data_1AMZ # _model_server_result.job_id XT7B77SAldZTxVxfgskzAg _model_server_result.datetime_utc '2024-11-22 06:05:50' _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 1amz # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":700}' # _entry.id 1AMZ # _exptl.entry_id 1AMZ _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 794.493 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'NITROMETHYLDETHIA COENZYME A' _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 78.93 _cell.angle_gamma 90 _cell.entry_id 1AMZ _cell.length_a 104.127 _cell.length_b 78.5 _cell.length_c 58.42 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1AMZ _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 PISA,PQS _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 _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' 2_555 -x,y,-z -1 0 0 0 1 0 0 0 -1 0 0 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 # _struct_conn.conn_type_id covale _struct_conn.details ? _struct_conn.id covale1 _struct_conn.ptnr1_label_asym_id A _struct_conn.ptnr1_label_atom_id NZ _struct_conn.ptnr1_label_comp_id LYS _struct_conn.ptnr1_label_seq_id 364 _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id LYS _struct_conn.ptnr1_auth_seq_id 366 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id C _struct_conn.ptnr2_label_atom_id O8A _struct_conn.ptnr2_label_comp_id NMX _struct_conn.ptnr2_label_seq_id . _struct_conn.ptnr2_auth_asym_id A _struct_conn.ptnr2_auth_comp_id NMX _struct_conn.ptnr2_auth_seq_id 700 _struct_conn.ptnr2_symmetry 1_555 _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 1.826 _struct_conn.pdbx_value_order ? # _chem_comp.formula 'C22 H37 N8 O18 P3' _chem_comp.formula_weight 794.493 _chem_comp.id NMX _chem_comp.mon_nstd_flag . _chem_comp.name 'NITROMETHYLDETHIA COENZYME A' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 1AMZ _atom_sites.fract_transf_matrix[1][1] 0.009604 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] -0.001879 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.012739 _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] 0.017442 _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 MLT A 1 702 702 MLT MLT . C 3 NMX A 1 700 700 NMX NMX . D 4 HOH A 1 501 501 HOH HOH . D 4 HOH A 2 502 502 HOH HOH . D 4 HOH A 3 503 503 HOH HOH . D 4 HOH A 4 504 504 HOH HOH . D 4 HOH A 5 506 506 HOH HOH . D 4 HOH A 6 507 507 HOH HOH . D 4 HOH A 7 508 508 HOH HOH . D 4 HOH A 8 509 509 HOH HOH . D 4 HOH A 9 510 510 HOH HOH . D 4 HOH A 10 511 511 HOH HOH . D 4 HOH A 11 512 512 HOH HOH . D 4 HOH A 12 513 513 HOH HOH . D 4 HOH A 13 514 514 HOH HOH . D 4 HOH A 14 515 515 HOH HOH . D 4 HOH A 15 516 516 HOH HOH . D 4 HOH A 16 517 517 HOH HOH . D 4 HOH A 17 518 518 HOH HOH . D 4 HOH A 18 519 519 HOH HOH . D 4 HOH A 19 520 520 HOH HOH . D 4 HOH A 20 521 521 HOH HOH . D 4 HOH A 21 522 522 HOH HOH . D 4 HOH A 22 523 523 HOH HOH . D 4 HOH A 23 524 524 HOH HOH . D 4 HOH A 24 526 526 HOH HOH . D 4 HOH A 25 527 527 HOH HOH . D 4 HOH A 26 528 528 HOH HOH . D 4 HOH A 27 529 529 HOH HOH . D 4 HOH A 28 530 530 HOH HOH . D 4 HOH A 29 532 532 HOH HOH . D 4 HOH A 30 533 533 HOH HOH . D 4 HOH A 31 534 534 HOH HOH . D 4 HOH A 32 535 535 HOH HOH . D 4 HOH A 33 536 536 HOH HOH . D 4 HOH A 34 537 537 HOH HOH . D 4 HOH A 35 538 538 HOH HOH . D 4 HOH A 36 539 539 HOH HOH . D 4 HOH A 37 540 540 HOH HOH . D 4 HOH A 38 541 541 HOH HOH . D 4 HOH A 39 542 542 HOH HOH . D 4 HOH A 40 543 543 HOH HOH . D 4 HOH A 41 544 544 HOH HOH . D 4 HOH A 42 545 545 HOH HOH . D 4 HOH A 43 546 546 HOH HOH . D 4 HOH A 44 547 547 HOH HOH . D 4 HOH A 45 548 548 HOH HOH . D 4 HOH A 46 549 549 HOH HOH . D 4 HOH A 47 550 550 HOH HOH . D 4 HOH A 48 555 555 HOH HOH . D 4 HOH A 49 559 559 HOH HOH . D 4 HOH A 50 561 561 HOH HOH . D 4 HOH A 51 566 566 HOH HOH . D 4 HOH A 52 568 568 HOH HOH . D 4 HOH A 53 570 570 HOH HOH . D 4 HOH A 54 574 574 HOH HOH . D 4 HOH A 55 575 575 HOH HOH . D 4 HOH A 56 578 578 HOH HOH . D 4 HOH A 57 580 580 HOH HOH . D 4 HOH A 58 581 581 HOH HOH . D 4 HOH A 59 582 582 HOH HOH . D 4 HOH A 60 583 583 HOH HOH . D 4 HOH A 61 584 584 HOH HOH . D 4 HOH A 62 585 585 HOH HOH . D 4 HOH A 63 586 586 HOH HOH . D 4 HOH A 64 587 587 HOH HOH . D 4 HOH A 65 588 588 HOH HOH . D 4 HOH A 66 589 589 HOH HOH . D 4 HOH A 67 590 590 HOH HOH . D 4 HOH A 68 592 592 HOH HOH . D 4 HOH A 69 593 593 HOH HOH . D 4 HOH A 70 595 595 HOH HOH . D 4 HOH A 71 596 596 HOH HOH . D 4 HOH A 72 597 597 HOH HOH . D 4 HOH A 73 598 598 HOH HOH . D 4 HOH A 74 599 599 HOH HOH . D 4 HOH A 75 601 601 HOH HOH . D 4 HOH A 76 602 602 HOH HOH . D 4 HOH A 77 603 603 HOH HOH . D 4 HOH A 78 604 604 HOH HOH . D 4 HOH A 79 605 605 HOH HOH . D 4 HOH A 80 606 606 HOH HOH . D 4 HOH A 81 610 610 HOH HOH . D 4 HOH A 82 611 611 HOH HOH . D 4 HOH A 83 612 612 HOH HOH . D 4 HOH A 84 613 613 HOH HOH . D 4 HOH A 85 614 614 HOH HOH . D 4 HOH A 86 615 615 HOH HOH . D 4 HOH A 87 616 616 HOH HOH . D 4 HOH A 88 617 617 HOH HOH . D 4 HOH A 89 618 618 HOH HOH . D 4 HOH A 90 619 619 HOH HOH . D 4 HOH A 91 620 620 HOH HOH . D 4 HOH A 92 621 621 HOH HOH . D 4 HOH A 93 622 622 HOH HOH . D 4 HOH A 94 623 623 HOH HOH . D 4 HOH A 95 624 624 HOH HOH . D 4 HOH A 96 625 625 HOH HOH . D 4 HOH A 97 626 626 HOH HOH . D 4 HOH A 98 627 627 HOH HOH . D 4 HOH A 99 628 628 HOH HOH . D 4 HOH A 100 629 629 HOH HOH . D 4 HOH A 101 630 630 HOH HOH . D 4 HOH A 102 631 631 HOH HOH . D 4 HOH A 103 632 632 HOH HOH . D 4 HOH A 104 633 633 HOH HOH . D 4 HOH A 105 634 634 HOH HOH . D 4 HOH A 106 635 635 HOH HOH . D 4 HOH A 107 636 636 HOH HOH . D 4 HOH A 108 637 637 HOH HOH . D 4 HOH A 109 638 638 HOH HOH . D 4 HOH A 110 639 639 HOH HOH . D 4 HOH A 111 640 640 HOH HOH . D 4 HOH A 112 641 641 HOH HOH . D 4 HOH A 113 642 642 HOH HOH . D 4 HOH A 114 643 643 HOH HOH . D 4 HOH A 115 644 644 HOH HOH . D 4 HOH A 116 645 645 HOH HOH . D 4 HOH A 117 646 646 HOH HOH . D 4 HOH A 118 647 647 HOH HOH . D 4 HOH A 119 648 648 HOH HOH . D 4 HOH A 120 649 649 HOH HOH . D 4 HOH A 121 650 650 HOH HOH . D 4 HOH A 122 651 651 HOH HOH . D 4 HOH A 123 652 652 HOH HOH . D 4 HOH A 124 653 653 HOH HOH . D 4 HOH A 125 654 654 HOH HOH . D 4 HOH A 126 655 655 HOH HOH . D 4 HOH A 127 656 656 HOH HOH . D 4 HOH A 128 657 657 HOH HOH . D 4 HOH A 129 658 658 HOH HOH . D 4 HOH A 130 659 659 HOH HOH . D 4 HOH A 131 660 660 HOH HOH . D 4 HOH A 132 661 661 HOH HOH . D 4 HOH A 133 662 662 HOH HOH . D 4 HOH A 134 663 663 HOH HOH . D 4 HOH A 135 664 664 HOH HOH . D 4 HOH A 136 665 665 HOH HOH . D 4 HOH A 137 666 666 HOH HOH . D 4 HOH A 138 667 667 HOH HOH . D 4 HOH A 139 668 668 HOH HOH . D 4 HOH A 140 669 669 HOH HOH . D 4 HOH A 141 670 670 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 N N1A NMX . . . C 3 19.538 -8.135 13.317 1 5.44 ? N1A NMX 700 A 1 HETATM 2 C C2A NMX . . . C 3 18.975 -8.674 14.419 1 16.25 ? C2A NMX 700 A 1 HETATM 3 N N3A NMX . . . C 3 18.129 -9.699 14.503 1 15.83 ? N3A NMX 700 A 1 HETATM 4 C C4A NMX . . . C 3 17.889 -10.215 13.279 1 26.22 ? C4A NMX 700 A 1 HETATM 5 C C5A NMX . . . C 3 18.342 -9.744 12.067 1 5.92 ? C5A NMX 700 A 1 HETATM 6 C C6A NMX . . . C 3 19.239 -8.657 12.107 1 3.54 ? C6A NMX 700 A 1 HETATM 7 N N6A NMX . . . C 3 19.749 -8.089 11.032 1 5.17 ? N6A NMX 700 A 1 HETATM 8 N N7A NMX . . . C 3 17.853 -10.528 11.011 1 7.08 ? N7A NMX 700 A 1 HETATM 9 C C8A NMX . . . C 3 17.107 -11.42 11.608 1 19.05 ? C8A NMX 700 A 1 HETATM 10 N N9A NMX . . . C 3 17.133 -11.321 12.97 1 5.4 ? N9A NMX 700 A 1 HETATM 11 C C1B NMX . . . C 3 16.248 -12.048 13.844 1 4.62 ? C1B NMX 700 A 1 HETATM 12 C C2B NMX . . . C 3 14.83 -11.795 13.362 1 13.74 ? C2B NMX 700 A 1 HETATM 13 O O2B NMX . . . C 3 14.349 -10.547 13.805 1 15.88 ? O2B NMX 700 A 1 HETATM 14 C C3B NMX . . . C 3 14.121 -12.995 13.997 1 12.54 ? C3B NMX 700 A 1 HETATM 15 O O3B NMX . . . C 3 14.012 -12.787 15.427 1 27.29 ? O3B NMX 700 A 1 HETATM 16 P P3B NMX . . . C 3 12.645 -13.112 16.225 1 47.27 ? P3B NMX 700 A 1 HETATM 17 O O7A NMX . . . C 3 11.522 -12.436 15.52 1 33.65 ? O7A NMX 700 A 1 HETATM 18 O O8A NMX . . . C 3 12.922 -12.871 17.66 1 63.85 ? O8A NMX 700 A 1 HETATM 19 O O9A NMX . . . C 3 12.434 -14.576 16.051 1 33.76 ? O9A NMX 700 A 1 HETATM 20 C C4B NMX . . . C 3 15.142 -14.105 13.754 1 10.85 ? C4B NMX 700 A 1 HETATM 21 O O4B NMX . . . C 3 16.414 -13.418 13.59 1 20.03 ? O4B NMX 700 A 1 HETATM 22 C C5B NMX . . . C 3 14.878 -14.913 12.512 1 18.71 ? C5B NMX 700 A 1 HETATM 23 O O5B NMX . . . C 3 14.352 -14.024 11.472 1 10.98 ? O5B NMX 700 A 1 HETATM 24 P P1A NMX . . . C 3 14.76 -14.33 9.949 1 11.41 ? P1A NMX 700 A 1 HETATM 25 O O1A NMX . . . C 3 13.982 -15.479 9.457 1 17.09 ? O1A NMX 700 A 1 HETATM 26 O O2A NMX . . . C 3 16.229 -14.434 9.936 1 8.8 ? O2A NMX 700 A 1 HETATM 27 O O3A NMX . . . C 3 14.446 -12.991 9.166 1 10.86 ? O3A NMX 700 A 1 HETATM 28 P P2A NMX . . . C 3 13.031 -12.688 8.432 1 12.09 ? P2A NMX 700 A 1 HETATM 29 O O4A NMX . . . C 3 12.972 -13.39 7.151 1 15.79 ? O4A NMX 700 A 1 HETATM 30 O O5A NMX . . . C 3 11.91 -12.745 9.407 1 7.49 ? O5A NMX 700 A 1 HETATM 31 O O6A NMX . . . C 3 13.296 -11.102 8.199 1 7.63 ? O6A NMX 700 A 1 HETATM 32 C CBP NMX . . . C 3 14.74 -9.289 7.63 1 15.61 ? CBP NMX 700 A 1 HETATM 33 C CCP NMX . . . C 3 14.314 -10.694 7.311 1 4.33 ? CCP NMX 700 A 1 HETATM 34 C CDP NMX . . . C 3 15.464 -8.697 6.37 1 1 ? CDP NMX 700 A 1 HETATM 35 C CEP NMX . . . C 3 13.483 -8.51 8.011 1 5.39 ? CEP NMX 700 A 1 HETATM 36 C CAP NMX . . . C 3 15.658 -9.347 8.84 1 8.6 ? CAP NMX 700 A 1 HETATM 37 O OAP NMX . . . C 3 16.839 -10.025 8.407 1 8.11 ? OAP NMX 700 A 1 HETATM 38 C C9P NMX . . . C 3 15.995 -7.956 9.423 1 10.68 ? C9P NMX 700 A 1 HETATM 39 O O9P NMX . . . C 3 15.255 -7.404 10.287 1 13.65 ? O9P NMX 700 A 1 HETATM 40 N N8P NMX . . . C 3 17.116 -7.396 8.979 1 14.35 ? N8P NMX 700 A 1 HETATM 41 C C7P NMX . . . C 3 17.553 -6.056 9.41 1 13.9 ? C7P NMX 700 A 1 HETATM 42 C C6P NMX . . . C 3 16.852 -4.929 8.65 1 3.79 ? C6P NMX 700 A 1 HETATM 43 C C5P NMX . A . C 3 17.294 -4.801 7.208 0.65 1 ? C5P NMX 700 A 1 HETATM 44 C C5P NMX . B . C 3 17.161 -5.003 7.114 0.35 56.79 ? C5P NMX 700 A 1 HETATM 45 O O5P NMX . A . C 3 18.485 -4.845 6.904 0.65 10.63 ? O5P NMX 700 A 1 HETATM 46 O O5P NMX . B . C 3 18.358 -4.867 6.86 0.35 4.1 ? O5P NMX 700 A 1 HETATM 47 N N4P NMX . A . C 3 16.333 -4.616 6.283 0.65 14.37 ? N4P NMX 700 A 1 HETATM 48 N N4P NMX . B . C 3 16.193 -4.773 6.225 0.35 1 ? N4P NMX 700 A 1 HETATM 49 C C3P NMX . A . C 3 16.66 -4.424 4.859 0.65 15.93 ? C3P NMX 700 A 1 HETATM 50 C C3P NMX . B . C 3 16.473 -4.542 4.812 0.35 12.15 ? C3P NMX 700 A 1 HETATM 51 C C2P NMX . A . C 3 16.424 -5.64 3.962 0.65 30.6 ? C2P NMX 700 A 1 HETATM 52 C C2P NMX . B . C 3 16.195 -5.779 3.959 0.35 1 ? C2P NMX 700 A 1 HETATM 53 C C1I NMX . A . C 3 16.536 -5.301 2.46 0.65 19.86 ? C1I NMX 700 A 1 HETATM 54 C C1I NMX . B . C 3 16.083 -5.459 2.462 0.35 1 ? C1I NMX 700 A 1 HETATM 55 N N1I NMX . A . C 3 15.473 -4.352 1.988 0.65 13.26 ? N1I NMX 700 A 1 HETATM 56 N N1I NMX . B . C 3 17.244 -5.952 1.671 0.35 1 ? N1I NMX 700 A 1 HETATM 57 O O1I NMX . A . C 3 14.429 -4.74 2.207 0.65 9.84 ? O1I NMX 700 A 1 HETATM 58 O O1I NMX . B . C 3 17.517 -7.117 1.836 0.35 46.3 ? O1I NMX 700 A 1 HETATM 59 O O2I NMX . A . C 3 15.785 -3.203 1.393 0.65 1 ? O2I NMX 700 A 1 HETATM 60 O O2I NMX . B . C 3 17.847 -5.173 0.965 0.35 14.95 ? O2I NMX 700 A 1 # _model_server_stats.io_time_ms 59 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 274 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 60 #