data_3RU2 # _model_server_result.job_id Kj_MZMOU6exX_rlAXggISg _model_server_result.datetime_utc '2024-11-15 07:22:47' _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 3ru2 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":492}' # _entry.id 3RU2 # _exptl.entry_id 3RU2 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 745.421 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'NADPH DIHYDRO-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 90 _cell.entry_id 3RU2 _cell.length_a 122.29 _cell.length_b 122.29 _cell.length_c 155.779 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3RU2 _symmetry.cell_setting ? _symmetry.Int_Tables_number 97 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'I 4 2 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details hexadecameric _pdbx_struct_assembly.oligomeric_count 16 _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3,4,5,6,7,8 # 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_555 -x,-y,z -1 0 0 0 -1 0 0 0 1 0 0 0 3 'crystal symmetry operation' 3_555 -y,x,z 0 -1 0 1 0 0 0 0 1 0 0 0 4 'crystal symmetry operation' 4_555 y,-x,z 0 1 0 -1 0 0 0 0 1 0 0 0 5 'crystal symmetry operation' 5_555 -x,y,-z -1 0 0 0 1 0 0 0 -1 0 0 0 6 'crystal symmetry operation' 6_555 x,-y,-z 1 0 0 0 -1 0 0 0 -1 0 0 0 7 'crystal symmetry operation' 7_555 y,x,-z 0 1 0 1 0 0 0 0 -1 0 0 0 8 'crystal symmetry operation' 8_555 -y,-x,-z 0 -1 0 -1 0 0 0 0 -1 0 0 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 OD1 ASN 64 A ASN 52 1_555 C K K . A K 491 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.948 ? metalc ? metalc2 A O ASP 126 A ASP 114 1_555 C K K . A K 491 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.94 ? metalc ? metalc3 A OD2 ASP 126 A ASP 114 1_555 C K K . A K 491 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.379 ? metalc ? metalc4 A O PHE 129 A PHE 117 1_555 C K K . A K 491 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.814 ? metalc ? metalc5 A O VAL 158 A VAL 146 1_555 C K K . A K 491 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.897 ? metalc ? metalc6 A O VAL 160 A VAL 148 1_555 C K K . A K 491 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.768 ? metalc ? metalc7 A OG SER 162 A SER 150 1_555 C K K . A K 491 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.088 ? # _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 237 n n PA O2A NDP sing 238 n n PA O5B NDP sing 239 n n PA O3 NDP sing 240 n n O2A HOA2 NDP sing 241 n n O5B C5B NDP sing 242 n n C5B C4B NDP sing 243 n n C5B H51A NDP sing 244 n n C5B H52A NDP sing 245 n n C4B O4B NDP sing 246 n n C4B C3B NDP sing 247 n n C4B H4B NDP sing 248 n n O4B C1B NDP sing 249 n n C3B O3B NDP sing 250 n n C3B C2B NDP sing 251 n n C3B H3B NDP sing 252 n n O3B HO3A NDP sing 253 n n C2B O2B NDP sing 254 n n C2B C1B NDP sing 255 n n C2B H2B NDP sing 256 n n O2B P2B NDP sing 257 n n C1B N9A NDP sing 258 n n C1B H1B NDP sing 259 n n N9A C8A NDP sing 260 n y N9A C4A NDP sing 261 n y C8A N7A NDP doub 262 n y C8A H8A NDP sing 263 n n N7A C5A NDP sing 264 n y C5A C6A NDP sing 265 n y C5A C4A NDP doub 266 n y C6A N6A NDP sing 267 n n C6A N1A NDP doub 268 n y N6A H61A NDP sing 269 n n N6A H62A NDP sing 270 n n N1A C2A NDP sing 271 n y C2A N3A NDP doub 272 n y C2A H2A NDP sing 273 n n N3A C4A NDP sing 274 n y O3 PN NDP sing 275 n n PN O1N NDP doub 276 n n PN O2N NDP sing 277 n n PN O5D NDP sing 278 n n O2N H21N NDP sing 279 n n O5D C5D NDP sing 280 n n C5D C4D NDP sing 281 n n C5D H51N NDP sing 282 n n C5D H52N NDP sing 283 n n C4D O4D NDP sing 284 n n C4D C3D NDP sing 285 n n C4D H4D NDP sing 286 n n O4D C1D NDP sing 287 n n C3D O3D NDP sing 288 n n C3D C2D NDP sing 289 n n C3D H3D NDP sing 290 n n O3D HO3N NDP sing 291 n n C2D O2D NDP sing 292 n n C2D C1D NDP sing 293 n n C2D H2D NDP sing 294 n n O2D HO2N NDP sing 295 n n C1D N1N NDP sing 296 n n C1D H1D NDP sing 297 n n N1N C2N NDP sing 298 n n N1N C6N NDP sing 299 n n C2N C3N NDP doub 300 n n C2N H2N NDP sing 301 n n C3N C7N NDP sing 302 n n C3N C4N NDP sing 303 n n C7N O7N NDP doub 304 n n C7N N7N NDP sing 305 n n N7N H71N NDP sing 306 n n N7N H72N NDP sing 307 n n C4N C5N NDP sing 308 n n C4N H41N NDP sing 309 n n C4N H42N NDP sing 310 n n C5N C6N NDP doub 311 n n C5N H5N NDP sing 312 n n C6N H6N NDP sing 313 n n P2B O1X NDP doub 314 n n P2B O2X NDP sing 315 n n P2B O3X NDP sing 316 n n O2X HOP2 NDP sing 317 n n O3X HOP3 NDP sing 318 n n # _atom_sites.entry_id 3RU2 _atom_sites.fract_transf_matrix[1][1] 0.008177 _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] 0.008177 _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] 0.006419 _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 C 3 K A 1 491 1 K K . D 4 NDP A 1 492 2 NDP NDP . E 5 NPW A 1 493 3 NPW NPW . F 6 HOH A 1 494 1 HOH HOH . F 6 HOH A 2 495 2 HOH HOH . F 6 HOH A 3 496 3 HOH HOH . F 6 HOH A 4 497 4 HOH HOH . F 6 HOH A 5 498 5 HOH HOH . F 6 HOH A 6 499 6 HOH HOH . F 6 HOH A 7 500 7 HOH HOH . F 6 HOH A 8 501 8 HOH HOH . F 6 HOH A 9 502 9 HOH HOH . F 6 HOH A 10 503 10 HOH HOH . F 6 HOH A 11 504 11 HOH HOH . F 6 HOH A 12 505 12 HOH HOH . F 6 HOH A 13 506 13 HOH HOH . F 6 HOH A 14 507 14 HOH HOH . F 6 HOH A 15 508 15 HOH HOH . F 6 HOH A 16 509 16 HOH HOH . F 6 HOH A 17 510 18 HOH HOH . F 6 HOH A 18 511 19 HOH HOH . F 6 HOH A 19 512 20 HOH HOH . F 6 HOH A 20 513 21 HOH HOH . F 6 HOH A 21 514 22 HOH HOH . F 6 HOH A 22 515 23 HOH HOH . F 6 HOH A 23 516 24 HOH HOH . F 6 HOH A 24 517 25 HOH HOH . F 6 HOH A 25 518 26 HOH HOH . F 6 HOH A 26 519 27 HOH HOH . F 6 HOH A 27 520 28 HOH HOH . F 6 HOH A 28 521 29 HOH HOH . F 6 HOH A 29 522 30 HOH HOH . F 6 HOH A 30 523 31 HOH HOH . F 6 HOH A 31 524 32 HOH HOH . F 6 HOH A 32 525 33 HOH HOH . F 6 HOH A 33 526 34 HOH HOH . F 6 HOH A 34 527 35 HOH HOH . F 6 HOH A 35 528 36 HOH HOH . F 6 HOH A 36 529 37 HOH HOH . F 6 HOH A 37 530 38 HOH HOH . F 6 HOH A 38 531 39 HOH HOH . F 6 HOH A 39 532 40 HOH HOH . F 6 HOH A 40 533 41 HOH HOH . F 6 HOH A 41 534 42 HOH HOH . F 6 HOH A 42 535 43 HOH HOH . F 6 HOH A 43 536 44 HOH HOH . F 6 HOH A 44 537 45 HOH HOH . F 6 HOH A 45 538 46 HOH HOH . F 6 HOH A 46 539 47 HOH HOH . F 6 HOH A 47 540 48 HOH HOH . F 6 HOH A 48 541 49 HOH HOH . F 6 HOH A 49 542 50 HOH HOH . F 6 HOH A 50 543 51 HOH HOH . F 6 HOH A 51 544 52 HOH HOH . F 6 HOH A 52 545 53 HOH HOH . F 6 HOH A 53 546 54 HOH HOH . F 6 HOH A 54 547 55 HOH HOH . F 6 HOH A 55 548 56 HOH HOH . F 6 HOH A 56 549 57 HOH HOH . F 6 HOH A 57 550 58 HOH HOH . F 6 HOH A 58 551 59 HOH HOH . F 6 HOH A 59 552 60 HOH HOH . F 6 HOH A 60 553 61 HOH HOH . F 6 HOH A 61 554 62 HOH HOH . F 6 HOH A 62 555 63 HOH HOH . F 6 HOH A 63 556 64 HOH HOH . F 6 HOH A 64 557 65 HOH HOH . F 6 HOH A 65 558 66 HOH HOH . F 6 HOH A 66 559 67 HOH HOH . F 6 HOH A 67 560 68 HOH HOH . F 6 HOH A 68 561 69 HOH HOH . F 6 HOH A 69 562 70 HOH HOH . F 6 HOH A 70 563 71 HOH HOH . F 6 HOH A 71 564 72 HOH HOH . F 6 HOH A 72 565 73 HOH HOH . F 6 HOH A 73 566 74 HOH HOH . F 6 HOH A 74 567 75 HOH HOH . F 6 HOH A 75 568 76 HOH HOH . F 6 HOH A 76 569 77 HOH HOH . F 6 HOH A 77 570 78 HOH HOH . F 6 HOH A 78 571 79 HOH HOH . F 6 HOH A 79 572 80 HOH HOH . F 6 HOH A 80 573 81 HOH HOH . F 6 HOH A 81 574 82 HOH HOH . F 6 HOH A 82 575 83 HOH HOH . F 6 HOH A 83 576 84 HOH HOH . F 6 HOH A 84 577 85 HOH HOH . F 6 HOH A 85 578 86 HOH HOH . F 6 HOH A 86 579 87 HOH HOH . F 6 HOH A 87 580 88 HOH HOH . F 6 HOH A 88 581 89 HOH HOH . F 6 HOH A 89 582 90 HOH HOH . F 6 HOH A 90 583 91 HOH HOH . F 6 HOH A 91 584 92 HOH HOH . F 6 HOH A 92 585 93 HOH HOH . F 6 HOH A 93 586 94 HOH HOH . F 6 HOH A 94 587 95 HOH HOH . F 6 HOH A 95 588 96 HOH HOH . F 6 HOH A 96 589 97 HOH HOH . G 6 HOH B 1 17 17 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 . . . D 4 51.653 -11.87 -15.626 1 35.5 ? PA NDP 492 A 1 HETATM 2 O O1A NDP . . . D 4 50.376 -11.531 -16.296 1 35.02 ? O1A NDP 492 A 1 HETATM 3 O O2A NDP . . . D 4 51.627 -12.196 -14.157 1 34.33 ? O2A NDP 492 A 1 HETATM 4 O O5B NDP . . . D 4 52.101 -13.176 -16.403 1 35.72 ? O5B NDP 492 A 1 HETATM 5 C C5B NDP . . . D 4 53.463 -13.512 -16.431 1 38.66 ? C5B NDP 492 A 1 HETATM 6 C C4B NDP . . . D 4 53.618 -14.944 -15.942 1 41.27 ? C4B NDP 492 A 1 HETATM 7 O O4B NDP . . . D 4 53.022 -15.913 -16.816 1 37.89 ? O4B NDP 492 A 1 HETATM 8 C C3B NDP . . . D 4 55.089 -15.31 -15.898 1 43.59 ? C3B NDP 492 A 1 HETATM 9 O O3B NDP . . . D 4 55.259 -16.188 -14.791 1 41.5 ? O3B NDP 492 A 1 HETATM 10 C C2B NDP . . . D 4 55.281 -15.958 -17.282 1 43.45 ? C2B NDP 492 A 1 HETATM 11 O O2B NDP . . . D 4 56.295 -16.925 -17.332 1 48.9 ? O2B NDP 492 A 1 HETATM 12 C C1B NDP . . . D 4 53.993 -16.739 -17.437 1 42.13 ? C1B NDP 492 A 1 HETATM 13 N N9A NDP . . . D 4 53.446 -17.032 -18.784 1 41.62 ? N9A NDP 492 A 1 HETATM 14 C C8A NDP . . . D 4 53.039 -16.107 -19.729 1 39.92 ? C8A NDP 492 A 1 HETATM 15 N N7A NDP . . . D 4 52.461 -16.79 -20.744 1 37.68 ? N7A NDP 492 A 1 HETATM 16 C C5A NDP . . . D 4 52.475 -18.109 -20.471 1 39.71 ? C5A NDP 492 A 1 HETATM 17 C C6A NDP . . . D 4 52.029 -19.216 -21.187 1 38.61 ? C6A NDP 492 A 1 HETATM 18 N N6A NDP . . . D 4 51.445 -19.08 -22.385 1 38.49 ? N6A NDP 492 A 1 HETATM 19 N N1A NDP . . . D 4 52.188 -20.45 -20.616 1 40.19 ? N1A NDP 492 A 1 HETATM 20 C C2A NDP . . . D 4 52.748 -20.604 -19.354 1 41.26 ? C2A NDP 492 A 1 HETATM 21 N N3A NDP . . . D 4 53.19 -19.498 -18.659 1 38.23 ? N3A NDP 492 A 1 HETATM 22 C C4A NDP . . . D 4 53.084 -18.279 -19.224 1 38.97 ? C4A NDP 492 A 1 HETATM 23 O O3 NDP . . . D 4 52.704 -10.745 -16.061 1 32.37 ? O3 NDP 492 A 1 HETATM 24 P PN NDP . . . D 4 53.4 -9.577 -15.242 1 35.89 ? PN NDP 492 A 1 HETATM 25 O O1N NDP . . . D 4 54.301 -10.135 -14.244 1 27.5 ? O1N NDP 492 A 1 HETATM 26 O O2N NDP . . . D 4 53.706 -8.736 -16.422 1 27.67 ? O2N NDP 492 A 1 HETATM 27 O O5D NDP . . . D 4 52.217 -8.916 -14.365 1 32.15 ? O5D NDP 492 A 1 HETATM 28 C C5D NDP . . . D 4 51.168 -8.139 -14.972 1 32.23 ? C5D NDP 492 A 1 HETATM 29 C C4D NDP . . . D 4 50.012 -8.134 -13.987 1 32.92 ? C4D NDP 492 A 1 HETATM 30 O O4D NDP . . . D 4 50.43 -7.524 -12.74 1 33.77 ? O4D NDP 492 A 1 HETATM 31 C C3D NDP . . . D 4 48.743 -7.391 -14.455 1 32.19 ? C3D NDP 492 A 1 HETATM 32 O O3D NDP . . . D 4 47.83 -8.276 -15.085 1 27.53 ? O3D NDP 492 A 1 HETATM 33 C C2D NDP . . . D 4 48.212 -6.924 -13.103 1 32.13 ? C2D NDP 492 A 1 HETATM 34 O O2D NDP . . . D 4 47.606 -8.045 -12.452 1 27.35 ? O2D NDP 492 A 1 HETATM 35 C C1D NDP . . . D 4 49.485 -6.52 -12.343 1 32.19 ? C1D NDP 492 A 1 HETATM 36 N N1N NDP . . . D 4 49.941 -5.173 -12.715 1 26.97 ? N1N NDP 492 A 1 HETATM 37 P P2B NDP . . . D 4 57.715 -16.596 -18.006 1 51.99 ? P2B NDP 492 A 1 HETATM 38 O O1X NDP . . . D 4 58.314 -17.956 -17.923 1 53.49 ? O1X NDP 492 A 1 HETATM 39 O O2X NDP . . . D 4 58.431 -15.555 -17.167 1 53.87 ? O2X NDP 492 A 1 HETATM 40 O O3X NDP . . . D 4 57.517 -16.112 -19.413 1 53.87 ? O3X NDP 492 A 1 # _model_server_stats.io_time_ms 57 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 9 _model_server_stats.query_time_ms 251 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 40 #