data_1EDO # _model_server_result.job_id GsVr7cmnfq5Ay8ePyix6AQ _model_server_result.datetime_utc '2024-10-13 07:24:02' _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 1edo # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":301}' # _entry.id 1EDO # _exptl.entry_id 1EDO _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 120 _cell.entry_id 1EDO _cell.length_a 129.28 _cell.length_b 129.28 _cell.length_c 92.64 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1EDO _symmetry.cell_setting ? _symmetry.Int_Tables_number 181 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 64 2 2' # _pdbx_struct_assembly.method_details PISA,PQS _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 _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' 4_565 -x,-y+1,z -1 0 0 0 -1 0 0 0 1 -64.64 111.959764 0 3 'crystal symmetry operation' 9_555 -x,-x+y,-z+2/3 -0.5 -0.866025 0 -0.866025 0.5 0 0 0 -1 0 0 61.76 4 'crystal symmetry operation' 12_565 x,x-y+1,-z+2/3 0.5 0.866025 0 0.866025 -0.5 0 0 0 -1 -64.64 111.959764 61.76 # _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 # _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 216 n n PA O2A NAP sing 217 n n PA O5B NAP sing 218 n n PA O3 NAP sing 219 n n O2A HOA2 NAP sing 220 n n O5B C5B NAP sing 221 n n C5B C4B NAP sing 222 n n C5B H51A NAP sing 223 n n C5B H52A NAP sing 224 n n C4B O4B NAP sing 225 n n C4B C3B NAP sing 226 n n C4B H4B NAP sing 227 n n O4B C1B NAP sing 228 n n C3B O3B NAP sing 229 n n C3B C2B NAP sing 230 n n C3B H3B NAP sing 231 n n O3B HO3A NAP sing 232 n n C2B O2B NAP sing 233 n n C2B C1B NAP sing 234 n n C2B H2B NAP sing 235 n n O2B P2B NAP sing 236 n n C1B N9A NAP sing 237 n n C1B H1B NAP sing 238 n n N9A C8A NAP sing 239 n y N9A C4A NAP sing 240 n y C8A N7A NAP doub 241 n y C8A H8A NAP sing 242 n n N7A C5A NAP sing 243 n y C5A C6A NAP sing 244 n y C5A C4A NAP doub 245 n y C6A N6A NAP sing 246 n n C6A N1A NAP doub 247 n y N6A H61A NAP sing 248 n n N6A H62A NAP sing 249 n n N1A C2A NAP sing 250 n y C2A N3A NAP doub 251 n y C2A H2A NAP sing 252 n n N3A C4A NAP sing 253 n y O3 PN NAP sing 254 n n PN O1N NAP doub 255 n n PN O2N NAP sing 256 n n PN O5D NAP sing 257 n n O5D C5D NAP sing 258 n n C5D C4D NAP sing 259 n n C5D H51N NAP sing 260 n n C5D H52N NAP sing 261 n n C4D O4D NAP sing 262 n n C4D C3D NAP sing 263 n n C4D H4D NAP sing 264 n n O4D C1D NAP sing 265 n n C3D O3D NAP sing 266 n n C3D C2D NAP sing 267 n n C3D H3D NAP sing 268 n n O3D HO3N NAP sing 269 n n C2D O2D NAP sing 270 n n C2D C1D NAP sing 271 n n C2D H2D NAP sing 272 n n O2D HO2N NAP sing 273 n n C1D N1N NAP sing 274 n n C1D H1D NAP sing 275 n n N1N C2N NAP sing 276 n y N1N C6N NAP doub 277 n y C2N C3N NAP doub 278 n y C2N H2N NAP sing 279 n n C3N C7N NAP sing 280 n n C3N C4N NAP sing 281 n y C7N O7N NAP doub 282 n n C7N N7N NAP sing 283 n n N7N H71N NAP sing 284 n n N7N H72N NAP sing 285 n n C4N C5N NAP doub 286 n y C4N H4N NAP sing 287 n n C5N C6N NAP sing 288 n y C5N H5N NAP sing 289 n n C6N H6N NAP sing 290 n n P2B O1X NAP doub 291 n n P2B O2X NAP sing 292 n n P2B O3X NAP sing 293 n n O2X HOP2 NAP sing 294 n n O3X HOP3 NAP sing 295 n n # _atom_sites.entry_id 1EDO _atom_sites.fract_transf_matrix[1][1] 0.00773 _atom_sites.fract_transf_matrix[1][2] 0.00447 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.00893 _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] 0.01079 _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 1 301 301 NAP NAP . C 3 HOH A 1 501 501 HOH HOH . C 3 HOH A 2 502 502 HOH HOH . C 3 HOH A 3 503 503 HOH HOH . C 3 HOH A 4 504 504 HOH HOH . C 3 HOH A 5 505 505 HOH HOH . C 3 HOH A 6 506 506 HOH HOH . C 3 HOH A 7 507 507 HOH HOH . C 3 HOH A 8 508 508 HOH HOH . C 3 HOH A 9 509 509 HOH HOH . C 3 HOH A 10 510 510 HOH HOH . C 3 HOH A 11 511 512 HOH HOH . C 3 HOH A 12 512 513 HOH HOH . C 3 HOH A 13 513 515 HOH HOH . C 3 HOH A 14 514 516 HOH HOH . C 3 HOH A 15 515 517 HOH HOH . C 3 HOH A 16 516 518 HOH HOH . C 3 HOH A 17 517 519 HOH HOH . C 3 HOH A 18 518 520 HOH HOH . C 3 HOH A 19 519 521 HOH HOH . C 3 HOH A 20 520 522 HOH HOH . C 3 HOH A 21 521 523 HOH HOH . C 3 HOH A 22 522 524 HOH HOH . C 3 HOH A 23 523 526 HOH HOH . C 3 HOH A 24 524 527 HOH HOH . C 3 HOH A 25 525 528 HOH HOH . C 3 HOH A 26 526 529 HOH HOH . C 3 HOH A 27 527 530 HOH HOH . C 3 HOH A 28 528 531 HOH HOH . C 3 HOH A 29 529 532 HOH HOH . C 3 HOH A 30 530 533 HOH HOH . C 3 HOH A 31 531 534 HOH HOH . C 3 HOH A 32 532 535 HOH HOH . C 3 HOH A 33 533 536 HOH HOH . C 3 HOH A 34 534 537 HOH HOH . C 3 HOH A 35 535 538 HOH HOH . C 3 HOH A 36 536 539 HOH HOH . C 3 HOH A 37 537 540 HOH HOH . C 3 HOH A 38 538 541 HOH HOH . C 3 HOH A 39 539 542 HOH HOH . C 3 HOH A 40 540 543 HOH HOH . C 3 HOH A 41 541 544 HOH HOH . C 3 HOH A 42 542 545 HOH HOH . C 3 HOH A 43 543 546 HOH HOH . C 3 HOH A 44 544 547 HOH HOH . C 3 HOH A 45 545 548 HOH HOH . C 3 HOH A 46 546 549 HOH HOH . C 3 HOH A 47 547 550 HOH HOH . C 3 HOH A 48 548 551 HOH HOH . C 3 HOH A 49 549 552 HOH HOH . C 3 HOH A 50 550 554 HOH HOH . C 3 HOH A 51 551 555 HOH HOH . C 3 HOH A 52 552 556 HOH HOH . C 3 HOH A 53 553 558 HOH HOH . C 3 HOH A 54 554 559 HOH HOH . C 3 HOH A 55 555 560 HOH HOH . C 3 HOH A 56 556 561 HOH HOH . C 3 HOH A 57 557 562 HOH HOH . C 3 HOH A 58 558 563 HOH HOH . C 3 HOH A 59 559 565 HOH HOH . C 3 HOH A 60 560 566 HOH HOH . C 3 HOH A 61 561 567 HOH HOH . C 3 HOH A 62 562 568 HOH HOH . C 3 HOH A 63 563 570 HOH HOH . C 3 HOH A 64 564 571 HOH HOH . C 3 HOH A 65 565 573 HOH HOH . C 3 HOH A 66 566 574 HOH HOH . C 3 HOH A 67 567 575 HOH HOH . C 3 HOH A 68 568 577 HOH HOH . C 3 HOH A 69 569 578 HOH HOH . C 3 HOH A 70 570 580 HOH HOH . C 3 HOH A 71 571 581 HOH HOH . C 3 HOH A 72 572 582 HOH HOH . C 3 HOH A 73 573 583 HOH HOH . C 3 HOH A 74 574 584 HOH HOH . C 3 HOH A 75 575 585 HOH HOH . C 3 HOH A 76 576 586 HOH HOH . C 3 HOH A 77 577 587 HOH HOH . C 3 HOH A 78 578 588 HOH HOH . C 3 HOH A 79 579 589 HOH HOH . C 3 HOH A 80 580 590 HOH HOH . C 3 HOH A 81 581 591 HOH HOH . C 3 HOH A 82 582 592 HOH HOH . C 3 HOH A 83 583 593 HOH HOH . C 3 HOH A 84 584 594 HOH HOH . C 3 HOH A 85 585 595 HOH HOH . C 3 HOH A 86 586 597 HOH HOH . C 3 HOH A 87 587 598 HOH HOH . C 3 HOH A 88 588 599 HOH HOH . C 3 HOH A 89 589 500 HOH HOH . C 3 HOH A 90 590 501 HOH HOH . C 3 HOH A 91 591 502 HOH HOH . C 3 HOH A 92 592 503 HOH HOH . C 3 HOH A 93 593 507 HOH HOH . C 3 HOH A 94 594 509 HOH HOH . C 3 HOH A 95 595 510 HOH HOH . C 3 HOH A 96 596 512 HOH HOH . C 3 HOH A 97 597 513 HOH HOH . C 3 HOH A 98 598 515 HOH HOH . C 3 HOH A 99 599 517 HOH HOH . C 3 HOH A 100 600 519 HOH HOH . C 3 HOH A 101 601 520 HOH HOH . C 3 HOH A 102 602 521 HOH HOH . C 3 HOH A 103 603 522 HOH HOH . C 3 HOH A 104 604 526 HOH HOH . C 3 HOH A 105 605 527 HOH HOH . C 3 HOH A 106 606 531 HOH HOH . C 3 HOH A 107 607 532 HOH HOH . C 3 HOH A 108 608 534 HOH HOH . C 3 HOH A 109 609 535 HOH HOH . C 3 HOH A 110 610 536 HOH HOH . C 3 HOH A 111 611 537 HOH HOH . C 3 HOH A 112 612 541 HOH HOH . C 3 HOH A 113 613 545 HOH HOH . C 3 HOH A 114 614 547 HOH HOH . C 3 HOH A 115 615 550 HOH HOH . C 3 HOH A 116 616 553 HOH HOH . C 3 HOH A 117 617 554 HOH HOH . C 3 HOH A 118 618 560 HOH HOH . C 3 HOH A 119 619 570 HOH HOH . C 3 HOH A 120 620 572 HOH HOH . C 3 HOH A 121 621 573 HOH HOH . C 3 HOH A 122 622 576 HOH HOH . C 3 HOH A 123 623 577 HOH HOH . C 3 HOH A 124 624 578 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 -40.664 32.401 18.689 1 27.98 ? PA NAP 301 A 1 HETATM 2 O O1A NAP . . . B 2 -41.959 32.777 18.025 1 32.07 ? O1A NAP 301 A 1 HETATM 3 O O2A NAP . . . B 2 -39.641 31.767 17.818 1 24.47 ? O2A NAP 301 A 1 HETATM 4 O O5B NAP . . . B 2 -40.909 31.513 19.976 1 22.49 ? O5B NAP 301 A 1 HETATM 5 C C5B NAP . . . B 2 -41.928 31.878 21.031 1 37.12 ? C5B NAP 301 A 1 HETATM 6 C C4B NAP . . . B 2 -42.067 30.782 21.983 1 26.02 ? C4B NAP 301 A 1 HETATM 7 O O4B NAP . . . B 2 -43.149 31.032 22.949 1 37.09 ? O4B NAP 301 A 1 HETATM 8 C C3B NAP . . . B 2 -42.43 29.364 21.416 1 29.08 ? C3B NAP 301 A 1 HETATM 9 O O3B NAP . . . B 2 -41.432 28.38 21.94 1 29.3 ? O3B NAP 301 A 1 HETATM 10 C C2B NAP . . . B 2 -43.813 29.019 21.906 1 30.81 ? C2B NAP 301 A 1 HETATM 11 O O2B NAP . . . B 2 -44.032 27.706 22.091 1 50.26 ? O2B NAP 301 A 1 HETATM 12 C C1B NAP . . . B 2 -43.775 29.848 23.215 1 43.38 ? C1B NAP 301 A 1 HETATM 13 N N9A NAP . . . B 2 -45.072 30.245 23.602 1 26.57 ? N9A NAP 301 A 1 HETATM 14 C C8A NAP . . . B 2 -46 30.994 22.92 1 18.2 ? C8A NAP 301 A 1 HETATM 15 N N7A NAP . . . B 2 -47.113 31.203 23.588 1 29.81 ? N7A NAP 301 A 1 HETATM 16 C C5A NAP . . . B 2 -46.964 30.583 24.793 1 18.33 ? C5A NAP 301 A 1 HETATM 17 C C6A NAP . . . B 2 -47.875 30.484 25.903 1 25.16 ? C6A NAP 301 A 1 HETATM 18 N N6A NAP . . . B 2 -49.074 31.032 25.95 1 32.89 ? N6A NAP 301 A 1 HETATM 19 N N1A NAP . . . B 2 -47.36 29.795 26.946 1 30.84 ? N1A NAP 301 A 1 HETATM 20 C C2A NAP . . . B 2 -46.19 29.206 26.99 1 32.05 ? C2A NAP 301 A 1 HETATM 21 N N3A NAP . . . B 2 -45.286 29.258 25.94 1 25.73 ? N3A NAP 301 A 1 HETATM 22 C C4A NAP . . . B 2 -45.709 29.979 24.836 1 23.65 ? C4A NAP 301 A 1 HETATM 23 O O3 NAP . . . B 2 -40.086 33.718 19.344 1 37.27 ? O3 NAP 301 A 1 HETATM 24 P PN NAP . . . B 2 -38.607 34.264 19.766 1 32.41 ? PN NAP 301 A 1 HETATM 25 O O1N NAP . . . B 2 -38.168 35.095 18.714 1 28.67 ? O1N NAP 301 A 1 HETATM 26 O O2N NAP . . . B 2 -37.842 33.163 20.316 1 29.88 ? O2N NAP 301 A 1 HETATM 27 O O5D NAP . . . B 2 -38.301 35.099 21.057 1 24.47 ? O5D NAP 301 A 1 HETATM 28 C C5D NAP . . . B 2 -38.721 34.595 22.373 1 22.06 ? C5D NAP 301 A 1 HETATM 29 C C4D NAP . . . B 2 -38.87 35.659 23.345 1 27.72 ? C4D NAP 301 A 1 HETATM 30 O O4D NAP . . . B 2 -37.891 36.692 22.825 1 26.39 ? O4D NAP 301 A 1 HETATM 31 C C3D NAP . . . B 2 -40.221 36.548 23.314 1 25.09 ? C3D NAP 301 A 1 HETATM 32 O O3D NAP . . . B 2 -40.435 37.013 24.619 1 28.47 ? O3D NAP 301 A 1 HETATM 33 C C2D NAP . . . B 2 -39.966 37.667 22.319 1 28.6 ? C2D NAP 301 A 1 HETATM 34 O O2D NAP . . . B 2 -40.706 38.727 22.628 1 24.64 ? O2D NAP 301 A 1 HETATM 35 C C1D NAP . . . B 2 -38.523 37.925 22.711 1 17.89 ? C1D NAP 301 A 1 HETATM 36 N N1N NAP . . . B 2 -37.737 38.778 21.714 1 21.42 ? N1N NAP 301 A 1 HETATM 37 C C2N NAP . . . B 2 -37.513 38.32 20.423 1 27.69 ? C2N NAP 301 A 1 HETATM 38 C C3N NAP . . . B 2 -36.862 39.227 19.616 1 22.12 ? C3N NAP 301 A 1 HETATM 39 C C7N NAP . . . B 2 -36.642 38.657 18.183 1 24.51 ? C7N NAP 301 A 1 HETATM 40 O O7N NAP . . . B 2 -36.107 39.403 17.414 1 28.57 ? O7N NAP 301 A 1 HETATM 41 N N7N NAP . . . B 2 -37.065 37.4 17.894 1 28.05 ? N7N NAP 301 A 1 HETATM 42 C C4N NAP . . . B 2 -36.428 40.491 19.941 1 21.26 ? C4N NAP 301 A 1 HETATM 43 C C5N NAP . . . B 2 -36.701 40.827 21.315 1 17.23 ? C5N NAP 301 A 1 HETATM 44 C C6N NAP . . . B 2 -37.36 39.99 22.184 1 26.02 ? C6N NAP 301 A 1 HETATM 45 P P2B NAP . . . B 2 -44.902 26.697 21.334 1 34.59 ? P2B NAP 301 A 1 HETATM 46 O O1X NAP . . . B 2 -44.656 26.844 19.875 1 23.14 ? O1X NAP 301 A 1 HETATM 47 O O2X NAP . . . B 2 -44.56 25.321 21.839 1 43.57 ? O2X NAP 301 A 1 HETATM 48 O O3X NAP . . . B 2 -46.296 27.006 21.584 1 48.09 ? O3X NAP 301 A 1 # _model_server_stats.io_time_ms 69 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 24 _model_server_stats.query_time_ms 265 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 48 #