data_5BWM # _model_server_result.job_id eNO2MvoiXdrKKC85gxRZcg _model_server_result.datetime_utc '2024-11-24 18:21:17' _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 5bwm # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":301}' # _entry.id 5BWM # _exptl.entry_id 5BWM _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 665.441 _entity.id 5 _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 5BWM _cell.length_a 50.479 _cell.length_b 50.479 _cell.length_c 136.671 _cell.Z_PDB 3 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5BWM _symmetry.cell_setting ? _symmetry.Int_Tables_number 145 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 32' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 _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 5 _struct_asym.id E _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 OG1 THR 19 A THR 19 1_555 D MG MG . A MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.357 ? metalc ? metalc2 A O THR 37 A THR 37 1_555 D MG MG . A MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.351 ? metalc ? metalc3 C O1B GDP . A GDP 201 1_555 D MG MG . A MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.562 ? metalc ? metalc4 C O3B GDP . A GDP 201 1_555 D MG MG . A MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? metalc ? metalc5 D MG MG . A MG 202 1_555 H O HOH . A HOH 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.004 ? metalc ? metalc6 D MG MG . A MG 202 1_555 H O HOH . A HOH 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.339 ? # _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 291 n n PA O2A NAI sing 292 n n PA O5B NAI sing 293 n n PA O3 NAI sing 294 n n O2A HOA2 NAI sing 295 n n O5B C5B NAI sing 296 n n C5B C4B NAI sing 297 n n C5B H51A NAI sing 298 n n C5B H52A NAI sing 299 n n C4B O4B NAI sing 300 n n C4B C3B NAI sing 301 n n C4B H4B NAI sing 302 n n O4B C1B NAI sing 303 n n C3B O3B NAI sing 304 n n C3B C2B NAI sing 305 n n C3B H3B NAI sing 306 n n O3B HO3A NAI sing 307 n n C2B O2B NAI sing 308 n n C2B C1B NAI sing 309 n n C2B H2B NAI sing 310 n n O2B HO2A NAI sing 311 n n C1B N9A NAI sing 312 n n C1B H1B NAI sing 313 n n N9A C8A NAI sing 314 n y N9A C4A NAI sing 315 n y C8A N7A NAI doub 316 n y C8A H8A NAI sing 317 n n N7A C5A NAI sing 318 n y C5A C6A NAI sing 319 n y C5A C4A NAI doub 320 n y C6A N6A NAI sing 321 n n C6A N1A NAI doub 322 n y N6A H61A NAI sing 323 n n N6A H62A NAI sing 324 n n N1A C2A NAI sing 325 n y C2A N3A NAI doub 326 n y C2A H2A NAI sing 327 n n N3A C4A NAI sing 328 n y O3 PN NAI sing 329 n n PN O1N NAI sing 330 n n PN O2N NAI doub 331 n n PN O5D NAI sing 332 n n O1N HO1N NAI sing 333 n n O5D C5D NAI sing 334 n n C5D C4D NAI sing 335 n n C5D H51N NAI sing 336 n n C5D H52N NAI sing 337 n n C4D O4D NAI sing 338 n n C4D C3D NAI sing 339 n n C4D H4D NAI sing 340 n n O4D C1D NAI sing 341 n n C3D O3D NAI sing 342 n n C3D C2D NAI sing 343 n n C3D H3D NAI sing 344 n n O3D HO3N NAI sing 345 n n C2D O2D NAI sing 346 n n C2D C1D NAI sing 347 n n C2D H2D NAI sing 348 n n O2D HO2N NAI sing 349 n n C1D N1N NAI sing 350 n n C1D H1D NAI sing 351 n n N1N C2N NAI sing 352 n n N1N C6N NAI sing 353 n n C2N C3N NAI doub 354 n n C2N H2N NAI sing 355 n n C3N C7N NAI sing 356 n n C3N C4N NAI sing 357 n n C7N O7N NAI doub 358 n n C7N N7N NAI sing 359 n n N7N H71N NAI sing 360 n n N7N H72N NAI sing 361 n n C4N C5N NAI sing 362 n n C4N H4N NAI sing 363 n n C4N H42N NAI sing 364 n n C5N C6N NAI doub 365 n n C5N H5N NAI sing 366 n n C6N H6N NAI sing 367 n n # _atom_sites.entry_id 5BWM _atom_sites.fract_transf_matrix[1][1] 0.01981 _atom_sites.fract_transf_matrix[1][2] 0.011437 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.022875 _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] 0.007317 _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 GDP A 1 201 200 GDP GDP . D 4 MG A 1 202 1 MG MG . E 5 NAI B 1 301 1 NAI NAI . F 6 EDO B 1 302 1 EDO EDO . G 6 EDO B 1 303 3 EDO EDO . H 7 HOH A 1 301 343 HOH HOH . H 7 HOH A 2 302 443 HOH HOH . H 7 HOH A 3 303 511 HOH HOH . H 7 HOH A 4 304 456 HOH HOH . H 7 HOH A 5 305 406 HOH HOH . H 7 HOH A 6 306 239 HOH HOH . H 7 HOH A 7 307 382 HOH HOH . H 7 HOH A 8 308 347 HOH HOH . H 7 HOH A 9 309 134 HOH HOH . H 7 HOH A 10 310 428 HOH HOH . H 7 HOH A 11 311 358 HOH HOH . H 7 HOH A 12 312 348 HOH HOH . H 7 HOH A 13 313 158 HOH HOH . H 7 HOH A 14 314 384 HOH HOH . H 7 HOH A 15 315 344 HOH HOH . H 7 HOH A 16 316 513 HOH HOH . H 7 HOH A 17 317 345 HOH HOH . H 7 HOH A 18 318 354 HOH HOH . H 7 HOH A 19 319 424 HOH HOH . H 7 HOH A 20 320 342 HOH HOH . H 7 HOH A 21 321 515 HOH HOH . H 7 HOH A 22 322 362 HOH HOH . H 7 HOH A 23 323 504 HOH HOH . H 7 HOH A 24 324 371 HOH HOH . H 7 HOH A 25 325 223 HOH HOH . H 7 HOH A 26 326 372 HOH HOH . H 7 HOH A 27 327 131 HOH HOH . H 7 HOH A 28 328 505 HOH HOH . H 7 HOH A 29 329 373 HOH HOH . H 7 HOH A 30 330 356 HOH HOH . I 7 HOH B 1 401 489 HOH HOH . I 7 HOH B 2 402 512 HOH HOH . I 7 HOH B 3 403 508 HOH HOH . I 7 HOH B 4 404 357 HOH HOH . I 7 HOH B 5 405 351 HOH HOH . I 7 HOH B 6 406 487 HOH HOH . I 7 HOH B 7 407 516 HOH HOH . I 7 HOH B 8 408 402 HOH HOH . I 7 HOH B 9 409 100 HOH HOH . I 7 HOH B 10 410 419 HOH HOH . I 7 HOH B 11 411 492 HOH HOH . I 7 HOH B 12 412 473 HOH HOH . I 7 HOH B 13 413 393 HOH HOH . I 7 HOH B 14 414 509 HOH HOH . I 7 HOH B 15 415 506 HOH HOH . I 7 HOH B 16 416 436 HOH HOH . I 7 HOH B 17 417 319 HOH HOH . I 7 HOH B 18 418 510 HOH HOH . I 7 HOH B 19 419 411 HOH HOH . I 7 HOH B 20 420 427 HOH HOH . I 7 HOH B 21 421 162 HOH HOH . I 7 HOH B 22 422 503 HOH HOH . I 7 HOH B 23 423 507 HOH HOH . I 7 HOH B 24 424 378 HOH HOH . I 7 HOH B 25 425 185 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 . . . E 5 -17.202 16.414 14.35 1 102.11 ? PA NAI 301 B 1 HETATM 2 O O1A NAI . . . E 5 -18.453 15.7 14.758 1 96.31 ? O1A NAI 301 B 1 HETATM 3 O O2A NAI . . . E 5 -17.211 17.218 13.078 1 96.57 ? O2A NAI 301 B 1 HETATM 4 O O5B NAI . . . E 5 -16.013 15.329 14.322 1 100 ? O5B NAI 301 B 1 HETATM 5 C C5B NAI . . . E 5 -15.309 15 15.529 1 80.13 ? C5B NAI 301 B 1 HETATM 6 C C4B NAI . . . E 5 -14.177 14.055 15.178 1 71.7 ? C4B NAI 301 B 1 HETATM 7 O O4B NAI . . . E 5 -14.706 13.097 14.276 1 75.89 ? O4B NAI 301 B 1 HETATM 8 C C3B NAI . . . E 5 -13.082 14.788 14.422 1 71.82 ? C3B NAI 301 B 1 HETATM 9 O O3B NAI . . . E 5 -11.815 14.151 14.603 1 73.91 ? O3B NAI 301 B 1 HETATM 10 C C2B NAI . . . E 5 -13.441 14.606 12.977 1 69.61 ? C2B NAI 301 B 1 HETATM 11 O O2B NAI . . . E 5 -12.262 14.686 12.182 1 63.39 ? O2B NAI 301 B 1 HETATM 12 C C1B NAI . . . E 5 -14.083 13.228 13.009 1 69.71 ? C1B NAI 301 B 1 HETATM 13 N N9A NAI . . . E 5 -15.106 13.174 11.962 1 68.37 ? N9A NAI 301 B 1 HETATM 14 C C8A NAI . . . E 5 -15.898 14.185 11.572 1 77.64 ? C8A NAI 301 B 1 HETATM 15 N N7A NAI . . . E 5 -16.705 13.789 10.553 1 77.41 ? N7A NAI 301 B 1 HETATM 16 C C5A NAI . . . E 5 -16.418 12.506 10.272 1 68.19 ? C5A NAI 301 B 1 HETATM 17 C C6A NAI . . . E 5 -16.905 11.468 9.328 1 70.14 ? C6A NAI 301 B 1 HETATM 18 N N6A NAI . . . E 5 -17.862 11.721 8.408 1 73.32 ? N6A NAI 301 B 1 HETATM 19 N N1A NAI . . . E 5 -16.331 10.24 9.405 1 82.04 ? N1A NAI 301 B 1 HETATM 20 C C2A NAI . . . E 5 -15.346 9.949 10.294 1 75.89 ? C2A NAI 301 B 1 HETATM 21 N N3A NAI . . . E 5 -14.864 10.843 11.176 1 76.99 ? N3A NAI 301 B 1 HETATM 22 C C4A NAI . . . E 5 -15.352 12.114 11.212 1 73.97 ? C4A NAI 301 B 1 HETATM 23 O O3 NAI . . . E 5 -16.626 17.317 15.534 1 88.28 ? O3 NAI 301 B 1 HETATM 24 P PN NAI . . . E 5 -15.538 18.472 15.204 1 92.49 ? PN NAI 301 B 1 HETATM 25 O O1N NAI . . . E 5 -14.572 17.955 14.175 1 95.08 ? O1N NAI 301 B 1 HETATM 26 O O2N NAI . . . E 5 -14.991 19.08 16.463 1 68.82 ? O2N NAI 301 B 1 HETATM 27 O O5D NAI . . . E 5 -16.508 19.568 14.516 1 99.08 ? O5D NAI 301 B 1 HETATM 28 C C5D NAI . . . E 5 -17.842 19.773 14.997 1 99.74 ? C5D NAI 301 B 1 HETATM 29 C C4D NAI . . . E 5 -17.836 20.613 16.287 1 92.68 ? C4D NAI 301 B 1 HETATM 30 O O4D NAI . . . E 5 -16.808 21.598 16.242 1 78.89 ? O4D NAI 301 B 1 HETATM 31 C C3D NAI . . . E 5 -19.158 21.334 16.438 1 87.42 ? C3D NAI 301 B 1 HETATM 32 O O3D NAI . . . E 5 -19.522 21.367 17.81 1 84.8 ? O3D NAI 301 B 1 HETATM 33 C C2D NAI . . . E 5 -18.89 22.75 15.953 1 89.97 ? C2D NAI 301 B 1 HETATM 34 O O2D NAI . . . E 5 -19.589 23.712 16.752 1 92.16 ? O2D NAI 301 B 1 HETATM 35 C C1D NAI . . . E 5 -17.372 22.898 16.031 1 83.04 ? C1D NAI 301 B 1 HETATM 36 N N1N NAI . . . E 5 -16.868 23.506 14.79 1 76.35 ? N1N NAI 301 B 1 HETATM 37 C C2N NAI . . . E 5 -15.843 22.956 14.12 1 75.84 ? C2N NAI 301 B 1 HETATM 38 C C3N NAI . . . E 5 -15.352 23.518 12.949 1 74.03 ? C3N NAI 301 B 1 HETATM 39 C C7N NAI . . . E 5 -14.186 22.871 12.258 1 79.81 ? C7N NAI 301 B 1 HETATM 40 O O7N NAI . . . E 5 -13.16 23.534 11.973 1 80.09 ? O7N NAI 301 B 1 HETATM 41 N N7N NAI . . . E 5 -14.307 21.582 11.995 1 75.29 ? N7N NAI 301 B 1 HETATM 42 C C4N NAI . . . E 5 -15.951 24.756 12.361 1 70.13 ? C4N NAI 301 B 1 HETATM 43 C C5N NAI . . . E 5 -17.044 25.247 13.18 1 76.46 ? C5N NAI 301 B 1 HETATM 44 C C6N NAI . . . E 5 -17.454 24.608 14.339 1 73.15 ? C6N NAI 301 B 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 288 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 44 #