data_2YM2 # _model_server_result.job_id zaFTNcWPwHb-DsKk7m8oPA _model_server_result.datetime_utc '2024-11-15 06:48:05' _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 2ym2 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":1543}' # _entry.id 2YM2 # _exptl.entry_id 2YM2 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 743.405 _entity.id 3 _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 2YM2 _cell.length_a 108.45 _cell.length_b 108.45 _cell.length_c 108.09 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2YM2 _symmetry.cell_setting ? _symmetry.Int_Tables_number 154 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 32 2 1' # _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,D _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 3 _struct_asym.id C _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 328 n n PA O2A NAP sing 329 n n PA O5B NAP sing 330 n n PA O3 NAP sing 331 n n O2A HOA2 NAP sing 332 n n O5B C5B NAP sing 333 n n C5B C4B NAP sing 334 n n C5B H51A NAP sing 335 n n C5B H52A NAP sing 336 n n C4B O4B NAP sing 337 n n C4B C3B NAP sing 338 n n C4B H4B NAP sing 339 n n O4B C1B NAP sing 340 n n C3B O3B NAP sing 341 n n C3B C2B NAP sing 342 n n C3B H3B NAP sing 343 n n O3B HO3A NAP sing 344 n n C2B O2B NAP sing 345 n n C2B C1B NAP sing 346 n n C2B H2B NAP sing 347 n n O2B P2B NAP sing 348 n n C1B N9A NAP sing 349 n n C1B H1B NAP sing 350 n n N9A C8A NAP sing 351 n y N9A C4A NAP sing 352 n y C8A N7A NAP doub 353 n y C8A H8A NAP sing 354 n n N7A C5A NAP sing 355 n y C5A C6A NAP sing 356 n y C5A C4A NAP doub 357 n y C6A N6A NAP sing 358 n n C6A N1A NAP doub 359 n y N6A H61A NAP sing 360 n n N6A H62A NAP sing 361 n n N1A C2A NAP sing 362 n y C2A N3A NAP doub 363 n y C2A H2A NAP sing 364 n n N3A C4A NAP sing 365 n y O3 PN NAP sing 366 n n PN O1N NAP doub 367 n n PN O2N NAP sing 368 n n PN O5D NAP sing 369 n n O5D C5D NAP sing 370 n n C5D C4D NAP sing 371 n n C5D H51N NAP sing 372 n n C5D H52N NAP sing 373 n n C4D O4D NAP sing 374 n n C4D C3D NAP sing 375 n n C4D H4D NAP sing 376 n n O4D C1D NAP sing 377 n n C3D O3D NAP sing 378 n n C3D C2D NAP sing 379 n n C3D H3D NAP sing 380 n n O3D HO3N NAP sing 381 n n C2D O2D NAP sing 382 n n C2D C1D NAP sing 383 n n C2D H2D NAP sing 384 n n O2D HO2N NAP sing 385 n n C1D N1N NAP sing 386 n n C1D H1D NAP sing 387 n n N1N C2N NAP sing 388 n y N1N C6N NAP doub 389 n y C2N C3N NAP doub 390 n y C2N H2N NAP sing 391 n n C3N C7N NAP sing 392 n n C3N C4N NAP sing 393 n y C7N O7N NAP doub 394 n n C7N N7N NAP sing 395 n n N7N H71N NAP sing 396 n n N7N H72N NAP sing 397 n n C4N C5N NAP doub 398 n y C4N H4N NAP sing 399 n n C5N C6N NAP sing 400 n y C5N H5N NAP sing 401 n n C6N H6N NAP sing 402 n n P2B O1X NAP doub 403 n n P2B O2X NAP sing 404 n n P2B O3X NAP sing 405 n n O2X HOP2 NAP sing 406 n n O3X HOP3 NAP sing 407 n n # _atom_sites.entry_id 2YM2 _atom_sites.fract_transf_matrix[1][1] 0.009221 _atom_sites.fract_transf_matrix[1][2] 0.005324 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.010647 _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] 0.009252 _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 FAD A 1 700 700 FAD FAD . C 3 NAP A 1 1543 1543 NAP NAP . D 4 HOH A 1 2001 2001 HOH HOH . D 4 HOH A 2 2002 2002 HOH HOH . D 4 HOH A 3 2003 2003 HOH HOH . D 4 HOH A 4 2004 2004 HOH HOH . D 4 HOH A 5 2005 2005 HOH HOH . D 4 HOH A 6 2006 2006 HOH HOH . D 4 HOH A 7 2007 2007 HOH HOH . D 4 HOH A 8 2008 2008 HOH HOH . D 4 HOH A 9 2009 2009 HOH HOH . D 4 HOH A 10 2010 2010 HOH HOH . D 4 HOH A 11 2011 2011 HOH HOH . D 4 HOH A 12 2012 2012 HOH HOH . D 4 HOH A 13 2013 2013 HOH HOH . D 4 HOH A 14 2014 2014 HOH HOH . D 4 HOH A 15 2015 2015 HOH HOH . D 4 HOH A 16 2016 2016 HOH HOH . D 4 HOH A 17 2017 2017 HOH HOH . D 4 HOH A 18 2018 2018 HOH HOH . D 4 HOH A 19 2019 2019 HOH HOH . D 4 HOH A 20 2020 2020 HOH HOH . D 4 HOH A 21 2021 2021 HOH HOH . D 4 HOH A 22 2022 2022 HOH HOH . D 4 HOH A 23 2023 2023 HOH HOH . D 4 HOH A 24 2024 2024 HOH HOH . D 4 HOH A 25 2025 2025 HOH HOH . D 4 HOH A 26 2026 2026 HOH HOH . D 4 HOH A 27 2027 2027 HOH HOH . D 4 HOH A 28 2028 2028 HOH HOH . D 4 HOH A 29 2029 2029 HOH HOH . D 4 HOH A 30 2030 2030 HOH HOH . D 4 HOH A 31 2031 2031 HOH HOH . D 4 HOH A 32 2032 2032 HOH HOH . D 4 HOH A 33 2033 2033 HOH HOH . D 4 HOH A 34 2034 2034 HOH HOH . D 4 HOH A 35 2035 2035 HOH HOH . D 4 HOH A 36 2036 2036 HOH HOH . D 4 HOH A 37 2037 2037 HOH HOH . D 4 HOH A 38 2038 2038 HOH HOH . D 4 HOH A 39 2039 2039 HOH HOH . D 4 HOH A 40 2040 2040 HOH HOH . D 4 HOH A 41 2041 2041 HOH HOH . D 4 HOH A 42 2042 2042 HOH HOH . D 4 HOH A 43 2043 2043 HOH HOH . D 4 HOH A 44 2044 2044 HOH HOH . D 4 HOH A 45 2045 2045 HOH HOH . D 4 HOH A 46 2046 2046 HOH HOH . D 4 HOH A 47 2047 2047 HOH HOH . D 4 HOH A 48 2048 2048 HOH HOH . D 4 HOH A 49 2049 2049 HOH HOH . D 4 HOH A 50 2050 2050 HOH HOH . D 4 HOH A 51 2051 2051 HOH HOH . D 4 HOH A 52 2052 2052 HOH HOH . D 4 HOH A 53 2053 2053 HOH HOH . D 4 HOH A 54 2054 2054 HOH HOH . D 4 HOH A 55 2055 2055 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 . . . C 3 -49.819 29.291 11.242 1 25.11 ? PA NAP 1543 A 1 HETATM 2 O O1A NAP . . . C 3 -50.029 27.841 11.443 1 27.12 ? O1A NAP 1543 A 1 HETATM 3 O O2A NAP . . . C 3 -48.63 29.67 10.212 1 27.9 ? O2A NAP 1543 A 1 HETATM 4 O O5B NAP . . . C 3 -51.163 30.061 10.99 1 25.35 ? O5B NAP 1543 A 1 HETATM 5 C C5B NAP . . . C 3 -50.996 31.458 10.693 1 29.03 ? C5B NAP 1543 A 1 HETATM 6 C C4B NAP . . . C 3 -52.484 31.971 10.649 1 31.2 ? C4B NAP 1543 A 1 HETATM 7 O O4B NAP . . . C 3 -52.64 33.395 10.448 1 32.92 ? O4B NAP 1543 A 1 HETATM 8 C C3B NAP . . . C 3 -53.413 31.324 9.601 1 30.59 ? C3B NAP 1543 A 1 HETATM 9 O O3B NAP . . . C 3 -54.693 31.576 10.172 1 32.45 ? O3B NAP 1543 A 1 HETATM 10 C C2B NAP . . . C 3 -53.307 32.251 8.374 1 31.68 ? C2B NAP 1543 A 1 HETATM 11 O O2B NAP . . . C 3 -54.497 32.239 7.556 1 28.13 ? O2B NAP 1543 A 1 HETATM 12 C C1B NAP . . . C 3 -53.242 33.625 9.136 1 34.78 ? C1B NAP 1543 A 1 HETATM 13 N N9A NAP . . . C 3 -52.499 34.605 8.306 1 36.53 ? N9A NAP 1543 A 1 HETATM 14 C C8A NAP . . . C 3 -51.137 34.644 8.057 1 38.07 ? C8A NAP 1543 A 1 HETATM 15 N N7A NAP . . . C 3 -50.847 35.669 7.275 1 38.44 ? N7A NAP 1543 A 1 HETATM 16 C C5A NAP . . . C 3 -52.022 36.336 6.995 1 37.72 ? C5A NAP 1543 A 1 HETATM 17 C C6A NAP . . . C 3 -52.356 37.472 6.219 1 39.82 ? C6A NAP 1543 A 1 HETATM 18 N N6A NAP . . . C 3 -51.312 38.12 5.546 1 39.85 ? N6A NAP 1543 A 1 HETATM 19 N N1A NAP . . . C 3 -53.668 37.883 6.149 1 39.53 ? N1A NAP 1543 A 1 HETATM 20 C C2A NAP . . . C 3 -54.653 37.229 6.804 1 38.12 ? C2A NAP 1543 A 1 HETATM 21 N N3A NAP . . . C 3 -54.365 36.144 7.54 1 38.61 ? N3A NAP 1543 A 1 HETATM 22 C C4A NAP . . . C 3 -53.095 35.675 7.652 1 36.54 ? C4A NAP 1543 A 1 HETATM 23 O O3 NAP . . . C 3 -49.246 29.983 12.603 1 29.06 ? O3 NAP 1543 A 1 HETATM 24 P PN NAP . . . C 3 -49.523 29.37 14.065 1 25.58 ? PN NAP 1543 A 1 HETATM 25 O O1N NAP . . . C 3 -51.006 29.379 14.514 1 29.38 ? O1N NAP 1543 A 1 HETATM 26 O O2N NAP . . . C 3 -48.626 30.339 14.868 1 25.71 ? O2N NAP 1543 A 1 HETATM 27 O O5D NAP . . . C 3 -48.931 27.877 14.085 1 28.25 ? O5D NAP 1543 A 1 HETATM 28 C C5D NAP . . . C 3 -47.592 27.866 13.569 1 25.47 ? C5D NAP 1543 A 1 HETATM 29 C C4D NAP . . . C 3 -47.017 26.461 13.782 1 26.16 ? C4D NAP 1543 A 1 HETATM 30 O O4D NAP . . . C 3 -46.273 26.49 15.042 1 26.27 ? O4D NAP 1543 A 1 HETATM 31 C C3D NAP . . . C 3 -48.158 25.396 14.014 1 26.3 ? C3D NAP 1543 A 1 HETATM 32 O O3D NAP . . . C 3 -48.687 24.764 12.838 1 25.07 ? O3D NAP 1543 A 1 HETATM 33 C C2D NAP . . . C 3 -47.431 24.347 14.904 1 24.11 ? C2D NAP 1543 A 1 HETATM 34 O O2D NAP . . . C 3 -46.398 23.612 14.268 1 19.77 ? O2D NAP 1543 A 1 HETATM 35 C C1D NAP . . . C 3 -46.664 25.328 15.843 1 25.26 ? C1D NAP 1543 A 1 HETATM 36 N N1N NAP . . . C 3 -47.563 25.653 16.985 1 27.77 ? N1N NAP 1543 A 1 HETATM 37 C C2N NAP . . . C 3 -48.026 24.609 17.721 1 27.32 ? C2N NAP 1543 A 1 HETATM 38 C C3N NAP . . . C 3 -48.878 24.848 18.825 1 30.01 ? C3N NAP 1543 A 1 HETATM 39 C C7N NAP . . . C 3 -49.35 23.686 19.633 1 31.19 ? C7N NAP 1543 A 1 HETATM 40 O O7N NAP . . . C 3 -48.469 22.914 19.991 1 31.52 ? O7N NAP 1543 A 1 HETATM 41 N N7N NAP . . . C 3 -50.671 23.451 19.973 1 30.6 ? N7N NAP 1543 A 1 HETATM 42 C C4N NAP . . . C 3 -49.251 26.203 19.148 1 27.27 ? C4N NAP 1543 A 1 HETATM 43 C C5N NAP . . . C 3 -48.771 27.256 18.355 1 24.15 ? C5N NAP 1543 A 1 HETATM 44 C C6N NAP . . . C 3 -47.921 26.944 17.274 1 27.63 ? C6N NAP 1543 A 1 HETATM 45 P P2B NAP . . . C 3 -54.239 31.336 6.216 1 26.82 ? P2B NAP 1543 A 1 HETATM 46 O O1X NAP . . . C 3 -52.71 31.616 5.765 1 26.08 ? O1X NAP 1543 A 1 HETATM 47 O O2X NAP . . . C 3 -55.359 31.441 5.175 1 27.1 ? O2X NAP 1543 A 1 HETATM 48 O O3X NAP . . . C 3 -54.288 29.762 6.595 1 29.06 ? O3X NAP 1543 A 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 16 _model_server_stats.create_model_time_ms 11 _model_server_stats.query_time_ms 266 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 48 #