data_1D1G # _model_server_result.job_id IAnMY3eRISk-uiLHVa33jA _model_server_result.datetime_utc '2025-03-03 00:24:41' _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 1d1g # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":171}' # _entry.id 1D1G # _exptl.entry_id 1D1G _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 454.439 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description METHOTREXATE _entity.pdbx_number_of_molecules 2 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 94.5 _cell.angle_beta 95.31 _cell.angle_gamma 110.15 _cell.entry_id 1D1G _cell.length_a 35.525 _cell.length_b 51.419 _cell.length_c 52.961 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1D1G _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 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,D,E,F,G,H _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 3 D N N ? 3 F N N # _chem_comp.formula 'C20 H22 N8 O5' _chem_comp.formula_weight 454.439 _chem_comp.id MTX _chem_comp.mon_nstd_flag . _chem_comp.name METHOTREXATE _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 N1 C2 MTX doub 205 n y N1 C8A MTX sing 206 n y C2 NA2 MTX sing 207 n n C2 N3 MTX sing 208 n y NA2 HN21 MTX sing 209 n n NA2 HN22 MTX sing 210 n n N3 C4 MTX doub 211 n y C4 NA4 MTX sing 212 n n C4 C4A MTX sing 213 n y NA4 HN41 MTX sing 214 n n NA4 HN42 MTX sing 215 n n C4A N5 MTX sing 216 n y C4A C8A MTX doub 217 n y N5 C6 MTX doub 218 n y C6 C7 MTX sing 219 n y C6 C9 MTX sing 220 n n C7 N8 MTX doub 221 n y C7 H7 MTX sing 222 n n N8 C8A MTX sing 223 n y C9 N10 MTX sing 224 n n C9 H91 MTX sing 225 n n C9 H92 MTX sing 226 n n N10 CM MTX sing 227 n n N10 C14 MTX sing 228 n n CM HM1 MTX sing 229 n n CM HM2 MTX sing 230 n n CM HM3 MTX sing 231 n n C11 C12 MTX doub 232 n y C11 C16 MTX sing 233 n y C11 C MTX sing 234 n n C12 C13 MTX sing 235 n y C12 H12 MTX sing 236 n n C13 C14 MTX doub 237 n y C13 H13 MTX sing 238 n n C14 C15 MTX sing 239 n y C15 C16 MTX doub 240 n y C15 H15 MTX sing 241 n n C16 H16 MTX sing 242 n n C O MTX doub 243 n n C N MTX sing 244 n n N CA MTX sing 245 n n N HN MTX sing 246 n n CA CT MTX sing 247 n n CA CB MTX sing 248 n n CA HA MTX sing 249 n n CT O1 MTX doub 250 n n CT O2 MTX sing 251 n n O2 HO2 MTX sing 252 n n CB CG MTX sing 253 n n CB HB1 MTX sing 254 n n CB HB2 MTX sing 255 n n CG CD MTX sing 256 n n CG HG1 MTX sing 257 n n CG HG2 MTX sing 258 n n CD OE1 MTX doub 259 n n CD OE2 MTX sing 260 n n OE2 HOE2 MTX sing 261 n n # _atom_sites.entry_id 1D1G _atom_sites.fract_transf_matrix[1][1] 0.028149 _atom_sites.fract_transf_matrix[1][2] 0.010329 _atom_sites.fract_transf_matrix[1][3] 0.003863 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.020716 _atom_sites.fract_transf_matrix[2][3] 0.002462 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.019097 _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 2 NDP A 1 170 170 NDP NDP . D 3 MTX A 1 171 171 MTX MTX . E 2 NDP B 1 170 170 NDP NDP . F 3 MTX B 1 171 171 MTX MTX . G 4 HOH A 1 501 501 HOH H2O . G 4 HOH A 2 502 502 HOH H2O . G 4 HOH A 3 506 506 HOH H2O . G 4 HOH A 4 507 507 HOH H2O . G 4 HOH A 5 511 511 HOH H2O . G 4 HOH A 6 512 512 HOH H2O . G 4 HOH A 7 513 513 HOH H2O . G 4 HOH A 8 516 516 HOH H2O . G 4 HOH A 9 518 518 HOH H2O . G 4 HOH A 10 519 519 HOH H2O . G 4 HOH A 11 523 523 HOH H2O . G 4 HOH A 12 524 524 HOH H2O . G 4 HOH A 13 525 525 HOH H2O . G 4 HOH A 14 527 527 HOH H2O . G 4 HOH A 15 529 529 HOH H2O . G 4 HOH A 16 530 530 HOH H2O . G 4 HOH A 17 534 534 HOH H2O . G 4 HOH A 18 536 536 HOH H2O . G 4 HOH A 19 537 537 HOH H2O . G 4 HOH A 20 538 538 HOH H2O . G 4 HOH A 21 539 539 HOH H2O . G 4 HOH A 22 540 540 HOH H2O . G 4 HOH A 23 541 541 HOH H2O . G 4 HOH A 24 542 542 HOH H2O . G 4 HOH A 25 543 543 HOH H2O . G 4 HOH A 26 544 544 HOH H2O . G 4 HOH A 27 545 545 HOH H2O . G 4 HOH A 28 547 547 HOH H2O . G 4 HOH A 29 548 548 HOH H2O . G 4 HOH A 30 552 552 HOH H2O . G 4 HOH A 31 554 554 HOH H2O . G 4 HOH A 32 555 555 HOH H2O . G 4 HOH A 33 556 556 HOH H2O . G 4 HOH A 34 560 560 HOH H2O . G 4 HOH A 35 561 561 HOH H2O . G 4 HOH A 36 562 562 HOH H2O . G 4 HOH A 37 563 563 HOH H2O . G 4 HOH A 38 567 567 HOH H2O . G 4 HOH A 39 568 568 HOH H2O . G 4 HOH A 40 572 572 HOH H2O . G 4 HOH A 41 573 573 HOH H2O . G 4 HOH A 42 574 574 HOH H2O . G 4 HOH A 43 578 578 HOH H2O . G 4 HOH A 44 579 579 HOH H2O . G 4 HOH A 45 580 580 HOH H2O . G 4 HOH A 46 581 581 HOH H2O . G 4 HOH A 47 582 582 HOH H2O . G 4 HOH A 48 583 583 HOH H2O . G 4 HOH A 49 584 584 HOH H2O . G 4 HOH A 50 586 586 HOH H2O . G 4 HOH A 51 589 589 HOH H2O . G 4 HOH A 52 592 592 HOH H2O . G 4 HOH A 53 593 593 HOH H2O . G 4 HOH A 54 596 596 HOH H2O . G 4 HOH A 55 599 599 HOH H2O . G 4 HOH A 56 601 601 HOH H2O . G 4 HOH A 57 602 602 HOH H2O . G 4 HOH A 58 603 603 HOH H2O . G 4 HOH A 59 604 604 HOH H2O . G 4 HOH A 60 605 605 HOH H2O . G 4 HOH A 61 607 607 HOH H2O . G 4 HOH A 62 608 608 HOH H2O . G 4 HOH A 63 609 609 HOH H2O . G 4 HOH A 64 613 613 HOH H2O . G 4 HOH A 65 620 620 HOH H2O . G 4 HOH A 66 623 623 HOH H2O . G 4 HOH A 67 625 625 HOH H2O . G 4 HOH A 68 626 626 HOH H2O . G 4 HOH A 69 629 629 HOH H2O . G 4 HOH A 70 630 630 HOH H2O . G 4 HOH A 71 634 634 HOH H2O . G 4 HOH A 72 635 635 HOH H2O . G 4 HOH A 73 639 639 HOH H2O . G 4 HOH A 74 642 642 HOH H2O . G 4 HOH A 75 643 643 HOH H2O . G 4 HOH A 76 644 644 HOH H2O . G 4 HOH A 77 647 647 HOH H2O . G 4 HOH A 78 651 651 HOH H2O . G 4 HOH A 79 654 654 HOH H2O . G 4 HOH A 80 655 655 HOH H2O . G 4 HOH A 81 657 657 HOH H2O . H 4 HOH B 1 500 500 HOH H2O . H 4 HOH B 2 503 503 HOH H2O . H 4 HOH B 3 504 504 HOH H2O . H 4 HOH B 4 505 505 HOH H2O . H 4 HOH B 5 508 508 HOH H2O . H 4 HOH B 6 509 509 HOH H2O . H 4 HOH B 7 510 510 HOH H2O . H 4 HOH B 8 514 514 HOH H2O . H 4 HOH B 9 515 515 HOH H2O . H 4 HOH B 10 517 517 HOH H2O . H 4 HOH B 11 520 520 HOH H2O . H 4 HOH B 12 521 521 HOH H2O . H 4 HOH B 13 522 522 HOH H2O . H 4 HOH B 14 526 526 HOH H2O . H 4 HOH B 15 528 528 HOH H2O . H 4 HOH B 16 531 531 HOH H2O . H 4 HOH B 17 532 532 HOH H2O . H 4 HOH B 18 533 533 HOH H2O . H 4 HOH B 19 535 535 HOH H2O . H 4 HOH B 20 546 546 HOH H2O . H 4 HOH B 21 549 549 HOH H2O . H 4 HOH B 22 550 550 HOH H2O . H 4 HOH B 23 551 551 HOH H2O . H 4 HOH B 24 553 553 HOH H2O . H 4 HOH B 25 557 557 HOH H2O . H 4 HOH B 26 558 558 HOH H2O . H 4 HOH B 27 559 559 HOH H2O . H 4 HOH B 28 564 564 HOH H2O . H 4 HOH B 29 565 565 HOH H2O . H 4 HOH B 30 566 566 HOH H2O . H 4 HOH B 31 569 569 HOH H2O . H 4 HOH B 32 570 570 HOH H2O . H 4 HOH B 33 571 571 HOH H2O . H 4 HOH B 34 575 575 HOH H2O . H 4 HOH B 35 576 576 HOH H2O . H 4 HOH B 36 577 577 HOH H2O . H 4 HOH B 37 585 585 HOH H2O . H 4 HOH B 38 587 587 HOH H2O . H 4 HOH B 39 588 588 HOH H2O . H 4 HOH B 40 590 590 HOH H2O . H 4 HOH B 41 591 591 HOH H2O . H 4 HOH B 42 594 594 HOH H2O . H 4 HOH B 43 595 595 HOH H2O . H 4 HOH B 44 597 597 HOH H2O . H 4 HOH B 45 598 598 HOH H2O . H 4 HOH B 46 600 600 HOH H2O . H 4 HOH B 47 606 606 HOH H2O . H 4 HOH B 48 610 610 HOH H2O . H 4 HOH B 49 611 611 HOH H2O . H 4 HOH B 50 612 612 HOH H2O . H 4 HOH B 51 614 614 HOH H2O . H 4 HOH B 52 615 615 HOH H2O . H 4 HOH B 53 616 616 HOH H2O . H 4 HOH B 54 617 617 HOH H2O . H 4 HOH B 55 618 618 HOH H2O . H 4 HOH B 56 619 619 HOH H2O . H 4 HOH B 57 621 621 HOH H2O . H 4 HOH B 58 622 622 HOH H2O . H 4 HOH B 59 624 624 HOH H2O . H 4 HOH B 60 627 627 HOH H2O . H 4 HOH B 61 628 628 HOH H2O . H 4 HOH B 62 631 631 HOH H2O . H 4 HOH B 63 632 632 HOH H2O . H 4 HOH B 64 633 633 HOH H2O . H 4 HOH B 65 636 636 HOH H2O . H 4 HOH B 66 637 637 HOH H2O . H 4 HOH B 67 638 638 HOH H2O . H 4 HOH B 68 640 640 HOH H2O . H 4 HOH B 69 641 641 HOH H2O . H 4 HOH B 70 645 645 HOH H2O . H 4 HOH B 71 646 646 HOH H2O . H 4 HOH B 72 648 648 HOH H2O . H 4 HOH B 73 649 649 HOH H2O . H 4 HOH B 74 650 650 HOH H2O . H 4 HOH B 75 652 652 HOH H2O . H 4 HOH B 76 653 653 HOH H2O . H 4 HOH B 77 656 656 HOH H2O . # 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 N1 MTX . . . F 3 11.272 15.555 40.954 1 18.85 ? N1 MTX 171 B 1 HETATM 2 C C2 MTX . . . F 3 10.921 16.503 39.968 1 18.52 ? C2 MTX 171 B 1 HETATM 3 N NA2 MTX . . . F 3 9.772 17.199 40.197 1 15.48 ? NA2 MTX 171 B 1 HETATM 4 N N3 MTX . . . F 3 11.707 16.684 38.86 1 18.28 ? N3 MTX 171 B 1 HETATM 5 C C4 MTX . . . F 3 12.876 16.018 38.541 1 18.88 ? C4 MTX 171 B 1 HETATM 6 N NA4 MTX . . . F 3 13.599 16.21 37.481 1 19.16 ? NA4 MTX 171 B 1 HETATM 7 C C4A MTX . . . F 3 13.256 15.021 39.544 1 20.53 ? C4A MTX 171 B 1 HETATM 8 N N5 MTX . . . F 3 14.395 14.256 39.374 1 22.61 ? N5 MTX 171 B 1 HETATM 9 C C6 MTX . . . F 3 14.677 13.349 40.352 1 23.99 ? C6 MTX 171 B 1 HETATM 10 C C7 MTX . . . F 3 13.792 13.263 41.462 1 23.57 ? C7 MTX 171 B 1 HETATM 11 N N8 MTX . . . F 3 12.761 13.89 41.712 1 22.17 ? N8 MTX 171 B 1 HETATM 12 C C8A MTX . . . F 3 12.427 14.833 40.725 1 20.98 ? C8A MTX 171 B 1 HETATM 13 C C9 MTX . . . F 3 15.952 12.513 40.074 1 27.02 ? C9 MTX 171 B 1 HETATM 14 N N10 MTX . . . F 3 15.928 11.291 40.744 1 29.49 ? N10 MTX 171 B 1 HETATM 15 C CM MTX . . . F 3 17.073 11.239 41.761 1 30.35 ? CM MTX 171 B 1 HETATM 16 C C11 MTX . . . F 3 13.21 8.005 40.377 1 34.75 ? C11 MTX 171 B 1 HETATM 17 C C12 MTX . . . F 3 14.266 7.963 41.313 1 33.89 ? C12 MTX 171 B 1 HETATM 18 C C13 MTX . . . F 3 15.241 8.871 41.603 1 32.16 ? C13 MTX 171 B 1 HETATM 19 C C14 MTX . . . F 3 15.105 10.149 40.698 1 31.34 ? C14 MTX 171 B 1 HETATM 20 C C15 MTX . . . F 3 13.944 10.13 39.699 1 32.38 ? C15 MTX 171 B 1 HETATM 21 C C16 MTX . . . F 3 13.087 9.167 39.543 1 32.99 ? C16 MTX 171 B 1 HETATM 22 C C MTX . . . F 3 12.447 6.949 40.365 1 36.19 ? C MTX 171 B 1 HETATM 23 O O MTX . . . F 3 12.372 5.876 40.973 1 38.44 ? O MTX 171 B 1 HETATM 24 N N MTX . . . F 3 11.45 6.699 39.556 1 37.19 ? N MTX 171 B 1 HETATM 25 C CA MTX . . . F 3 10.162 6.276 39.451 1 37.42 ? CA MTX 171 B 1 HETATM 26 C CT MTX . . . F 3 9.584 6.785 38.133 1 36.34 ? CT MTX 171 B 1 HETATM 27 O O1 MTX . . . F 3 9.527 7.873 37.592 1 35.75 ? O1 MTX 171 B 1 HETATM 28 O O2 MTX . . . F 3 9.04 5.721 37.471 1 35.2 ? O2 MTX 171 B 1 HETATM 29 C CB MTX . . . F 3 8.998 6.749 40.4 1 39.08 ? CB MTX 171 B 1 HETATM 30 C CG MTX . . . F 3 8.216 5.762 41.157 1 41.27 ? CG MTX 171 B 1 HETATM 31 C CD MTX . . . F 3 7.529 5.742 42.67 1 42.57 ? CD MTX 171 B 1 HETATM 32 O OE1 MTX . . . F 3 8.088 6.313 43.784 1 43.75 ? OE1 MTX 171 B 1 HETATM 33 O OE2 MTX . . . F 3 6.519 5.071 42.122 1 42.12 ? OE2 MTX 171 B 1 # _model_server_stats.io_time_ms 6 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 303 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 33 #