 HOH HOH . R 7 HOH A 107 707 182 HOH HOH . R 7 HOH A 108 708 187 HOH HOH . R 7 HOH A 109 709 68 HOH HOH . R 7 HOH A 110 710 225 HOH HOH . R 7 HOH A 111 711 246 HOH HOH . R 7 HOH A 112 712 169 HOH HOH . R 7 HOH A 113 713 6 HOH HOH . R 7 HOH A 114 714 272 HOH HOH . R 7 HOH A 115 715 206 HOH HOH . R 7 HOH A 116 716 202 HOH HOH . R 7 HOH A 117 717 216 HOH HOH . R 7 HOH A 118 718 221 HOH HOH . R 7 HOH A 119 719 213 HOH HOH . R 7 HOH A 120 720 244 HOH HOH . R 7 HOH A 121 721 236 HOH HOH . R 7 HOH A 122 722 192 HOH HOH . R 7 HOH A 123 723 137 HOH HOH . R 7 HOH A 124 724 248 HOH HOH . R 7 HOH A 125 725 196 HOH HOH . R 7 HOH A 126 726 289 HOH HOH . R 7 HOH A 127 727 180 HOH HOH . R 7 HOH A 128 728 235 HOH HOH . R 7 HOH A 129 729 229 HOH HOH . R 7 HOH A 130 730 241 HOH HOH . R 7 HOH A 131 731 146 HOH HOH . R 7 HOH A 132 732 141 HOH HOH . R 7 HOH A 133 733 242 HOH HOH . R 7 HOH A 134 734 198 HOH HOH . R 7 HOH A 135 735 219 HOH HOH . S 7 HOH B 1 601 177 HOH HOH . S 7 HOH B 2 602 96 HOH HOH . S 7 HOH B 3 603 57 HOH HOH . S 7 HOH B 4 604 149 HOH HOH . S 7 HOH B 5 605 264 HOH HOH . S 7 HOH B 6 606 33 HOH HOH . S 7 HOH B 7 607 22 HOH HOH . S 7 HOH B 8 608 21 HOH HOH . S 7 HOH B 9 609 74 HOH HOH . S 7 HOH B 10 610 125 HOH HOH . S 7 HOH B 11 611 286 HOH HOH . S 7 HOH B 12 612 77 HOH HOH . S 7 HOH B 13 613 58 HOH HOH . S 7 HOH B 14 614 109 HOH HOH . S 7 HOH B 15 615 251 HOH HOH . S 7 HOH B 16 616 136 HOH HOH . S 7 HOH B 17 617 19 HOH HOH . S 7 HOH B 18 618 23 HOH HOH . S 7 HOH B 19 619 18 HOH HOH . S 7 HOH B 20 620 148 HOH HOH . S 7 HOH B 21 621 252 HOH HOH . S 7 HOH B 22 622 259 HOH HOH . S 7 HOH B 23 623 288 HOH HOH . S 7 HOH B 24 624 59 HOH HOH . S 7 HOH B 25 625 233 HOH HOH . S 7 HOH B 26 626 38 HOH HOH . S 7 HOH B 27 627 5 HOH HOH . S 7 HOH B 28 628 70 HOH HOH . S 7 HOH B 29 629 258 HOH HOH . S 7 HOH B 30 630 269 HOH HOH . S 7 HOH B 31 631 128 HOH HOH . S 7 HOH B 32 632 29 HOH HOH . S 7 HOH B 33 633 276 HOH HOH . S 7 HOH B 34 634 119 HOH HOH . S 7 HOH B 35 635 31 HOH HOH . S 7 HOH B 36 636 265 HOH HOH . S 7 HOH B 37 637 49 HOH HOH . S 7 HOH B 38 638 86 HOH HOH . S 7 HOH B 39 639 157 HOH HOH . S 7 HOH B 40 640 78 HOH HOH . S 7 HOH B 41 641 285 HOH HOH . S 7 HOH B 42 642 253 HOH HOH . S 7 HOH B 43 643 62 HOH HOH . S 7 HOH B 44 644 118 HOH HOH . S 7 HOH B 45 645 99 HOH HOH . S 7 HOH B 46 646 245 HOH HOH . S 7 HOH B 47 647 150 HOH HOH . S 7 HOH B 48 648 92 HOH HOH . S 7 HOH B 49 649 135 HOH HOH . S 7 HOH B 50 650 95 HOH HOH . S 7 HOH B 51 651 161 HOH HOH . S 7 HOH B 52 652 143 HOH HOH . S 7 HOH B 53 653 160 HOH HOH . S 7 HOH B 54 654 28 HOH HOH . S 7 HOH B 55 655 45 HOH HOH . S 7 HOH B 56 656 20 HOH HOH . S 7 HOH B 57 657 129 HOH HOH . S 7 HOH B 58 658 151 HOH HOH . S 7 HOH B 59 659 261 HOH HOH . S 7 HOH B 60 660 7 HOH HOH . S 7 HOH B 61 661 89 HOH HOH . S 7 HOH B 62 662 267 HOH HOH . S 7 HOH B 63 663 83 HOH HOH . S 7 HOH B 64 664 122 HOH HOH . S 7 HOH B 65 665 17 HOH HOH . S 7 HOH B 66 666 132 HOH HOH . S 7 HOH B 67 667 158 HOH HOH . S 7 HOH B 68 668 51 HOH HOH . S 7 HOH B 69 669 10 HOH HOH . S 7 HOH B 70 670 25 HOH HOH . S 7 HOH B 71 671 94 HOH HOH . S 7 HOH B 72 672 32 HOH HOH . S 7 HOH B 73 673 65 HOH HOH . S 7 HOH B 74 674 8 HOH HOH . S 7 HOH B 75 675 117 HOH HOH . S 7 HOH B 76 676 227 HOH HOH . S 7 HOH B 77 677 171 HOH HOH . S 7 HOH B 78 678 88 HOH HOH . S 7 HOH B 79 679 153 HOH HOH . S 7 HOH B 80 680 266 HOH HOH . S 7 HOH B 81 681 174 HOH HOH . S 7 HOH B 82 682 75 HOH HOH . S 7 HOH B 83 683 228 HOH HOH . S 7 HOH B 84 684 81 HOH HOH . S 7 HOH B 85 685 111 HOH HOH . S 7 HOH B 86 686 154 HOH HOH . S 7 HOH B 87 687 60 HOH HOH . S 7 HOH B 88 688 124 HOH HOH . S 7 HOH B 89 689 9 HOH HOH . S 7 HOH B 90 690 36 HOH HOH . S 7 HOH B 91 691 230 HOH HOH . S 7 HOH B 92 692 131 HOH HOH . S 7 HOH B 93 693 64 HOH HOH . S 7 HOH B 94 694 181 HOH HOH . S 7 HOH B 95 695 273 HOH HOH . S 7 HOH B 96 696 281 HOH HOH . S 7 HOH B 97 697 168 HOH HOH . S 7 HOH B 98 698 223 HOH HOH . S 7 HOH B 99 699 195 HOH HOH . S 7 HOH B 100 700 194 HOH HOH . S 7 HOH B 101 701 167 HOH HOH . S 7 HOH B 102 702 121 HOH HOH . S 7 HOH B 103 703 1 HOH HOH . S 7 HOH B 104 704 2 HOH HOH . S 7 HOH B 105 705 212 HOH HOH . S 7 HOH B 106 706 188 HOH HOH . S 7 HOH B 107 707 140 HOH HOH . S 7 HOH B 108 708 138 HOH HOH . S 7 HOH B 109 709 164 HOH HOH . S 7 HOH B 110 710 165 HOH HOH . S 7 HOH B 111 711 200 HOH HOH . S 7 HOH B 112 712 76 HOH HOH . S 7 HOH B 113 713 123 HOH HOH . S 7 HOH B 114 714 234 HOH HOH . S 7 HOH B 115 715 145 HOH HOH . S 7 HOH B 116 716 204 HOH HOH . S 7 HOH B 117 717 189 HOH HOH . S 7 HOH B 118 718 207 HOH HOH . S 7 HOH B 119 719 3 HOH HOH . S 7 HOH B 120 720 232 HOH HOH . S 7 HOH B 121 721 193 HOH HOH . S 7 HOH B 122 722 101 HOH HOH . S 7 HOH B 123 723 191 HOH HOH . S 7 HOH B 124 724 163 HOH HOH . S 7 HOH B 125 725 199 HOH HOH . S 7 HOH B 126 726 291 HOH HOH . S 7 HOH B 127 727 243 HOH HOH . S 7 HOH B 128 728 209 HOH HOH . S 7 HOH B 129 729 210 HOH HOH . S 7 HOH B 130 730 231 HOH HOH . S 7 HOH B 131 731 211 HOH HOH . S 7 HOH B 132 732 186 HOH HOH . S 7 HOH B 133 733 208 HOH HOH . S 7 HOH B 134 734 217 HOH HOH . S 7 HOH B 135 735 222 HOH HOH . S 7 HOH B 136 736 239 HOH HOH . S 7 HOH B 137 737 110 HOH HOH . S 7 HOH B 138 738 184 HOH HOH . S 7 HOH B 139 739 173 HOH HOH . S 7 HOH B 140 740 215 HOH HOH . S 7 HOH B 141 741 205 HOH HOH . S 7 HOH B 142 742 214 HOH HOH . S 7 HOH B 143 743 201 HOH HOH . S 7 HOH B 144 744 156 HOH HOH . S 7 HOH B 145 745 142 HOH HOH . S 7 HOH B 146 746 226 HOH HOH . S 7 HOH B 147 747 224 HOH HOH . S 7 HOH B 148 748 139 HOH HOH . S 7 HOH B 149 749 197 HOH HOH . S 7 HOH B 150 750 290 HOH HOH . S 7 HOH B 151 751 249 HOH HOH . S 7 HOH B 152 752 183 HOH HOH . S 7 HOH B 153 753 237 HOH HOH . S 7 HOH B 154 754 159 HOH HOH . S 7 HOH B 155 755 238 HOH HOH . S 7 HOH B 156 756 220 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 S S DMS . . . P 6 10.714 77.462 84.636 1 45.58 ? S DMS 506 B 1 HETATM 2 O O DMS . . . P 6 9.858 77.861 85.775 1 44.99 ? O DMS 506 B 1 HETATM 3 C C1 DMS . . . P 6 11.183 78.809 83.695 1 43.23 ? C1 DMS 506 B 1 HETATM 4 C C2 DMS . . . P 6 12.186 76.941 85.32 1 42.14 ? C2 DMS 506 B 1 # _model_server_stats.io_time_ms 35 _model_server_stats.parse_time_ms 18 _model_server_stats.create_model_time_ms 34 _model_server_stats.query_time_ms 492 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 4 #