data_6MJG # _model_server_result.job_id dHLkR4Izfe3EIsmMJDX3oA _model_server_result.datetime_utc '2025-03-04 11:51:44' _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 6mjg # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":500}' # _entry.id 6MJG # _exptl.entry_id 6MJG _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 384.411 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description S-ADENOSYL-L-HOMOCYSTEINE _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 6MJG _cell.length_a 106.408 _cell.length_b 107.975 _cell.length_c 79.34 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6MJG _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 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_555 x,-y,-z 1 0 0 0 -1 0 0 0 -1 0 0 0 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id B _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 A C MVA 412 A MVA 417 1_555 A N IML 413 A IML 418 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.342 ? covale ? covale2 A C IML 413 A IML 418 1_555 A N SAR 414 A SAR 419 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.335 ? covale ? covale3 A C SAR 414 A SAR 419 1_555 A N SER 415 A SER 420 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? covale ? covale4 A C SER 415 A SER 420 1_555 A N MVA 416 A MVA 421 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.338 ? covale ? covale5 A C MVA 416 A MVA 421 1_555 A N VAL 417 A VAL 422 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.337 ? metalc ? metalc1 A OD1 ASP 277 A ASP 273 1_555 C ZN ZN . A ZN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.522 ? metalc ? metalc2 A OD1 ASP 277 A ASP 273 1_555 C ZN ZN . A ZN 501 3_654 ? ? ? ? ? ? ? ? ? ? ? ? 2.529 ? metalc ? metalc3 A ND1 HIS 279 A HIS 275 1_555 C ZN ZN . A ZN 501 3_654 ? ? ? ? ? ? ? ? ? ? ? ? 1.997 ? # _chem_comp.formula 'C14 H20 N6 O5 S' _chem_comp.formula_weight 384.411 _chem_comp.id SAH _chem_comp.mon_nstd_flag . _chem_comp.name S-ADENOSYL-L-HOMOCYSTEINE _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 N CA SAH sing 322 n n N HN1 SAH sing 323 n n N HN2 SAH sing 324 n n CA CB SAH sing 325 n n CA C SAH sing 326 n n CA HA SAH sing 327 n n CB CG SAH sing 328 n n CB HB1 SAH sing 329 n n CB HB2 SAH sing 330 n n CG SD SAH sing 331 n n CG HG1 SAH sing 332 n n CG HG2 SAH sing 333 n n SD C5' SAH sing 334 n n C O SAH doub 335 n n C OXT SAH sing 336 n n OXT HXT SAH sing 337 n n C5' C4' SAH sing 338 n n C5' "H5'1" SAH sing 339 n n C5' "H5'2" SAH sing 340 n n C4' O4' SAH sing 341 n n C4' C3' SAH sing 342 n n C4' H4' SAH sing 343 n n O4' C1' SAH sing 344 n n C3' O3' SAH sing 345 n n C3' C2' SAH sing 346 n n C3' H3' SAH sing 347 n n O3' HO3' SAH sing 348 n n C2' O2' SAH sing 349 n n C2' C1' SAH sing 350 n n C2' H2' SAH sing 351 n n O2' HO2' SAH sing 352 n n C1' N9 SAH sing 353 n n C1' H1' SAH sing 354 n n N9 C8 SAH sing 355 n y N9 C4 SAH sing 356 n y C8 N7 SAH doub 357 n y C8 H8 SAH sing 358 n n N7 C5 SAH sing 359 n y C5 C6 SAH sing 360 n y C5 C4 SAH doub 361 n y C6 N6 SAH sing 362 n n C6 N1 SAH doub 363 n y N6 HN61 SAH sing 364 n n N6 HN62 SAH sing 365 n n N1 C2 SAH sing 366 n y C2 N3 SAH doub 367 n y C2 H2 SAH sing 368 n n N3 C4 SAH sing 369 n y # _atom_sites.entry_id 6MJG _atom_sites.fract_transf_matrix[1][1] 0.009398 _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] 0.009261 _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] 0.012604 _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 B 2 SAH A 1 500 500 SAH SAH . C 3 ZN A 1 501 501 ZN ZN . D 4 HOH A 1 601 36 HOH HOH . D 4 HOH A 2 602 219 HOH HOH . D 4 HOH A 3 603 51 HOH HOH . D 4 HOH A 4 604 73 HOH HOH . D 4 HOH A 5 605 260 HOH HOH . D 4 HOH A 6 606 123 HOH HOH . D 4 HOH A 7 607 78 HOH HOH . D 4 HOH A 8 608 174 HOH HOH . D 4 HOH A 9 609 38 HOH HOH . D 4 HOH A 10 610 124 HOH HOH . D 4 HOH A 11 611 54 HOH HOH . D 4 HOH A 12 612 138 HOH HOH . D 4 HOH A 13 613 264 HOH HOH . D 4 HOH A 14 614 4 HOH HOH . D 4 HOH A 15 615 209 HOH HOH . D 4 HOH A 16 616 49 HOH HOH . D 4 HOH A 17 617 15 HOH HOH . D 4 HOH A 18 618 178 HOH HOH . D 4 HOH A 19 619 103 HOH HOH . D 4 HOH A 20 620 104 HOH HOH . D 4 HOH A 21 621 149 HOH HOH . D 4 HOH A 22 622 140 HOH HOH . D 4 HOH A 23 623 45 HOH HOH . D 4 HOH A 24 624 106 HOH HOH . D 4 HOH A 25 625 22 HOH HOH . D 4 HOH A 26 626 143 HOH HOH . D 4 HOH A 27 627 29 HOH HOH . D 4 HOH A 28 628 200 HOH HOH . D 4 HOH A 29 629 84 HOH HOH . D 4 HOH A 30 630 70 HOH HOH . D 4 HOH A 31 631 199 HOH HOH . D 4 HOH A 32 632 52 HOH HOH . D 4 HOH A 33 633 43 HOH HOH . D 4 HOH A 34 634 258 HOH HOH . D 4 HOH A 35 635 159 HOH HOH . D 4 HOH A 36 636 94 HOH HOH . D 4 HOH A 37 637 2 HOH HOH . D 4 HOH A 38 638 26 HOH HOH . D 4 HOH A 39 639 98 HOH HOH . D 4 HOH A 40 640 85 HOH HOH . D 4 HOH A 41 641 182 HOH HOH . D 4 HOH A 42 642 191 HOH HOH . D 4 HOH A 43 643 39 HOH HOH . D 4 HOH A 44 644 75 HOH HOH . D 4 HOH A 45 645 6 HOH HOH . D 4 HOH A 46 646 190 HOH HOH . D 4 HOH A 47 647 232 HOH HOH . D 4 HOH A 48 648 116 HOH HOH . D 4 HOH A 49 649 50 HOH HOH . D 4 HOH A 50 650 76 HOH HOH . D 4 HOH A 51 651 35 HOH HOH . D 4 HOH A 52 652 20 HOH HOH . D 4 HOH A 53 653 142 HOH HOH . D 4 HOH A 54 654 175 HOH HOH . D 4 HOH A 55 655 25 HOH HOH . D 4 HOH A 56 656 27 HOH HOH . D 4 HOH A 57 657 90 HOH HOH . D 4 HOH A 58 658 135 HOH HOH . D 4 HOH A 59 659 147 HOH HOH . D 4 HOH A 60 660 111 HOH HOH . D 4 HOH A 61 661 88 HOH HOH . D 4 HOH A 62 662 146 HOH HOH . D 4 HOH A 63 663 83 HOH HOH . D 4 HOH A 64 664 17 HOH HOH . D 4 HOH A 65 665 44 HOH HOH . D 4 HOH A 66 666 13 HOH HOH . D 4 HOH A 67 667 57 HOH HOH . D 4 HOH A 68 668 201 HOH HOH . D 4 HOH A 69 669 11 HOH HOH . D 4 HOH A 70 670 7 HOH HOH . D 4 HOH A 71 671 1 HOH HOH . D 4 HOH A 72 672 214 HOH HOH . D 4 HOH A 73 673 28 HOH HOH . D 4 HOH A 74 674 16 HOH HOH . D 4 HOH A 75 675 108 HOH HOH . D 4 HOH A 76 676 211 HOH HOH . D 4 HOH A 77 677 68 HOH HOH . D 4 HOH A 78 678 224 HOH HOH . D 4 HOH A 79 679 225 HOH HOH . D 4 HOH A 80 680 30 HOH HOH . D 4 HOH A 81 681 109 HOH HOH . D 4 HOH A 82 682 227 HOH HOH . D 4 HOH A 83 683 136 HOH HOH . D 4 HOH A 84 684 194 HOH HOH . D 4 HOH A 85 685 158 HOH HOH . D 4 HOH A 86 686 226 HOH HOH . D 4 HOH A 87 687 171 HOH HOH . D 4 HOH A 88 688 193 HOH HOH . D 4 HOH A 89 689 110 HOH HOH . D 4 HOH A 90 690 37 HOH HOH . D 4 HOH A 91 691 34 HOH HOH . D 4 HOH A 92 692 117 HOH HOH . D 4 HOH A 93 693 246 HOH HOH . D 4 HOH A 94 694 66 HOH HOH . D 4 HOH A 95 695 119 HOH HOH . D 4 HOH A 96 696 205 HOH HOH . D 4 HOH A 97 697 91 HOH HOH . D 4 HOH A 98 698 79 HOH HOH . D 4 HOH A 99 699 41 HOH HOH . D 4 HOH A 100 700 115 HOH HOH . D 4 HOH A 101 701 62 HOH HOH . D 4 HOH A 102 702 92 HOH HOH . D 4 HOH A 103 703 21 HOH HOH . D 4 HOH A 104 704 81 HOH HOH . D 4 HOH A 105 705 77 HOH HOH . D 4 HOH A 106 706 210 HOH HOH . D 4 HOH A 107 707 46 HOH HOH . D 4 HOH A 108 708 32 HOH HOH . D 4 HOH A 109 709 137 HOH HOH . D 4 HOH A 110 710 207 HOH HOH . D 4 HOH A 111 711 134 HOH HOH . D 4 HOH A 112 712 241 HOH HOH . D 4 HOH A 113 713 144 HOH HOH . D 4 HOH A 114 714 23 HOH HOH . D 4 HOH A 115 715 107 HOH HOH . D 4 HOH A 116 716 197 HOH HOH . D 4 HOH A 117 717 102 HOH HOH . D 4 HOH A 118 718 67 HOH HOH . D 4 HOH A 119 719 150 HOH HOH . D 4 HOH A 120 720 203 HOH HOH . D 4 HOH A 121 721 163 HOH HOH . D 4 HOH A 122 722 53 HOH HOH . D 4 HOH A 123 723 63 HOH HOH . D 4 HOH A 124 724 180 HOH HOH . D 4 HOH A 125 725 261 HOH HOH . D 4 HOH A 126 726 3 HOH HOH . D 4 HOH A 127 727 99 HOH HOH . D 4 HOH A 128 728 40 HOH HOH . D 4 HOH A 129 729 24 HOH HOH . D 4 HOH A 130 730 179 HOH HOH . D 4 HOH A 131 731 55 HOH HOH . D 4 HOH A 132 732 101 HOH HOH . D 4 HOH A 133 733 59 HOH HOH . D 4 HOH A 134 734 187 HOH HOH . D 4 HOH A 135 735 31 HOH HOH . D 4 HOH A 136 736 165 HOH HOH . D 4 HOH A 137 737 168 HOH HOH . D 4 HOH A 138 738 18 HOH HOH . D 4 HOH A 139 739 12 HOH HOH . D 4 HOH A 140 740 95 HOH HOH . D 4 HOH A 141 741 228 HOH HOH . D 4 HOH A 142 742 177 HOH HOH . D 4 HOH A 143 743 145 HOH HOH . D 4 HOH A 144 744 151 HOH HOH . D 4 HOH A 145 745 71 HOH HOH . D 4 HOH A 146 746 97 HOH HOH . D 4 HOH A 147 747 56 HOH HOH . D 4 HOH A 148 748 74 HOH HOH . D 4 HOH A 149 749 14 HOH HOH . D 4 HOH A 150 750 86 HOH HOH . D 4 HOH A 151 751 237 HOH HOH . D 4 HOH A 152 752 212 HOH HOH . D 4 HOH A 153 753 48 HOH HOH . D 4 HOH A 154 754 164 HOH HOH . D 4 HOH A 155 755 152 HOH HOH . D 4 HOH A 156 756 121 HOH HOH . D 4 HOH A 157 757 122 HOH HOH . D 4 HOH A 158 758 155 HOH HOH . D 4 HOH A 159 759 60 HOH HOH . D 4 HOH A 160 760 153 HOH HOH . D 4 HOH A 161 761 170 HOH HOH . D 4 HOH A 162 762 113 HOH HOH . D 4 HOH A 163 763 172 HOH HOH . D 4 HOH A 164 764 157 HOH HOH . D 4 HOH A 165 765 139 HOH HOH . D 4 HOH A 166 766 89 HOH HOH . D 4 HOH A 167 767 112 HOH HOH . D 4 HOH A 168 768 61 HOH HOH . D 4 HOH A 169 769 148 HOH HOH . D 4 HOH A 170 770 87 HOH HOH . D 4 HOH A 171 771 221 HOH HOH . D 4 HOH A 172 772 156 HOH HOH . D 4 HOH A 173 773 120 HOH HOH . D 4 HOH A 174 774 195 HOH HOH . D 4 HOH A 175 775 235 HOH HOH . D 4 HOH A 176 776 220 HOH HOH . D 4 HOH A 177 777 243 HOH HOH . D 4 HOH A 178 778 47 HOH HOH . D 4 HOH A 179 779 176 HOH HOH . D 4 HOH A 180 780 129 HOH HOH . D 4 HOH A 181 781 132 HOH HOH . D 4 HOH A 182 782 93 HOH HOH . D 4 HOH A 183 783 262 HOH HOH . D 4 HOH A 184 784 96 HOH HOH . D 4 HOH A 185 785 233 HOH HOH . D 4 HOH A 186 786 188 HOH HOH . D 4 HOH A 187 787 239 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 N N SAH . . . B 2 29.109 9.368 3.043 1 29.83 ? N SAH 500 A 1 HETATM 2 C CA SAH . . . B 2 29.349 9.714 1.641 1 31.65 ? CA SAH 500 A 1 HETATM 3 C CB SAH . . . B 2 30.693 10.457 1.497 1 33.21 ? CB SAH 500 A 1 HETATM 4 C CG SAH . . . B 2 30.729 11.898 2.035 1 34.02 ? CG SAH 500 A 1 HETATM 5 S SD SAH . . . B 2 32.403 12.559 2.017 1 34.07 ? SD SAH 500 A 1 HETATM 6 C C SAH . . . B 2 29.415 8.397 0.917 1 32.18 ? C SAH 500 A 1 HETATM 7 O O SAH . . . B 2 30.043 8.268 -0.153 1 33.18 ? O SAH 500 A 1 HETATM 8 O OXT SAH . . . B 2 28.866 7.395 1.401 1 28.26 ? OXT SAH 500 A 1 HETATM 9 C C5' SAH . . . B 2 32.231 13.617 0.612 1 31.11 ? C5' SAH 500 A 1 HETATM 10 C C4' SAH . . . B 2 32.958 12.959 -0.557 1 28.78 ? C4' SAH 500 A 1 HETATM 11 O O4' SAH . . . B 2 32.231 11.843 -1.058 1 28.38 ? O4' SAH 500 A 1 HETATM 12 C C3' SAH . . . B 2 33.104 13.843 -1.771 1 28.82 ? C3' SAH 500 A 1 HETATM 13 O O3' SAH . . . B 2 34.201 14.722 -1.572 1 29.44 ? O3' SAH 500 A 1 HETATM 14 C C2' SAH . . . B 2 33.357 12.811 -2.86 1 29.09 ? C2' SAH 500 A 1 HETATM 15 O O2' SAH . . . B 2 34.728 12.359 -2.827 1 27.13 ? O2' SAH 500 A 1 HETATM 16 C C1' SAH . . . B 2 32.445 11.655 -2.457 1 28 ? C1' SAH 500 A 1 HETATM 17 N N9 SAH . . . B 2 31.15 11.798 -3.16 1 29.07 ? N9 SAH 500 A 1 HETATM 18 C C8 SAH . . . B 2 30.021 12.302 -2.627 1 28.28 ? C8 SAH 500 A 1 HETATM 19 N N7 SAH . . . B 2 29.035 12.312 -3.546 1 29.73 ? N7 SAH 500 A 1 HETATM 20 C C5 SAH . . . B 2 29.521 11.818 -4.688 1 27.78 ? C5 SAH 500 A 1 HETATM 21 C C6 SAH . . . B 2 28.993 11.559 -6.036 1 26.52 ? C6 SAH 500 A 1 HETATM 22 N N6 SAH . . . B 2 27.726 11.842 -6.381 1 26.37 ? N6 SAH 500 A 1 HETATM 23 N N1 SAH . . . B 2 29.841 11.017 -6.925 1 27.94 ? N1 SAH 500 A 1 HETATM 24 C C2 SAH . . . B 2 31.127 10.721 -6.626 1 29.02 ? C2 SAH 500 A 1 HETATM 25 N N3 SAH . . . B 2 31.677 10.933 -5.42 1 27.39 ? N3 SAH 500 A 1 HETATM 26 C C4 SAH . . . B 2 30.923 11.475 -4.432 1 28.09 ? C4 SAH 500 A 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 309 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 26 #