data_1DR4 # _model_server_result.job_id 5OaBLfunzHU0Fann5LFrQA _model_server_result.datetime_utc '2025-03-04 09:23:07' _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 1dr4 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":191}' # _entry.id 1DR4 # _exptl.entry_id 1DR4 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 743.405 _entity.id 4 _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 124.8 _cell.angle_gamma 90 _cell.entry_id 1DR4 _cell.length_a 89.08 _cell.length_b 48.29 _cell.length_c 64.32 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1DR4 _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 ? monomeric 1 author_defined_assembly 1 PISA dimeric 2 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,C,D,E,F 1 1 A,B,C,D,E,F 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_656 -x+1,y,-z+1 -1 0 0 0 1 0 0 0 -1 52.371703 0 52.816317 # _struct_asym.details ? _struct_asym.entity_id 4 _struct_asym.id D _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag 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 SG CYS 11 A CYS 11 1_555 B HG HG . A HG 190 1_555 ? A ? ? A ? ? ? ? ? ? ? 2.436 ? metalc ? metalc2 A SG CYS 11 A CYS 11 1_555 B HG HG . A HG 190 1_555 ? B ? ? B ? ? ? ? ? ? ? 2.476 ? metalc ? metalc3 A OD1 ASN 13 A ASN 13 1_555 B HG HG . A HG 190 1_555 ? ? ? ? A ? ? ? ? ? ? ? 2.906 ? metalc ? metalc4 A ND2 ASN 13 A ASN 13 1_555 B HG HG . A HG 190 1_555 ? ? ? ? A ? ? ? ? ? ? ? 3.016 ? metalc ? metalc5 A O GLY 15 A GLY 15 1_555 B HG HG . A HG 190 1_555 ? ? ? ? B ? ? ? ? ? ? ? 3.469 ? metalc ? metalc6 A OE2 GLU 78 A GLU 78 1_555 C CA CA . A CA 200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.957 ? metalc ? metalc7 A OE2 GLU 78 A GLU 78 2_656 C CA CA . A CA 200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.053 ? metalc ? metalc8 A N PHE 142 A PHE 142 1_555 B HG HG . A HG 190 1_555 ? ? ? ? A ? ? ? ? ? ? ? 3.108 ? metalc ? metalc9 A O PHE 142 A PHE 142 1_555 B HG HG . A HG 190 1_555 ? ? ? ? A ? ? ? ? ? ? ? 2.884 ? metalc ? metalc10 A O PHE 142 A PHE 142 1_555 B HG HG . A HG 190 1_555 ? ? ? ? B ? ? ? ? ? ? ? 3.289 ? metalc ? metalc11 A OG SER 144 A SER 144 1_555 B HG HG . A HG 190 1_555 ? ? ? ? B ? ? ? ? ? ? ? 2.509 ? metalc ? metalc12 B HG HG . A HG 190 1_555 F O HOH . A HOH 705 1_555 ? A ? ? ? ? ? ? ? ? ? ? 2.947 ? metalc ? metalc13 B HG HG . A HG 190 1_555 F O HOH . A HOH 705 1_555 ? B ? ? ? ? ? ? ? ? ? ? 3.326 ? metalc ? metalc14 D O1X NAP . A NAP 191 1_555 C CA CA . A CA 200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.219 ? metalc ? metalc15 D O1X NAP . A NAP 191 2_656 C CA CA . A CA 200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.367 ? metalc ? metalc16 C CA CA . A CA 200 1_555 F O HOH . A HOH 278 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.135 ? metalc ? metalc17 C CA CA . A CA 200 1_555 F O HOH . A HOH 278 2_656 ? ? ? ? ? ? ? ? ? ? ? ? 2.237 ? # _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 268 n n PA O2A NAP sing 269 n n PA O5B NAP sing 270 n n PA O3 NAP sing 271 n n O2A HOA2 NAP sing 272 n n O5B C5B NAP sing 273 n n C5B C4B NAP sing 274 n n C5B H51A NAP sing 275 n n C5B H52A NAP sing 276 n n C4B O4B NAP sing 277 n n C4B C3B NAP sing 278 n n C4B H4B NAP sing 279 n n O4B C1B NAP sing 280 n n C3B O3B NAP sing 281 n n C3B C2B NAP sing 282 n n C3B H3B NAP sing 283 n n O3B HO3A NAP sing 284 n n C2B O2B NAP sing 285 n n C2B C1B NAP sing 286 n n C2B H2B NAP sing 287 n n O2B P2B NAP sing 288 n n C1B N9A NAP sing 289 n n C1B H1B NAP sing 290 n n N9A C8A NAP sing 291 n y N9A C4A NAP sing 292 n y C8A N7A NAP doub 293 n y C8A H8A NAP sing 294 n n N7A C5A NAP sing 295 n y C5A C6A NAP sing 296 n y C5A C4A NAP doub 297 n y C6A N6A NAP sing 298 n n C6A N1A NAP doub 299 n y N6A H61A NAP sing 300 n n N6A H62A NAP sing 301 n n N1A C2A NAP sing 302 n y C2A N3A NAP doub 303 n y C2A H2A NAP sing 304 n n N3A C4A NAP sing 305 n y O3 PN NAP sing 306 n n PN O1N NAP doub 307 n n PN O2N NAP sing 308 n n PN O5D NAP sing 309 n n O5D C5D NAP sing 310 n n C5D C4D NAP sing 311 n n C5D H51N NAP sing 312 n n C5D H52N NAP sing 313 n n C4D O4D NAP sing 314 n n C4D C3D NAP sing 315 n n C4D H4D NAP sing 316 n n O4D C1D NAP sing 317 n n C3D O3D NAP sing 318 n n C3D C2D NAP sing 319 n n C3D H3D NAP sing 320 n n O3D HO3N NAP sing 321 n n C2D O2D NAP sing 322 n n C2D C1D NAP sing 323 n n C2D H2D NAP sing 324 n n O2D HO2N NAP sing 325 n n C1D N1N NAP sing 326 n n C1D H1D NAP sing 327 n n N1N C2N NAP sing 328 n y N1N C6N NAP doub 329 n y C2N C3N NAP doub 330 n y C2N H2N NAP sing 331 n n C3N C7N NAP sing 332 n n C3N C4N NAP sing 333 n y C7N O7N NAP doub 334 n n C7N N7N NAP sing 335 n n N7N H71N NAP sing 336 n n N7N H72N NAP sing 337 n n C4N C5N NAP doub 338 n y C4N H4N NAP sing 339 n n C5N C6N NAP sing 340 n y C5N H5N NAP sing 341 n n C6N H6N NAP sing 342 n n P2B O1X NAP doub 343 n n P2B O2X NAP sing 344 n n P2B O3X NAP sing 345 n n O2X HOP2 NAP sing 346 n n O3X HOP3 NAP sing 347 n n # _atom_sites.entry_id 1DR4 _atom_sites.fract_transf_matrix[1][1] 0.011226 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.007802 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.020708 _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] 0.018934 _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 HG A 1 190 11 HG HG . C 3 CA A 1 200 200 CA CA . D 4 NAP A 1 191 191 NAP NAP . E 5 HBI A 1 198 198 HBI BIO . F 6 HOH A 1 202 202 HOH HOH . F 6 HOH A 2 203 203 HOH HOH . F 6 HOH A 3 205 205 HOH HOH . F 6 HOH A 4 220 220 HOH HOH . F 6 HOH A 5 230 230 HOH HOH . F 6 HOH A 6 233 233 HOH HOH . F 6 HOH A 7 240 240 HOH HOH . F 6 HOH A 8 257 257 HOH HOH . F 6 HOH A 9 265 265 HOH HOH . F 6 HOH A 10 278 278 HOH HOH . F 6 HOH A 11 279 279 HOH HOH . F 6 HOH A 12 295 295 HOH HOH . F 6 HOH A 13 318 318 HOH HOH . F 6 HOH A 14 330 330 HOH HOH . F 6 HOH A 15 335 335 HOH HOH . F 6 HOH A 16 339 339 HOH HOH . F 6 HOH A 17 342 342 HOH HOH . F 6 HOH A 18 346 346 HOH HOH . F 6 HOH A 19 358 358 HOH HOH . F 6 HOH A 20 365 365 HOH HOH . F 6 HOH A 21 367 367 HOH HOH . F 6 HOH A 22 368 368 HOH HOH . F 6 HOH A 23 379 379 HOH HOH . F 6 HOH A 24 392 392 HOH HOH . F 6 HOH A 25 393 393 HOH HOH . F 6 HOH A 26 424 424 HOH HOH . F 6 HOH A 27 427 427 HOH HOH . F 6 HOH A 28 430 430 HOH HOH . F 6 HOH A 29 440 440 HOH HOH . F 6 HOH A 30 455 455 HOH HOH . F 6 HOH A 31 463 463 HOH HOH . F 6 HOH A 32 493 493 HOH HOH . F 6 HOH A 33 539 539 HOH HOH . F 6 HOH A 34 546 546 HOH HOH . F 6 HOH A 35 547 547 HOH HOH . F 6 HOH A 36 551 551 HOH HOH . F 6 HOH A 37 584 584 HOH HOH . F 6 HOH A 38 585 585 HOH HOH . F 6 HOH A 39 601 601 HOH HOH . F 6 HOH A 40 602 602 HOH HOH . F 6 HOH A 41 603 603 HOH HOH . F 6 HOH A 42 604 604 HOH HOH . F 6 HOH A 43 605 605 HOH HOH . F 6 HOH A 44 606 606 HOH HOH . F 6 HOH A 45 607 607 HOH HOH . F 6 HOH A 46 608 608 HOH HOH . F 6 HOH A 47 609 609 HOH HOH . F 6 HOH A 48 610 610 HOH HOH . F 6 HOH A 49 611 611 HOH HOH . F 6 HOH A 50 612 612 HOH HOH . F 6 HOH A 51 613 613 HOH HOH . F 6 HOH A 52 614 614 HOH HOH . F 6 HOH A 53 615 615 HOH HOH . F 6 HOH A 54 617 617 HOH HOH . F 6 HOH A 55 618 618 HOH HOH . F 6 HOH A 56 619 619 HOH HOH . F 6 HOH A 57 620 620 HOH HOH . F 6 HOH A 58 621 621 HOH HOH . F 6 HOH A 59 622 622 HOH HOH . F 6 HOH A 60 623 623 HOH HOH . F 6 HOH A 61 624 624 HOH HOH . F 6 HOH A 62 626 626 HOH HOH . F 6 HOH A 63 627 627 HOH HOH . F 6 HOH A 64 630 630 HOH HOH . F 6 HOH A 65 637 637 HOH HOH . F 6 HOH A 66 644 644 HOH HOH . F 6 HOH A 67 647 647 HOH HOH . F 6 HOH A 68 648 648 HOH HOH . F 6 HOH A 69 652 652 HOH HOH . F 6 HOH A 70 655 655 HOH HOH . F 6 HOH A 71 662 662 HOH HOH . F 6 HOH A 72 667 667 HOH HOH . F 6 HOH A 73 670 670 HOH HOH . F 6 HOH A 74 672 672 HOH HOH . F 6 HOH A 75 705 705 HOH HOH . F 6 HOH A 76 733 733 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 . . . D 4 21.849 5.209 18.051 1 23.1 ? PA NAP 191 A 1 HETATM 2 O O1A NAP . . . D 4 21.139 3.915 18.04 1 20.09 ? O1A NAP 191 A 1 HETATM 3 O O2A NAP . . . D 4 21.059 6.196 17.187 1 22.45 ? O2A NAP 191 A 1 HETATM 4 O O5B NAP . . . D 4 22.083 5.942 19.464 1 28.09 ? O5B NAP 191 A 1 HETATM 5 C C5B NAP . . . D 4 22.701 5.297 20.582 1 29.97 ? C5B NAP 191 A 1 HETATM 6 C C4B NAP . . . D 4 22.14 5.723 21.908 1 28.21 ? C4B NAP 191 A 1 HETATM 7 O O4B NAP . . . D 4 20.967 5.746 21.888 1 26.98 ? O4B NAP 191 A 1 HETATM 8 C C3B NAP . . . D 4 22.615 4.733 23.031 1 24.87 ? C3B NAP 191 A 1 HETATM 9 O O3B NAP . . . D 4 23.959 5.267 23.438 1 28.93 ? O3B NAP 191 A 1 HETATM 10 C C2B NAP . . . D 4 21.533 5.141 24.059 1 24.17 ? C2B NAP 191 A 1 HETATM 11 O O2B NAP . . . D 4 21.764 6.405 24.566 1 29.61 ? O2B NAP 191 A 1 HETATM 12 C C1B NAP . . . D 4 20.373 5.264 23.136 1 26.09 ? C1B NAP 191 A 1 HETATM 13 N N9A NAP . . . D 4 19.766 3.946 22.829 1 22.6 ? N9A NAP 191 A 1 HETATM 14 C C8A NAP . . . D 4 19.948 3.239 21.707 1 26.5 ? C8A NAP 191 A 1 HETATM 15 N N7A NAP . . . D 4 19.18 2.159 21.726 1 26.2 ? N7A NAP 191 A 1 HETATM 16 C C5A NAP . . . D 4 18.576 2.257 23.046 1 23.83 ? C5A NAP 191 A 1 HETATM 17 C C6A NAP . . . D 4 17.547 1.426 23.864 1 22.63 ? C6A NAP 191 A 1 HETATM 18 N N6A NAP . . . D 4 17.005 0.263 23.436 1 21.59 ? N6A NAP 191 A 1 HETATM 19 N N1A NAP . . . D 4 17.128 1.904 25.038 1 27.78 ? N1A NAP 191 A 1 HETATM 20 C C2A NAP . . . D 4 17.707 3.048 25.443 1 27.03 ? C2A NAP 191 A 1 HETATM 21 N N3A NAP . . . D 4 18.555 3.873 24.839 1 27.59 ? N3A NAP 191 A 1 HETATM 22 C C4A NAP . . . D 4 18.974 3.363 23.644 1 25.46 ? C4A NAP 191 A 1 HETATM 23 O O3 NAP . . . D 4 23.259 5.138 17.39 1 23.06 ? O3 NAP 191 A 1 HETATM 24 P PN NAP . . . D 4 23.931 4.228 16.251 1 23.03 ? PN NAP 191 A 1 HETATM 25 O O1N NAP . . . D 4 23.501 2.847 16.264 1 25.31 ? O1N NAP 191 A 1 HETATM 26 O O2N NAP . . . D 4 25.371 4.359 16.271 1 26.53 ? O2N NAP 191 A 1 HETATM 27 O O5D NAP . . . D 4 23.337 4.964 14.923 1 25.54 ? O5D NAP 191 A 1 HETATM 28 C C5D NAP . . . D 4 23.696 6.368 14.589 1 19.6 ? C5D NAP 191 A 1 HETATM 29 C C4D NAP . . . D 4 24.591 6.229 13.354 1 18.56 ? C4D NAP 191 A 1 HETATM 30 O O4D NAP . . . D 4 23.881 5.444 12.386 1 18.66 ? O4D NAP 191 A 1 HETATM 31 C C3D NAP . . . D 4 24.93 7.57 12.548 1 21.39 ? C3D NAP 191 A 1 HETATM 32 O O3D NAP . . . D 4 26.112 7.305 11.716 1 15.08 ? O3D NAP 191 A 1 HETATM 33 C C2D NAP . . . D 4 23.648 7.647 11.648 1 23.33 ? C2D NAP 191 A 1 HETATM 34 O O2D NAP . . . D 4 23.946 8.489 10.546 1 24.02 ? O2D NAP 191 A 1 HETATM 35 C C1D NAP . . . D 4 23.46 6.218 11.223 1 18.14 ? C1D NAP 191 A 1 HETATM 36 N N1N NAP . . . D 4 22.037 5.897 10.748 1 21.44 ? N1N NAP 191 A 1 HETATM 37 C C2N NAP . . . D 4 21.74 5.383 9.468 1 16.04 ? C2N NAP 191 A 1 HETATM 38 C C3N NAP . . . D 4 20.528 4.973 9.122 1 16.73 ? C3N NAP 191 A 1 HETATM 39 C C7N NAP . . . D 4 20.363 4.449 7.763 1 21.27 ? C7N NAP 191 A 1 HETATM 40 O O7N NAP . . . D 4 19.198 4.091 7.387 1 16.37 ? O7N NAP 191 A 1 HETATM 41 N N7N NAP . . . D 4 21.466 4.36 6.977 1 17.74 ? N7N NAP 191 A 1 HETATM 42 C C4N NAP . . . D 4 19.303 5.008 10.088 1 19.12 ? C4N NAP 191 A 1 HETATM 43 C C5N NAP . . . D 4 19.764 5.553 11.442 1 18.75 ? C5N NAP 191 A 1 HETATM 44 C C6N NAP . . . D 4 21.008 5.94 11.702 1 16.89 ? C6N NAP 191 A 1 HETATM 45 P P2B NAP . . . D 4 22.532 6.712 25.921 1 30.74 ? P2B NAP 191 A 1 HETATM 46 O O1X NAP . . . D 4 24.002 6.432 25.744 1 26.19 ? O1X NAP 191 A 1 HETATM 47 O O2X NAP . . . D 4 21.9 5.697 26.852 1 34.19 ? O2X NAP 191 A 1 HETATM 48 O O3X NAP . . . D 4 22.206 8.096 26.353 1 24.53 ? O3X NAP 191 A 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 318 _model_server_stats.encode_time_ms 13 _model_server_stats.element_count 48 #