data_6S7C # _model_server_result.job_id AdqLByrNfZTsBawARnPhYg _model_server_result.datetime_utc '2024-11-07 15:38:57' _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 6s7c # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"G","auth_seq_id":501}' # _entry.id 6S7C # _exptl.entry_id 6S7C _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 422.485 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 1-[3-[[(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methyl-(3-azanylpropyl)amino]propyl]guanidine _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 90 _cell.angle_gamma 90 _cell.entry_id 6S7C _cell.length_a 74.697 _cell.length_b 98.629 _cell.length_c 207.438 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6S7C _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 2' # 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,C,E,G,I,K 1 1 B,D,F,H,J,L 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 ? 2 E N N ? 2 F N N ? 2 G N N ? 2 H N N # _chem_comp.formula 'C17 H30 N10 O3' _chem_comp.formula_weight 422.485 _chem_comp.id KY2 _chem_comp.mon_nstd_flag . _chem_comp.name 1-[3-[[(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methyl-(3-azanylpropyl)amino]propyl]guanidine _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 N29 C28 KY2 doub 173 n n N30 C28 KY2 sing 174 n n C28 N27 KY2 sing 175 n n N27 C26 KY2 sing 176 n n C26 C25 KY2 sing 177 n n C25 C24 KY2 sing 178 n n C24 N19 KY2 sing 179 n n N19 C18 KY2 sing 180 n n N19 C20 KY2 sing 181 n n C18 C17 KY2 sing 182 n n C20 C21 KY2 sing 183 n n C21 C22 KY2 sing 184 n n C17 O16 KY2 sing 185 n n C17 C02 KY2 sing 186 n n C15 N14 KY2 doub 187 n y C15 N06 KY2 sing 188 n y C22 N23 KY2 sing 189 n n N14 C13 KY2 sing 190 n y O16 C05 KY2 sing 191 n n C02 C03 KY2 sing 192 n n C02 O01 KY2 sing 193 n n C03 C05 KY2 sing 194 n n C03 O04 KY2 sing 195 n n N06 C05 KY2 sing 196 n n N06 C07 KY2 sing 197 n y C13 C07 KY2 doub 198 n y C13 C11 KY2 sing 199 n y N12 C11 KY2 sing 200 n n C07 N08 KY2 sing 201 n y C11 N10 KY2 doub 202 n y N08 C09 KY2 doub 203 n y N10 C09 KY2 sing 204 n y C26 H1 KY2 sing 205 n n C26 H2 KY2 sing 206 n n C25 H3 KY2 sing 207 n n C25 H4 KY2 sing 208 n n C24 H5 KY2 sing 209 n n C24 H6 KY2 sing 210 n n C22 H7 KY2 sing 211 n n C22 H8 KY2 sing 212 n n C15 H9 KY2 sing 213 n n C17 H10 KY2 sing 214 n n C18 H11 KY2 sing 215 n n C18 H12 KY2 sing 216 n n C20 H13 KY2 sing 217 n n C20 H14 KY2 sing 218 n n C21 H15 KY2 sing 219 n n C21 H16 KY2 sing 220 n n C02 H17 KY2 sing 221 n n C03 H18 KY2 sing 222 n n C05 H19 KY2 sing 223 n n C09 H20 KY2 sing 224 n n N12 H21 KY2 sing 225 n n N12 H22 KY2 sing 226 n n N23 H24 KY2 sing 227 n n N23 H25 KY2 sing 228 n n N27 H27 KY2 sing 229 n n N29 H28 KY2 sing 230 n n N30 H29 KY2 sing 231 n n N30 H30 KY2 sing 232 n n O01 H31 KY2 sing 233 n n O04 H32 KY2 sing 234 n n # _atom_sites.entry_id 6S7C _atom_sites.fract_transf_matrix[1][1] 0.013387 _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] 0.010139 _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] 0.004821 _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 KY2 A 1 501 2 KY2 079 . F 2 KY2 B 1 501 3 KY2 079 . G 2 KY2 C 1 501 1 KY2 079 . H 2 KY2 D 1 501 4 KY2 079 . I 3 HOH A 1 601 122 HOH HOH . I 3 HOH A 2 602 85 HOH HOH . I 3 HOH A 3 603 8 HOH HOH . I 3 HOH A 4 604 35 HOH HOH . I 3 HOH A 5 605 83 HOH HOH . I 3 HOH A 6 606 28 HOH HOH . I 3 HOH A 7 607 135 HOH HOH . I 3 HOH A 8 608 144 HOH HOH . I 3 HOH A 9 609 172 HOH HOH . I 3 HOH A 10 610 30 HOH HOH . I 3 HOH A 11 611 52 HOH HOH . I 3 HOH A 12 612 133 HOH HOH . I 3 HOH A 13 613 21 HOH HOH . I 3 HOH A 14 614 43 HOH HOH . I 3 HOH A 15 615 108 HOH HOH . I 3 HOH A 16 616 13 HOH HOH . I 3 HOH A 17 617 16 HOH HOH . I 3 HOH A 18 618 86 HOH HOH . I 3 HOH A 19 619 62 HOH HOH . I 3 HOH A 20 620 161 HOH HOH . I 3 HOH A 21 621 120 HOH HOH . I 3 HOH A 22 622 78 HOH HOH . I 3 HOH A 23 623 37 HOH HOH . I 3 HOH A 24 624 5 HOH HOH . I 3 HOH A 25 625 47 HOH HOH . I 3 HOH A 26 626 67 HOH HOH . I 3 HOH A 27 627 158 HOH HOH . I 3 HOH A 28 628 82 HOH HOH . I 3 HOH A 29 629 91 HOH HOH . I 3 HOH A 30 630 44 HOH HOH . I 3 HOH A 31 631 34 HOH HOH . I 3 HOH A 32 632 142 HOH HOH . I 3 HOH A 33 633 165 HOH HOH . I 3 HOH A 34 634 50 HOH HOH . I 3 HOH A 35 635 22 HOH HOH . I 3 HOH A 36 636 11 HOH HOH . I 3 HOH A 37 637 64 HOH HOH . I 3 HOH A 38 638 112 HOH HOH . I 3 HOH A 39 639 121 HOH HOH . I 3 HOH A 40 640 136 HOH HOH . I 3 HOH A 41 641 45 HOH HOH . I 3 HOH A 42 642 59 HOH HOH . I 3 HOH A 43 643 155 HOH HOH . I 3 HOH A 44 644 14 HOH HOH . I 3 HOH A 45 645 68 HOH HOH . I 3 HOH A 46 646 103 HOH HOH . I 3 HOH A 47 647 104 HOH HOH . I 3 HOH A 48 648 156 HOH HOH . I 3 HOH A 49 649 148 HOH HOH . I 3 HOH A 50 650 151 HOH HOH . I 3 HOH A 51 651 124 HOH HOH . I 3 HOH A 52 652 69 HOH HOH . I 3 HOH A 53 653 149 HOH HOH . I 3 HOH A 54 654 41 HOH HOH . I 3 HOH A 55 655 74 HOH HOH . I 3 HOH A 56 656 159 HOH HOH . I 3 HOH A 57 657 32 HOH HOH . I 3 HOH A 58 658 160 HOH HOH . I 3 HOH A 59 659 75 HOH HOH . I 3 HOH A 60 660 84 HOH HOH . I 3 HOH A 61 661 113 HOH HOH . I 3 HOH A 62 662 150 HOH HOH . I 3 HOH A 63 663 163 HOH HOH . I 3 HOH A 64 664 53 HOH HOH . I 3 HOH A 65 665 141 HOH HOH . I 3 HOH A 66 666 87 HOH HOH . I 3 HOH A 67 667 123 HOH HOH . I 3 HOH A 68 668 130 HOH HOH . I 3 HOH A 69 669 174 HOH HOH . I 3 HOH A 70 670 60 HOH HOH . I 3 HOH A 71 671 99 HOH HOH . I 3 HOH A 72 672 157 HOH HOH . I 3 HOH A 73 673 173 HOH HOH . J 3 HOH B 1 601 111 HOH HOH . J 3 HOH B 2 602 55 HOH HOH . J 3 HOH B 3 603 72 HOH HOH . J 3 HOH B 4 604 6 HOH HOH . J 3 HOH B 5 605 33 HOH HOH . J 3 HOH B 6 606 24 HOH HOH . J 3 HOH B 7 607 88 HOH HOH . J 3 HOH B 8 608 89 HOH HOH . J 3 HOH B 9 609 171 HOH HOH . J 3 HOH B 10 610 9 HOH HOH . J 3 HOH B 11 611 175 HOH HOH . J 3 HOH B 12 612 134 HOH HOH . J 3 HOH B 13 613 63 HOH HOH . J 3 HOH B 14 614 170 HOH HOH . J 3 HOH B 15 615 140 HOH HOH . J 3 HOH B 16 616 90 HOH HOH . J 3 HOH B 17 617 15 HOH HOH . J 3 HOH B 18 618 31 HOH HOH . J 3 HOH B 19 619 98 HOH HOH . J 3 HOH B 20 620 51 HOH HOH . J 3 HOH B 21 621 95 HOH HOH . J 3 HOH B 22 622 10 HOH HOH . J 3 HOH B 23 623 81 HOH HOH . J 3 HOH B 24 624 146 HOH HOH . J 3 HOH B 25 625 93 HOH HOH . J 3 HOH B 26 626 110 HOH HOH . J 3 HOH B 27 627 131 HOH HOH . J 3 HOH B 28 628 61 HOH HOH . J 3 HOH B 29 629 114 HOH HOH . J 3 HOH B 30 630 128 HOH HOH . J 3 HOH B 31 631 125 HOH HOH . J 3 HOH B 32 632 73 HOH HOH . J 3 HOH B 33 633 127 HOH HOH . J 3 HOH B 34 634 126 HOH HOH . J 3 HOH B 35 635 36 HOH HOH . J 3 HOH B 36 636 26 HOH HOH . J 3 HOH B 37 637 102 HOH HOH . J 3 HOH B 38 638 162 HOH HOH . J 3 HOH B 39 639 117 HOH HOH . J 3 HOH B 40 640 109 HOH HOH . J 3 HOH B 41 641 145 HOH HOH . J 3 HOH B 42 642 80 HOH HOH . K 3 HOH C 1 601 101 HOH HOH . K 3 HOH C 2 602 2 HOH HOH . K 3 HOH C 3 603 169 HOH HOH . K 3 HOH C 4 604 7 HOH HOH . K 3 HOH C 5 605 77 HOH HOH . K 3 HOH C 6 606 46 HOH HOH . K 3 HOH C 7 607 71 HOH HOH . K 3 HOH C 8 608 139 HOH HOH . K 3 HOH C 9 609 116 HOH HOH . K 3 HOH C 10 610 154 HOH HOH . K 3 HOH C 11 611 3 HOH HOH . K 3 HOH C 12 612 138 HOH HOH . K 3 HOH C 13 613 65 HOH HOH . K 3 HOH C 14 614 27 HOH HOH . K 3 HOH C 15 615 152 HOH HOH . K 3 HOH C 16 616 119 HOH HOH . K 3 HOH C 17 617 4 HOH HOH . K 3 HOH C 18 618 164 HOH HOH . K 3 HOH C 19 619 39 HOH HOH . K 3 HOH C 20 620 107 HOH HOH . K 3 HOH C 21 621 147 HOH HOH . K 3 HOH C 22 622 153 HOH HOH . K 3 HOH C 23 623 166 HOH HOH . K 3 HOH C 24 624 96 HOH HOH . K 3 HOH C 25 625 106 HOH HOH . K 3 HOH C 26 626 58 HOH HOH . K 3 HOH C 27 627 56 HOH HOH . K 3 HOH C 28 628 18 HOH HOH . K 3 HOH C 29 629 137 HOH HOH . K 3 HOH C 30 630 97 HOH HOH . K 3 HOH C 31 631 143 HOH HOH . K 3 HOH C 32 632 79 HOH HOH . K 3 HOH C 33 633 115 HOH HOH . K 3 HOH C 34 634 167 HOH HOH . K 3 HOH C 35 635 57 HOH HOH . K 3 HOH C 36 636 48 HOH HOH . L 3 HOH D 1 601 12 HOH HOH . L 3 HOH D 2 602 49 HOH HOH . L 3 HOH D 3 603 40 HOH HOH . L 3 HOH D 4 604 66 HOH HOH . L 3 HOH D 5 605 132 HOH HOH . L 3 HOH D 6 606 1 HOH HOH . L 3 HOH D 7 607 20 HOH HOH . L 3 HOH D 8 608 17 HOH HOH . L 3 HOH D 9 609 70 HOH HOH . L 3 HOH D 10 610 54 HOH HOH . L 3 HOH D 11 611 42 HOH HOH . L 3 HOH D 12 612 100 HOH HOH . L 3 HOH D 13 613 25 HOH HOH . L 3 HOH D 14 614 23 HOH HOH . L 3 HOH D 15 615 38 HOH HOH . L 3 HOH D 16 616 105 HOH HOH . L 3 HOH D 17 617 129 HOH HOH . L 3 HOH D 18 618 168 HOH HOH . L 3 HOH D 19 619 118 HOH HOH . L 3 HOH D 20 620 92 HOH HOH . L 3 HOH D 21 621 19 HOH HOH . L 3 HOH D 22 622 76 HOH HOH . L 3 HOH D 23 623 29 HOH HOH . L 3 HOH D 24 624 94 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 C13 KY2 . . . G 2 -14.487 121.453 90.943 1 45.56 ? C13 KY2 501 C 1 HETATM 2 C C11 KY2 . . . G 2 -15.118 120.475 91.782 1 44.43 ? C11 KY2 501 C 1 HETATM 3 C C28 KY2 . . . G 2 -11.935 128.969 81.762 1 71.91 ? C28 KY2 501 C 1 HETATM 4 C C26 KY2 . . . G 2 -13.443 127.908 83.429 1 69.05 ? C26 KY2 501 C 1 HETATM 5 C C25 KY2 . . . G 2 -13.914 128.196 84.868 1 70.28 ? C25 KY2 501 C 1 HETATM 6 C C24 KY2 . . . G 2 -12.797 127.86 85.863 1 72.97 ? C24 KY2 501 C 1 HETATM 7 C C22 KY2 . . . G 2 -13.967 130.812 89.465 1 71.59 ? C22 KY2 501 C 1 HETATM 8 C C15 KY2 . . . G 2 -13.587 122.701 89.384 1 47.15 ? C15 KY2 501 C 1 HETATM 9 C C17 KY2 . . . G 2 -12.752 126.56 89.32 1 55.7 ? C17 KY2 501 C 1 HETATM 10 C C18 KY2 . . . G 2 -12.741 126.479 87.9 1 62.12 ? C18 KY2 501 C 1 HETATM 11 C C20 KY2 . . . G 2 -12.934 128.94 88.021 1 70.34 ? C20 KY2 501 C 1 HETATM 12 C C21 KY2 . . . G 2 -14.197 129.472 88.751 1 70.64 ? C21 KY2 501 C 1 HETATM 13 C C02 KY2 . . . G 2 -11.369 126.13 89.921 1 48.98 ? C02 KY2 501 C 1 HETATM 14 C C03 KY2 . . . G 2 -11.522 124.906 90.176 1 46.31 ? C03 KY2 501 C 1 HETATM 15 C C05 KY2 . . . G 2 -13.111 124.791 90.668 1 46.28 ? C05 KY2 501 C 1 HETATM 16 C C07 KY2 . . . G 2 -14.152 122.664 91.507 1 45.4 ? C07 KY2 501 C 1 HETATM 17 C C09 KY2 . . . G 2 -15.002 121.969 93.577 1 42.5 ? C09 KY2 501 C 1 HETATM 18 N N06 KY2 . . . G 2 -13.595 123.431 90.526 1 46.26 ? N06 KY2 501 C 1 HETATM 19 N N08 KY2 . . . G 2 -14.431 122.898 92.824 1 42.19 ? N08 KY2 501 C 1 HETATM 20 N N10 KY2 . . . G 2 -15.342 120.788 93.056 1 46.6 ? N10 KY2 501 C 1 HETATM 21 N N12 KY2 . . . G 2 -15.494 119.162 91.27 1 43.15 ? N12 KY2 501 C 1 HETATM 22 N N14 KY2 . . . G 2 -14.128 121.498 89.626 1 43.23 ? N14 KY2 501 C 1 HETATM 23 N N19 KY2 . . . G 2 -13.304 127.732 87.263 1 66.46 ? N19 KY2 501 C 1 HETATM 24 N N23 KY2 . . . G 2 -15.188 131.635 89.486 1 74.13 ? N23 KY2 501 C 1 HETATM 25 N N27 KY2 . . . G 2 -12.642 129.029 82.928 1 80.6 ? N27 KY2 501 C 1 HETATM 26 N N29 KY2 . . . G 2 -11.872 127.891 80.986 1 63.57 ? N29 KY2 501 C 1 HETATM 27 N N30 KY2 . . . G 2 -11.242 130.013 81.349 1 63.87 ? N30 KY2 501 C 1 HETATM 28 O O01 KY2 . . . G 2 -11.107 126.978 91.149 1 45.33 ? O01 KY2 501 C 1 HETATM 29 O O04 KY2 . . . G 2 -10.648 124.358 91.233 1 41.62 ? O04 KY2 501 C 1 HETATM 30 O O16 KY2 . . . G 2 -13.768 125.603 89.909 1 47.7 ? O16 KY2 501 C 1 # _model_server_stats.io_time_ms 113 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 9 _model_server_stats.query_time_ms 221 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 30 #