data_4EJM # _model_server_result.job_id AdFqKD34jxWfb55Bct2XHw _model_server_result.datetime_utc '2024-11-09 02:29:36' _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 4ejm # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":402}' # _entry.id 4EJM # _exptl.entry_id 4EJM _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 743.405 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE' _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 4EJM _cell.length_a 107.62 _cell.length_b 107.62 _cell.length_c 137.741 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4EJM _symmetry.cell_setting ? _symmetry.Int_Tables_number 97 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'I 4 2 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3,4 # 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_655 -x+1,-y,z -1 0 0 0 -1 0 0 0 1 107.62 0 0 3 'crystal symmetry operation' 5_655 -x+1,y,-z -1 0 0 0 1 0 0 0 -1 107.62 0 0 4 'crystal symmetry operation' 6_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 # 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 covale ? covale1 A C SER 22 A SER -1 1_555 A N MSE 23 A MSE 0 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.322 ? covale ? covale2 A C MSE 23 A MSE 0 1_555 A N MSE 24 A MSE 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.336 ? covale ? covale3 A C MSE 24 A MSE 1 1_555 A N LYS 25 A LYS 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.319 ? covale ? covale4 A C ARG 332 A ARG 309 1_555 A N MSE 333 A MSE 310 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.338 ? covale ? covale5 A C MSE 333 A MSE 310 1_555 A N ILE 334 A ILE 311 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? metalc ? metalc1 A SG CYS 114 A CYS 91 1_555 B ZN ZN . A ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.293 ? metalc ? metalc2 A SG CYS 125 A CYS 102 1_555 B ZN ZN . A ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.312 ? metalc ? metalc3 A SG CYS 111 A CYS 88 1_555 B ZN ZN . A ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.342 ? metalc ? metalc4 A SG CYS 117 A CYS 94 1_555 B ZN ZN . A ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.406 ? # _chem_comp.formula 'C21 H28 N7 O17 P3' _chem_comp.formula_weight 743.405 _chem_comp.id NAP _chem_comp.mon_nstd_flag . _chem_comp.name 'NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms "2'-MONOPHOSPHOADENOSINE 5'-DIPHOSPHORIBOSE" # _atom_sites.entry_id 4EJM _atom_sites.fract_transf_matrix[1][1] 0.009292 _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] 0.009292 _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] 0.00726 _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 1 401 1 ZN ZN . C 3 NAP A 1 402 1 NAP NAP . D 4 EDO A 1 403 1 EDO EDO . E 4 EDO A 1 404 2 EDO EDO . F 4 EDO A 1 405 3 EDO EDO . G 5 HOH A 1 501 1 HOH HOH . G 5 HOH A 2 502 2 HOH HOH . G 5 HOH A 3 503 3 HOH HOH . G 5 HOH A 4 504 4 HOH HOH . G 5 HOH A 5 505 5 HOH HOH . G 5 HOH A 6 506 6 HOH HOH . G 5 HOH A 7 507 7 HOH HOH . G 5 HOH A 8 508 8 HOH HOH . G 5 HOH A 9 509 9 HOH HOH . G 5 HOH A 10 510 10 HOH HOH . G 5 HOH A 11 511 11 HOH HOH . G 5 HOH A 12 512 12 HOH HOH . G 5 HOH A 13 513 13 HOH HOH . G 5 HOH A 14 514 14 HOH HOH . G 5 HOH A 15 515 15 HOH HOH . G 5 HOH A 16 516 16 HOH HOH . G 5 HOH A 17 517 17 HOH HOH . G 5 HOH A 18 518 18 HOH HOH . G 5 HOH A 19 519 19 HOH HOH . G 5 HOH A 20 520 20 HOH HOH . G 5 HOH A 21 521 21 HOH HOH . G 5 HOH A 22 522 22 HOH HOH . G 5 HOH A 23 523 23 HOH HOH . G 5 HOH A 24 524 24 HOH HOH . G 5 HOH A 25 525 25 HOH HOH . G 5 HOH A 26 526 26 HOH HOH . G 5 HOH A 27 527 27 HOH HOH . G 5 HOH A 28 528 28 HOH HOH . G 5 HOH A 29 529 29 HOH HOH . G 5 HOH A 30 530 30 HOH HOH . G 5 HOH A 31 531 31 HOH HOH . G 5 HOH A 32 532 32 HOH HOH . G 5 HOH A 33 533 33 HOH HOH . G 5 HOH A 34 534 34 HOH HOH . G 5 HOH A 35 535 35 HOH HOH . G 5 HOH A 36 536 36 HOH HOH . G 5 HOH A 37 537 37 HOH HOH . G 5 HOH A 38 538 38 HOH HOH . G 5 HOH A 39 539 39 HOH HOH . G 5 HOH A 40 540 40 HOH HOH . G 5 HOH A 41 541 41 HOH HOH . G 5 HOH A 42 542 42 HOH HOH . G 5 HOH A 43 543 43 HOH HOH . G 5 HOH A 44 544 44 HOH HOH . G 5 HOH A 45 545 45 HOH HOH . G 5 HOH A 46 546 46 HOH HOH . G 5 HOH A 47 547 47 HOH HOH . G 5 HOH A 48 548 48 HOH HOH . G 5 HOH A 49 549 49 HOH HOH . G 5 HOH A 50 550 50 HOH HOH . G 5 HOH A 51 551 51 HOH HOH . G 5 HOH A 52 552 52 HOH HOH . G 5 HOH A 53 553 53 HOH HOH . G 5 HOH A 54 554 54 HOH HOH . G 5 HOH A 55 555 55 HOH HOH . G 5 HOH A 56 556 56 HOH HOH . G 5 HOH A 57 557 57 HOH HOH . G 5 HOH A 58 558 58 HOH HOH . G 5 HOH A 59 559 59 HOH HOH . G 5 HOH A 60 560 60 HOH HOH . G 5 HOH A 61 561 61 HOH HOH . G 5 HOH A 62 562 62 HOH HOH . G 5 HOH A 63 563 63 HOH HOH . G 5 HOH A 64 564 64 HOH HOH . G 5 HOH A 65 565 65 HOH HOH . G 5 HOH A 66 566 66 HOH HOH . G 5 HOH A 67 567 67 HOH HOH . G 5 HOH A 68 568 68 HOH HOH . G 5 HOH A 69 569 69 HOH HOH . G 5 HOH A 70 570 70 HOH HOH . G 5 HOH A 71 571 71 HOH HOH . G 5 HOH A 72 572 72 HOH HOH . G 5 HOH A 73 573 73 HOH HOH . G 5 HOH A 74 574 74 HOH HOH . G 5 HOH A 75 575 75 HOH HOH . G 5 HOH A 76 576 76 HOH HOH . G 5 HOH A 77 577 77 HOH HOH . G 5 HOH A 78 578 78 HOH HOH . G 5 HOH A 79 579 79 HOH HOH . G 5 HOH A 80 580 80 HOH HOH . G 5 HOH A 81 581 81 HOH HOH . G 5 HOH A 82 582 82 HOH HOH . G 5 HOH A 83 583 83 HOH HOH . G 5 HOH A 84 584 84 HOH HOH . G 5 HOH A 85 585 85 HOH HOH . G 5 HOH A 86 586 86 HOH HOH . G 5 HOH A 87 587 87 HOH HOH . G 5 HOH A 88 588 88 HOH HOH . G 5 HOH A 89 589 89 HOH HOH . G 5 HOH A 90 590 90 HOH HOH . G 5 HOH A 91 591 91 HOH HOH . G 5 HOH A 92 592 92 HOH HOH . G 5 HOH A 93 593 93 HOH HOH . G 5 HOH A 94 594 94 HOH HOH . G 5 HOH A 95 595 95 HOH HOH . G 5 HOH A 96 596 96 HOH HOH . G 5 HOH A 97 597 97 HOH HOH . G 5 HOH A 98 598 98 HOH HOH . G 5 HOH A 99 599 99 HOH HOH . G 5 HOH A 100 600 100 HOH HOH . G 5 HOH A 101 601 101 HOH HOH . G 5 HOH A 102 602 102 HOH HOH . G 5 HOH A 103 603 103 HOH HOH . G 5 HOH A 104 604 104 HOH HOH . G 5 HOH A 105 605 105 HOH HOH . G 5 HOH A 106 606 106 HOH HOH . G 5 HOH A 107 607 107 HOH HOH . G 5 HOH A 108 608 108 HOH HOH . G 5 HOH A 109 609 109 HOH HOH . G 5 HOH A 110 610 110 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 PA NAP . . . C 3 42.125 22.11 18.959 1 45.93 ? PA NAP 402 A 1 HETATM 2 O O1A NAP . . . C 3 41.499 21.794 20.298 1 54.03 ? O1A NAP 402 A 1 HETATM 3 O O2A NAP . . . C 3 41.988 23.4 18.235 1 50.92 ? O2A NAP 402 A 1 HETATM 4 O O5B NAP . . . C 3 43.662 21.702 19 1 49.21 ? O5B NAP 402 A 1 HETATM 5 C C5B NAP . . . C 3 44.618 22.488 18.328 1 44.56 ? C5B NAP 402 A 1 HETATM 6 C C4B NAP . . . C 3 45.534 23.017 19.394 1 42.15 ? C4B NAP 402 A 1 HETATM 7 O O4B NAP . . . C 3 46.749 23.403 18.772 1 41.74 ? O4B NAP 402 A 1 HETATM 8 C C3B NAP . . . C 3 45.053 24.227 20.182 1 43.22 ? C3B NAP 402 A 1 HETATM 9 O O3B NAP . . . C 3 44.279 23.826 21.306 1 46.41 ? O3B NAP 402 A 1 HETATM 10 C C2B NAP . . . C 3 46.355 24.813 20.67 1 43.88 ? C2B NAP 402 A 1 HETATM 11 O O2B NAP . . . C 3 46.636 24.398 22.02 1 44.03 ? O2B NAP 402 A 1 HETATM 12 C C1B NAP . . . C 3 47.418 24.225 19.727 1 43.21 ? C1B NAP 402 A 1 HETATM 13 N N9A NAP . . . C 3 48.196 25.242 19.013 1 41.07 ? N9A NAP 402 A 1 HETATM 14 C C8A NAP . . . C 3 47.73 26.389 18.46 1 42.09 ? C8A NAP 402 A 1 HETATM 15 N N7A NAP . . . C 3 48.773 27.057 17.896 1 44.31 ? N7A NAP 402 A 1 HETATM 16 C C5A NAP . . . C 3 49.898 26.334 18.082 1 42.19 ? C5A NAP 402 A 1 HETATM 17 C C6A NAP . . . C 3 51.335 26.442 17.733 1 43.99 ? C6A NAP 402 A 1 HETATM 18 N N6A NAP . . . C 3 51.791 27.516 17.051 1 44.27 ? N6A NAP 402 A 1 HETATM 19 N N1A NAP . . . C 3 52.183 25.454 18.111 1 40.5 ? N1A NAP 402 A 1 HETATM 20 C C2A NAP . . . C 3 51.753 24.378 18.78 1 40.91 ? C2A NAP 402 A 1 HETATM 21 N N3A NAP . . . C 3 50.456 24.209 19.116 1 42.65 ? N3A NAP 402 A 1 HETATM 22 C C4A NAP . . . C 3 49.506 25.128 18.808 1 40.88 ? C4A NAP 402 A 1 HETATM 23 O O3 NAP . . . C 3 41.503 21.116 17.883 1 45.89 ? O3 NAP 402 A 1 HETATM 24 P PN NAP . . . C 3 41.464 19.526 17.741 1 39.25 ? PN NAP 402 A 1 HETATM 25 O O1N NAP . . . C 3 40.053 19.058 17.867 1 38.89 ? O1N NAP 402 A 1 HETATM 26 O O2N NAP . . . C 3 42.608 18.858 18.46 1 35.45 ? O2N NAP 402 A 1 HETATM 27 O O5D NAP . . . C 3 41.688 19.531 16.134 1 38.45 ? O5D NAP 402 A 1 HETATM 28 C C5D NAP . . . C 3 42.991 19.879 15.642 1 40.33 ? C5D NAP 402 A 1 HETATM 29 C C4D NAP . . . C 3 42.956 20.129 14.139 1 42.04 ? C4D NAP 402 A 1 HETATM 30 O O4D NAP . . . C 3 42.629 18.927 13.435 1 38.62 ? O4D NAP 402 A 1 HETATM 31 C C3D NAP . . . C 3 41.887 21.132 13.74 1 39.33 ? C3D NAP 402 A 1 HETATM 32 O O3D NAP . . . C 3 42.435 21.895 12.683 1 38.33 ? O3D NAP 402 A 1 HETATM 33 C C2D NAP . . . C 3 40.737 20.274 13.28 1 39.18 ? C2D NAP 402 A 1 HETATM 34 O O2D NAP . . . C 3 39.972 20.949 12.315 1 40.77 ? O2D NAP 402 A 1 HETATM 35 C C1D NAP . . . C 3 41.454 19.102 12.644 1 38 ? C1D NAP 402 A 1 HETATM 36 N N1N NAP . . . C 3 40.765 17.806 12.5 1 39.24 ? N1N NAP 402 A 1 HETATM 37 C C2N NAP . . . C 3 41.086 17.094 11.39 1 39.15 ? C2N NAP 402 A 1 HETATM 38 C C3N NAP . . . C 3 40.568 15.833 11.122 1 40.17 ? C3N NAP 402 A 1 HETATM 39 C C7N NAP . . . C 3 40.955 15.074 9.852 1 42.25 ? C7N NAP 402 A 1 HETATM 40 O O7N NAP . . . C 3 40.236 14.162 9.412 1 43.92 ? O7N NAP 402 A 1 HETATM 41 N N7N NAP . . . C 3 42.096 15.381 9.212 1 38.93 ? N7N NAP 402 A 1 HETATM 42 C C4N NAP . . . C 3 39.679 15.305 12.064 1 39.09 ? C4N NAP 402 A 1 HETATM 43 C C5N NAP . . . C 3 39.367 16.031 13.204 1 39.21 ? C5N NAP 402 A 1 HETATM 44 C C6N NAP . . . C 3 39.923 17.29 13.414 1 39.61 ? C6N NAP 402 A 1 HETATM 45 P P2B NAP . . . C 3 47.593 25.397 22.898 1 43.57 ? P2B NAP 402 A 1 HETATM 46 O O1X NAP . . . C 3 48.714 25.782 21.935 1 42.38 ? O1X NAP 402 A 1 HETATM 47 O O2X NAP . . . C 3 48.064 24.572 24.053 1 38.29 ? O2X NAP 402 A 1 HETATM 48 O O3X NAP . . . C 3 46.567 26.446 23.213 1 45.08 ? O3X NAP 402 A 1 # _model_server_stats.io_time_ms 0 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 284 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 48 #