data_6C9Q # _model_server_result.job_id AHN40RGCMmi1T2bSJ_N15g _model_server_result.datetime_utc '2024-11-28 14:22:54' _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 6c9q # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":401}' # _entry.id 6C9Q # _exptl.entry_id 6C9Q _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 266.257 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "5'-amino-5'-deoxyadenosine" _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 120 _cell.entry_id 6C9Q _cell.length_a 71.904 _cell.length_b 71.904 _cell.length_c 110.256 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6C9Q _symmetry.cell_setting ? _symmetry.Int_Tables_number 152 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 31 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 # _pdbx_struct_assembly_gen.asym_id_list A,B,C _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' 6_555 -x,-x+y,-z+1/3 -0.5 -0.866025 0 -0.866025 0.5 0 0 0 -1 0 0 36.752 # _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 # _chem_comp.formula 'C10 H14 N6 O3' _chem_comp.formula_weight 266.257 _chem_comp.id 5N5 _chem_comp.mon_nstd_flag . _chem_comp.name "5'-amino-5'-deoxyadenosine" _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 N6 C6 5N5 sing 1 n n N7 C5 5N5 sing 2 n y N7 C8 5N5 doub 3 n y C6 C5 5N5 doub 4 n y C6 N1 5N5 sing 5 n y C5 C4 5N5 sing 6 n y C8 N9 5N5 sing 7 n y C2' O2' 5N5 sing 8 n n C2' C3' 5N5 sing 9 n n C2' C1' 5N5 sing 10 n n N1 C2 5N5 doub 11 n y O3' C3' 5N5 sing 12 n n C3' C4' 5N5 sing 13 n n C4 N9 5N5 sing 14 n y C4 N3 5N5 doub 15 n y N9 C1' 5N5 sing 16 n n C2 N3 5N5 sing 17 n y C1' O4' 5N5 sing 18 n n C4' O4' 5N5 sing 19 n n C4' C5' 5N5 sing 20 n n C5' N5' 5N5 sing 21 n n O2' H1 5N5 sing 22 n n C2' H2 5N5 sing 23 n n C3' H3 5N5 sing 24 n n O3' H4 5N5 sing 25 n n C4' H5 5N5 sing 26 n n C5' H6 5N5 sing 27 n n C5' H7 5N5 sing 28 n n N5' H8 5N5 sing 29 n n N5' H9 5N5 sing 30 n n C1' H11 5N5 sing 31 n n C8 H12 5N5 sing 32 n n C2 H13 5N5 sing 33 n n N6 H14 5N5 sing 34 n n N6 H15 5N5 sing 35 n n # _atom_sites.entry_id 6C9Q _atom_sites.fract_transf_matrix[1][1] 0.013907 _atom_sites.fract_transf_matrix[1][2] 0.008029 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.016059 _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] 0.00907 _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 5N5 A 1 401 1 5N5 LIG . C 3 HOH A 1 501 154 HOH HOH . C 3 HOH A 2 502 211 HOH HOH . C 3 HOH A 3 503 181 HOH HOH . C 3 HOH A 4 504 68 HOH HOH . C 3 HOH A 5 505 92 HOH HOH . C 3 HOH A 6 506 183 HOH HOH . C 3 HOH A 7 507 12 HOH HOH . C 3 HOH A 8 508 122 HOH HOH . C 3 HOH A 9 509 21 HOH HOH . C 3 HOH A 10 510 116 HOH HOH . C 3 HOH A 11 511 160 HOH HOH . C 3 HOH A 12 512 85 HOH HOH . C 3 HOH A 13 513 34 HOH HOH . C 3 HOH A 14 514 89 HOH HOH . C 3 HOH A 15 515 62 HOH HOH . C 3 HOH A 16 516 27 HOH HOH . C 3 HOH A 17 517 124 HOH HOH . C 3 HOH A 18 518 193 HOH HOH . C 3 HOH A 19 519 161 HOH HOH . C 3 HOH A 20 520 36 HOH HOH . C 3 HOH A 21 521 74 HOH HOH . C 3 HOH A 22 522 150 HOH HOH . C 3 HOH A 23 523 42 HOH HOH . C 3 HOH A 24 524 216 HOH HOH . C 3 HOH A 25 525 148 HOH HOH . C 3 HOH A 26 526 197 HOH HOH . C 3 HOH A 27 527 79 HOH HOH . C 3 HOH A 28 528 31 HOH HOH . C 3 HOH A 29 529 26 HOH HOH . C 3 HOH A 30 530 98 HOH HOH . C 3 HOH A 31 531 32 HOH HOH . C 3 HOH A 32 532 120 HOH HOH . C 3 HOH A 33 533 206 HOH HOH . C 3 HOH A 34 534 40 HOH HOH . C 3 HOH A 35 535 29 HOH HOH . C 3 HOH A 36 536 108 HOH HOH . C 3 HOH A 37 537 56 HOH HOH . C 3 HOH A 38 538 11 HOH HOH . C 3 HOH A 39 539 222 HOH HOH . C 3 HOH A 40 540 55 HOH HOH . C 3 HOH A 41 541 157 HOH HOH . C 3 HOH A 42 542 58 HOH HOH . C 3 HOH A 43 543 156 HOH HOH . C 3 HOH A 44 544 115 HOH HOH . C 3 HOH A 45 545 22 HOH HOH . C 3 HOH A 46 546 168 HOH HOH . C 3 HOH A 47 547 13 HOH HOH . C 3 HOH A 48 548 103 HOH HOH . C 3 HOH A 49 549 87 HOH HOH . C 3 HOH A 50 550 101 HOH HOH . C 3 HOH A 51 551 15 HOH HOH . C 3 HOH A 52 552 144 HOH HOH . C 3 HOH A 53 553 130 HOH HOH . C 3 HOH A 54 554 18 HOH HOH . C 3 HOH A 55 555 188 HOH HOH . C 3 HOH A 56 556 60 HOH HOH . C 3 HOH A 57 557 50 HOH HOH . C 3 HOH A 58 558 218 HOH HOH . C 3 HOH A 59 559 73 HOH HOH . C 3 HOH A 60 560 38 HOH HOH . C 3 HOH A 61 561 165 HOH HOH . C 3 HOH A 62 562 93 HOH HOH . C 3 HOH A 63 563 71 HOH HOH . C 3 HOH A 64 564 118 HOH HOH . C 3 HOH A 65 565 126 HOH HOH . C 3 HOH A 66 566 17 HOH HOH . C 3 HOH A 67 567 78 HOH HOH . C 3 HOH A 68 568 189 HOH HOH . C 3 HOH A 69 569 37 HOH HOH . C 3 HOH A 70 570 2 HOH HOH . C 3 HOH A 71 571 20 HOH HOH . C 3 HOH A 72 572 44 HOH HOH . C 3 HOH A 73 573 8 HOH HOH . C 3 HOH A 74 574 205 HOH HOH . C 3 HOH A 75 575 195 HOH HOH . C 3 HOH A 76 576 28 HOH HOH . C 3 HOH A 77 577 63 HOH HOH . C 3 HOH A 78 578 81 HOH HOH . C 3 HOH A 79 579 158 HOH HOH . C 3 HOH A 80 580 1 HOH HOH . C 3 HOH A 81 581 35 HOH HOH . C 3 HOH A 82 582 45 HOH HOH . C 3 HOH A 83 583 149 HOH HOH . C 3 HOH A 84 584 25 HOH HOH . C 3 HOH A 85 585 67 HOH HOH . C 3 HOH A 86 586 4 HOH HOH . C 3 HOH A 87 587 24 HOH HOH . C 3 HOH A 88 588 14 HOH HOH . C 3 HOH A 89 589 16 HOH HOH . C 3 HOH A 90 590 6 HOH HOH . C 3 HOH A 91 591 70 HOH HOH . C 3 HOH A 92 592 33 HOH HOH . C 3 HOH A 93 593 107 HOH HOH . C 3 HOH A 94 594 48 HOH HOH . C 3 HOH A 95 595 96 HOH HOH . C 3 HOH A 96 596 117 HOH HOH . C 3 HOH A 97 597 9 HOH HOH . C 3 HOH A 98 598 5 HOH HOH . C 3 HOH A 99 599 7 HOH HOH . C 3 HOH A 100 600 174 HOH HOH . C 3 HOH A 101 601 139 HOH HOH . C 3 HOH A 102 602 3 HOH HOH . C 3 HOH A 103 603 110 HOH HOH . C 3 HOH A 104 604 102 HOH HOH . C 3 HOH A 105 605 112 HOH HOH . C 3 HOH A 106 606 212 HOH HOH . C 3 HOH A 107 607 209 HOH HOH . C 3 HOH A 108 608 127 HOH HOH . C 3 HOH A 109 609 213 HOH HOH . C 3 HOH A 110 610 133 HOH HOH . C 3 HOH A 111 611 23 HOH HOH . C 3 HOH A 112 612 61 HOH HOH . C 3 HOH A 113 613 57 HOH HOH . C 3 HOH A 114 614 105 HOH HOH . C 3 HOH A 115 615 175 HOH HOH . C 3 HOH A 116 616 155 HOH HOH . C 3 HOH A 117 617 39 HOH HOH . C 3 HOH A 118 618 111 HOH HOH . C 3 HOH A 119 619 76 HOH HOH . C 3 HOH A 120 620 80 HOH HOH . C 3 HOH A 121 621 224 HOH HOH . C 3 HOH A 122 622 198 HOH HOH . C 3 HOH A 123 623 10 HOH HOH . C 3 HOH A 124 624 171 HOH HOH . C 3 HOH A 125 625 145 HOH HOH . C 3 HOH A 126 626 143 HOH HOH . C 3 HOH A 127 627 170 HOH HOH . C 3 HOH A 128 628 59 HOH HOH . C 3 HOH A 129 629 84 HOH HOH . C 3 HOH A 130 630 142 HOH HOH . C 3 HOH A 131 631 66 HOH HOH . C 3 HOH A 132 632 135 HOH HOH . C 3 HOH A 133 633 64 HOH HOH . C 3 HOH A 134 634 86 HOH HOH . C 3 HOH A 135 635 49 HOH HOH . C 3 HOH A 136 636 109 HOH HOH . C 3 HOH A 137 637 128 HOH HOH . C 3 HOH A 138 638 100 HOH HOH . C 3 HOH A 139 639 53 HOH HOH . C 3 HOH A 140 640 99 HOH HOH . C 3 HOH A 141 641 225 HOH HOH . C 3 HOH A 142 642 83 HOH HOH . C 3 HOH A 143 643 153 HOH HOH . C 3 HOH A 144 644 167 HOH HOH . C 3 HOH A 145 645 163 HOH HOH . C 3 HOH A 146 646 136 HOH HOH . C 3 HOH A 147 647 72 HOH HOH . C 3 HOH A 148 648 162 HOH HOH . C 3 HOH A 149 649 200 HOH HOH . C 3 HOH A 150 650 203 HOH HOH . C 3 HOH A 151 651 46 HOH HOH . C 3 HOH A 152 652 19 HOH HOH . C 3 HOH A 153 653 90 HOH HOH . C 3 HOH A 154 654 199 HOH HOH . C 3 HOH A 155 655 234 HOH HOH . C 3 HOH A 156 656 179 HOH HOH . C 3 HOH A 157 657 194 HOH HOH . C 3 HOH A 158 658 52 HOH HOH . C 3 HOH A 159 659 106 HOH HOH . C 3 HOH A 160 660 191 HOH HOH . C 3 HOH A 161 661 226 HOH HOH . C 3 HOH A 162 662 187 HOH HOH . C 3 HOH A 163 663 75 HOH HOH . C 3 HOH A 164 664 147 HOH HOH . C 3 HOH A 165 665 129 HOH HOH . C 3 HOH A 166 666 121 HOH HOH . C 3 HOH A 167 667 236 HOH HOH . C 3 HOH A 168 668 173 HOH HOH . C 3 HOH A 169 669 134 HOH HOH . C 3 HOH A 170 670 177 HOH HOH . C 3 HOH A 171 671 97 HOH HOH . C 3 HOH A 172 672 215 HOH HOH . C 3 HOH A 173 673 131 HOH HOH . C 3 HOH A 174 674 201 HOH HOH . C 3 HOH A 175 675 172 HOH HOH . C 3 HOH A 176 676 65 HOH HOH . C 3 HOH A 177 677 47 HOH HOH . C 3 HOH A 178 678 30 HOH HOH . C 3 HOH A 179 679 132 HOH HOH . C 3 HOH A 180 680 235 HOH HOH . C 3 HOH A 181 681 164 HOH HOH . C 3 HOH A 182 682 137 HOH HOH . C 3 HOH A 183 683 140 HOH HOH . C 3 HOH A 184 684 217 HOH HOH . C 3 HOH A 185 685 166 HOH HOH . C 3 HOH A 186 686 207 HOH HOH . C 3 HOH A 187 687 113 HOH HOH . C 3 HOH A 188 688 190 HOH HOH . C 3 HOH A 189 689 186 HOH HOH . C 3 HOH A 190 690 152 HOH HOH . C 3 HOH A 191 691 204 HOH HOH . C 3 HOH A 192 692 69 HOH HOH . C 3 HOH A 193 693 146 HOH HOH . C 3 HOH A 194 694 54 HOH HOH . C 3 HOH A 195 695 94 HOH HOH . C 3 HOH A 196 696 41 HOH HOH . C 3 HOH A 197 697 231 HOH HOH . C 3 HOH A 198 698 192 HOH HOH . C 3 HOH A 199 699 141 HOH HOH . C 3 HOH A 200 700 232 HOH HOH . C 3 HOH A 201 701 237 HOH HOH . C 3 HOH A 202 702 214 HOH HOH . C 3 HOH A 203 703 159 HOH HOH . C 3 HOH A 204 704 82 HOH HOH . C 3 HOH A 205 705 77 HOH HOH . C 3 HOH A 206 706 220 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 O O2' 5N5 . . . B 2 -15.948 20.701 6.713 1 17.86 ? O2' 5N5 401 A 1 HETATM 2 C C2' 5N5 . . . B 2 -14.927 19.747 6.644 1 17.86 ? C2' 5N5 401 A 1 HETATM 3 C C3' 5N5 . . . B 2 -13.903 20.031 5.622 1 17.86 ? C3' 5N5 401 A 1 HETATM 4 O O3' 5N5 . . . B 2 -14.188 21.239 4.887 1 17.86 ? O3' 5N5 401 A 1 HETATM 5 C C4' 5N5 . . . B 2 -13.916 18.814 4.676 1 17.86 ? C4' 5N5 401 A 1 HETATM 6 C C5' 5N5 . . . B 2 -12.52 18.336 4.254 1 17.86 ? C5' 5N5 401 A 1 HETATM 7 N N5' 5N5 . . . B 2 -12.607 17.092 3.476 1 17.86 ? N5' 5N5 401 A 1 HETATM 8 O O4' 5N5 . . . B 2 -14.54 17.768 5.417 1 17.86 ? O4' 5N5 401 A 1 HETATM 9 C C1' 5N5 . . . B 2 -15.542 18.395 6.257 1 17.86 ? C1' 5N5 401 A 1 HETATM 10 N N9 5N5 . . . B 2 -15.742 17.374 7.263 1 17.86 ? N9 5N5 401 A 1 HETATM 11 C C8 5N5 . . . B 2 -14.821 17.008 8.146 1 17.86 ? C8 5N5 401 A 1 HETATM 12 N N7 5N5 . . . B 2 -15.338 16.069 8.972 1 17.86 ? N7 5N5 401 A 1 HETATM 13 C C5 5N5 . . . B 2 -16.635 15.845 8.577 1 17.86 ? C5 5N5 401 A 1 HETATM 14 C C4 5N5 . . . B 2 -16.905 16.659 7.517 1 17.86 ? C4 5N5 401 A 1 HETATM 15 N N3 5N5 . . . B 2 -18.147 16.623 6.92 1 17.86 ? N3 5N5 401 A 1 HETATM 16 C C2 5N5 . . . B 2 -19.061 15.789 7.4 1 17.86 ? C2 5N5 401 A 1 HETATM 17 N N1 5N5 . . . B 2 -18.867 14.984 8.415 1 17.86 ? N1 5N5 401 A 1 HETATM 18 C C6 5N5 . . . B 2 -17.679 14.956 9.028 1 17.86 ? C6 5N5 401 A 1 HETATM 19 N N6 5N5 . . . B 2 -17.469 14.073 10.111 1 17.86 ? N6 5N5 401 A 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 27 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 278 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 19 #