data_6ADG # _model_server_result.job_id 7zSOtIIzTj406Gdzl8d3bw _model_server_result.datetime_utc '2024-12-15 07:49:17' _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 6adg # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":501}' # _entry.id 6ADG # _exptl.entry_id 6ADG _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 745.421 _entity.id 2 _entity.src_method man _entity.type non-polymer _entity.pdbx_description 'NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE' _entity.pdbx_number_of_molecules 2 _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 6ADG _cell.length_a 87.965 _cell.length_b 197.253 _cell.length_c 85.828 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6ADG _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 2' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA dimeric 2 author_and_software_defined_assembly 1 PISA dimeric 2 author_and_software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,D,E,F,G,H,J,K 1 1 C,I,L 2 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_365 -x-2,-y+1,z -1 0 0 0 -1 0 0 0 1 -175.93 197.253 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 D N N ? 2 H N 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 metalc ? metalc1 A O LYS 321 A LYS 321 1_555 F MG MG . A MG 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.715 ? metalc ? metalc2 E MG MG . A MG 502 4_455 B O LYS 321 B LYS 321 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.708 ? # _chem_comp.formula 'C21 H30 N7 O17 P3' _chem_comp.formula_weight 745.421 _chem_comp.id NDP _chem_comp.mon_nstd_flag . _chem_comp.name 'NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE' _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 PA O1A NDP doub 278 n n PA O2A NDP sing 279 n n PA O5B NDP sing 280 n n PA O3 NDP sing 281 n n O2A HOA2 NDP sing 282 n n O5B C5B NDP sing 283 n n C5B C4B NDP sing 284 n n C5B H51A NDP sing 285 n n C5B H52A NDP sing 286 n n C4B O4B NDP sing 287 n n C4B C3B NDP sing 288 n n C4B H4B NDP sing 289 n n O4B C1B NDP sing 290 n n C3B O3B NDP sing 291 n n C3B C2B NDP sing 292 n n C3B H3B NDP sing 293 n n O3B HO3A NDP sing 294 n n C2B O2B NDP sing 295 n n C2B C1B NDP sing 296 n n C2B H2B NDP sing 297 n n O2B P2B NDP sing 298 n n C1B N9A NDP sing 299 n n C1B H1B NDP sing 300 n n N9A C8A NDP sing 301 n y N9A C4A NDP sing 302 n y C8A N7A NDP doub 303 n y C8A H8A NDP sing 304 n n N7A C5A NDP sing 305 n y C5A C6A NDP sing 306 n y C5A C4A NDP doub 307 n y C6A N6A NDP sing 308 n n C6A N1A NDP doub 309 n y N6A H61A NDP sing 310 n n N6A H62A NDP sing 311 n n N1A C2A NDP sing 312 n y C2A N3A NDP doub 313 n y C2A H2A NDP sing 314 n n N3A C4A NDP sing 315 n y O3 PN NDP sing 316 n n PN O1N NDP doub 317 n n PN O2N NDP sing 318 n n PN O5D NDP sing 319 n n O2N H21N NDP sing 320 n n O5D C5D NDP sing 321 n n C5D C4D NDP sing 322 n n C5D H51N NDP sing 323 n n C5D H52N NDP sing 324 n n C4D O4D NDP sing 325 n n C4D C3D NDP sing 326 n n C4D H4D NDP sing 327 n n O4D C1D NDP sing 328 n n C3D O3D NDP sing 329 n n C3D C2D NDP sing 330 n n C3D H3D NDP sing 331 n n O3D HO3N NDP sing 332 n n C2D O2D NDP sing 333 n n C2D C1D NDP sing 334 n n C2D H2D NDP sing 335 n n O2D HO2N NDP sing 336 n n C1D N1N NDP sing 337 n n C1D H1D NDP sing 338 n n N1N C2N NDP sing 339 n n N1N C6N NDP sing 340 n n C2N C3N NDP doub 341 n n C2N H2N NDP sing 342 n n C3N C7N NDP sing 343 n n C3N C4N NDP sing 344 n n C7N O7N NDP doub 345 n n C7N N7N NDP sing 346 n n N7N H71N NDP sing 347 n n N7N H72N NDP sing 348 n n C4N C5N NDP sing 349 n n C4N H41N NDP sing 350 n n C4N H42N NDP sing 351 n n C5N C6N NDP doub 352 n n C5N H5N NDP sing 353 n n C6N H6N NDP sing 354 n n P2B O1X NDP doub 355 n n P2B O2X NDP sing 356 n n P2B O3X NDP sing 357 n n O2X HOP2 NDP sing 358 n n O3X HOP3 NDP sing 359 n n # _atom_sites.entry_id 6ADG _atom_sites.fract_transf_matrix[1][1] 0.011368 _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] 0.00507 _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] 0.011651 _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 D 2 NDP A 1 501 501 NDP NDP . E 3 MG A 1 502 1 MG MG . F 3 MG A 1 503 1 MG MG . G 4 9UO A 1 504 1 9UO LIG . H 2 NDP B 1 501 501 NDP NDP . I 4 9UO C 1 501 1 9UO LIG . J 5 HOH A 1 601 21 HOH HOH . J 5 HOH A 2 602 9 HOH HOH . J 5 HOH A 3 603 6 HOH HOH . J 5 HOH A 4 604 28 HOH HOH . J 5 HOH A 5 605 58 HOH HOH . J 5 HOH A 6 606 36 HOH HOH . J 5 HOH A 7 607 52 HOH HOH . J 5 HOH A 8 608 1 HOH HOH . J 5 HOH A 9 609 43 HOH HOH . J 5 HOH A 10 610 44 HOH HOH . J 5 HOH A 11 611 13 HOH HOH . J 5 HOH A 12 612 40 HOH HOH . J 5 HOH A 13 613 12 HOH HOH . J 5 HOH A 14 614 11 HOH HOH . J 5 HOH A 15 615 37 HOH HOH . J 5 HOH A 16 616 27 HOH HOH . J 5 HOH A 17 617 30 HOH HOH . J 5 HOH A 18 618 57 HOH HOH . J 5 HOH A 19 619 7 HOH HOH . J 5 HOH A 20 620 50 HOH HOH . J 5 HOH A 21 621 48 HOH HOH . J 5 HOH A 22 622 35 HOH HOH . J 5 HOH A 23 623 53 HOH HOH . J 5 HOH A 24 624 56 HOH HOH . J 5 HOH A 25 625 47 HOH HOH . J 5 HOH A 26 626 25 HOH HOH . J 5 HOH A 27 627 24 HOH HOH . J 5 HOH A 28 628 45 HOH HOH . J 5 HOH A 29 629 26 HOH HOH . J 5 HOH A 30 630 55 HOH HOH . J 5 HOH A 31 631 39 HOH HOH . J 5 HOH A 32 632 22 HOH HOH . J 5 HOH A 33 633 29 HOH HOH . J 5 HOH A 34 634 42 HOH HOH . J 5 HOH A 35 635 10 HOH HOH . J 5 HOH A 36 636 2 HOH HOH . J 5 HOH A 37 637 14 HOH HOH . J 5 HOH A 38 638 16 HOH HOH . J 5 HOH A 39 639 5 HOH HOH . J 5 HOH A 40 640 23 HOH HOH . J 5 HOH A 41 641 51 HOH HOH . J 5 HOH A 42 642 8 HOH HOH . J 5 HOH A 43 643 17 HOH HOH . J 5 HOH A 44 644 15 HOH HOH . J 5 HOH A 45 645 49 HOH HOH . J 5 HOH A 46 646 59 HOH HOH . J 5 HOH A 47 647 46 HOH HOH . J 5 HOH A 48 648 41 HOH HOH . J 5 HOH A 49 649 19 HOH HOH . J 5 HOH A 50 650 34 HOH HOH . J 5 HOH A 51 651 3 HOH HOH . J 5 HOH A 52 652 4 HOH HOH . J 5 HOH A 53 653 33 HOH HOH . J 5 HOH A 54 654 54 HOH HOH . J 5 HOH A 55 655 18 HOH HOH . K 5 HOH B 1 601 31 HOH HOH . K 5 HOH B 2 602 123 HOH HOH . K 5 HOH B 3 603 65 HOH HOH . K 5 HOH B 4 604 80 HOH HOH . K 5 HOH B 5 605 83 HOH HOH . K 5 HOH B 6 606 74 HOH HOH . K 5 HOH B 7 607 20 HOH HOH . K 5 HOH B 8 608 121 HOH HOH . K 5 HOH B 9 609 84 HOH HOH . K 5 HOH B 10 610 68 HOH HOH . K 5 HOH B 11 611 69 HOH HOH . K 5 HOH B 12 612 124 HOH HOH . K 5 HOH B 13 613 70 HOH HOH . K 5 HOH B 14 614 38 HOH HOH . K 5 HOH B 15 615 87 HOH HOH . K 5 HOH B 16 616 32 HOH HOH . K 5 HOH B 17 617 60 HOH HOH . K 5 HOH B 18 618 82 HOH HOH . K 5 HOH B 19 619 75 HOH HOH . K 5 HOH B 20 620 78 HOH HOH . K 5 HOH B 21 621 67 HOH HOH . K 5 HOH B 22 622 85 HOH HOH . K 5 HOH B 23 623 81 HOH HOH . K 5 HOH B 24 624 77 HOH HOH . K 5 HOH B 25 625 64 HOH HOH . K 5 HOH B 26 626 63 HOH HOH . K 5 HOH B 27 627 61 HOH HOH . K 5 HOH B 28 628 72 HOH HOH . K 5 HOH B 29 629 73 HOH HOH . K 5 HOH B 30 630 66 HOH HOH . K 5 HOH B 31 631 79 HOH HOH . K 5 HOH B 32 632 71 HOH HOH . K 5 HOH B 33 633 62 HOH HOH . K 5 HOH B 34 634 122 HOH HOH . L 5 HOH C 1 601 97 HOH HOH . L 5 HOH C 2 602 103 HOH HOH . L 5 HOH C 3 603 95 HOH HOH . L 5 HOH C 4 604 107 HOH HOH . L 5 HOH C 5 605 110 HOH HOH . L 5 HOH C 6 606 91 HOH HOH . L 5 HOH C 7 607 96 HOH HOH . L 5 HOH C 8 608 106 HOH HOH . L 5 HOH C 9 609 104 HOH HOH . L 5 HOH C 10 610 109 HOH HOH . L 5 HOH C 11 611 90 HOH HOH . L 5 HOH C 12 612 115 HOH HOH . L 5 HOH C 13 613 102 HOH HOH . L 5 HOH C 14 614 117 HOH HOH . L 5 HOH C 15 615 101 HOH HOH . L 5 HOH C 16 616 92 HOH HOH . L 5 HOH C 17 617 94 HOH HOH . L 5 HOH C 18 618 116 HOH HOH . L 5 HOH C 19 619 111 HOH HOH . L 5 HOH C 20 620 93 HOH HOH . L 5 HOH C 21 621 118 HOH HOH . L 5 HOH C 22 622 86 HOH HOH . L 5 HOH C 23 623 113 HOH HOH . L 5 HOH C 24 624 76 HOH HOH . L 5 HOH C 25 625 112 HOH HOH . L 5 HOH C 26 626 120 HOH HOH . L 5 HOH C 27 627 119 HOH HOH . L 5 HOH C 28 628 99 HOH HOH . L 5 HOH C 29 629 105 HOH HOH . L 5 HOH C 30 630 100 HOH HOH . L 5 HOH C 31 631 114 HOH HOH . L 5 HOH C 32 632 98 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 NDP . . . H 2 -79.106 40.282 -13.814 1 26.27 ? PA NDP 501 B 1 HETATM 2 O O1A NDP . . . H 2 -78.763 40.05 -15.244 1 30.7 ? O1A NDP 501 B 1 HETATM 3 O O2A NDP . . . H 2 -80.528 40.31 -13.377 1 27.76 ? O2A NDP 501 B 1 HETATM 4 O O5B NDP . . . H 2 -78.447 41.654 -13.394 1 26.58 ? O5B NDP 501 B 1 HETATM 5 C C5B NDP . . . H 2 -77.603 41.668 -12.261 1 24.34 ? C5B NDP 501 B 1 HETATM 6 C C4B NDP . . . H 2 -77.101 43.073 -12.011 1 31.59 ? C4B NDP 501 B 1 HETATM 7 O O4B NDP . . . H 2 -76.737 43.672 -13.245 1 31.75 ? O4B NDP 501 B 1 HETATM 8 C C3B NDP . . . H 2 -78.165 43.967 -11.414 1 34.25 ? C3B NDP 501 B 1 HETATM 9 O O3B NDP . . . H 2 -78.078 43.992 -9.995 1 32.36 ? O3B NDP 501 B 1 HETATM 10 C C2B NDP . . . H 2 -77.805 45.317 -11.956 1 31.9 ? C2B NDP 501 B 1 HETATM 11 O O2B NDP . . . H 2 -76.753 45.83 -11.161 1 41.08 ? O2B NDP 501 B 1 HETATM 12 C C1B NDP . . . H 2 -77.216 45.007 -13.312 1 29.07 ? C1B NDP 501 B 1 HETATM 13 N N9A NDP . . . H 2 -78.276 45.082 -14.333 1 28.26 ? N9A NDP 501 B 1 HETATM 14 C C8A NDP . . . H 2 -78.713 44.073 -15.093 1 28.2 ? C8A NDP 501 B 1 HETATM 15 N N7A NDP . . . H 2 -79.692 44.477 -15.924 1 28.04 ? N7A NDP 501 B 1 HETATM 16 C C5A NDP . . . H 2 -79.888 45.779 -15.699 1 34.02 ? C5A NDP 501 B 1 HETATM 17 C C6A NDP . . . H 2 -80.774 46.827 -16.233 1 30.94 ? C6A NDP 501 B 1 HETATM 18 N N6A NDP . . . H 2 -81.667 46.545 -17.202 1 29.79 ? N6A NDP 501 B 1 HETATM 19 N N1A NDP . . . H 2 -80.663 48.065 -15.723 1 25.67 ? N1A NDP 501 B 1 HETATM 20 C C2A NDP . . . H 2 -79.78 48.353 -14.763 1 25.53 ? C2A NDP 501 B 1 HETATM 21 N N3A NDP . . . H 2 -78.946 47.453 -14.233 1 28.45 ? N3A NDP 501 B 1 HETATM 22 C C4A NDP . . . H 2 -78.952 46.173 -14.651 1 33.81 ? C4A NDP 501 B 1 HETATM 23 O O3 NDP . . . H 2 -78.255 39.256 -12.936 1 36.95 ? O3 NDP 501 B 1 HETATM 24 P PN NDP . . . H 2 -78.801 38.323 -11.755 1 25.89 ? PN NDP 501 B 1 HETATM 25 O O1N NDP . . . H 2 -77.712 37.345 -11.479 1 25.77 ? O1N NDP 501 B 1 HETATM 26 O O2N NDP . . . H 2 -79.361 39.152 -10.648 1 35.11 ? O2N NDP 501 B 1 HETATM 27 O O5D NDP . . . H 2 -80.012 37.528 -12.409 1 33.11 ? O5D NDP 501 B 1 HETATM 28 C C5D NDP . . . H 2 -81.195 37.32 -11.661 1 28.29 ? C5D NDP 501 B 1 HETATM 29 C C4D NDP . . . H 2 -82.045 36.309 -12.405 1 33.73 ? C4D NDP 501 B 1 HETATM 30 O O4D NDP . . . H 2 -81.915 36.532 -13.803 1 34.96 ? O4D NDP 501 B 1 HETATM 31 C C3D NDP . . . H 2 -81.553 34.9 -12.151 1 33.57 ? C3D NDP 501 B 1 HETATM 32 O O3D NDP . . . H 2 -82.666 34.03 -12 1 28.02 ? O3D NDP 501 B 1 HETATM 33 C C2D NDP . . . H 2 -80.865 34.512 -13.426 1 35.41 ? C2D NDP 501 B 1 HETATM 34 O O2D NDP . . . H 2 -80.97 33.11 -13.63 1 43.6 ? O2D NDP 501 B 1 HETATM 35 C C1D NDP . . . H 2 -81.677 35.282 -14.434 1 34.37 ? C1D NDP 501 B 1 HETATM 36 N N1N NDP . . . H 2 -80.945 35.427 -15.677 1 32.65 ? N1N NDP 501 B 1 HETATM 37 C C2N NDP . . . H 2 -81.622 35.319 -16.812 1 30.77 ? C2N NDP 501 B 1 HETATM 38 C C3N NDP . . . H 2 -80.993 35.442 -18.033 1 29.84 ? C3N NDP 501 B 1 HETATM 39 C C7N NDP . . . H 2 -81.807 35.321 -19.277 1 40.24 ? C7N NDP 501 B 1 HETATM 40 O O7N NDP . . . H 2 -82.914 34.829 -19.225 1 39.53 ? O7N NDP 501 B 1 HETATM 41 N N7N NDP . . . H 2 -81.291 35.756 -20.414 1 45.66 ? N7N NDP 501 B 1 HETATM 42 C C4N NDP . . . H 2 -79.512 35.689 -18.131 1 25.25 ? C4N NDP 501 B 1 HETATM 43 C C5N NDP . . . H 2 -78.896 35.779 -16.822 1 29 ? C5N NDP 501 B 1 HETATM 44 C C6N NDP . . . H 2 -79.633 35.641 -15.657 1 33.21 ? C6N NDP 501 B 1 HETATM 45 P P2B NDP . . . H 2 -76.979 46.666 -9.824 1 45.88 ? P2B NDP 501 B 1 HETATM 46 O O1X NDP . . . H 2 -77.007 45.613 -8.766 1 42.57 ? O1X NDP 501 B 1 HETATM 47 O O2X NDP . . . H 2 -78.264 47.393 -10.041 1 42.43 ? O2X NDP 501 B 1 HETATM 48 O O3X NDP . . . H 2 -75.786 47.558 -9.758 1 46.68 ? O3X NDP 501 B 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 46 _model_server_stats.query_time_ms 304 _model_server_stats.encode_time_ms 9 _model_server_stats.element_count 48 #