data_4DTI # _model_server_result.job_id jCarELWSqcqejtQEFsH4RA _model_server_result.datetime_utc '2024-11-22 00:12:57' _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 4dti # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":500}' # _entry.id 4DTI # _exptl.entry_id 4DTI _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 665.441 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '1,4-DIHYDRONICOTINAMIDE ADENINE DINUCLEOTIDE' _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 120 _cell.entry_id 4DTI _cell.length_a 97.986 _cell.length_b 97.986 _cell.length_c 139.605 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4DTI _symmetry.cell_setting ? _symmetry.Int_Tables_number 180 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 62 2 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3,4 # 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' 4_545 -x,-y-1,z -1 0 0 0 -1 0 0 0 1 48.993 -84.858365 0 3 'crystal symmetry operation' 9_555 -x,-x+y,-z+1/3 -0.5 -0.866025 0 -0.866025 0.5 0 0 0 -1 0 0 46.535 4 'crystal symmetry operation' 12_545 x,x-y-1,-z+1/3 0.5 0.866025 0 0.866025 -0.5 0 0 0 -1 48.993 -84.858365 46.535 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C21 H29 N7 O14 P2' _chem_comp.formula_weight 665.441 _chem_comp.id NAI _chem_comp.mon_nstd_flag . _chem_comp.name '1,4-DIHYDRONICOTINAMIDE ADENINE DINUCLEOTIDE' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms NADH # 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 NAI doub 237 n n PA O2A NAI sing 238 n n PA O5B NAI sing 239 n n PA O3 NAI sing 240 n n O2A HOA2 NAI sing 241 n n O5B C5B NAI sing 242 n n C5B C4B NAI sing 243 n n C5B H51A NAI sing 244 n n C5B H52A NAI sing 245 n n C4B O4B NAI sing 246 n n C4B C3B NAI sing 247 n n C4B H4B NAI sing 248 n n O4B C1B NAI sing 249 n n C3B O3B NAI sing 250 n n C3B C2B NAI sing 251 n n C3B H3B NAI sing 252 n n O3B HO3A NAI sing 253 n n C2B O2B NAI sing 254 n n C2B C1B NAI sing 255 n n C2B H2B NAI sing 256 n n O2B HO2A NAI sing 257 n n C1B N9A NAI sing 258 n n C1B H1B NAI sing 259 n n N9A C8A NAI sing 260 n y N9A C4A NAI sing 261 n y C8A N7A NAI doub 262 n y C8A H8A NAI sing 263 n n N7A C5A NAI sing 264 n y C5A C6A NAI sing 265 n y C5A C4A NAI doub 266 n y C6A N6A NAI sing 267 n n C6A N1A NAI doub 268 n y N6A H61A NAI sing 269 n n N6A H62A NAI sing 270 n n N1A C2A NAI sing 271 n y C2A N3A NAI doub 272 n y C2A H2A NAI sing 273 n n N3A C4A NAI sing 274 n y O3 PN NAI sing 275 n n PN O1N NAI sing 276 n n PN O2N NAI doub 277 n n PN O5D NAI sing 278 n n O1N HO1N NAI sing 279 n n O5D C5D NAI sing 280 n n C5D C4D NAI sing 281 n n C5D H51N NAI sing 282 n n C5D H52N NAI sing 283 n n C4D O4D NAI sing 284 n n C4D C3D NAI sing 285 n n C4D H4D NAI sing 286 n n O4D C1D NAI sing 287 n n C3D O3D NAI sing 288 n n C3D C2D NAI sing 289 n n C3D H3D NAI sing 290 n n O3D HO3N NAI sing 291 n n C2D O2D NAI sing 292 n n C2D C1D NAI sing 293 n n C2D H2D NAI sing 294 n n O2D HO2N NAI sing 295 n n C1D N1N NAI sing 296 n n C1D H1D NAI sing 297 n n N1N C2N NAI sing 298 n n N1N C6N NAI sing 299 n n C2N C3N NAI doub 300 n n C2N H2N NAI sing 301 n n C3N C7N NAI sing 302 n n C3N C4N NAI sing 303 n n C7N O7N NAI doub 304 n n C7N N7N NAI sing 305 n n N7N H71N NAI sing 306 n n N7N H72N NAI sing 307 n n C4N C5N NAI sing 308 n n C4N H4N NAI sing 309 n n C4N H42N NAI sing 310 n n C5N C6N NAI doub 311 n n C5N H5N NAI sing 312 n n C6N H6N NAI sing 313 n n # _atom_sites.entry_id 4DTI _atom_sites.fract_transf_matrix[1][1] 0.010206 _atom_sites.fract_transf_matrix[1][2] 0.005892 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.011784 _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] 0.007163 _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 NAI A 1 500 500 NAI NAD . C 3 HOH A 1 601 7 HOH HOH . C 3 HOH A 2 602 8 HOH HOH . C 3 HOH A 3 603 17 HOH HOH . C 3 HOH A 4 604 18 HOH HOH . C 3 HOH A 5 605 19 HOH HOH . C 3 HOH A 6 606 20 HOH HOH . C 3 HOH A 7 607 33 HOH HOH . C 3 HOH A 8 608 39 HOH HOH . C 3 HOH A 9 609 58 HOH HOH . C 3 HOH A 10 610 59 HOH HOH . C 3 HOH A 11 611 66 HOH HOH . C 3 HOH A 12 612 69 HOH HOH . C 3 HOH A 13 613 70 HOH HOH . C 3 HOH A 14 614 73 HOH HOH . C 3 HOH A 15 615 80 HOH HOH . C 3 HOH A 16 616 85 HOH HOH . C 3 HOH A 17 617 103 HOH HOH . C 3 HOH A 18 618 104 HOH HOH . C 3 HOH A 19 619 114 HOH HOH . C 3 HOH A 20 620 126 HOH HOH . C 3 HOH A 21 621 127 HOH HOH . C 3 HOH A 22 622 130 HOH HOH . C 3 HOH A 23 623 133 HOH HOH . C 3 HOH A 24 624 135 HOH HOH . C 3 HOH A 25 625 136 HOH HOH . C 3 HOH A 26 626 138 HOH HOH . C 3 HOH A 27 627 141 HOH HOH . C 3 HOH A 28 628 142 HOH HOH . C 3 HOH A 29 629 149 HOH HOH . C 3 HOH A 30 630 150 HOH HOH . C 3 HOH A 31 631 151 HOH HOH . C 3 HOH A 32 632 152 HOH HOH . C 3 HOH A 33 633 154 HOH HOH . C 3 HOH A 34 634 155 HOH HOH . C 3 HOH A 35 635 156 HOH HOH . C 3 HOH A 36 636 157 HOH HOH . C 3 HOH A 37 637 158 HOH HOH . C 3 HOH A 38 638 159 HOH HOH . C 3 HOH A 39 639 160 HOH HOH . C 3 HOH A 40 640 161 HOH HOH . C 3 HOH A 41 641 162 HOH HOH . C 3 HOH A 42 642 163 HOH HOH . C 3 HOH A 43 643 165 HOH HOH . C 3 HOH A 44 644 166 HOH HOH . C 3 HOH A 45 645 167 HOH HOH . C 3 HOH A 46 646 168 HOH HOH . C 3 HOH A 47 647 170 HOH HOH . C 3 HOH A 48 648 171 HOH HOH . C 3 HOH A 49 649 172 HOH HOH . C 3 HOH A 50 650 173 HOH HOH . C 3 HOH A 51 651 174 HOH HOH . C 3 HOH A 52 652 175 HOH HOH . C 3 HOH A 53 653 176 HOH HOH . C 3 HOH A 54 654 177 HOH HOH . C 3 HOH A 55 655 178 HOH HOH . C 3 HOH A 56 656 179 HOH HOH . C 3 HOH A 57 657 180 HOH HOH . C 3 HOH A 58 658 181 HOH HOH . C 3 HOH A 59 659 182 HOH HOH . C 3 HOH A 60 660 183 HOH HOH . C 3 HOH A 61 661 184 HOH HOH . C 3 HOH A 62 662 185 HOH HOH . C 3 HOH A 63 663 186 HOH HOH . C 3 HOH A 64 664 187 HOH HOH . C 3 HOH A 65 665 188 HOH HOH . C 3 HOH A 66 666 189 HOH HOH . C 3 HOH A 67 667 190 HOH HOH . C 3 HOH A 68 668 191 HOH HOH . C 3 HOH A 69 669 193 HOH HOH . C 3 HOH A 70 670 195 HOH HOH . C 3 HOH A 71 671 196 HOH HOH . C 3 HOH A 72 672 197 HOH HOH . C 3 HOH A 73 673 198 HOH HOH . C 3 HOH A 74 674 199 HOH HOH . C 3 HOH A 75 675 200 HOH HOH . C 3 HOH A 76 676 201 HOH HOH . C 3 HOH A 77 677 202 HOH HOH . C 3 HOH A 78 678 203 HOH HOH . C 3 HOH A 79 679 204 HOH HOH . C 3 HOH A 80 680 205 HOH HOH . C 3 HOH A 81 681 206 HOH HOH . C 3 HOH A 82 682 208 HOH HOH . C 3 HOH A 83 683 209 HOH HOH . C 3 HOH A 84 684 210 HOH HOH . C 3 HOH A 85 685 213 HOH HOH . C 3 HOH A 86 686 215 HOH HOH . C 3 HOH A 87 687 216 HOH HOH . C 3 HOH A 88 688 218 HOH HOH . C 3 HOH A 89 689 220 HOH HOH . C 3 HOH A 90 690 221 HOH HOH . C 3 HOH A 91 691 222 HOH HOH . C 3 HOH A 92 692 223 HOH HOH . C 3 HOH A 93 693 225 HOH HOH . C 3 HOH A 94 694 226 HOH HOH . C 3 HOH A 95 695 228 HOH HOH . C 3 HOH A 96 696 229 HOH HOH . C 3 HOH A 97 697 230 HOH HOH . C 3 HOH A 98 698 232 HOH HOH . C 3 HOH A 99 699 234 HOH HOH . C 3 HOH A 100 700 236 HOH HOH . C 3 HOH A 101 701 240 HOH HOH . C 3 HOH A 102 702 241 HOH HOH . C 3 HOH A 103 703 243 HOH HOH . C 3 HOH A 104 704 246 HOH HOH . C 3 HOH A 105 705 248 HOH HOH . C 3 HOH A 106 706 250 HOH HOH . C 3 HOH A 107 707 251 HOH HOH . C 3 HOH A 108 708 252 HOH HOH . C 3 HOH A 109 709 253 HOH HOH . C 3 HOH A 110 710 256 HOH HOH . C 3 HOH A 111 711 260 HOH HOH . C 3 HOH A 112 712 262 HOH HOH . C 3 HOH A 113 713 263 HOH HOH . C 3 HOH A 114 714 266 HOH HOH . C 3 HOH A 115 715 270 HOH HOH . C 3 HOH A 116 716 271 HOH HOH . C 3 HOH A 117 717 274 HOH HOH . C 3 HOH A 118 718 280 HOH HOH . C 3 HOH A 119 719 285 HOH HOH . C 3 HOH A 120 720 286 HOH HOH . C 3 HOH A 121 721 288 HOH HOH . C 3 HOH A 122 722 291 HOH HOH . C 3 HOH A 123 723 292 HOH HOH . C 3 HOH A 124 724 293 HOH HOH . C 3 HOH A 125 725 295 HOH HOH . C 3 HOH A 126 726 298 HOH HOH . C 3 HOH A 127 727 299 HOH HOH . C 3 HOH A 128 728 301 HOH HOH . C 3 HOH A 129 729 303 HOH HOH . C 3 HOH A 130 730 304 HOH HOH . C 3 HOH A 131 731 305 HOH HOH . C 3 HOH A 132 732 308 HOH HOH . C 3 HOH A 133 733 313 HOH HOH . C 3 HOH A 134 734 314 HOH HOH . C 3 HOH A 135 735 315 HOH HOH . C 3 HOH A 136 736 316 HOH HOH . C 3 HOH A 137 737 317 HOH HOH . C 3 HOH A 138 738 318 HOH HOH . C 3 HOH A 139 739 320 HOH HOH . C 3 HOH A 140 740 321 HOH HOH . C 3 HOH A 141 741 322 HOH HOH . C 3 HOH A 142 742 323 HOH HOH . C 3 HOH A 143 743 325 HOH HOH . C 3 HOH A 144 744 327 HOH HOH . C 3 HOH A 145 745 328 HOH HOH . C 3 HOH A 146 746 329 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 NAI . . . B 2 0.659 -33.567 11.078 1 22.45 ? PA NAI 500 A 1 HETATM 2 O O1A NAI . . . B 2 0.802 -32.253 10.407 1 20.25 ? O1A NAI 500 A 1 HETATM 3 O O2A NAI . . . B 2 -0.321 -34.591 10.62 1 21.24 ? O2A NAI 500 A 1 HETATM 4 O O5B NAI . . . B 2 0.382 -33.38 12.639 1 21.92 ? O5B NAI 500 A 1 HETATM 5 C C5B NAI . . . B 2 0.884 -32.238 13.349 1 21.87 ? C5B NAI 500 A 1 HETATM 6 C C4B NAI . . . B 2 -0.133 -31.846 14.413 1 21.5 ? C4B NAI 500 A 1 HETATM 7 O O4B NAI . . . B 2 0.415 -30.774 15.251 1 21.01 ? O4B NAI 500 A 1 HETATM 8 C C3B NAI . . . B 2 -1.332 -31.24 13.649 1 21.39 ? C3B NAI 500 A 1 HETATM 9 O O3B NAI . . . B 2 -2.507 -31.982 13.996 1 21.81 ? O3B NAI 500 A 1 HETATM 10 C C2B NAI . . . B 2 -1.407 -29.829 14.196 1 21.42 ? C2B NAI 500 A 1 HETATM 11 O O2B NAI . . . B 2 -2.782 -29.41 14.305 1 22.62 ? O2B NAI 500 A 1 HETATM 12 C C1B NAI . . . B 2 -0.732 -30.001 15.578 1 20.4 ? C1B NAI 500 A 1 HETATM 13 N N9A NAI . . . B 2 -0.464 -28.666 16.113 1 20.48 ? N9A NAI 500 A 1 HETATM 14 C C8A NAI . . . B 2 0.271 -27.683 15.573 1 20.25 ? C8A NAI 500 A 1 HETATM 15 N N7A NAI . . . B 2 0.215 -26.603 16.357 1 20.09 ? N7A NAI 500 A 1 HETATM 16 C C5A NAI . . . B 2 -0.579 -26.898 17.387 1 20.73 ? C5A NAI 500 A 1 HETATM 17 C C6A NAI . . . B 2 -1.017 -26.191 18.503 1 21.38 ? C6A NAI 500 A 1 HETATM 18 N N6A NAI . . . B 2 -0.637 -24.921 18.729 1 20.94 ? N6A NAI 500 A 1 HETATM 19 N N1A NAI . . . B 2 -1.834 -26.819 19.364 1 21.76 ? N1A NAI 500 A 1 HETATM 20 C C2A NAI . . . B 2 -2.237 -28.074 19.187 1 21.79 ? C2A NAI 500 A 1 HETATM 21 N N3A NAI . . . B 2 -1.842 -28.769 18.128 1 22.12 ? N3A NAI 500 A 1 HETATM 22 C C4A NAI . . . B 2 -1.016 -28.202 17.226 1 20.82 ? C4A NAI 500 A 1 HETATM 23 O O3 NAI . . . B 2 2.194 -34.198 11.102 1 20.32 ? O3 NAI 500 A 1 HETATM 24 P PN NAI . . . B 2 2.662 -35.614 11.743 1 21.05 ? PN NAI 500 A 1 HETATM 25 O O1N NAI . . . B 2 3.886 -35.941 10.964 1 22.9 ? O1N NAI 500 A 1 HETATM 26 O O2N NAI . . . B 2 1.601 -36.622 11.854 1 22.32 ? O2N NAI 500 A 1 HETATM 27 O O5D NAI . . . B 2 3.11 -35.073 13.227 1 21.27 ? O5D NAI 500 A 1 HETATM 28 C C5D NAI . . . B 2 2.744 -35.681 14.472 1 20.61 ? C5D NAI 500 A 1 HETATM 29 C C4D NAI . . . B 2 3.995 -35.777 15.382 1 20.05 ? C4D NAI 500 A 1 HETATM 30 O O4D NAI . . . B 2 4.828 -36.826 14.776 1 20.41 ? O4D NAI 500 A 1 HETATM 31 C C3D NAI . . . B 2 4.859 -34.502 15.397 1 19.82 ? C3D NAI 500 A 1 HETATM 32 O O3D NAI . . . B 2 5.471 -34.394 16.698 1 19.98 ? O3D NAI 500 A 1 HETATM 33 C C2D NAI . . . B 2 5.936 -34.817 14.365 1 19.31 ? C2D NAI 500 A 1 HETATM 34 O O2D NAI . . . B 2 7.097 -34.062 14.671 1 17.41 ? O2D NAI 500 A 1 HETATM 35 C C1D NAI . . . B 2 6.171 -36.288 14.705 1 20.21 ? C1D NAI 500 A 1 HETATM 36 N N1N NAI . . . B 2 6.985 -37.042 13.715 1 20.84 ? N1N NAI 500 A 1 HETATM 37 C C2N NAI . . . B 2 6.692 -36.946 12.347 1 20.08 ? C2N NAI 500 A 1 HETATM 38 C C3N NAI . . . B 2 7.467 -37.658 11.438 1 20.05 ? C3N NAI 500 A 1 HETATM 39 C C7N NAI . . . B 2 7.15 -37.566 9.948 1 19.72 ? C7N NAI 500 A 1 HETATM 40 O O7N NAI . . . B 2 8.092 -37.898 9.06 1 19.52 ? O7N NAI 500 A 1 HETATM 41 N N7N NAI . . . B 2 5.934 -37.133 9.57 1 18.64 ? N7N NAI 500 A 1 HETATM 42 C C4N NAI . . . B 2 8.555 -38.433 11.868 1 20.06 ? C4N NAI 500 A 1 HETATM 43 C C5N NAI . . . B 2 8.843 -38.522 13.234 1 19.69 ? C5N NAI 500 A 1 HETATM 44 C C6N NAI . . . B 2 8.069 -37.826 14.156 1 19.9 ? C6N NAI 500 A 1 # _model_server_stats.io_time_ms 47 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 289 _model_server_stats.encode_time_ms 17 _model_server_stats.element_count 44 #