data_1NM5 # _model_server_result.job_id Etax0yfrPUmg68IBIYfIqQ _model_server_result.datetime_utc '2024-11-11 11:54:32' _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 1nm5 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":400}' # _entry.id 1NM5 # _exptl.entry_id 1NM5 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 663.425 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description NICOTINAMIDE-ADENINE-DINUCLEOTIDE _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 1NM5 _cell.length_a 71.939 _cell.length_b 73.886 _cell.length_c 205.257 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1NM5 _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 _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,E,F,G,H,I,J _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 3 D N N ? 3 E N N # _chem_comp.formula 'C21 H27 N7 O14 P2' _chem_comp.formula_weight 663.425 _chem_comp.id NAD _chem_comp.mon_nstd_flag . _chem_comp.name NICOTINAMIDE-ADENINE-DINUCLEOTIDE _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 NAD doub 250 n n PA O2A NAD sing 251 n n PA O5B NAD sing 252 n n PA O3 NAD sing 253 n n O2A HOA2 NAD sing 254 n n O5B C5B NAD sing 255 n n C5B C4B NAD sing 256 n n C5B H51A NAD sing 257 n n C5B H52A NAD sing 258 n n C4B O4B NAD sing 259 n n C4B C3B NAD sing 260 n n C4B H4B NAD sing 261 n n O4B C1B NAD sing 262 n n C3B O3B NAD sing 263 n n C3B C2B NAD sing 264 n n C3B H3B NAD sing 265 n n O3B HO3A NAD sing 266 n n C2B O2B NAD sing 267 n n C2B C1B NAD sing 268 n n C2B H2B NAD sing 269 n n O2B HO2A NAD sing 270 n n C1B N9A NAD sing 271 n n C1B H1B NAD sing 272 n n N9A C8A NAD sing 273 n y N9A C4A NAD sing 274 n y C8A N7A NAD doub 275 n y C8A H8A NAD sing 276 n n N7A C5A NAD sing 277 n y C5A C6A NAD sing 278 n y C5A C4A NAD doub 279 n y C6A N6A NAD sing 280 n n C6A N1A NAD doub 281 n y N6A H61A NAD sing 282 n n N6A H62A NAD sing 283 n n N1A C2A NAD sing 284 n y C2A N3A NAD doub 285 n y C2A H2A NAD sing 286 n n N3A C4A NAD sing 287 n y O3 PN NAD sing 288 n n PN O1N NAD doub 289 n n PN O2N NAD sing 290 n n PN O5D NAD sing 291 n n O5D C5D NAD sing 292 n n C5D C4D NAD sing 293 n n C5D H51N NAD sing 294 n n C5D H52N NAD sing 295 n n C4D O4D NAD sing 296 n n C4D C3D NAD sing 297 n n C4D H4D NAD sing 298 n n O4D C1D NAD sing 299 n n C3D O3D NAD sing 300 n n C3D C2D NAD sing 301 n n C3D H3D NAD sing 302 n n O3D HO3N NAD sing 303 n n C2D O2D NAD sing 304 n n C2D C1D NAD sing 305 n n C2D H2D NAD sing 306 n n O2D HO2N NAD sing 307 n n C1D N1N NAD sing 308 n n C1D H1D NAD sing 309 n n N1N C2N NAD sing 310 n y N1N C6N NAD doub 311 n y C2N C3N NAD doub 312 n y C2N H2N NAD sing 313 n n C3N C7N NAD sing 314 n n C3N C4N NAD sing 315 n y C7N O7N NAD doub 316 n n C7N N7N NAD sing 317 n n N7N H71N NAD sing 318 n n N7N H72N NAD sing 319 n n C4N C5N NAD doub 320 n y C4N H4N NAD sing 321 n n C5N C6N NAD sing 322 n y C5N H5N NAD sing 323 n n C6N H6N NAD sing 324 n n # _atom_sites.entry_id 1NM5 _atom_sites.fract_transf_matrix[1][1] 0.013901 _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] 0.013534 _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] 0.004872 _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 3 NAD A 1 400 400 NAD NAD . E 3 NAD B 1 500 500 NAD NAD . F 4 GOL B 1 501 1 GOL GOL . G 5 NAP C 1 300 300 NAP NAP . H 6 HOH A 1 401 2 HOH HOH . H 6 HOH A 2 402 5 HOH HOH . H 6 HOH A 3 403 7 HOH HOH . H 6 HOH A 4 404 8 HOH HOH . H 6 HOH A 5 405 12 HOH HOH . H 6 HOH A 6 406 14 HOH HOH . H 6 HOH A 7 407 15 HOH HOH . H 6 HOH A 8 408 18 HOH HOH . H 6 HOH A 9 409 26 HOH HOH . H 6 HOH A 10 410 28 HOH HOH . H 6 HOH A 11 411 32 HOH HOH . H 6 HOH A 12 412 34 HOH HOH . H 6 HOH A 13 413 35 HOH HOH . H 6 HOH A 14 414 36 HOH HOH . H 6 HOH A 15 415 38 HOH HOH . H 6 HOH A 16 416 39 HOH HOH . H 6 HOH A 17 417 40 HOH HOH . H 6 HOH A 18 418 45 HOH HOH . H 6 HOH A 19 419 48 HOH HOH . H 6 HOH A 20 420 52 HOH HOH . H 6 HOH A 21 421 57 HOH HOH . H 6 HOH A 22 422 58 HOH HOH . H 6 HOH A 23 423 59 HOH HOH . H 6 HOH A 24 424 60 HOH HOH . H 6 HOH A 25 425 61 HOH HOH . H 6 HOH A 26 426 62 HOH HOH . H 6 HOH A 27 427 67 HOH HOH . H 6 HOH A 28 428 68 HOH HOH . I 6 HOH B 1 502 4 HOH HOH . I 6 HOH B 2 503 6 HOH HOH . I 6 HOH B 3 504 9 HOH HOH . I 6 HOH B 4 505 10 HOH HOH . I 6 HOH B 5 506 11 HOH HOH . I 6 HOH B 6 507 13 HOH HOH . I 6 HOH B 7 508 16 HOH HOH . I 6 HOH B 8 509 17 HOH HOH . I 6 HOH B 9 510 20 HOH HOH . I 6 HOH B 10 511 21 HOH HOH . I 6 HOH B 11 512 22 HOH HOH . I 6 HOH B 12 513 23 HOH HOH . I 6 HOH B 13 514 24 HOH HOH . I 6 HOH B 14 515 27 HOH HOH . I 6 HOH B 15 516 29 HOH HOH . I 6 HOH B 16 517 31 HOH HOH . I 6 HOH B 17 518 33 HOH HOH . I 6 HOH B 18 519 37 HOH HOH . I 6 HOH B 19 520 41 HOH HOH . I 6 HOH B 20 521 42 HOH HOH . I 6 HOH B 21 522 43 HOH HOH . I 6 HOH B 22 523 44 HOH HOH . I 6 HOH B 23 524 46 HOH HOH . I 6 HOH B 24 525 47 HOH HOH . I 6 HOH B 25 526 49 HOH HOH . I 6 HOH B 26 527 50 HOH HOH . I 6 HOH B 27 528 51 HOH HOH . I 6 HOH B 28 529 55 HOH HOH . I 6 HOH B 29 530 56 HOH HOH . I 6 HOH B 30 531 65 HOH HOH . I 6 HOH B 31 532 69 HOH HOH . J 6 HOH C 1 301 3 HOH HOH . J 6 HOH C 2 302 19 HOH HOH . J 6 HOH C 3 303 30 HOH HOH . J 6 HOH C 4 304 53 HOH HOH . J 6 HOH C 5 305 54 HOH HOH . J 6 HOH C 6 306 63 HOH HOH . J 6 HOH C 7 307 64 HOH HOH . J 6 HOH C 8 308 66 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 NAD . . . D 3 -7.741 6.24 26.68 1 73.83 ? PA NAD 400 A 1 HETATM 2 O O1A NAD . . . D 3 -7.097 5.049 27.278 1 73.64 ? O1A NAD 400 A 1 HETATM 3 O O2A NAD . . . D 3 -7.04 7.514 27.172 1 75.79 ? O2A NAD 400 A 1 HETATM 4 O O5B NAD . . . D 3 -9.332 6.263 26.94 1 71.44 ? O5B NAD 400 A 1 HETATM 5 C C5B NAD . . . D 3 -10.138 5.211 26.466 1 72.32 ? C5B NAD 400 A 1 HETATM 6 C C4B NAD . . . D 3 -11.38 5.672 25.695 1 72.94 ? C4B NAD 400 A 1 HETATM 7 O O4B NAD . . . D 3 -12.425 6.094 26.568 1 72.96 ? O4B NAD 400 A 1 HETATM 8 C C3B NAD . . . D 3 -11.139 6.819 24.709 1 72.85 ? C3B NAD 400 A 1 HETATM 9 O O3B NAD . . . D 3 -11.339 6.372 23.393 1 71.36 ? O3B NAD 400 A 1 HETATM 10 C C2B NAD . . . D 3 -12.167 7.881 25.084 1 73.12 ? C2B NAD 400 A 1 HETATM 11 O O2B NAD . . . D 3 -12.808 8.478 23.98 1 72.02 ? O2B NAD 400 A 1 HETATM 12 C C1B NAD . . . D 3 -13.17 7.082 25.892 1 73.52 ? C1B NAD 400 A 1 HETATM 13 N N9A NAD . . . D 3 -13.939 7.904 26.825 1 74.38 ? N9A NAD 400 A 1 HETATM 14 C C8A NAD . . . D 3 -13.483 8.825 27.723 1 74.61 ? C8A NAD 400 A 1 HETATM 15 N N7A NAD . . . D 3 -14.552 9.32 28.388 1 74.89 ? N7A NAD 400 A 1 HETATM 16 C C5A NAD . . . D 3 -15.675 8.732 27.917 1 75.22 ? C5A NAD 400 A 1 HETATM 17 C C6A NAD . . . D 3 -17.028 8.863 28.231 1 75.93 ? C6A NAD 400 A 1 HETATM 18 N N6A NAD . . . D 3 -17.423 9.715 29.169 1 76.59 ? N6A NAD 400 A 1 HETATM 19 N N1A NAD . . . D 3 -17.975 8.102 27.571 1 76.53 ? N1A NAD 400 A 1 HETATM 20 C C2A NAD . . . D 3 -17.569 7.219 26.594 1 76.86 ? C2A NAD 400 A 1 HETATM 21 N N3A NAD . . . D 3 -16.221 7.089 26.288 1 75.92 ? N3A NAD 400 A 1 HETATM 22 C C4A NAD . . . D 3 -15.296 7.835 26.938 1 75.03 ? C4A NAD 400 A 1 HETATM 23 O O3 NAD . . . D 3 -7.666 6.244 25.085 1 75.06 ? O3 NAD 400 A 1 HETATM 24 P PN NAD . . . D 3 -6.58 5.382 24.318 1 78.28 ? PN NAD 400 A 1 HETATM 25 O O1N NAD . . . D 3 -6.907 3.955 24.519 1 80.28 ? O1N NAD 400 A 1 HETATM 26 O O2N NAD . . . D 3 -5.22 5.858 24.648 1 78.13 ? O2N NAD 400 A 1 HETATM 27 O O5D NAD . . . D 3 -6.913 5.725 22.79 1 81.25 ? O5D NAD 400 A 1 HETATM 28 C C5D NAD . . . D 3 -7.562 6.912 22.385 1 84.21 ? C5D NAD 400 A 1 HETATM 29 C C4D NAD . . . D 3 -7.131 7.251 20.965 1 85.81 ? C4D NAD 400 A 1 HETATM 30 O O4D NAD . . . D 3 -5.83 7.806 21.02 1 87.26 ? O4D NAD 400 A 1 HETATM 31 C C3D NAD . . . D 3 -7.071 6.024 20.061 1 87.61 ? C3D NAD 400 A 1 HETATM 32 O O3D NAD . . . D 3 -7.925 6.155 18.956 1 88.82 ? O3D NAD 400 A 1 HETATM 33 C C2D NAD . . . D 3 -5.622 5.91 19.62 1 88.67 ? C2D NAD 400 A 1 HETATM 34 O O2D NAD . . . D 3 -5.487 5.663 18.237 1 88.91 ? O2D NAD 400 A 1 HETATM 35 C C1D NAD . . . D 3 -4.994 7.242 20.021 1 89.02 ? C1D NAD 400 A 1 HETATM 36 N N1N NAD . . . D 3 -3.602 7.029 20.488 1 90.27 ? N1N NAD 400 A 1 HETATM 37 C C2N NAD . . . D 3 -2.571 7.485 19.709 1 90.64 ? C2N NAD 400 A 1 HETATM 38 C C3N NAD . . . D 3 -1.248 7.299 20.109 1 91.09 ? C3N NAD 400 A 1 HETATM 39 C C7N NAD . . . D 3 -0.134 7.824 19.234 1 91.54 ? C7N NAD 400 A 1 HETATM 40 O O7N NAD . . . D 3 -0.479 8.48 18.034 1 92.75 ? O7N NAD 400 A 1 HETATM 41 N N7N NAD . . . D 3 1.155 7.675 19.559 1 91.6 ? N7N NAD 400 A 1 HETATM 42 C C4N NAD . . . D 3 -0.996 6.634 21.307 1 90.88 ? C4N NAD 400 A 1 HETATM 43 C C5N NAD . . . D 3 -2.043 6.167 22.095 1 90.47 ? C5N NAD 400 A 1 HETATM 44 C C6N NAD . . . D 3 -3.351 6.373 21.67 1 90.54 ? C6N NAD 400 A 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 26 _model_server_stats.query_time_ms 316 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 44 #