data_5L3Z # _model_server_result.job_id 7SPA1wnbkbmB11vzsabmng _model_server_result.datetime_utc '2024-11-28 06:11:40' _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 5l3z # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":500}' # _entry.id 5L3Z # _exptl.entry_id 5L3Z _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 743.405 _entity.id 2 _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 5L3Z _cell.length_a 52.23 _cell.length_b 52.23 _cell.length_c 214 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5L3Z _symmetry.cell_setting ? _symmetry.Int_Tables_number 92 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 41 21 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C _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 2 _struct_asym.id B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _struct_conn.conn_type_id disulf _struct_conn.details ? _struct_conn.id disulf1 _struct_conn.ptnr1_label_asym_id A _struct_conn.ptnr1_label_atom_id SG _struct_conn.ptnr1_label_comp_id CYS _struct_conn.ptnr1_label_seq_id 173 _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id CYS _struct_conn.ptnr1_auth_seq_id 153 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id A _struct_conn.ptnr2_label_atom_id SG _struct_conn.ptnr2_label_comp_id CYS _struct_conn.ptnr2_label_seq_id 233 _struct_conn.ptnr2_auth_asym_id A _struct_conn.ptnr2_auth_comp_id CYS _struct_conn.ptnr2_auth_seq_id 213 _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 2.078 _struct_conn.pdbx_value_order ? # _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" # 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 PA O1A NAP doub 237 n n PA O2A NAP sing 238 n n PA O5B NAP sing 239 n n PA O3 NAP sing 240 n n O2A HOA2 NAP sing 241 n n O5B C5B NAP sing 242 n n C5B C4B NAP sing 243 n n C5B H51A NAP sing 244 n n C5B H52A NAP sing 245 n n C4B O4B NAP sing 246 n n C4B C3B NAP sing 247 n n C4B H4B NAP sing 248 n n O4B C1B NAP sing 249 n n C3B O3B NAP sing 250 n n C3B C2B NAP sing 251 n n C3B H3B NAP sing 252 n n O3B HO3A NAP sing 253 n n C2B O2B NAP sing 254 n n C2B C1B NAP sing 255 n n C2B H2B NAP sing 256 n n O2B P2B NAP sing 257 n n C1B N9A NAP sing 258 n n C1B H1B NAP sing 259 n n N9A C8A NAP sing 260 n y N9A C4A NAP sing 261 n y C8A N7A NAP doub 262 n y C8A H8A NAP sing 263 n n N7A C5A NAP sing 264 n y C5A C6A NAP sing 265 n y C5A C4A NAP doub 266 n y C6A N6A NAP sing 267 n n C6A N1A NAP doub 268 n y N6A H61A NAP sing 269 n n N6A H62A NAP sing 270 n n N1A C2A NAP sing 271 n y C2A N3A NAP doub 272 n y C2A H2A NAP sing 273 n n N3A C4A NAP sing 274 n y O3 PN NAP sing 275 n n PN O1N NAP doub 276 n n PN O2N NAP sing 277 n n PN O5D NAP sing 278 n n O5D C5D NAP sing 279 n n C5D C4D NAP sing 280 n n C5D H51N NAP sing 281 n n C5D H52N NAP sing 282 n n C4D O4D NAP sing 283 n n C4D C3D NAP sing 284 n n C4D H4D NAP sing 285 n n O4D C1D NAP sing 286 n n C3D O3D NAP sing 287 n n C3D C2D NAP sing 288 n n C3D H3D NAP sing 289 n n O3D HO3N NAP sing 290 n n C2D O2D NAP sing 291 n n C2D C1D NAP sing 292 n n C2D H2D NAP sing 293 n n O2D HO2N NAP sing 294 n n C1D N1N NAP sing 295 n n C1D H1D NAP sing 296 n n N1N C2N NAP sing 297 n y N1N C6N NAP doub 298 n y C2N C3N NAP doub 299 n y C2N H2N NAP sing 300 n n C3N C7N NAP sing 301 n n C3N C4N NAP sing 302 n y C7N O7N NAP doub 303 n n C7N N7N NAP sing 304 n n N7N H71N NAP sing 305 n n N7N H72N NAP sing 306 n n C4N C5N NAP doub 307 n y C4N H4N NAP sing 308 n n C5N C6N NAP sing 309 n y C5N H5N NAP sing 310 n n C6N H6N NAP sing 311 n n P2B O1X NAP doub 312 n n P2B O2X NAP sing 313 n n P2B O3X NAP sing 314 n n O2X HOP2 NAP sing 315 n n O3X HOP3 NAP sing 316 n n # _atom_sites.entry_id 5L3Z _atom_sites.fract_transf_matrix[1][1] 0.019146 _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] 0.019146 _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] 0.004673 _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 NAP A 1 500 500 NAP NAP . C 3 HOH A 1 601 29 HOH HOH . C 3 HOH A 2 602 79 HOH HOH . C 3 HOH A 3 603 74 HOH HOH . C 3 HOH A 4 604 51 HOH HOH . C 3 HOH A 5 605 45 HOH HOH . C 3 HOH A 6 606 70 HOH HOH . C 3 HOH A 7 607 5 HOH HOH . C 3 HOH A 8 608 23 HOH HOH . C 3 HOH A 9 609 58 HOH HOH . C 3 HOH A 10 610 103 HOH HOH . C 3 HOH A 11 611 2 HOH HOH . C 3 HOH A 12 612 42 HOH HOH . C 3 HOH A 13 613 40 HOH HOH . C 3 HOH A 14 614 30 HOH HOH . C 3 HOH A 15 615 11 HOH HOH . C 3 HOH A 16 616 27 HOH HOH . C 3 HOH A 17 617 59 HOH HOH . C 3 HOH A 18 618 15 HOH HOH . C 3 HOH A 19 619 102 HOH HOH . C 3 HOH A 20 620 36 HOH HOH . C 3 HOH A 21 621 86 HOH HOH . C 3 HOH A 22 622 71 HOH HOH . C 3 HOH A 23 623 101 HOH HOH . C 3 HOH A 24 624 37 HOH HOH . C 3 HOH A 25 625 50 HOH HOH . C 3 HOH A 26 626 44 HOH HOH . C 3 HOH A 27 627 25 HOH HOH . C 3 HOH A 28 628 87 HOH HOH . C 3 HOH A 29 629 52 HOH HOH . C 3 HOH A 30 630 75 HOH HOH . C 3 HOH A 31 631 34 HOH HOH . C 3 HOH A 32 632 6 HOH HOH . C 3 HOH A 33 633 3 HOH HOH . C 3 HOH A 34 634 66 HOH HOH . C 3 HOH A 35 635 10 HOH HOH . C 3 HOH A 36 636 9 HOH HOH . C 3 HOH A 37 637 85 HOH HOH . C 3 HOH A 38 638 81 HOH HOH . C 3 HOH A 39 639 57 HOH HOH . C 3 HOH A 40 640 14 HOH HOH . C 3 HOH A 41 641 16 HOH HOH . C 3 HOH A 42 642 19 HOH HOH . C 3 HOH A 43 643 80 HOH HOH . C 3 HOH A 44 644 68 HOH HOH . C 3 HOH A 45 645 47 HOH HOH . C 3 HOH A 46 646 43 HOH HOH . C 3 HOH A 47 647 17 HOH HOH . C 3 HOH A 48 648 97 HOH HOH . C 3 HOH A 49 649 84 HOH HOH . C 3 HOH A 50 650 41 HOH HOH . C 3 HOH A 51 651 55 HOH HOH . C 3 HOH A 52 652 63 HOH HOH . C 3 HOH A 53 653 99 HOH HOH . C 3 HOH A 54 654 73 HOH HOH . C 3 HOH A 55 655 88 HOH HOH . C 3 HOH A 56 656 56 HOH HOH . C 3 HOH A 57 657 90 HOH HOH . C 3 HOH A 58 658 39 HOH HOH . C 3 HOH A 59 659 67 HOH HOH . C 3 HOH A 60 660 76 HOH HOH . C 3 HOH A 61 661 12 HOH HOH . C 3 HOH A 62 662 46 HOH HOH . C 3 HOH A 63 663 77 HOH HOH . C 3 HOH A 64 664 60 HOH HOH . C 3 HOH A 65 665 83 HOH HOH . C 3 HOH A 66 666 61 HOH HOH . C 3 HOH A 67 667 91 HOH HOH . C 3 HOH A 68 668 1 HOH HOH . C 3 HOH A 69 669 82 HOH HOH . C 3 HOH A 70 670 7 HOH HOH . C 3 HOH A 71 671 53 HOH HOH . C 3 HOH A 72 672 92 HOH HOH . C 3 HOH A 73 673 21 HOH HOH . C 3 HOH A 74 674 48 HOH HOH . C 3 HOH A 75 675 93 HOH HOH . C 3 HOH A 76 676 33 HOH HOH . C 3 HOH A 77 677 95 HOH HOH . C 3 HOH A 78 678 31 HOH HOH . C 3 HOH A 79 679 89 HOH HOH . C 3 HOH A 80 680 94 HOH HOH . C 3 HOH A 81 681 35 HOH HOH . C 3 HOH A 82 682 98 HOH HOH . C 3 HOH A 83 683 24 HOH HOH . C 3 HOH A 84 684 65 HOH HOH . C 3 HOH A 85 685 54 HOH HOH . C 3 HOH A 86 686 20 HOH HOH . C 3 HOH A 87 687 100 HOH HOH . C 3 HOH A 88 688 62 HOH HOH . C 3 HOH A 89 689 18 HOH HOH . C 3 HOH A 90 690 64 HOH HOH . C 3 HOH A 91 691 38 HOH HOH . C 3 HOH A 92 692 49 HOH HOH . C 3 HOH A 93 693 69 HOH HOH . C 3 HOH A 94 694 22 HOH HOH . C 3 HOH A 95 695 26 HOH HOH . C 3 HOH A 96 696 78 HOH HOH . C 3 HOH A 97 697 28 HOH HOH . C 3 HOH A 98 698 72 HOH HOH . C 3 HOH A 99 699 32 HOH HOH . C 3 HOH A 100 700 8 HOH HOH . C 3 HOH A 101 701 13 HOH HOH . C 3 HOH A 102 702 104 HOH HOH . C 3 HOH A 103 703 4 HOH HOH . C 3 HOH A 104 704 96 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 . . . B 2 48.433 -3.564 7.977 0.7 47.93 ? PA NAP 500 A 1 HETATM 2 O O1A NAP . . . B 2 49.819 -3.679 7.445 0.7 50.61 ? O1A NAP 500 A 1 HETATM 3 O O2A NAP . . . B 2 47.679 -4.911 7.942 0.7 33.94 ? O2A NAP 500 A 1 HETATM 4 O O5B NAP . . . B 2 47.531 -2.566 7.129 0.7 48.97 ? O5B NAP 500 A 1 HETATM 5 C C5B NAP . . . B 2 48.038 -1.25 6.876 0.7 48.17 ? C5B NAP 500 A 1 HETATM 6 C C4B NAP . . . B 2 47.057 -0.606 5.94 0.7 47.87 ? C4B NAP 500 A 1 HETATM 7 O O4B NAP . . . B 2 47.43 0.773 5.748 0.7 49.22 ? O4B NAP 500 A 1 HETATM 8 C C3B NAP . . . B 2 46.986 -1.233 4.544 0.7 45.11 ? C3B NAP 500 A 1 HETATM 9 O O3B NAP . . . B 2 45.674 -1.7 4.261 0.7 39.06 ? O3B NAP 500 A 1 HETATM 10 C C2B NAP . . . B 2 47.28 -0.086 3.585 0.7 49.04 ? C2B NAP 500 A 1 HETATM 11 O O2B NAP . . . B 2 46.41 -0.132 2.436 0.7 55.19 ? O2B NAP 500 A 1 HETATM 12 C C1B NAP . . . B 2 47.036 1.144 4.447 0.7 52.89 ? C1B NAP 500 A 1 HETATM 13 N N9A NAP . . . B 2 47.815 2.294 4.029 0.7 52.65 ? N9A NAP 500 A 1 HETATM 14 C C8A NAP . . . B 2 49.155 2.521 4.204 0.7 51.14 ? C8A NAP 500 A 1 HETATM 15 N N7A NAP . . . B 2 49.6 3.589 3.589 0.7 50.64 ? N7A NAP 500 A 1 HETATM 16 C C5A NAP . . . B 2 48.472 4.102 2.967 0.7 52.16 ? C5A NAP 500 A 1 HETATM 17 C C6A NAP . . . B 2 48.283 5.188 2.097 0.7 52.93 ? C6A NAP 500 A 1 HETATM 18 N N6A NAP . . . B 2 49.267 5.985 1.697 0.7 51.12 ? N6A NAP 500 A 1 HETATM 19 N N1A NAP . . . B 2 47.037 5.401 1.613 0.7 48.52 ? N1A NAP 500 A 1 HETATM 20 C C2A NAP . . . B 2 46.055 4.571 1.983 0.7 46.9 ? C2A NAP 500 A 1 HETATM 21 N N3A NAP . . . B 2 46.116 3.51 2.79 0.7 56.49 ? N3A NAP 500 A 1 HETATM 22 C C4A NAP . . . B 2 47.361 3.323 3.245 0.7 51.87 ? C4A NAP 500 A 1 HETATM 23 O O3 NAP . . . B 2 48.488 -2.888 9.423 0.7 45.33 ? O3 NAP 500 A 1 HETATM 24 P PN NAP . . . B 2 47.49 -2.827 10.673 0.7 42.15 ? PN NAP 500 A 1 HETATM 25 O O1N NAP . . . B 2 47.892 -3.887 11.62 0.7 34.59 ? O1N NAP 500 A 1 HETATM 26 O O2N NAP . . . B 2 46.105 -2.804 10.137 0.7 31.43 ? O2N NAP 500 A 1 HETATM 27 O O5D NAP . . . B 2 47.876 -1.446 11.375 0.7 41.06 ? O5D NAP 500 A 1 HETATM 28 C C5D NAP . . . B 2 49.241 -1.161 11.75 0.7 41.49 ? C5D NAP 500 A 1 HETATM 29 C C4D NAP . . . B 2 49.328 0.244 12.287 0.7 44.72 ? C4D NAP 500 A 1 HETATM 30 O O4D NAP . . . B 2 48.965 0.245 13.681 0.7 43.71 ? O4D NAP 500 A 1 HETATM 31 C C3D NAP . . . B 2 50.714 0.876 12.247 0.7 43.85 ? C3D NAP 500 A 1 HETATM 32 O O3D NAP . . . B 2 50.981 1.468 10.98 0.7 44.85 ? O3D NAP 500 A 1 HETATM 33 C C2D NAP . . . B 2 50.641 1.913 13.37 0.7 41.69 ? C2D NAP 500 A 1 HETATM 34 O O2D NAP . . . B 2 50.181 3.177 12.901 0.7 44.82 ? O2D NAP 500 A 1 HETATM 35 C C1D NAP . . . B 2 49.622 1.297 14.342 0.7 43.2 ? C1D NAP 500 A 1 HETATM 36 N N1N NAP . . . B 2 50.254 0.738 15.65 0.7 45.06 ? N1N NAP 500 A 1 HETATM 37 C C2N NAP . . . B 2 51.059 -0.336 15.546 0.7 43.47 ? C2N NAP 500 A 1 HETATM 38 C C3N NAP . . . B 2 51.605 -0.909 16.681 0.7 42.79 ? C3N NAP 500 A 1 HETATM 39 C C7N NAP . . . B 2 52.512 -2.119 16.646 0.7 42.16 ? C7N NAP 500 A 1 HETATM 40 O O7N NAP . . . B 2 52.825 -2.674 17.707 0.7 36.6 ? O7N NAP 500 A 1 HETATM 41 N N7N NAP . . . B 2 52.889 -2.599 15.459 0.7 42.89 ? N7N NAP 500 A 1 HETATM 42 C C4N NAP . . . B 2 51.325 -0.332 17.917 0.7 37.02 ? C4N NAP 500 A 1 HETATM 43 C C5N NAP . . . B 2 50.514 0.782 17.991 0.7 42.25 ? C5N NAP 500 A 1 HETATM 44 C C6N NAP . . . B 2 49.973 1.303 16.841 0.7 40.71 ? C6N NAP 500 A 1 HETATM 45 P P2B NAP . . . B 2 46.67 -1.133 1.196 0.7 56.28 ? P2B NAP 500 A 1 HETATM 46 O O1X NAP . . . B 2 48.06 -0.939 0.728 0.7 58.34 ? O1X NAP 500 A 1 HETATM 47 O O2X NAP . . . B 2 46.395 -2.554 1.721 0.7 57.2 ? O2X NAP 500 A 1 HETATM 48 O O3X NAP . . . B 2 45.622 -0.787 0.11 0.7 60.22 ? O3X NAP 500 A 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 259 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 48 #