data_4J16 # _model_server_result.job_id GXSnCYk25w3n24-JG7leCQ _model_server_result.datetime_utc '2024-10-18 23:29:47' _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 4j16 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":500}' # _entry.id 4J16 # _exptl.entry_id 4J16 _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 4J16 _cell.length_a 67.616 _cell.length_b 75.038 _cell.length_c 198.144 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4J16 _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,K,L,M _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 4J16 _atom_sites.fract_transf_matrix[1][1] 0.014789 _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] 0.013327 _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] 0.005047 _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 1 500 500 NAD NAD . E 3 NAD B 1 401 500 NAD NAD . F 4 CL B 1 402 1 CL CL . G 5 PGE B 1 403 2 PGE PGE . H 6 GOL B 1 404 3 GOL GOL . I 7 NAP C 1 501 500 NAP NAP . J 6 GOL C 1 502 4 GOL GOL . K 8 HOH A 1 601 1 HOH HOH . K 8 HOH A 2 602 3 HOH HOH . K 8 HOH A 3 603 4 HOH HOH . K 8 HOH A 4 604 8 HOH HOH . K 8 HOH A 5 605 9 HOH HOH . K 8 HOH A 6 606 11 HOH HOH . K 8 HOH A 7 607 15 HOH HOH . K 8 HOH A 8 608 16 HOH HOH . K 8 HOH A 9 609 18 HOH HOH . K 8 HOH A 10 610 19 HOH HOH . K 8 HOH A 11 611 23 HOH HOH . K 8 HOH A 12 612 28 HOH HOH . K 8 HOH A 13 613 30 HOH HOH . K 8 HOH A 14 614 31 HOH HOH . K 8 HOH A 15 615 32 HOH HOH . K 8 HOH A 16 616 36 HOH HOH . K 8 HOH A 17 617 41 HOH HOH . K 8 HOH A 18 618 44 HOH HOH . K 8 HOH A 19 619 45 HOH HOH . K 8 HOH A 20 620 47 HOH HOH . K 8 HOH A 21 621 48 HOH HOH . K 8 HOH A 22 622 50 HOH HOH . K 8 HOH A 23 623 51 HOH HOH . K 8 HOH A 24 624 54 HOH HOH . K 8 HOH A 25 625 55 HOH HOH . K 8 HOH A 26 626 58 HOH HOH . K 8 HOH A 27 627 59 HOH HOH . K 8 HOH A 28 628 60 HOH HOH . K 8 HOH A 29 629 61 HOH HOH . K 8 HOH A 30 630 63 HOH HOH . K 8 HOH A 31 631 64 HOH HOH . K 8 HOH A 32 632 66 HOH HOH . K 8 HOH A 33 633 69 HOH HOH . K 8 HOH A 34 634 71 HOH HOH . K 8 HOH A 35 635 72 HOH HOH . K 8 HOH A 36 636 73 HOH HOH . K 8 HOH A 37 637 80 HOH HOH . K 8 HOH A 38 638 82 HOH HOH . K 8 HOH A 39 639 90 HOH HOH . K 8 HOH A 40 640 98 HOH HOH . K 8 HOH A 41 641 99 HOH HOH . K 8 HOH A 42 642 100 HOH HOH . K 8 HOH A 43 643 103 HOH HOH . K 8 HOH A 44 644 105 HOH HOH . K 8 HOH A 45 645 107 HOH HOH . K 8 HOH A 46 646 108 HOH HOH . K 8 HOH A 47 647 111 HOH HOH . K 8 HOH A 48 648 114 HOH HOH . K 8 HOH A 49 649 115 HOH HOH . K 8 HOH A 50 650 116 HOH HOH . K 8 HOH A 51 651 117 HOH HOH . K 8 HOH A 52 652 121 HOH HOH . L 8 HOH B 1 501 5 HOH HOH . L 8 HOH B 2 502 13 HOH HOH . L 8 HOH B 3 503 14 HOH HOH . L 8 HOH B 4 504 17 HOH HOH . L 8 HOH B 5 505 21 HOH HOH . L 8 HOH B 6 506 24 HOH HOH . L 8 HOH B 7 507 25 HOH HOH . L 8 HOH B 8 508 26 HOH HOH . L 8 HOH B 9 509 27 HOH HOH . L 8 HOH B 10 510 29 HOH HOH . L 8 HOH B 11 511 33 HOH HOH . L 8 HOH B 12 512 35 HOH HOH . L 8 HOH B 13 513 43 HOH HOH . L 8 HOH B 14 514 46 HOH HOH . L 8 HOH B 15 515 49 HOH HOH . L 8 HOH B 16 516 56 HOH HOH . L 8 HOH B 17 517 65 HOH HOH . L 8 HOH B 18 518 67 HOH HOH . L 8 HOH B 19 519 70 HOH HOH . L 8 HOH B 20 520 78 HOH HOH . L 8 HOH B 21 521 79 HOH HOH . L 8 HOH B 22 522 81 HOH HOH . L 8 HOH B 23 523 85 HOH HOH . L 8 HOH B 24 524 86 HOH HOH . L 8 HOH B 25 525 87 HOH HOH . L 8 HOH B 26 526 89 HOH HOH . L 8 HOH B 27 527 91 HOH HOH . L 8 HOH B 28 528 92 HOH HOH . L 8 HOH B 29 529 93 HOH HOH . L 8 HOH B 30 530 95 HOH HOH . L 8 HOH B 31 531 104 HOH HOH . L 8 HOH B 32 532 106 HOH HOH . L 8 HOH B 33 533 110 HOH HOH . L 8 HOH B 34 534 119 HOH HOH . L 8 HOH B 35 535 120 HOH HOH . M 8 HOH C 1 601 2 HOH HOH . M 8 HOH C 2 602 6 HOH HOH . M 8 HOH C 3 603 7 HOH HOH . M 8 HOH C 4 604 10 HOH HOH . M 8 HOH C 5 605 12 HOH HOH . M 8 HOH C 6 606 20 HOH HOH . M 8 HOH C 7 607 22 HOH HOH . M 8 HOH C 8 608 34 HOH HOH . M 8 HOH C 9 609 37 HOH HOH . M 8 HOH C 10 610 38 HOH HOH . M 8 HOH C 11 611 39 HOH HOH . M 8 HOH C 12 612 40 HOH HOH . M 8 HOH C 13 613 42 HOH HOH . M 8 HOH C 14 614 52 HOH HOH . M 8 HOH C 15 615 53 HOH HOH . M 8 HOH C 16 616 57 HOH HOH . M 8 HOH C 17 617 62 HOH HOH . M 8 HOH C 18 618 68 HOH HOH . M 8 HOH C 19 619 74 HOH HOH . M 8 HOH C 20 620 75 HOH HOH . M 8 HOH C 21 621 76 HOH HOH . M 8 HOH C 22 622 77 HOH HOH . M 8 HOH C 23 623 83 HOH HOH . M 8 HOH C 24 624 84 HOH HOH . M 8 HOH C 25 625 88 HOH HOH . M 8 HOH C 26 626 94 HOH HOH . M 8 HOH C 27 627 96 HOH HOH . M 8 HOH C 28 628 97 HOH HOH . M 8 HOH C 29 629 101 HOH HOH . M 8 HOH C 30 630 102 HOH HOH . M 8 HOH C 31 631 109 HOH HOH . M 8 HOH C 32 632 112 HOH HOH . M 8 HOH C 33 633 113 HOH HOH . M 8 HOH C 34 634 118 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 28.935 12.382 -13.152 1 114.68 ? PA NAD 500 A 1 HETATM 2 O O1A NAD . . . D 3 28.082 12.235 -11.741 1 110.02 ? O1A NAD 500 A 1 HETATM 3 O O2A NAD . . . D 3 30.342 11.529 -13.276 1 114.72 ? O2A NAD 500 A 1 HETATM 4 O O5B NAD . . . D 3 29.256 14.003 -13.33 1 120.27 ? O5B NAD 500 A 1 HETATM 5 C C5B NAD . . . D 3 29.81 14.547 -14.535 1 120.85 ? C5B NAD 500 A 1 HETATM 6 C C4B NAD . . . D 3 31.337 14.715 -14.519 1 127.85 ? C4B NAD 500 A 1 HETATM 7 O O4B NAD . . . D 3 31.619 16.034 -14.034 1 139.59 ? O4B NAD 500 A 1 HETATM 8 C C3B NAD . . . D 3 32.049 13.851 -13.472 1 129.35 ? C3B NAD 500 A 1 HETATM 9 O O3B NAD . . . D 3 32.384 12.538 -13.95 1 113.36 ? O3B NAD 500 A 1 HETATM 10 C C2B NAD . . . D 3 33.329 14.634 -13.154 1 137.4 ? C2B NAD 500 A 1 HETATM 11 O O2B NAD . . . D 3 34.471 14.119 -13.844 1 139.67 ? O2B NAD 500 A 1 HETATM 12 C C1B NAD . . . D 3 32.99 16.068 -13.593 1 147.13 ? C1B NAD 500 A 1 HETATM 13 N N9A NAD . . . D 3 33.321 16.973 -12.476 1 156.73 ? N9A NAD 500 A 1 HETATM 14 C C8A NAD . . . D 3 32.431 17.673 -11.74 1 159.1 ? C8A NAD 500 A 1 HETATM 15 N N7A NAD . . . D 3 33.082 18.393 -10.804 1 161.01 ? N7A NAD 500 A 1 HETATM 16 C C5A NAD . . . D 3 34.411 18.167 -10.925 1 160.05 ? C5A NAD 500 A 1 HETATM 17 C C6A NAD . . . D 3 35.547 18.625 -10.248 1 162.57 ? C6A NAD 500 A 1 HETATM 18 N N6A NAD . . . D 3 35.443 19.488 -9.229 1 164.34 ? N6A NAD 500 A 1 HETATM 19 N N1A NAD . . . D 3 36.782 18.199 -10.615 1 160.99 ? N1A NAD 500 A 1 HETATM 20 C C2A NAD . . . D 3 36.901 17.331 -11.639 1 154.27 ? C2A NAD 500 A 1 HETATM 21 N N3A NAD . . . D 3 35.824 16.872 -12.311 1 154.86 ? N3A NAD 500 A 1 HETATM 22 C C4A NAD . . . D 3 34.56 17.263 -11.99 1 157.23 ? C4A NAD 500 A 1 HETATM 23 O O3 NAD . . . D 3 28.056 11.998 -14.5 1 107.47 ? O3 NAD 500 A 1 HETATM 24 P PN NAD . . . D 3 26.462 11.612 -14.343 1 106.38 ? PN NAD 500 A 1 HETATM 25 O O1N NAD . . . D 3 25.745 12.961 -13.709 1 116.85 ? O1N NAD 500 A 1 HETATM 26 O O2N NAD . . . D 3 26.308 10.183 -13.541 1 103.64 ? O2N NAD 500 A 1 HETATM 27 O O5D NAD . . . D 3 25.886 11.377 -15.875 1 104.37 ? O5D NAD 500 A 1 HETATM 28 C C5D NAD . . . D 3 24.737 10.525 -15.991 1 108.06 ? C5D NAD 500 A 1 HETATM 29 C C4D NAD . . . D 3 23.482 11.234 -16.544 1 109.12 ? C4D NAD 500 A 1 HETATM 30 O O4D NAD . . . D 3 22.7 11.809 -15.495 1 110.29 ? O4D NAD 500 A 1 HETATM 31 C C3D NAD . . . D 3 23.863 12.34 -17.528 1 114.39 ? C3D NAD 500 A 1 HETATM 32 O O3D NAD . . . D 3 23.16 12.109 -18.755 1 113.65 ? O3D NAD 500 A 1 HETATM 33 C C2D NAD . . . D 3 23.347 13.641 -16.876 1 119.23 ? C2D NAD 500 A 1 HETATM 34 O O2D NAD . . . D 3 22.721 14.47 -17.873 1 116.13 ? O2D NAD 500 A 1 HETATM 35 C C1D NAD . . . D 3 22.381 13.187 -15.763 1 118.36 ? C1D NAD 500 A 1 HETATM 36 N N1N NAD . . . D 3 22.588 13.924 -14.505 1 119.37 ? N1N NAD 500 A 1 HETATM 37 C C2N NAD . . . D 3 22.108 13.387 -13.358 1 119.84 ? C2N NAD 500 A 1 HETATM 38 C C3N NAD . . . D 3 22.273 14.026 -12.129 1 125.24 ? C3N NAD 500 A 1 HETATM 39 C C7N NAD . . . D 3 21.728 13.4 -10.883 1 123.31 ? C7N NAD 500 A 1 HETATM 40 O O7N NAD . . . D 3 21.953 13.902 -9.793 1 123.93 ? O7N NAD 500 A 1 HETATM 41 N N7N NAD . . . D 3 20.992 12.286 -11.012 1 119.43 ? N7N NAD 500 A 1 HETATM 42 C C4N NAD . . . D 3 22.947 15.254 -12.076 1 127.07 ? C4N NAD 500 A 1 HETATM 43 C C5N NAD . . . D 3 23.435 15.792 -13.27 1 122.99 ? C5N NAD 500 A 1 HETATM 44 C C6N NAD . . . D 3 23.247 15.117 -14.476 1 119.86 ? C6N NAD 500 A 1 # _model_server_stats.io_time_ms 20 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 355 _model_server_stats.encode_time_ms 11 _model_server_stats.element_count 44 #