data_1DR5 # _model_server_result.job_id NyFDFEH2_BlYq7OfoonLBg _model_server_result.datetime_utc '2025-03-04 09:36:09' _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 1dr5 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":191}' # _entry.id 1DR5 # _exptl.entry_id 1DR5 _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 1DR5 _cell.length_a 89.15 _cell.length_b 48.27 _cell.length_c 64.17 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1DR5 _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'C 1 2 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E _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 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 ? ? ? ? ? ? ? 2.453 ? metalc ? metalc2 A SG CYS 11 A CYS 11 1_555 B HG HG . A HG 190 1_555 ? B ? ? B ? ? ? ? ? ? ? 2.441 ? metalc ? metalc3 A OD1 ASN 13 A ASN 13 1_555 B HG HG . A HG 190 1_555 ? ? ? ? A ? ? ? ? ? ? ? 2.829 ? metalc ? metalc4 A ND2 ASN 13 A ASN 13 1_555 B HG HG . A HG 190 1_555 ? ? ? ? A ? ? ? ? ? ? ? 2.796 ? metalc ? metalc5 A O GLY 15 A GLY 15 1_555 B HG HG . A HG 190 1_555 ? ? ? ? B ? ? ? ? ? ? ? 3.345 ? metalc ? metalc6 A OE2 GLU 78 A GLU 78 1_555 C CA CA . A CA 200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.84 ? metalc ? metalc7 A OE2 GLU 78 A GLU 78 2_656 C CA CA . A CA 200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.844 ? metalc ? metalc8 A N PHE 142 A PHE 142 1_555 B HG HG . A HG 190 1_555 ? ? ? ? A ? ? ? ? ? ? ? 3.119 ? metalc ? metalc9 A O PHE 142 A PHE 142 1_555 B HG HG . A HG 190 1_555 ? ? ? ? A ? ? ? ? ? ? ? 2.911 ? metalc ? metalc10 A O PHE 142 A PHE 142 1_555 B HG HG . A HG 190 1_555 ? ? ? ? B ? ? ? ? ? ? ? 3.538 ? metalc ? metalc11 A OG SER 144 A SER 144 1_555 B HG HG . A HG 190 1_555 ? ? ? ? B ? ? ? ? ? ? ? 2.471 ? metalc ? metalc12 B HG HG . A HG 190 1_555 E O HOH . A HOH 705 1_555 ? A ? ? ? ? ? ? ? ? ? ? 2.539 ? metalc ? metalc13 B HG HG . A HG 190 1_555 E O HOH . A HOH 705 1_555 ? B ? ? ? ? ? ? ? ? ? ? 3.112 ? metalc ? metalc14 D O1X NAP . A NAP 191 1_555 C CA CA . A CA 200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.275 ? metalc ? metalc15 D O1X NAP . A NAP 191 2_656 C CA CA . A CA 200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.286 ? metalc ? metalc16 C CA CA . A CA 200 1_555 E O HOH . A HOH 278 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.186 ? metalc ? metalc17 C CA CA . A CA 200 1_555 E O HOH . A HOH 278 2_656 ? ? ? ? ? ? ? ? ? ? ? ? 2.191 ? # _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 237 n n PA O2A NAP sing 238 n n PA O5B NAP sing 239 n n PA O3 NAP sing 240 n n O2A HOA2 NAP sing 241 n n O5B C5B NAP sing 242 n n C5B C4B NAP sing 243 n n C5B H51A NAP sing 244 n n C5B H52A NAP sing 245 n n C4B O4B NAP sing 246 n n C4B C3B NAP sing 247 n n C4B H4B NAP sing 248 n n O4B C1B NAP sing 249 n n C3B O3B NAP sing 250 n n C3B C2B NAP sing 251 n n C3B H3B NAP sing 252 n n O3B HO3A NAP sing 253 n n C2B O2B NAP sing 254 n n C2B C1B NAP sing 255 n n C2B H2B NAP sing 256 n n O2B P2B NAP sing 257 n n C1B N9A NAP sing 258 n n C1B H1B NAP sing 259 n n N9A C8A NAP sing 260 n y N9A C4A NAP sing 261 n y C8A N7A NAP doub 262 n y C8A H8A NAP sing 263 n n N7A C5A NAP sing 264 n y C5A C6A NAP sing 265 n y C5A C4A NAP doub 266 n y C6A N6A NAP sing 267 n n C6A N1A NAP doub 268 n y N6A H61A NAP sing 269 n n N6A H62A NAP sing 270 n n N1A C2A NAP sing 271 n y C2A N3A NAP doub 272 n y C2A H2A NAP sing 273 n n N3A C4A NAP sing 274 n y O3 PN NAP sing 275 n n PN O1N NAP doub 276 n n PN O2N NAP sing 277 n n PN O5D NAP sing 278 n n O5D C5D NAP sing 279 n n C5D C4D NAP sing 280 n n C5D H51N NAP sing 281 n n C5D H52N NAP sing 282 n n C4D O4D NAP sing 283 n n C4D C3D NAP sing 284 n n C4D H4D NAP sing 285 n n O4D C1D NAP sing 286 n n C3D O3D NAP sing 287 n n C3D C2D NAP sing 288 n n C3D H3D NAP sing 289 n n O3D HO3N NAP sing 290 n n C2D O2D NAP sing 291 n n C2D C1D NAP sing 292 n n C2D H2D NAP sing 293 n n O2D HO2N NAP sing 294 n n C1D N1N NAP sing 295 n n C1D H1D NAP sing 296 n n N1N C2N NAP sing 297 n y N1N C6N NAP doub 298 n y C2N C3N NAP doub 299 n y C2N H2N NAP sing 300 n n C3N C7N NAP sing 301 n n C3N C4N NAP sing 302 n y C7N O7N NAP doub 303 n n C7N N7N NAP sing 304 n n N7N H71N NAP sing 305 n n N7N H72N NAP sing 306 n n C4N C5N NAP doub 307 n y C4N H4N NAP sing 308 n n C5N C6N NAP sing 309 n y C5N H5N NAP sing 310 n n C6N H6N NAP sing 311 n n P2B O1X NAP doub 312 n n P2B O2X NAP sing 313 n n P2B O3X NAP sing 314 n n O2X HOP2 NAP sing 315 n n O3X HOP3 NAP sing 316 n n # _atom_sites.entry_id 1DR5 _atom_sites.fract_transf_matrix[1][1] 0.011217 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.007796 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.020717 _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] 0.018978 _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 HOH A 1 202 202 HOH HOH . E 5 HOH A 2 205 205 HOH HOH . E 5 HOH A 3 220 220 HOH HOH . E 5 HOH A 4 229 229 HOH HOH . E 5 HOH A 5 230 230 HOH HOH . E 5 HOH A 6 233 233 HOH HOH . E 5 HOH A 7 240 240 HOH HOH . E 5 HOH A 8 257 257 HOH HOH . E 5 HOH A 9 265 265 HOH HOH . E 5 HOH A 10 278 278 HOH HOH . E 5 HOH A 11 279 279 HOH HOH . E 5 HOH A 12 295 295 HOH HOH . E 5 HOH A 13 318 318 HOH HOH . E 5 HOH A 14 330 330 HOH HOH . E 5 HOH A 15 335 335 HOH HOH . E 5 HOH A 16 342 342 HOH HOH . E 5 HOH A 17 346 346 HOH HOH . E 5 HOH A 18 358 358 HOH HOH . E 5 HOH A 19 365 365 HOH HOH . E 5 HOH A 20 367 367 HOH HOH . E 5 HOH A 21 392 392 HOH HOH . E 5 HOH A 22 393 393 HOH HOH . E 5 HOH A 23 424 424 HOH HOH . E 5 HOH A 24 427 427 HOH HOH . E 5 HOH A 25 440 440 HOH HOH . E 5 HOH A 26 463 463 HOH HOH . E 5 HOH A 27 493 493 HOH HOH . E 5 HOH A 28 547 547 HOH HOH . E 5 HOH A 29 551 551 HOH HOH . E 5 HOH A 30 584 584 HOH HOH . E 5 HOH A 31 585 585 HOH HOH . E 5 HOH A 32 601 601 HOH HOH . E 5 HOH A 33 602 602 HOH HOH . E 5 HOH A 34 603 603 HOH HOH . E 5 HOH A 35 604 604 HOH HOH . E 5 HOH A 36 605 605 HOH HOH . E 5 HOH A 37 606 606 HOH HOH . E 5 HOH A 38 607 607 HOH HOH . E 5 HOH A 39 608 608 HOH HOH . E 5 HOH A 40 609 609 HOH HOH . E 5 HOH A 41 610 610 HOH HOH . E 5 HOH A 42 611 611 HOH HOH . E 5 HOH A 43 612 612 HOH HOH . E 5 HOH A 44 613 613 HOH HOH . E 5 HOH A 45 614 614 HOH HOH . E 5 HOH A 46 615 615 HOH HOH . E 5 HOH A 47 617 617 HOH HOH . E 5 HOH A 48 619 619 HOH HOH . E 5 HOH A 49 621 621 HOH HOH . E 5 HOH A 50 622 622 HOH HOH . E 5 HOH A 51 623 623 HOH HOH . E 5 HOH A 52 624 624 HOH HOH . E 5 HOH A 53 625 625 HOH HOH . E 5 HOH A 54 626 626 HOH HOH . E 5 HOH A 55 627 627 HOH HOH . E 5 HOH A 56 630 630 HOH HOH . E 5 HOH A 57 637 637 HOH HOH . E 5 HOH A 58 644 644 HOH HOH . E 5 HOH A 59 647 647 HOH HOH . E 5 HOH A 60 648 648 HOH HOH . E 5 HOH A 61 650 650 HOH HOH . E 5 HOH A 62 652 652 HOH HOH . E 5 HOH A 63 655 655 HOH HOH . E 5 HOH A 64 667 667 HOH HOH . E 5 HOH A 65 670 670 HOH HOH . E 5 HOH A 66 672 672 HOH HOH . E 5 HOH A 67 677 677 HOH HOH . E 5 HOH A 68 681 681 HOH HOH . E 5 HOH A 69 682 682 HOH HOH . E 5 HOH A 70 683 683 HOH HOH . E 5 HOH A 71 684 684 HOH HOH . E 5 HOH A 72 685 685 HOH HOH . E 5 HOH A 73 705 705 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 21.917 5.218 17.945 1 26.2 ? PA NAP 191 A 1 HETATM 2 O O1A NAP . . . D 4 21.059 4.014 18.073 1 24.15 ? O1A NAP 191 A 1 HETATM 3 O O2A NAP . . . D 4 21.21 6.295 17.107 1 31.54 ? O2A NAP 191 A 1 HETATM 4 O O5B NAP . . . D 4 22.299 5.9 19.385 1 33.01 ? O5B NAP 191 A 1 HETATM 5 C C5B NAP . . . D 4 22.668 5.001 20.465 1 25.38 ? C5B NAP 191 A 1 HETATM 6 C C4B NAP . . . D 4 22.23 5.563 21.786 1 29.9 ? C4B NAP 191 A 1 HETATM 7 O O4B NAP . . . D 4 21.08 5.626 21.808 1 29.53 ? O4B NAP 191 A 1 HETATM 8 C C3B NAP . . . D 4 22.726 4.638 22.962 1 26.23 ? C3B NAP 191 A 1 HETATM 9 O O3B NAP . . . D 4 24.091 5.134 23.269 1 26.66 ? O3B NAP 191 A 1 HETATM 10 C C2B NAP . . . D 4 21.673 5.073 23.969 1 28.32 ? C2B NAP 191 A 1 HETATM 11 O O2B NAP . . . D 4 21.884 6.329 24.508 1 34.23 ? O2B NAP 191 A 1 HETATM 12 C C1B NAP . . . D 4 20.477 5.174 23.072 1 29.23 ? C1B NAP 191 A 1 HETATM 13 N N9A NAP . . . D 4 19.828 3.87 22.773 1 25.2 ? N9A NAP 191 A 1 HETATM 14 C C8A NAP . . . D 4 20.016 3.19 21.645 1 27.7 ? C8A NAP 191 A 1 HETATM 15 N N7A NAP . . . D 4 19.23 2.131 21.615 1 28.48 ? N7A NAP 191 A 1 HETATM 16 C C5A NAP . . . D 4 18.578 2.221 22.903 1 25.95 ? C5A NAP 191 A 1 HETATM 17 C C6A NAP . . . D 4 17.544 1.35 23.687 1 29.36 ? C6A NAP 191 A 1 HETATM 18 N N6A NAP . . . D 4 17.048 0.201 23.202 1 25.07 ? N6A NAP 191 A 1 HETATM 19 N N1A NAP . . . D 4 17.12 1.77 24.887 1 31.34 ? N1A NAP 191 A 1 HETATM 20 C C2A NAP . . . D 4 17.678 2.909 25.306 1 27.92 ? C2A NAP 191 A 1 HETATM 21 N N3A NAP . . . D 4 18.566 3.731 24.755 1 33.11 ? N3A NAP 191 A 1 HETATM 22 C C4A NAP . . . D 4 18.979 3.296 23.536 1 27.89 ? C4A NAP 191 A 1 HETATM 23 O O3 NAP . . . D 4 23.284 4.995 17.303 1 27.53 ? O3 NAP 191 A 1 HETATM 24 P PN NAP . . . D 4 24.064 4.183 16.208 1 26.86 ? PN NAP 191 A 1 HETATM 25 O O1N NAP . . . D 4 23.7 2.779 16.166 1 29.4 ? O1N NAP 191 A 1 HETATM 26 O O2N NAP . . . D 4 25.474 4.422 16.166 1 29.42 ? O2N NAP 191 A 1 HETATM 27 O O5D NAP . . . D 4 23.475 4.902 14.854 1 28.64 ? O5D NAP 191 A 1 HETATM 28 C C5D NAP . . . D 4 23.798 6.31 14.545 1 24.45 ? C5D NAP 191 A 1 HETATM 29 C C4D NAP . . . D 4 24.649 6.167 13.283 1 25.3 ? C4D NAP 191 A 1 HETATM 30 O O4D NAP . . . D 4 23.856 5.381 12.374 1 26.71 ? O4D NAP 191 A 1 HETATM 31 C C3D NAP . . . D 4 24.956 7.526 12.489 1 23.95 ? C3D NAP 191 A 1 HETATM 32 O O3D NAP . . . D 4 26.127 7.22 11.628 1 22.3 ? O3D NAP 191 A 1 HETATM 33 C C2D NAP . . . D 4 23.657 7.616 11.651 1 25.99 ? C2D NAP 191 A 1 HETATM 34 O O2D NAP . . . D 4 23.919 8.441 10.502 1 29.78 ? O2D NAP 191 A 1 HETATM 35 C C1D NAP . . . D 4 23.486 6.182 11.193 1 25.36 ? C1D NAP 191 A 1 HETATM 36 N N1N NAP . . . D 4 22.078 5.882 10.667 1 24.8 ? N1N NAP 191 A 1 HETATM 37 C C2N NAP . . . D 4 21.77 5.315 9.432 1 22.43 ? C2N NAP 191 A 1 HETATM 38 C C3N NAP . . . D 4 20.516 4.972 9.104 1 20.73 ? C3N NAP 191 A 1 HETATM 39 C C7N NAP . . . D 4 20.286 4.387 7.785 1 19.53 ? C7N NAP 191 A 1 HETATM 40 O O7N NAP . . . D 4 19.104 4.046 7.49 1 18.5 ? O7N NAP 191 A 1 HETATM 41 N N7N NAP . . . D 4 21.308 4.177 6.959 1 22.26 ? N7N NAP 191 A 1 HETATM 42 C C4N NAP . . . D 4 19.306 5.145 10.064 1 21.36 ? C4N NAP 191 A 1 HETATM 43 C C5N NAP . . . D 4 19.808 5.723 11.373 1 21.51 ? C5N NAP 191 A 1 HETATM 44 C C6N NAP . . . D 4 21.055 6.029 11.633 1 20.6 ? C6N NAP 191 A 1 HETATM 45 P P2B NAP . . . D 4 22.665 6.574 25.891 1 31.23 ? P2B NAP 191 A 1 HETATM 46 O O1X NAP . . . D 4 24.104 6.214 25.614 1 24.78 ? O1X NAP 191 A 1 HETATM 47 O O2X NAP . . . D 4 21.98 5.595 26.753 1 32.79 ? O2X NAP 191 A 1 HETATM 48 O O3X NAP . . . D 4 22.448 8.011 26.288 1 22.71 ? O3X NAP 191 A 1 # _model_server_stats.io_time_ms 6 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 269 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 48 #