data_1RA8 # _model_server_result.job_id Ah-Pvg9F3Iy94Czbwr4OBA _model_server_result.datetime_utc '2024-11-04 20:31:31' _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 1ra8 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":164}' # _entry.id 1RA8 # _exptl.entry_id 1RA8 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 507.181 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "2'-MONOPHOSPHOADENOSINE-5'-DIPHOSPHATE" _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 107.38 _cell.angle_gamma 90 _cell.entry_id 1RA8 _cell.length_a 74.27 _cell.length_b 59.86 _cell.length_c 38.92 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1RA8 _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 ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_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 # _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 'C10 H16 N5 O13 P3' _chem_comp.formula_weight 507.181 _chem_comp.id ATR _chem_comp.mon_nstd_flag . _chem_comp.name "2'-MONOPHOSPHOADENOSINE-5'-DIPHOSPHATE" _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 PB O1B ATR doub 70 n n PB O2B ATR sing 71 n n PB O3B ATR sing 72 n n PB O3A ATR sing 73 n n O2B HOB2 ATR sing 74 n n O3B HOB3 ATR sing 75 n n PA O1A ATR doub 76 n n PA O2A ATR sing 77 n n PA O3A ATR sing 78 n n PA O5' ATR sing 79 n n O2A HOA2 ATR sing 80 n n O5' C5' ATR sing 81 n n C5' C4' ATR sing 82 n n C5' "H5'1" ATR sing 83 n n C5' "H5'2" ATR sing 84 n n C4' O4' ATR sing 85 n n C4' C3' ATR sing 86 n n C4' H4' ATR sing 87 n n O4' C1' ATR sing 88 n n C3' O3' ATR sing 89 n n C3' C2' ATR sing 90 n n C3' H3' ATR sing 91 n n O3' HO3' ATR sing 92 n n C2' O2' ATR sing 93 n n C2' C1' ATR sing 94 n n C2' H2' ATR sing 95 n n O2' P2' ATR sing 96 n n P2' O1P ATR doub 97 n n P2' O2P ATR sing 98 n n P2' O3P ATR sing 99 n n O2P HOP2 ATR sing 100 n n O3P HOP3 ATR sing 101 n n C1' N9 ATR sing 102 n n C1' H1' ATR sing 103 n n N9 C8 ATR sing 104 n y N9 C4 ATR sing 105 n y C8 N7 ATR doub 106 n y C8 H8 ATR sing 107 n n N7 C5 ATR sing 108 n y C5 C6 ATR sing 109 n y C5 C4 ATR doub 110 n y C6 N6 ATR sing 111 n n C6 N1 ATR doub 112 n y N6 HN61 ATR sing 113 n n N6 HN62 ATR sing 114 n n N1 C2 ATR sing 115 n y C2 N3 ATR doub 116 n y C2 H2 ATR sing 117 n n N3 C4 ATR sing 118 n y # _atom_sites.entry_id 1RA8 _atom_sites.fract_transf_matrix[1][1] 0.013464 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.004214 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.016706 _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] 0.026923 _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 FOL A 1 161 161 FOL FOL . C 3 ATR A 1 164 164 ATR ATR . D 4 HOH A 1 302 302 HOH HOH . D 4 HOH A 2 305 305 HOH HOH . D 4 HOH A 3 307 307 HOH HOH . D 4 HOH A 4 309 309 HOH HOH . D 4 HOH A 5 310 310 HOH HOH . D 4 HOH A 6 311 311 HOH HOH . D 4 HOH A 7 312 312 HOH HOH . D 4 HOH A 8 314 314 HOH HOH . D 4 HOH A 9 316 316 HOH HOH . D 4 HOH A 10 318 318 HOH HOH . D 4 HOH A 11 320 320 HOH HOH . D 4 HOH A 12 321 321 HOH HOH . D 4 HOH A 13 323 323 HOH HOH . D 4 HOH A 14 327 327 HOH HOH . D 4 HOH A 15 328 328 HOH HOH . D 4 HOH A 16 335 335 HOH HOH . D 4 HOH A 17 337 337 HOH HOH . D 4 HOH A 18 338 338 HOH HOH . D 4 HOH A 19 340 340 HOH HOH . D 4 HOH A 20 348 348 HOH HOH . D 4 HOH A 21 349 349 HOH HOH . D 4 HOH A 22 353 353 HOH HOH . D 4 HOH A 23 354 354 HOH HOH . D 4 HOH A 24 357 357 HOH HOH . D 4 HOH A 25 358 358 HOH HOH . D 4 HOH A 26 359 359 HOH HOH . D 4 HOH A 27 362 362 HOH HOH . D 4 HOH A 28 363 363 HOH HOH . D 4 HOH A 29 365 365 HOH HOH . D 4 HOH A 30 369 369 HOH HOH . D 4 HOH A 31 370 370 HOH HOH . D 4 HOH A 32 375 375 HOH HOH . D 4 HOH A 33 379 379 HOH HOH . D 4 HOH A 34 385 385 HOH HOH . D 4 HOH A 35 406 406 HOH HOH . D 4 HOH A 36 407 407 HOH HOH . D 4 HOH A 37 408 408 HOH HOH . D 4 HOH A 38 411 411 HOH HOH . D 4 HOH A 39 423 423 HOH HOH . D 4 HOH A 40 425 425 HOH HOH . D 4 HOH A 41 428 428 HOH HOH . D 4 HOH A 42 449 449 HOH HOH . D 4 HOH A 43 456 456 HOH HOH . D 4 HOH A 44 461 461 HOH HOH . D 4 HOH A 45 479 479 HOH HOH . D 4 HOH A 46 499 499 HOH HOH . D 4 HOH A 47 509 509 HOH HOH . D 4 HOH A 48 600 600 HOH HOH . D 4 HOH A 49 601 601 HOH HOH . D 4 HOH A 50 602 602 HOH HOH . D 4 HOH A 51 604 604 HOH HOH . D 4 HOH A 52 605 605 HOH HOH . D 4 HOH A 53 606 606 HOH HOH . D 4 HOH A 54 607 607 HOH HOH . D 4 HOH A 55 608 608 HOH HOH . D 4 HOH A 56 609 609 HOH HOH . D 4 HOH A 57 610 610 HOH HOH . D 4 HOH A 58 611 611 HOH HOH . D 4 HOH A 59 613 613 HOH HOH . D 4 HOH A 60 614 614 HOH HOH . D 4 HOH A 61 615 615 HOH HOH . D 4 HOH A 62 616 616 HOH HOH . D 4 HOH A 63 617 617 HOH HOH . D 4 HOH A 64 618 618 HOH HOH . D 4 HOH A 65 619 619 HOH HOH . D 4 HOH A 66 620 620 HOH HOH . D 4 HOH A 67 621 621 HOH HOH . D 4 HOH A 68 622 622 HOH HOH . D 4 HOH A 69 624 624 HOH HOH . D 4 HOH A 70 625 625 HOH HOH . D 4 HOH A 71 626 626 HOH HOH . D 4 HOH A 72 627 627 HOH HOH . D 4 HOH A 73 628 628 HOH HOH . D 4 HOH A 74 629 629 HOH HOH . D 4 HOH A 75 633 633 HOH HOH . D 4 HOH A 76 636 636 HOH HOH . D 4 HOH A 77 637 637 HOH HOH . D 4 HOH A 78 640 640 HOH HOH . D 4 HOH A 79 641 641 HOH HOH . D 4 HOH A 80 642 642 HOH HOH . D 4 HOH A 81 643 643 HOH HOH . D 4 HOH A 82 644 644 HOH HOH . D 4 HOH A 83 646 646 HOH HOH . D 4 HOH A 84 647 647 HOH HOH . D 4 HOH A 85 648 648 HOH HOH . D 4 HOH A 86 649 649 HOH HOH . D 4 HOH A 87 650 650 HOH HOH . D 4 HOH A 88 651 651 HOH HOH . D 4 HOH A 89 652 652 HOH HOH . D 4 HOH A 90 653 653 HOH HOH . D 4 HOH A 91 655 655 HOH HOH . D 4 HOH A 92 656 656 HOH HOH . D 4 HOH A 93 658 658 HOH HOH . D 4 HOH A 94 659 659 HOH HOH . D 4 HOH A 95 660 660 HOH HOH . D 4 HOH A 96 661 661 HOH HOH . D 4 HOH A 97 662 662 HOH HOH . D 4 HOH A 98 664 664 HOH HOH . D 4 HOH A 99 665 665 HOH HOH . D 4 HOH A 100 666 666 HOH HOH . D 4 HOH A 101 667 667 HOH HOH . D 4 HOH A 102 668 668 HOH HOH . D 4 HOH A 103 670 670 HOH HOH . D 4 HOH A 104 671 671 HOH HOH . D 4 HOH A 105 672 672 HOH HOH . D 4 HOH A 106 673 673 HOH HOH . D 4 HOH A 107 674 674 HOH HOH . D 4 HOH A 108 675 675 HOH HOH . D 4 HOH A 109 676 676 HOH HOH . D 4 HOH A 110 677 677 HOH HOH . D 4 HOH A 111 678 678 HOH HOH . D 4 HOH A 112 679 679 HOH HOH . D 4 HOH A 113 682 682 HOH HOH . D 4 HOH A 114 683 683 HOH HOH . D 4 HOH A 115 684 684 HOH HOH . D 4 HOH A 116 685 685 HOH HOH . D 4 HOH A 117 686 686 HOH HOH . D 4 HOH A 118 687 687 HOH HOH . D 4 HOH A 119 688 688 HOH HOH . D 4 HOH A 120 689 689 HOH HOH . D 4 HOH A 121 690 690 HOH HOH . D 4 HOH A 122 691 691 HOH HOH . D 4 HOH A 123 693 693 HOH HOH . D 4 HOH A 124 695 695 HOH HOH . D 4 HOH A 125 696 696 HOH HOH . D 4 HOH A 126 697 697 HOH HOH . D 4 HOH A 127 699 699 HOH HOH . D 4 HOH A 128 700 700 HOH HOH . D 4 HOH A 129 701 701 HOH HOH . D 4 HOH A 130 702 702 HOH HOH . D 4 HOH A 131 703 703 HOH HOH . D 4 HOH A 132 704 704 HOH HOH . D 4 HOH A 133 705 705 HOH HOH . D 4 HOH A 134 706 706 HOH HOH . D 4 HOH A 135 708 708 HOH HOH . D 4 HOH A 136 709 709 HOH HOH . D 4 HOH A 137 710 710 HOH HOH . D 4 HOH A 138 711 711 HOH HOH . D 4 HOH A 139 712 712 HOH HOH . D 4 HOH A 140 713 713 HOH HOH . D 4 HOH A 141 714 714 HOH HOH . D 4 HOH A 142 716 716 HOH HOH . D 4 HOH A 143 717 717 HOH HOH . D 4 HOH A 144 718 718 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 P PB ATR . . . C 3 18.843 22.634 2.593 1 20.9 ? PB ATR 164 A 1 HETATM 2 O O1B ATR . . . C 3 17.707 23.522 2.23 1 20.02 ? O1B ATR 164 A 1 HETATM 3 O O2B ATR . . . C 3 20.155 23.123 2.104 1 26.2 ? O2B ATR 164 A 1 HETATM 4 O O3B ATR . . . C 3 19.012 22.48 4.162 1 20.07 ? O3B ATR 164 A 1 HETATM 5 P PA ATR . . . C 3 17.691 19.939 2.347 1 17.15 ? PA ATR 164 A 1 HETATM 6 O O1A ATR . . . C 3 16.334 20.497 2.507 1 16.29 ? O1A ATR 164 A 1 HETATM 7 O O2A ATR . . . C 3 18.363 18.895 3.193 1 12.12 ? O2A ATR 164 A 1 HETATM 8 O O3A ATR . . . C 3 18.711 21.116 2.129 1 16.27 ? O3A ATR 164 A 1 HETATM 9 O O5' ATR . . . C 3 17.942 19.276 0.886 1 18.83 ? O5' ATR 164 A 1 HETATM 10 C C5' ATR . . . C 3 17.449 19.862 -0.323 1 14.99 ? C5' ATR 164 A 1 HETATM 11 C C4' ATR . . . C 3 17.441 18.747 -1.327 1 15.76 ? C4' ATR 164 A 1 HETATM 12 O O4' ATR . . . C 3 16.314 17.868 -1.144 1 16.82 ? O4' ATR 164 A 1 HETATM 13 C C3' ATR . . . C 3 16.993 19.397 -2.614 1 22.89 ? C3' ATR 164 A 1 HETATM 14 O O3' ATR . . . C 3 18.144 19.966 -3.171 1 22.94 ? O3' ATR 164 A 1 HETATM 15 C C2' ATR . . . C 3 16.494 18.28 -3.507 1 13.21 ? C2' ATR 164 A 1 HETATM 16 O O2' ATR . . . C 3 17.508 17.312 -3.79 1 21.26 ? O2' ATR 164 A 1 HETATM 17 P P2' ATR . . . C 3 18.235 17.278 -5.284 1 15.92 ? P2' ATR 164 A 1 HETATM 18 O O1P ATR . . . C 3 18.942 15.885 -5.22 1 14.99 ? O1P ATR 164 A 1 HETATM 19 O O2P ATR . . . C 3 17.092 17.651 -6.226 1 16.42 ? O2P ATR 164 A 1 HETATM 20 O O3P ATR . . . C 3 19.099 18.526 -5.123 1 14.26 ? O3P ATR 164 A 1 HETATM 21 C C1' ATR . . . C 3 15.694 17.626 -2.388 1 17.73 ? C1' ATR 164 A 1 HETATM 22 N N9 ATR . . . C 3 14.308 18.058 -2.367 1 13.95 ? N9 ATR 164 A 1 HETATM 23 C C8 ATR . . . C 3 13.734 18.959 -1.553 1 17.36 ? C8 ATR 164 A 1 HETATM 24 N N7 ATR . . . C 3 12.447 19.09 -1.764 1 15.93 ? N7 ATR 164 A 1 HETATM 25 C C5 ATR . . . C 3 12.199 18.198 -2.806 1 19.8 ? C5 ATR 164 A 1 HETATM 26 C C6 ATR . . . C 3 11.044 17.857 -3.526 1 22.77 ? C6 ATR 164 A 1 HETATM 27 N N6 ATR . . . C 3 9.811 18.384 -3.303 1 23.13 ? N6 ATR 164 A 1 HETATM 28 N N1 ATR . . . C 3 11.191 16.964 -4.528 1 31.81 ? N1 ATR 164 A 1 HETATM 29 C C2 ATR . . . C 3 12.397 16.428 -4.78 1 26.03 ? C2 ATR 164 A 1 HETATM 30 N N3 ATR . . . C 3 13.529 16.688 -4.168 1 21.6 ? N3 ATR 164 A 1 HETATM 31 C C4 ATR . . . C 3 13.362 17.597 -3.197 1 13.68 ? C4 ATR 164 A 1 # _model_server_stats.io_time_ms 5 _model_server_stats.parse_time_ms 5 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 241 _model_server_stats.encode_time_ms 16 _model_server_stats.element_count 31 #