data_6V62 # _model_server_result.job_id WvHyeIw5E7-swN5JD9H9Og _model_server_result.datetime_utc '2024-11-13 06:21:13' _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 6v62 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":601}' # _entry.id 6V62 # _exptl.entry_id 6V62 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 384.411 _entity.id 3 _entity.src_method nat _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 6V62 _cell.length_a 60.654 _cell.length_b 116.752 _cell.length_c 174.377 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6V62 _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall 'C 2c 2' _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,H,I,J _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 C _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C14 H20 N6 O5 S' _chem_comp.formula_weight 384.411 _chem_comp.id SAH _chem_comp.mon_nstd_flag n _chem_comp.name S-ADENOSYL-L-HOMOCYSTEINE _chem_comp.type 'l-peptide linking' _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 286 n n N HN1 SAH sing 287 n n N HN2 SAH sing 288 n n CA CB SAH sing 289 n n CA C SAH sing 290 n n CA HA SAH sing 291 n n CB CG SAH sing 292 n n CB HB1 SAH sing 293 n n CB HB2 SAH sing 294 n n CG SD SAH sing 295 n n CG HG1 SAH sing 296 n n CG HG2 SAH sing 297 n n SD C5' SAH sing 298 n n C O SAH doub 299 n n C OXT SAH sing 300 n n OXT HXT SAH sing 301 n n C5' C4' SAH sing 302 n n C5' "H5'1" SAH sing 303 n n C5' "H5'2" SAH sing 304 n n C4' O4' SAH sing 305 n n C4' C3' SAH sing 306 n n C4' H4' SAH sing 307 n n O4' C1' SAH sing 308 n n C3' O3' SAH sing 309 n n C3' C2' SAH sing 310 n n C3' H3' SAH sing 311 n n O3' HO3' SAH sing 312 n n C2' O2' SAH sing 313 n n C2' C1' SAH sing 314 n n C2' H2' SAH sing 315 n n O2' HO2' SAH sing 316 n n C1' N9 SAH sing 317 n n C1' H1' SAH sing 318 n n N9 C8 SAH sing 319 n y N9 C4 SAH sing 320 n y C8 N7 SAH doub 321 n y C8 H8 SAH sing 322 n n N7 C5 SAH sing 323 n y C5 C6 SAH sing 324 n y C5 C4 SAH doub 325 n y C6 N6 SAH sing 326 n n C6 N1 SAH doub 327 n y N6 HN61 SAH sing 328 n n N6 HN62 SAH sing 329 n n N1 C2 SAH sing 330 n y C2 N3 SAH doub 331 n y C2 H2 SAH sing 332 n n N3 C4 SAH sing 333 n y # _atom_sites.entry_id 6V62 _atom_sites.fract_transf_matrix[1][1] 0.016487 _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] 0.008565 _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] 0.005735 _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 3 SAH A 1 601 1000 SAH SAH . D 4 EDO A 1 602 602 EDO EDO . E 4 EDO A 1 603 604 EDO EDO . F 4 EDO A 1 604 606 EDO EDO . G 4 EDO A 1 605 607 EDO EDO . H 4 EDO A 1 606 608 EDO EDO . I 5 HOH Y 1 101 44 HOH HOH . I 5 HOH Y 2 102 8 HOH HOH . I 5 HOH Y 3 103 50 HOH HOH . I 5 HOH Y 4 104 65 HOH HOH . I 5 HOH Y 5 105 22 HOH HOH . I 5 HOH Y 6 106 130 HOH HOH . I 5 HOH Y 7 107 172 HOH HOH . I 5 HOH Y 8 108 91 HOH HOH . J 5 HOH A 1 701 109 HOH HOH . J 5 HOH A 2 702 88 HOH HOH . J 5 HOH A 3 703 92 HOH HOH . J 5 HOH A 4 704 131 HOH HOH . J 5 HOH A 5 705 58 HOH HOH . J 5 HOH A 6 706 161 HOH HOH . J 5 HOH A 7 707 4 HOH HOH . J 5 HOH A 8 708 141 HOH HOH . J 5 HOH A 9 709 13 HOH HOH . J 5 HOH A 10 710 9 HOH HOH . J 5 HOH A 11 711 38 HOH HOH . J 5 HOH A 12 712 80 HOH HOH . J 5 HOH A 13 713 124 HOH HOH . J 5 HOH A 14 714 7 HOH HOH . J 5 HOH A 15 715 46 HOH HOH . J 5 HOH A 16 716 117 HOH HOH . J 5 HOH A 17 717 41 HOH HOH . J 5 HOH A 18 718 111 HOH HOH . J 5 HOH A 19 719 66 HOH HOH . J 5 HOH A 20 720 176 HOH HOH . J 5 HOH A 21 721 112 HOH HOH . J 5 HOH A 22 722 67 HOH HOH . J 5 HOH A 23 723 27 HOH HOH . J 5 HOH A 24 724 34 HOH HOH . J 5 HOH A 25 725 61 HOH HOH . J 5 HOH A 26 726 52 HOH HOH . J 5 HOH A 27 727 29 HOH HOH . J 5 HOH A 28 728 139 HOH HOH . J 5 HOH A 29 729 5 HOH HOH . J 5 HOH A 30 730 75 HOH HOH . J 5 HOH A 31 731 26 HOH HOH . J 5 HOH A 32 732 142 HOH HOH . J 5 HOH A 33 733 114 HOH HOH . J 5 HOH A 34 734 19 HOH HOH . J 5 HOH A 35 735 147 HOH HOH . J 5 HOH A 36 736 85 HOH HOH . J 5 HOH A 37 737 17 HOH HOH . J 5 HOH A 38 738 47 HOH HOH . J 5 HOH A 39 739 155 HOH HOH . J 5 HOH A 40 740 32 HOH HOH . J 5 HOH A 41 741 83 HOH HOH . J 5 HOH A 42 742 54 HOH HOH . J 5 HOH A 43 743 132 HOH HOH . J 5 HOH A 44 744 37 HOH HOH . J 5 HOH A 45 745 55 HOH HOH . J 5 HOH A 46 746 51 HOH HOH . J 5 HOH A 47 747 96 HOH HOH . J 5 HOH A 48 748 120 HOH HOH . J 5 HOH A 49 749 73 HOH HOH . J 5 HOH A 50 750 3 HOH HOH . J 5 HOH A 51 751 62 HOH HOH . J 5 HOH A 52 752 11 HOH HOH . J 5 HOH A 53 753 82 HOH HOH . J 5 HOH A 54 754 74 HOH HOH . J 5 HOH A 55 755 135 HOH HOH . J 5 HOH A 56 756 30 HOH HOH . J 5 HOH A 57 757 21 HOH HOH . J 5 HOH A 58 758 78 HOH HOH . J 5 HOH A 59 759 18 HOH HOH . J 5 HOH A 60 760 101 HOH HOH . J 5 HOH A 61 761 100 HOH HOH . J 5 HOH A 62 762 106 HOH HOH . J 5 HOH A 63 763 60 HOH HOH . J 5 HOH A 64 764 115 HOH HOH . J 5 HOH A 65 765 77 HOH HOH . J 5 HOH A 66 766 94 HOH HOH . J 5 HOH A 67 767 144 HOH HOH . J 5 HOH A 68 768 36 HOH HOH . J 5 HOH A 69 769 14 HOH HOH . J 5 HOH A 70 770 64 HOH HOH . J 5 HOH A 71 771 150 HOH HOH . J 5 HOH A 72 772 133 HOH HOH . J 5 HOH A 73 773 49 HOH HOH . J 5 HOH A 74 774 158 HOH HOH . J 5 HOH A 75 775 42 HOH HOH . J 5 HOH A 76 776 76 HOH HOH . J 5 HOH A 77 777 25 HOH HOH . J 5 HOH A 78 778 2 HOH HOH . J 5 HOH A 79 779 160 HOH HOH . J 5 HOH A 80 780 90 HOH HOH . J 5 HOH A 81 781 71 HOH HOH . J 5 HOH A 82 782 59 HOH HOH . J 5 HOH A 83 783 105 HOH HOH . J 5 HOH A 84 784 184 HOH HOH . J 5 HOH A 85 785 86 HOH HOH . J 5 HOH A 86 786 33 HOH HOH . J 5 HOH A 87 787 128 HOH HOH . J 5 HOH A 88 788 69 HOH HOH . J 5 HOH A 89 789 6 HOH HOH . J 5 HOH A 90 790 39 HOH HOH . J 5 HOH A 91 791 129 HOH HOH . J 5 HOH A 92 792 23 HOH HOH . J 5 HOH A 93 793 170 HOH HOH . J 5 HOH A 94 794 16 HOH HOH . J 5 HOH A 95 795 15 HOH HOH . J 5 HOH A 96 796 31 HOH HOH . J 5 HOH A 97 797 68 HOH HOH . J 5 HOH A 98 798 10 HOH HOH . J 5 HOH A 99 799 81 HOH HOH . J 5 HOH A 100 800 87 HOH HOH . J 5 HOH A 101 801 70 HOH HOH . J 5 HOH A 102 802 56 HOH HOH . J 5 HOH A 103 803 156 HOH HOH . J 5 HOH A 104 804 35 HOH HOH . J 5 HOH A 105 805 159 HOH HOH . J 5 HOH A 106 806 63 HOH HOH . J 5 HOH A 107 807 143 HOH HOH . J 5 HOH A 108 808 57 HOH HOH . J 5 HOH A 109 809 148 HOH HOH . J 5 HOH A 110 810 103 HOH HOH . J 5 HOH A 111 811 20 HOH HOH . J 5 HOH A 112 812 1 HOH HOH . J 5 HOH A 113 813 79 HOH HOH . J 5 HOH A 114 814 102 HOH HOH . J 5 HOH A 115 815 12 HOH HOH . J 5 HOH A 116 816 182 HOH HOH . J 5 HOH A 117 817 127 HOH HOH . J 5 HOH A 118 818 28 HOH HOH . J 5 HOH A 119 819 140 HOH HOH . J 5 HOH A 120 820 24 HOH HOH . J 5 HOH A 121 821 40 HOH HOH . J 5 HOH A 122 822 134 HOH HOH . J 5 HOH A 123 823 53 HOH HOH . J 5 HOH A 124 824 72 HOH HOH . J 5 HOH A 125 825 181 HOH HOH . J 5 HOH A 126 826 89 HOH HOH . J 5 HOH A 127 827 93 HOH HOH . J 5 HOH A 128 828 95 HOH HOH . J 5 HOH A 129 829 126 HOH HOH . J 5 HOH A 130 830 168 HOH HOH . J 5 HOH A 131 831 136 HOH HOH . J 5 HOH A 132 832 107 HOH HOH . J 5 HOH A 133 833 180 HOH HOH . J 5 HOH A 134 834 108 HOH HOH . J 5 HOH A 135 835 145 HOH HOH . J 5 HOH A 136 836 97 HOH HOH . J 5 HOH A 137 837 118 HOH HOH . J 5 HOH A 138 838 153 HOH HOH . J 5 HOH A 139 839 119 HOH HOH . J 5 HOH A 140 840 178 HOH HOH . J 5 HOH A 141 841 137 HOH HOH . J 5 HOH A 142 842 154 HOH HOH . J 5 HOH A 143 843 48 HOH HOH . J 5 HOH A 144 844 183 HOH HOH . J 5 HOH A 145 845 185 HOH HOH . J 5 HOH A 146 846 166 HOH HOH . J 5 HOH A 147 847 164 HOH HOH . J 5 HOH A 148 848 99 HOH HOH . J 5 HOH A 149 849 149 HOH HOH . J 5 HOH A 150 850 162 HOH HOH . J 5 HOH A 151 851 187 HOH HOH . J 5 HOH A 152 852 169 HOH HOH . J 5 HOH A 153 853 175 HOH HOH . J 5 HOH A 154 854 157 HOH HOH . J 5 HOH A 155 855 165 HOH HOH . J 5 HOH A 156 856 189 HOH HOH . J 5 HOH A 157 857 84 HOH HOH . J 5 HOH A 158 858 146 HOH HOH . J 5 HOH A 159 859 43 HOH HOH . J 5 HOH A 160 860 122 HOH HOH . J 5 HOH A 161 861 179 HOH HOH . J 5 HOH A 162 862 190 HOH HOH . J 5 HOH A 163 863 163 HOH HOH . J 5 HOH A 164 864 45 HOH HOH . J 5 HOH A 165 865 173 HOH HOH . J 5 HOH A 166 866 98 HOH HOH . J 5 HOH A 167 867 171 HOH HOH . J 5 HOH A 168 868 167 HOH HOH . J 5 HOH A 169 869 188 HOH HOH . J 5 HOH A 170 870 138 HOH HOH . J 5 HOH A 171 871 104 HOH HOH . J 5 HOH A 172 872 174 HOH HOH . J 5 HOH A 173 873 116 HOH HOH . J 5 HOH A 174 874 125 HOH HOH . J 5 HOH A 175 875 152 HOH HOH . J 5 HOH A 176 876 186 HOH HOH . J 5 HOH A 177 877 121 HOH HOH . J 5 HOH A 178 878 177 HOH HOH . J 5 HOH A 179 879 191 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 . . . C 3 -21.048 -10.778 -37.128 1 18.87 ? N SAH 601 A 1 HETATM 2 C CA SAH . . . C 3 -20.673 -9.646 -36.412 1 26.14 ? CA SAH 601 A 1 HETATM 3 C CB SAH . . . C 3 -19.251 -9.811 -35.921 1 21.92 ? CB SAH 601 A 1 HETATM 4 C CG SAH . . . C 3 -19.096 -10.444 -34.566 1 22.03 ? CG SAH 601 A 1 HETATM 5 S SD SAH . . . C 3 -19.832 -9.508 -33.317 1 22.52 ? SD SAH 601 A 1 HETATM 6 C C SAH . . . C 3 -20.81 -8.441 -37.281 1 26.13 ? C SAH 601 A 1 HETATM 7 O O SAH . . . C 3 -21.443 -8.432 -38.267 1 22.8 ? O SAH 601 A 1 HETATM 8 O OXT SAH . . . C 3 -20.272 -7.456 -36.955 1 20.94 ? OXT SAH 601 A 1 HETATM 9 C C5' SAH . . . C 3 -20.928 -10.639 -32.66 1 24.96 ? C5' SAH 601 A 1 HETATM 10 C C4' SAH . . . C 3 -22.242 -10.847 -33.377 1 22.59 ? C4' SAH 601 A 1 HETATM 11 O O4' SAH . . . C 3 -22.123 -11.851 -34.319 1 25.15 ? O4' SAH 601 A 1 HETATM 12 C C3' SAH . . . C 3 -23.324 -11.369 -32.468 1 27 ? C3' SAH 601 A 1 HETATM 13 O O3' SAH . . . C 3 -24.089 -10.425 -31.811 1 24.31 ? O3' SAH 601 A 1 HETATM 14 C C2' SAH . . . C 3 -24.172 -12.265 -33.308 1 27.16 ? C2' SAH 601 A 1 HETATM 15 O O2' SAH . . . C 3 -25.148 -11.542 -33.954 1 27.53 ? O2' SAH 601 A 1 HETATM 16 C C1' SAH . . . C 3 -23.23 -12.667 -34.404 1 28.01 ? C1' SAH 601 A 1 HETATM 17 N N9 SAH . . . C 3 -22.742 -14.019 -34.248 1 25.5 ? N9 SAH 601 A 1 HETATM 18 C C8 SAH . . . C 3 -21.601 -14.369 -33.768 1 20.32 ? C8 SAH 601 A 1 HETATM 19 N N7 SAH . . . C 3 -21.422 -15.632 -33.773 1 22.47 ? N7 SAH 601 A 1 HETATM 20 C C5 SAH . . . C 3 -22.486 -16.132 -34.253 1 26.13 ? C5 SAH 601 A 1 HETATM 21 C C6 SAH . . . C 3 -22.995 -17.441 -34.547 1 23.32 ? C6 SAH 601 A 1 HETATM 22 N N6 SAH . . . C 3 -22.316 -18.484 -34.338 1 24.73 ? N6 SAH 601 A 1 HETATM 23 N N1 SAH . . . C 3 -24.163 -17.566 -35.059 1 27.01 ? N1 SAH 601 A 1 HETATM 24 C C2 SAH . . . C 3 -24.885 -16.551 -35.297 1 24.2 ? C2 SAH 601 A 1 HETATM 25 N N3 SAH . . . C 3 -24.513 -15.334 -35.084 1 25.77 ? N3 SAH 601 A 1 HETATM 26 C C4 SAH . . . C 3 -23.359 -15.06 -34.562 1 21.48 ? C4 SAH 601 A 1 # _model_server_stats.io_time_ms 33 _model_server_stats.parse_time_ms 17 _model_server_stats.create_model_time_ms 9 _model_server_stats.query_time_ms 275 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 26 #