data_6PFI # _model_server_result.job_id mnujuySHfbE_66eTNPPKzQ _model_server_result.datetime_utc '2024-11-25 06:24:47' _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 6pfi # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"N","auth_seq_id":601}' # _entry.id 6PFI # _exptl.entry_id 6PFI _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 5 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 95.05 _cell.angle_gamma 90 _cell.entry_id 6PFI _cell.length_a 213.38 _cell.length_b 116.741 _cell.length_c 221.58 _cell.Z_PDB 20 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6PFI _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 1 2 1' # 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 PISA dimeric 2 author_and_software_defined_assembly 3 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,F,G,H,I,J,K,L,M,Z,AA 1 1 C,D,N,O,P,Q,R,S,T,U,BA,CA 2 1 E,V,W,X,Y,DA 3 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_455 -x-1,y,-z -1 0 0 0 1 0 0 0 -1 -213.38 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 F N N ? 2 J N N ? 2 N N N ? 2 R N N ? 2 V 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 294 n n PA O2A NDP sing 295 n n PA O5B NDP sing 296 n n PA O3 NDP sing 297 n n O2A HOA2 NDP sing 298 n n O5B C5B NDP sing 299 n n C5B C4B NDP sing 300 n n C5B H51A NDP sing 301 n n C5B H52A NDP sing 302 n n C4B O4B NDP sing 303 n n C4B C3B NDP sing 304 n n C4B H4B NDP sing 305 n n O4B C1B NDP sing 306 n n C3B O3B NDP sing 307 n n C3B C2B NDP sing 308 n n C3B H3B NDP sing 309 n n O3B HO3A NDP sing 310 n n C2B O2B NDP sing 311 n n C2B C1B NDP sing 312 n n C2B H2B NDP sing 313 n n O2B P2B NDP sing 314 n n C1B N9A NDP sing 315 n n C1B H1B NDP sing 316 n n N9A C8A NDP sing 317 n y N9A C4A NDP sing 318 n y C8A N7A NDP doub 319 n y C8A H8A NDP sing 320 n n N7A C5A NDP sing 321 n y C5A C6A NDP sing 322 n y C5A C4A NDP doub 323 n y C6A N6A NDP sing 324 n n C6A N1A NDP doub 325 n y N6A H61A NDP sing 326 n n N6A H62A NDP sing 327 n n N1A C2A NDP sing 328 n y C2A N3A NDP doub 329 n y C2A H2A NDP sing 330 n n N3A C4A NDP sing 331 n y O3 PN NDP sing 332 n n PN O1N NDP doub 333 n n PN O2N NDP sing 334 n n PN O5D NDP sing 335 n n O2N H21N NDP sing 336 n n O5D C5D NDP sing 337 n n C5D C4D NDP sing 338 n n C5D H51N NDP sing 339 n n C5D H52N NDP sing 340 n n C4D O4D NDP sing 341 n n C4D C3D NDP sing 342 n n C4D H4D NDP sing 343 n n O4D C1D NDP sing 344 n n C3D O3D NDP sing 345 n n C3D C2D NDP sing 346 n n C3D H3D NDP sing 347 n n O3D HO3N NDP sing 348 n n C2D O2D NDP sing 349 n n C2D C1D NDP sing 350 n n C2D H2D NDP sing 351 n n O2D HO2N NDP sing 352 n n C1D N1N NDP sing 353 n n C1D H1D NDP sing 354 n n N1N C2N NDP sing 355 n n N1N C6N NDP sing 356 n n C2N C3N NDP doub 357 n n C2N H2N NDP sing 358 n n C3N C7N NDP sing 359 n n C3N C4N NDP sing 360 n n C7N O7N NDP doub 361 n n C7N N7N NDP sing 362 n n N7N H71N NDP sing 363 n n N7N H72N NDP sing 364 n n C4N C5N NDP sing 365 n n C4N H41N NDP sing 366 n n C4N H42N NDP sing 367 n n C5N C6N NDP doub 368 n n C5N H5N NDP sing 369 n n C6N H6N NDP sing 370 n n P2B O1X NDP doub 371 n n P2B O2X NDP sing 372 n n P2B O3X NDP sing 373 n n O2X HOP2 NDP sing 374 n n O3X HOP3 NDP sing 375 n n # _atom_sites.entry_id 6PFI _atom_sites.fract_transf_matrix[1][1] 0.004686 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.000414 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.008566 _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] 0.004531 _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 F 2 NDP A 1 601 601 NDP NDP . G 3 UFP A 1 602 602 UFP UFP . H 4 OEP A 1 603 603 OEP T26 . I 5 MTX A 1 604 604 MTX MTX . J 2 NDP B 1 601 601 NDP NDP . K 3 UFP B 1 602 602 UFP UFP . L 4 OEP B 1 603 603 OEP T26 . M 5 MTX B 1 604 604 MTX MTX . N 2 NDP C 1 601 601 NDP NDP . O 3 UFP C 1 602 602 UFP UFP . P 4 OEP C 1 603 603 OEP T26 . Q 5 MTX C 1 604 604 MTX MTX . R 2 NDP D 1 601 601 NDP NDP . S 3 UFP D 1 602 602 UFP UFP . T 4 OEP D 1 603 603 OEP T26 . U 5 MTX D 1 604 604 MTX MTX . V 2 NDP E 1 601 601 NDP NDP . W 3 UFP E 1 602 602 UFP UFP . X 4 OEP E 1 603 603 OEP T26 . Y 5 MTX E 1 604 604 MTX MTX . Z 6 HOH A 1 701 29 HOH HOH . Z 6 HOH A 2 702 9 HOH HOH . Z 6 HOH A 3 703 25 HOH HOH . Z 6 HOH A 4 704 21 HOH HOH . Z 6 HOH A 5 705 4 HOH HOH . Z 6 HOH A 6 706 1 HOH HOH . Z 6 HOH A 7 707 2 HOH HOH . Z 6 HOH A 8 708 7 HOH HOH . AA 6 HOH B 1 701 10 HOH HOH . AA 6 HOH B 2 702 13 HOH HOH . AA 6 HOH B 3 703 26 HOH HOH . AA 6 HOH B 4 704 18 HOH HOH . AA 6 HOH B 5 705 27 HOH HOH . AA 6 HOH B 6 706 17 HOH HOH . AA 6 HOH B 7 707 22 HOH HOH . AA 6 HOH B 8 708 14 HOH HOH . BA 6 HOH C 1 701 30 HOH HOH . BA 6 HOH C 2 702 20 HOH HOH . BA 6 HOH C 3 703 5 HOH HOH . BA 6 HOH C 4 704 3 HOH HOH . CA 6 HOH D 1 701 24 HOH HOH . CA 6 HOH D 2 702 8 HOH HOH . CA 6 HOH D 3 703 6 HOH HOH . CA 6 HOH D 4 704 15 HOH HOH . DA 6 HOH E 1 701 19 HOH HOH . DA 6 HOH E 2 702 12 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 . . . N 2 -55.814 -27.417 64.525 1 76.28 ? PA NDP 601 C 1 HETATM 2 O O1A NDP . . . N 2 -56.604 -27.471 63.236 1 88.82 ? O1A NDP 601 C 1 HETATM 3 O O2A NDP . . . N 2 -55.565 -28.816 65.005 1 71.36 ? O2A NDP 601 C 1 HETATM 4 O O5B NDP . . . N 2 -54.466 -26.719 64.295 1 76.21 ? O5B NDP 601 C 1 HETATM 5 C C5B NDP . . . N 2 -54.43 -25.402 63.812 1 70.54 ? C5B NDP 601 C 1 HETATM 6 C C4B NDP . . . N 2 -53.114 -24.749 63.723 1 79.18 ? C4B NDP 601 C 1 HETATM 7 O O4B NDP . . . N 2 -52.345 -25.287 62.666 1 77.59 ? O4B NDP 601 C 1 HETATM 8 C C3B NDP . . . N 2 -53.219 -23.318 63.429 1 68.65 ? C3B NDP 601 C 1 HETATM 9 O O3B NDP . . . N 2 -53.4 -22.576 64.584 1 57.65 ? O3B NDP 601 C 1 HETATM 10 C C2B NDP . . . N 2 -51.934 -23.05 62.838 1 63.29 ? C2B NDP 601 C 1 HETATM 11 O O2B NDP . . . N 2 -50.957 -23.063 63.841 1 73.08 ? O2B NDP 601 C 1 HETATM 12 C C1B NDP . . . N 2 -51.754 -24.201 61.974 1 77.3 ? C1B NDP 601 C 1 HETATM 13 N N9A NDP . . . N 2 -52.419 -24.015 60.727 1 90.34 ? N9A NDP 601 C 1 HETATM 14 C C8A NDP . . . N 2 -53.701 -24.367 60.452 1 89.4 ? C8A NDP 601 C 1 HETATM 15 N N7A NDP . . . N 2 -53.991 -24.054 59.174 1 100.16 ? N7A NDP 601 C 1 HETATM 16 C C5A NDP . . . N 2 -52.873 -23.491 58.605 1 97.45 ? C5A NDP 601 C 1 HETATM 17 C C6A NDP . . . N 2 -52.567 -22.972 57.322 1 97.34 ? C6A NDP 601 C 1 HETATM 18 N N6A NDP . . . N 2 -53.607 -22.982 56.261 1 88.89 ? N6A NDP 601 C 1 HETATM 19 N N1A NDP . . . N 2 -51.329 -22.47 57.062 1 79.99 ? N1A NDP 601 C 1 HETATM 20 C C2A NDP . . . N 2 -50.396 -22.472 58.05 1 84.68 ? C2A NDP 601 C 1 HETATM 21 N N3A NDP . . . N 2 -50.637 -22.949 59.274 1 93.95 ? N3A NDP 601 C 1 HETATM 22 C C4A NDP . . . N 2 -51.879 -23.471 59.588 1 85.76 ? C4A NDP 601 C 1 HETATM 23 O O3 NDP . . . N 2 -56.621 -26.618 65.641 1 62.54 ? O3 NDP 601 C 1 HETATM 24 P PN NDP . . . N 2 -58.126 -26.972 66.003 1 72.35 ? PN NDP 601 C 1 HETATM 25 O O1N NDP . . . N 2 -58.613 -26.052 67.131 1 62.24 ? O1N NDP 601 C 1 HETATM 26 O O2N NDP . . . N 2 -59.003 -26.764 64.785 1 86.29 ? O2N NDP 601 C 1 HETATM 27 O O5D NDP . . . N 2 -58.201 -28.515 66.495 1 79.81 ? O5D NDP 601 C 1 HETATM 28 C C5D NDP . . . N 2 -57.924 -28.833 67.834 1 70.58 ? C5D NDP 601 C 1 HETATM 29 C C4D NDP . . . N 2 -59.034 -29.305 68.647 1 67.33 ? C4D NDP 601 C 1 HETATM 30 O O4D NDP . . . N 2 -59.741 -30.324 67.944 1 69.32 ? O4D NDP 601 C 1 HETATM 31 C C3D NDP . . . N 2 -58.572 -29.928 69.891 1 68.21 ? C3D NDP 601 C 1 HETATM 32 O O3D NDP . . . N 2 -59.578 -29.838 70.847 1 60.86 ? O3D NDP 601 C 1 HETATM 33 C C2D NDP . . . N 2 -58.377 -31.288 69.518 1 67.11 ? C2D NDP 601 C 1 HETATM 34 O O2D NDP . . . N 2 -58.427 -32.119 70.64 1 58.42 ? O2D NDP 601 C 1 HETATM 35 C C1D NDP . . . N 2 -59.508 -31.529 68.593 1 68.62 ? C1D NDP 601 C 1 HETATM 36 N N1N NDP . . . N 2 -59.215 -32.575 67.657 1 60.71 ? N1N NDP 601 C 1 HETATM 37 C C2N NDP . . . N 2 -60.123 -33.552 67.488 1 54.09 ? C2N NDP 601 C 1 HETATM 38 C C3N NDP . . . N 2 -59.893 -34.598 66.583 1 65.52 ? C3N NDP 601 C 1 HETATM 39 C C7N NDP . . . N 2 -60.95 -35.676 66.434 1 68.15 ? C7N NDP 601 C 1 HETATM 40 O O7N NDP . . . N 2 -60.83 -36.524 65.536 1 70.93 ? O7N NDP 601 C 1 HETATM 41 N N7N NDP . . . N 2 -62.082 -35.728 67.316 1 68.98 ? N7N NDP 601 C 1 HETATM 42 C C4N NDP . . . N 2 -58.7 -34.633 65.836 1 65.67 ? C4N NDP 601 C 1 HETATM 43 C C5N NDP . . . N 2 -57.777 -33.598 66.037 1 64.36 ? C5N NDP 601 C 1 HETATM 44 C C6N NDP . . . N 2 -58.044 -32.576 66.947 1 69.26 ? C6N NDP 601 C 1 HETATM 45 P P2B NDP . . . N 2 -49.752 -22.068 63.854 1 85.34 ? P2B NDP 601 C 1 HETATM 46 O O1X NDP . . . N 2 -50.086 -20.918 64.825 1 71.34 ? O1X NDP 601 C 1 HETATM 47 O O2X NDP . . . N 2 -48.546 -22.771 64.329 1 61.9 ? O2X NDP 601 C 1 HETATM 48 O O3X NDP . . . N 2 -49.486 -21.533 62.483 1 80.45 ? O3X NDP 601 C 1 # _model_server_stats.io_time_ms 17 _model_server_stats.parse_time_ms 21 _model_server_stats.create_model_time_ms 58 _model_server_stats.query_time_ms 436 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 48 #