data_6VG0 # _model_server_result.job_id bV0kC-5_IMC6qnipZsjc5A _model_server_result.datetime_utc '2024-11-22 22:14:24' _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 6vg0 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":502}' # _entry.id 6VG0 # _exptl.entry_id 6VG0 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 745.421 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE' _entity.pdbx_number_of_molecules 3 _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 6VG0 _cell.length_a 196.77 _cell.length_b 89.16 _cell.length_c 90.75 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6VG0 _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall 'P 2 2ab' _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,I,J 1 1 C,G,H,K 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_655 -x+1,-y,z -1 0 0 0 -1 0 0 0 1 196.77 0 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 F N N ? 2 H N N # _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 237 n n PA O2A NDP sing 238 n n PA O5B NDP sing 239 n n PA O3 NDP sing 240 n n O2A HOA2 NDP sing 241 n n O5B C5B NDP sing 242 n n C5B C4B NDP sing 243 n n C5B H51A NDP sing 244 n n C5B H52A NDP sing 245 n n C4B O4B NDP sing 246 n n C4B C3B NDP sing 247 n n C4B H4B NDP sing 248 n n O4B C1B NDP sing 249 n n C3B O3B NDP sing 250 n n C3B C2B NDP sing 251 n n C3B H3B NDP sing 252 n n O3B HO3A NDP sing 253 n n C2B O2B NDP sing 254 n n C2B C1B NDP sing 255 n n C2B H2B NDP sing 256 n n O2B P2B NDP sing 257 n n C1B N9A NDP sing 258 n n C1B H1B NDP sing 259 n n N9A C8A NDP sing 260 n y N9A C4A NDP sing 261 n y C8A N7A NDP doub 262 n y C8A H8A NDP sing 263 n n N7A C5A NDP sing 264 n y C5A C6A NDP sing 265 n y C5A C4A NDP doub 266 n y C6A N6A NDP sing 267 n n C6A N1A NDP doub 268 n y N6A H61A NDP sing 269 n n N6A H62A NDP sing 270 n n N1A C2A NDP sing 271 n y C2A N3A NDP doub 272 n y C2A H2A NDP sing 273 n n N3A C4A NDP sing 274 n y O3 PN NDP sing 275 n n PN O1N NDP doub 276 n n PN O2N NDP sing 277 n n PN O5D NDP sing 278 n n O2N H21N NDP sing 279 n n O5D C5D NDP sing 280 n n C5D C4D NDP sing 281 n n C5D H51N NDP sing 282 n n C5D H52N NDP sing 283 n n C4D O4D NDP sing 284 n n C4D C3D NDP sing 285 n n C4D H4D NDP sing 286 n n O4D C1D NDP sing 287 n n C3D O3D NDP sing 288 n n C3D C2D NDP sing 289 n n C3D H3D NDP sing 290 n n O3D HO3N NDP sing 291 n n C2D O2D NDP sing 292 n n C2D C1D NDP sing 293 n n C2D H2D NDP sing 294 n n O2D HO2N NDP sing 295 n n C1D N1N NDP sing 296 n n C1D H1D NDP sing 297 n n N1N C2N NDP sing 298 n n N1N C6N NDP sing 299 n n C2N C3N NDP doub 300 n n C2N H2N NDP sing 301 n n C3N C7N NDP sing 302 n n C3N C4N NDP sing 303 n n C7N O7N NDP doub 304 n n C7N N7N NDP sing 305 n n N7N H71N NDP sing 306 n n N7N H72N NDP sing 307 n n C4N C5N NDP sing 308 n n C4N H41N NDP sing 309 n n C4N H42N NDP sing 310 n n C5N C6N NDP doub 311 n n C5N H5N NDP sing 312 n n C6N H6N NDP sing 313 n n P2B O1X NDP doub 314 n n P2B O2X NDP sing 315 n n P2B O3X NDP sing 316 n n O2X HOP2 NDP sing 317 n n O3X HOP3 NDP sing 318 n n # _atom_sites.entry_id 6VG0 _atom_sites.fract_transf_matrix[1][1] 0.005082 _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] 0.011216 _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] 0.011019 _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 1 NDP NDP . E 3 QWM B 1 501 1 QWM L1R . F 2 NDP B 1 502 2 NDP NDP . G 3 QWM C 1 501 2 QWM L1R . H 2 NDP C 1 502 3 NDP NDP . I 4 HOH A 1 601 10 HOH HOH . I 4 HOH A 2 602 47 HOH HOH . I 4 HOH A 3 603 58 HOH HOH . I 4 HOH A 4 604 72 HOH HOH . I 4 HOH A 5 605 90 HOH HOH . I 4 HOH A 6 606 32 HOH HOH . I 4 HOH A 7 607 29 HOH HOH . I 4 HOH A 8 608 46 HOH HOH . I 4 HOH A 9 609 9 HOH HOH . I 4 HOH A 10 610 49 HOH HOH . I 4 HOH A 11 611 52 HOH HOH . I 4 HOH A 12 612 35 HOH HOH . I 4 HOH A 13 613 13 HOH HOH . I 4 HOH A 14 614 18 HOH HOH . I 4 HOH A 15 615 23 HOH HOH . I 4 HOH A 16 616 91 HOH HOH . I 4 HOH A 17 617 88 HOH HOH . I 4 HOH A 18 618 56 HOH HOH . I 4 HOH A 19 619 26 HOH HOH . I 4 HOH A 20 620 97 HOH HOH . I 4 HOH A 21 621 50 HOH HOH . I 4 HOH A 22 622 79 HOH HOH . I 4 HOH A 23 623 83 HOH HOH . I 4 HOH A 24 624 31 HOH HOH . I 4 HOH A 25 625 43 HOH HOH . I 4 HOH A 26 626 61 HOH HOH . I 4 HOH A 27 627 37 HOH HOH . I 4 HOH A 28 628 93 HOH HOH . I 4 HOH A 29 629 42 HOH HOH . I 4 HOH A 30 630 71 HOH HOH . I 4 HOH A 31 631 33 HOH HOH . I 4 HOH A 32 632 75 HOH HOH . I 4 HOH A 33 633 80 HOH HOH . I 4 HOH A 34 634 84 HOH HOH . I 4 HOH A 35 635 73 HOH HOH . I 4 HOH A 36 636 98 HOH HOH . I 4 HOH A 37 637 51 HOH HOH . I 4 HOH A 38 638 1 HOH HOH . I 4 HOH A 39 639 81 HOH HOH . I 4 HOH A 40 640 4 HOH HOH . I 4 HOH A 41 641 92 HOH HOH . I 4 HOH A 42 642 94 HOH HOH . I 4 HOH A 43 643 28 HOH HOH . I 4 HOH A 44 644 2 HOH HOH . I 4 HOH A 45 645 6 HOH HOH . I 4 HOH A 46 646 96 HOH HOH . I 4 HOH A 47 647 60 HOH HOH . I 4 HOH A 48 648 5 HOH HOH . J 4 HOH B 1 601 22 HOH HOH . J 4 HOH B 2 602 63 HOH HOH . J 4 HOH B 3 603 36 HOH HOH . J 4 HOH B 4 604 67 HOH HOH . J 4 HOH B 5 605 89 HOH HOH . J 4 HOH B 6 606 11 HOH HOH . J 4 HOH B 7 607 53 HOH HOH . J 4 HOH B 8 608 87 HOH HOH . J 4 HOH B 9 609 38 HOH HOH . J 4 HOH B 10 610 86 HOH HOH . J 4 HOH B 11 611 69 HOH HOH . J 4 HOH B 12 612 76 HOH HOH . J 4 HOH B 13 613 48 HOH HOH . J 4 HOH B 14 614 12 HOH HOH . J 4 HOH B 15 615 99 HOH HOH . J 4 HOH B 16 616 78 HOH HOH . J 4 HOH B 17 617 40 HOH HOH . J 4 HOH B 18 618 77 HOH HOH . J 4 HOH B 19 619 62 HOH HOH . J 4 HOH B 20 620 59 HOH HOH . J 4 HOH B 21 621 68 HOH HOH . J 4 HOH B 22 622 70 HOH HOH . J 4 HOH B 23 623 39 HOH HOH . J 4 HOH B 24 624 7 HOH HOH . J 4 HOH B 25 625 30 HOH HOH . J 4 HOH B 26 626 57 HOH HOH . J 4 HOH B 27 627 74 HOH HOH . J 4 HOH B 28 628 85 HOH HOH . J 4 HOH B 29 629 27 HOH HOH . J 4 HOH B 30 630 8 HOH HOH . K 4 HOH C 1 601 19 HOH HOH . K 4 HOH C 2 602 16 HOH HOH . K 4 HOH C 3 603 34 HOH HOH . K 4 HOH C 4 604 54 HOH HOH . K 4 HOH C 5 605 44 HOH HOH . K 4 HOH C 6 606 24 HOH HOH . K 4 HOH C 7 607 14 HOH HOH . K 4 HOH C 8 608 41 HOH HOH . K 4 HOH C 9 609 21 HOH HOH . K 4 HOH C 10 610 65 HOH HOH . K 4 HOH C 11 611 25 HOH HOH . K 4 HOH C 12 612 64 HOH HOH . K 4 HOH C 13 613 55 HOH HOH . K 4 HOH C 14 614 15 HOH HOH . K 4 HOH C 15 615 66 HOH HOH . K 4 HOH C 16 616 45 HOH HOH . K 4 HOH C 17 617 20 HOH HOH . K 4 HOH C 18 618 3 HOH HOH . K 4 HOH C 19 619 82 HOH HOH . K 4 HOH C 20 620 95 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 2 101.803 -21.49 -23.81 0.97 117.54 ? PA NDP 502 C 1 HETATM 2 O O1A NDP . . . H 2 100.579 -20.683 -23.612 0.97 87.33 ? O1A NDP 502 C 1 HETATM 3 O O2A NDP . . . H 2 101.59 -23.001 -23.787 0.97 95.48 ? O2A NDP 502 C 1 HETATM 4 O O5B NDP . . . H 2 102.942 -21.142 -22.713 0.97 117.78 ? O5B NDP 502 C 1 HETATM 5 C C5B NDP . . . H 2 103.744 -19.948 -22.84 0.97 103.35 ? C5B NDP 502 C 1 HETATM 6 C C4B NDP . . . H 2 103.932 -19.317 -21.484 0.97 103.94 ? C4B NDP 502 C 1 HETATM 7 O O4B NDP . . . H 2 102.679 -19.328 -20.762 0.97 112.72 ? O4B NDP 502 C 1 HETATM 8 C C3B NDP . . . H 2 104.959 -19.986 -20.569 0.97 108.54 ? C3B NDP 502 C 1 HETATM 9 O O3B NDP . . . H 2 105.648 -18.998 -19.811 0.97 113.45 ? O3B NDP 502 C 1 HETATM 10 C C2B NDP . . . H 2 104.089 -20.872 -19.683 0.97 101.04 ? C2B NDP 502 C 1 HETATM 11 O O2B NDP . . . H 2 104.643 -21.048 -18.36 0.97 116.68 ? O2B NDP 502 C 1 HETATM 12 C C1B NDP . . . H 2 102.832 -20.02 -19.537 0.97 103.42 ? C1B NDP 502 C 1 HETATM 13 N N9A NDP . . . H 2 101.623 -20.801 -19.292 0.97 98.55 ? N9A NDP 502 C 1 HETATM 14 C C8A NDP . . . H 2 101.018 -21.686 -20.144 0.97 103.24 ? C8A NDP 502 C 1 HETATM 15 N N7A NDP . . . H 2 99.943 -22.254 -19.65 0.97 88.7 ? N7A NDP 502 C 1 HETATM 16 C C5A NDP . . . H 2 99.833 -21.702 -18.384 0.97 96.78 ? C5A NDP 502 C 1 HETATM 17 C C6A NDP . . . H 2 98.902 -21.889 -17.343 0.97 96.18 ? C6A NDP 502 C 1 HETATM 18 N N6A NDP . . . H 2 97.865 -22.73 -17.413 0.97 85.15 ? N6A NDP 502 C 1 HETATM 19 N N1A NDP . . . H 2 99.079 -21.177 -16.209 0.97 99.32 ? N1A NDP 502 C 1 HETATM 20 C C2A NDP . . . H 2 100.118 -20.341 -16.128 0.97 99.54 ? C2A NDP 502 C 1 HETATM 21 N N3A NDP . . . H 2 101.059 -20.086 -17.039 0.97 87.23 ? N3A NDP 502 C 1 HETATM 22 C C4A NDP . . . H 2 100.861 -20.801 -18.15 0.97 94.5 ? C4A NDP 502 C 1 HETATM 23 O O3 NDP . . . H 2 102.515 -21.142 -25.19 0.97 103.26 ? O3 NDP 502 C 1 HETATM 24 P PN NDP . . . H 2 103.769 -21.77 -25.943 0.97 108.24 ? PN NDP 502 C 1 HETATM 25 O O1N NDP . . . H 2 104.218 -20.909 -27.058 0.97 95.15 ? O1N NDP 502 C 1 HETATM 26 O O2N NDP . . . H 2 104.832 -22.071 -24.889 0.97 97.19 ? O2N NDP 502 C 1 HETATM 27 O O5D NDP . . . H 2 103.267 -23.192 -26.486 0.97 102.22 ? O5D NDP 502 C 1 HETATM 28 C C5D NDP . . . H 2 103.628 -23.667 -27.796 0.97 93.97 ? C5D NDP 502 C 1 HETATM 29 C C4D NDP . . . H 2 102.576 -24.629 -28.284 0.97 98.79 ? C4D NDP 502 C 1 HETATM 30 O O4D NDP . . . H 2 101.26 -24.108 -27.985 0.97 106.47 ? O4D NDP 502 C 1 HETATM 31 C C3D NDP . . . H 2 102.607 -24.887 -29.793 0.97 104.83 ? C3D NDP 502 C 1 HETATM 32 O O3D NDP . . . H 2 102.417 -26.268 -30.074 0.97 107.58 ? O3D NDP 502 C 1 HETATM 33 C C2D NDP . . . H 2 101.459 -24.018 -30.315 0.97 99.45 ? C2D NDP 502 C 1 HETATM 34 O O2D NDP . . . H 2 100.889 -24.547 -31.506 0.97 96.7 ? O2D NDP 502 C 1 HETATM 35 C C1D NDP . . . H 2 100.472 -24.12 -29.158 0.97 96.75 ? C1D NDP 502 C 1 HETATM 36 N N1N NDP . . . H 2 99.511 -23.024 -29.087 0.97 85.44 ? N1N NDP 502 C 1 HETATM 37 C C2N NDP . . . H 2 98.132 -23.282 -29.108 0.97 85.25 ? C2N NDP 502 C 1 HETATM 38 C C3N NDP . . . H 2 97.203 -22.306 -29.046 0.97 91.39 ? C3N NDP 502 C 1 HETATM 39 C C7N NDP . . . H 2 95.787 -22.702 -29.081 0.97 92.18 ? C7N NDP 502 C 1 HETATM 40 O O7N NDP . . . H 2 95.463 -23.893 -28.962 0.97 91.18 ? O7N NDP 502 C 1 HETATM 41 N N7N NDP . . . H 2 94.885 -21.742 -29.244 0.97 85.53 ? N7N NDP 502 C 1 HETATM 42 C C4N NDP . . . H 2 97.628 -20.87 -28.948 0.97 78.92 ? C4N NDP 502 C 1 HETATM 43 C C5N NDP . . . H 2 99.107 -20.71 -28.935 0.97 90.36 ? C5N NDP 502 C 1 HETATM 44 C C6N NDP . . . H 2 99.945 -21.737 -29.002 0.97 97.12 ? C6N NDP 502 C 1 HETATM 45 P P2B NDP . . . H 2 106.161 -21.286 -17.844 0.97 131.8 ? P2B NDP 502 C 1 HETATM 46 O O1X NDP . . . H 2 107.084 -21.662 -18.956 0.97 105.57 ? O1X NDP 502 C 1 HETATM 47 O O2X NDP . . . H 2 106.562 -19.977 -17.152 0.97 101.63 ? O2X NDP 502 C 1 HETATM 48 O O3X NDP . . . H 2 106.068 -22.369 -16.763 0.97 103.02 ? O3X NDP 502 C 1 # _model_server_stats.io_time_ms 20 _model_server_stats.parse_time_ms 17 _model_server_stats.create_model_time_ms 16 _model_server_stats.query_time_ms 295 _model_server_stats.encode_time_ms 16 _model_server_stats.element_count 48 #