data_1V48 # _model_server_result.job_id LggfdOdbtWwraeu-JC9OxQ _model_server_result.datetime_utc '2025-09-06 23:19:50' _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 1v48 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":290}' # _entry.id 1V48 # _exptl.entry_id 1V48 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 337.22 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 9-(5,5-DIFLUORO-5-PHOSPHONOPENTYL)GUANINE _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 1V48 _cell.length_a 93.183 _cell.length_b 93.183 _cell.length_c 93.183 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1V48 _symmetry.cell_setting ? _symmetry.Int_Tables_number 198 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 21 3' # 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,PQS trimeric 3 author_and_software_defined_assembly 1 PISA trimeric 3 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,B,C,D,E 1 1,2,3 A,B,C,D,E 2 1,4,5 # 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_566 z+1/2,-x+3/2,-y+1 0 0 1 -1 0 0 0 -1 0 46.5915 139.7745 93.183 3 'crystal symmetry operation' 12_664 -y+3/2,-z+1,x-1/2 0 -1 0 0 0 -1 1 0 0 139.7745 93.183 -46.5915 4 'crystal symmetry operation' 7_665 -z+3/2,-x+1,y+1/2 0 0 -1 -1 0 0 0 1 0 139.7745 93.183 46.5915 5 'crystal symmetry operation' 10_646 -y+1,z-1/2,-x+3/2 0 -1 0 0 0 1 -1 0 0 93.183 -46.5915 139.7745 # _struct_asym.details ? _struct_asym.entity_id 4 _struct_asym.id D _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 metalc ? metalc1 A NE2 HIS 20 A HIS 20 1_555 B ZN ZN . A ZN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.928 ? metalc ? metalc2 A NE2 HIS 20 A HIS 20 7_665 B ZN ZN . A ZN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.989 ? metalc ? metalc3 A NE2 HIS 20 A HIS 20 10_646 B ZN ZN . A ZN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.955 ? metalc ? metalc4 B ZN ZN . A ZN 301 1_555 E O HOH . A HOH 577 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.612 ? metalc ? metalc5 B ZN ZN . A ZN 301 1_555 E O HOH . A HOH 577 7_665 ? ? ? ? ? ? ? ? ? ? ? ? 2.612 ? metalc ? metalc6 B ZN ZN . A ZN 301 1_555 E O HOH . A HOH 577 10_646 ? ? ? ? ? ? ? ? ? ? ? ? 2.612 ? metalc ? metalc7 C MG MG . A MG 302 1_555 E O HOH . A HOH 414 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.211 ? metalc ? metalc8 C MG MG . A MG 302 1_555 E O HOH . A HOH 431 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.09 ? metalc ? metalc9 C MG MG . A MG 302 1_555 E O HOH . A HOH 463 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.237 ? metalc ? metalc10 C MG MG . A MG 302 1_555 E O HOH . A HOH 578 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.076 ? metalc ? metalc11 C MG MG . A MG 302 1_555 E O HOH . A HOH 587 7_665 ? ? ? ? ? ? ? ? ? ? ? ? 2.127 ? metalc ? metalc12 C MG MG . A MG 302 1_555 E O HOH . A HOH 588 7_665 ? ? ? ? ? ? ? ? ? ? ? ? 2.087 ? # _chem_comp.formula 'C10 H14 F2 N5 O4 P' _chem_comp.formula_weight 337.22 _chem_comp.id HA1 _chem_comp.mon_nstd_flag . _chem_comp.name 9-(5,5-DIFLUORO-5-PHOSPHONOPENTYL)GUANINE _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 N9 C8 HA1 sing 129 n y N9 C4 HA1 sing 130 n y N9 C10 HA1 sing 131 n n C8 N7 HA1 doub 132 n y C8 H8 HA1 sing 133 n n N7 C5 HA1 sing 134 n y C5 C6 HA1 sing 135 n n C5 C4 HA1 doub 136 n y C6 O6 HA1 doub 137 n n C6 N1 HA1 sing 138 n n N1 C2 HA1 sing 139 n n N1 HN1 HA1 sing 140 n n C2 N2 HA1 sing 141 n n C2 N3 HA1 doub 142 n n N2 HN21 HA1 sing 143 n n N2 HN22 HA1 sing 144 n n N3 C4 HA1 sing 145 n n C10 C11 HA1 sing 146 n n C10 H101 HA1 sing 147 n n C10 H102 HA1 sing 148 n n C11 C12 HA1 sing 149 n n C11 H111 HA1 sing 150 n n C11 H112 HA1 sing 151 n n C12 C13 HA1 sing 152 n n C12 H121 HA1 sing 153 n n C12 H122 HA1 sing 154 n n C13 C14 HA1 sing 155 n n C13 H131 HA1 sing 156 n n C13 H132 HA1 sing 157 n n C14 F15 HA1 sing 158 n n C14 F16 HA1 sing 159 n n C14 P HA1 sing 160 n n P O2P HA1 sing 161 n n P O1P HA1 doub 162 n n P O3P HA1 sing 163 n n O2P H2P HA1 sing 164 n n O3P H3P HA1 sing 165 n n # _atom_sites.entry_id 1V48 _atom_sites.fract_transf_matrix[1][1] 0.010732 _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] 0.010732 _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] 0.010732 _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 ZN A 1 301 301 ZN ZN . C 3 MG A 1 302 302 MG MG . D 4 HA1 A 1 290 290 HA1 HA1 . E 5 HOH A 1 404 404 HOH TIP . E 5 HOH A 2 405 405 HOH TIP . E 5 HOH A 3 406 406 HOH TIP . E 5 HOH A 4 407 407 HOH TIP . E 5 HOH A 5 408 408 HOH TIP . E 5 HOH A 6 409 409 HOH TIP . E 5 HOH A 7 411 411 HOH TIP . E 5 HOH A 8 412 412 HOH TIP . E 5 HOH A 9 413 413 HOH TIP . E 5 HOH A 10 414 414 HOH TIP . E 5 HOH A 11 417 417 HOH TIP . E 5 HOH A 12 418 418 HOH TIP . E 5 HOH A 13 419 419 HOH TIP . E 5 HOH A 14 420 420 HOH TIP . E 5 HOH A 15 422 422 HOH TIP . E 5 HOH A 16 423 423 HOH TIP . E 5 HOH A 17 424 424 HOH TIP . E 5 HOH A 18 425 425 HOH TIP . E 5 HOH A 19 426 426 HOH TIP . E 5 HOH A 20 428 428 HOH TIP . E 5 HOH A 21 429 429 HOH TIP . E 5 HOH A 22 431 431 HOH TIP . E 5 HOH A 23 432 432 HOH TIP . E 5 HOH A 24 433 433 HOH TIP . E 5 HOH A 25 434 434 HOH TIP . E 5 HOH A 26 435 435 HOH TIP . E 5 HOH A 27 436 436 HOH TIP . E 5 HOH A 28 437 437 HOH TIP . E 5 HOH A 29 438 438 HOH TIP . E 5 HOH A 30 439 439 HOH TIP . E 5 HOH A 31 440 440 HOH TIP . E 5 HOH A 32 441 441 HOH TIP . E 5 HOH A 33 442 442 HOH TIP . E 5 HOH A 34 443 443 HOH TIP . E 5 HOH A 35 444 444 HOH TIP . E 5 HOH A 36 445 445 HOH TIP . E 5 HOH A 37 446 446 HOH TIP . E 5 HOH A 38 447 447 HOH TIP . E 5 HOH A 39 449 449 HOH TIP . E 5 HOH A 40 450 450 HOH TIP . E 5 HOH A 41 451 451 HOH TIP . E 5 HOH A 42 454 454 HOH TIP . E 5 HOH A 43 456 456 HOH TIP . E 5 HOH A 44 458 458 HOH TIP . E 5 HOH A 45 459 459 HOH TIP . E 5 HOH A 46 460 460 HOH TIP . E 5 HOH A 47 463 463 HOH TIP . E 5 HOH A 48 465 465 HOH TIP . E 5 HOH A 49 466 466 HOH TIP . E 5 HOH A 50 467 467 HOH TIP . E 5 HOH A 51 468 468 HOH TIP . E 5 HOH A 52 470 470 HOH TIP . E 5 HOH A 53 471 471 HOH TIP . E 5 HOH A 54 472 472 HOH TIP . E 5 HOH A 55 473 473 HOH TIP . E 5 HOH A 56 474 474 HOH TIP . E 5 HOH A 57 475 475 HOH TIP . E 5 HOH A 58 476 476 HOH TIP . E 5 HOH A 59 477 477 HOH TIP . E 5 HOH A 60 478 478 HOH TIP . E 5 HOH A 61 479 479 HOH TIP . E 5 HOH A 62 480 480 HOH TIP . E 5 HOH A 63 483 483 HOH TIP . E 5 HOH A 64 484 484 HOH TIP . E 5 HOH A 65 485 485 HOH TIP . E 5 HOH A 66 487 487 HOH TIP . E 5 HOH A 67 488 488 HOH TIP . E 5 HOH A 68 489 489 HOH TIP . E 5 HOH A 69 491 491 HOH TIP . E 5 HOH A 70 492 492 HOH TIP . E 5 HOH A 71 493 493 HOH TIP . E 5 HOH A 72 494 494 HOH TIP . E 5 HOH A 73 495 495 HOH TIP . E 5 HOH A 74 497 497 HOH TIP . E 5 HOH A 75 498 498 HOH TIP . E 5 HOH A 76 499 499 HOH TIP . E 5 HOH A 77 500 500 HOH TIP . E 5 HOH A 78 501 501 HOH TIP . E 5 HOH A 79 504 504 HOH TIP . E 5 HOH A 80 505 505 HOH TIP . E 5 HOH A 81 506 506 HOH TIP . E 5 HOH A 82 507 507 HOH TIP . E 5 HOH A 83 510 510 HOH TIP . E 5 HOH A 84 511 511 HOH TIP . E 5 HOH A 85 512 512 HOH TIP . E 5 HOH A 86 513 513 HOH TIP . E 5 HOH A 87 515 515 HOH TIP . E 5 HOH A 88 516 516 HOH TIP . E 5 HOH A 89 517 517 HOH TIP . E 5 HOH A 90 518 518 HOH TIP . E 5 HOH A 91 522 522 HOH TIP . E 5 HOH A 92 523 523 HOH TIP . E 5 HOH A 93 524 524 HOH TIP . E 5 HOH A 94 525 525 HOH TIP . E 5 HOH A 95 526 526 HOH TIP . E 5 HOH A 96 527 527 HOH TIP . E 5 HOH A 97 528 528 HOH TIP . E 5 HOH A 98 529 529 HOH TIP . E 5 HOH A 99 530 530 HOH TIP . E 5 HOH A 100 531 531 HOH TIP . E 5 HOH A 101 534 534 HOH TIP . E 5 HOH A 102 535 535 HOH TIP . E 5 HOH A 103 536 536 HOH TIP . E 5 HOH A 104 539 539 HOH TIP . E 5 HOH A 105 540 540 HOH TIP . E 5 HOH A 106 541 541 HOH TIP . E 5 HOH A 107 542 542 HOH TIP . E 5 HOH A 108 547 547 HOH TIP . E 5 HOH A 109 548 548 HOH TIP . E 5 HOH A 110 550 550 HOH TIP . E 5 HOH A 111 552 552 HOH TIP . E 5 HOH A 112 553 553 HOH TIP . E 5 HOH A 113 554 554 HOH TIP . E 5 HOH A 114 556 556 HOH TIP . E 5 HOH A 115 558 558 HOH TIP . E 5 HOH A 116 559 559 HOH TIP . E 5 HOH A 117 561 561 HOH TIP . E 5 HOH A 118 562 562 HOH TIP . E 5 HOH A 119 566 566 HOH TIP . E 5 HOH A 120 567 567 HOH TIP . E 5 HOH A 121 569 569 HOH TIP . E 5 HOH A 122 570 570 HOH TIP . E 5 HOH A 123 571 571 HOH TIP . E 5 HOH A 124 572 572 HOH TIP . E 5 HOH A 125 573 573 HOH TIP . E 5 HOH A 126 575 575 HOH TIP . E 5 HOH A 127 576 576 HOH TIP . E 5 HOH A 128 577 577 HOH TIP . E 5 HOH A 129 578 578 HOH TIP . E 5 HOH A 130 582 582 HOH TIP . E 5 HOH A 131 584 584 HOH TIP . E 5 HOH A 132 585 585 HOH TIP . E 5 HOH A 133 586 586 HOH TIP . E 5 HOH A 134 587 587 HOH TIP . E 5 HOH A 135 588 588 HOH TIP . E 5 HOH A 136 604 604 HOH TIP . E 5 HOH A 137 605 605 HOH TIP . E 5 HOH A 138 607 607 HOH TIP . E 5 HOH A 139 608 608 HOH TIP . E 5 HOH A 140 609 609 HOH TIP . E 5 HOH A 141 610 610 HOH TIP . E 5 HOH A 142 611 611 HOH TIP . E 5 HOH A 143 612 612 HOH TIP . E 5 HOH A 144 613 613 HOH TIP . E 5 HOH A 145 614 614 HOH TIP . E 5 HOH A 146 615 615 HOH TIP . E 5 HOH A 147 618 618 HOH TIP . E 5 HOH A 148 619 619 HOH TIP . E 5 HOH A 149 621 621 HOH TIP . E 5 HOH A 150 622 622 HOH TIP . E 5 HOH A 151 625 625 HOH TIP . E 5 HOH A 152 627 627 HOH TIP . E 5 HOH A 153 628 628 HOH TIP . E 5 HOH A 154 629 629 HOH TIP . E 5 HOH A 155 630 630 HOH TIP . E 5 HOH A 156 633 633 HOH TIP . E 5 HOH A 157 634 634 HOH TIP . E 5 HOH A 158 636 636 HOH TIP . E 5 HOH A 159 637 637 HOH TIP . E 5 HOH A 160 638 638 HOH TIP . E 5 HOH A 161 639 639 HOH TIP . E 5 HOH A 162 640 640 HOH TIP . E 5 HOH A 163 642 642 HOH TIP . E 5 HOH A 164 643 643 HOH TIP . E 5 HOH A 165 645 645 HOH TIP . E 5 HOH A 166 646 646 HOH TIP . E 5 HOH A 167 647 647 HOH TIP . E 5 HOH A 168 648 648 HOH TIP . E 5 HOH A 169 649 649 HOH TIP . E 5 HOH A 170 650 650 HOH TIP . E 5 HOH A 171 651 651 HOH TIP . E 5 HOH A 172 652 652 HOH TIP . E 5 HOH A 173 653 653 HOH TIP . E 5 HOH A 174 655 655 HOH TIP . E 5 HOH A 175 656 656 HOH TIP . E 5 HOH A 176 657 657 HOH TIP . E 5 HOH A 177 658 658 HOH TIP . E 5 HOH A 178 659 659 HOH TIP . E 5 HOH A 179 660 660 HOH TIP . # 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 N9 HA1 . . . D 4 72.365 46.488 50.086 1 24.98 ? N9 HA1 290 A 1 HETATM 2 C C8 HA1 . . . D 4 71.103 46.989 50.343 1 24.7 ? C8 HA1 290 A 1 HETATM 3 N N7 HA1 . . . D 4 71.051 48.27 50.089 1 23.66 ? N7 HA1 290 A 1 HETATM 4 C C5 HA1 . . . D 4 72.295 48.654 49.653 1 22.92 ? C5 HA1 290 A 1 HETATM 5 C C6 HA1 . . . D 4 72.805 49.945 49.238 1 23.06 ? C6 HA1 290 A 1 HETATM 6 O O6 HA1 . . . D 4 72.175 51.016 49.191 1 24.91 ? O6 HA1 290 A 1 HETATM 7 N N1 HA1 . . . D 4 74.18 49.912 48.854 1 22.14 ? N1 HA1 290 A 1 HETATM 8 C C2 HA1 . . . D 4 74.978 48.745 48.873 1 23.62 ? C2 HA1 290 A 1 HETATM 9 N N2 HA1 . . . D 4 76.284 48.848 48.48 1 21.23 ? N2 HA1 290 A 1 HETATM 10 N N3 HA1 . . . D 4 74.486 47.515 49.27 1 22.72 ? N3 HA1 290 A 1 HETATM 11 C C4 HA1 . . . D 4 73.145 47.55 49.644 1 23.46 ? C4 HA1 290 A 1 HETATM 12 C C10 HA1 . . . D 4 72.65 45.132 50.212 1 25.13 ? C10 HA1 290 A 1 HETATM 13 C C11 HA1 . . . D 4 73.407 44.84 51.534 1 24.24 ? C11 HA1 290 A 1 HETATM 14 C C12 HA1 . . . D 4 74.364 43.642 51.335 1 25.68 ? C12 HA1 290 A 1 HETATM 15 C C13 HA1 . . . D 4 73.601 42.374 50.835 1 25.3 ? C13 HA1 290 A 1 HETATM 16 C C14 HA1 . . . D 4 74.471 41.099 50.988 1 26.49 ? C14 HA1 290 A 1 HETATM 17 F F15 HA1 . . . D 4 74.494 40.74 52.283 1 27.25 ? F15 HA1 290 A 1 HETATM 18 F F16 HA1 . . . D 4 75.727 41.368 50.597 1 26.21 ? F16 HA1 290 A 1 HETATM 19 P P HA1 . . . D 4 73.918 39.967 50.136 1 25.4 ? P HA1 290 A 1 HETATM 20 O O2P HA1 . . . D 4 72.453 39.805 50.364 1 24.17 ? O2P HA1 290 A 1 HETATM 21 O O1P HA1 . . . D 4 74.17 40.264 48.697 1 24.73 ? O1P HA1 290 A 1 HETATM 22 O O3P HA1 . . . D 4 74.621 38.686 50.498 1 22.66 ? O3P HA1 290 A 1 # _model_server_stats.io_time_ms 59 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 324 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 22 #