data_5JWB # _model_server_result.job_id bekqlIGxzmRfT1e_yEr4gw _model_server_result.datetime_utc '2024-11-17 10:41:03' _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 5jwb # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"W","auth_seq_id":607}' # _entry.id 5JWB # _exptl.entry_id 5JWB _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 663.425 _entity.id 5 _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 5JWB _cell.length_a 191.53 _cell.length_b 191.53 _cell.length_c 91.258 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5JWB _symmetry.cell_setting ? _symmetry.Int_Tables_number 80 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'I 41' # _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,J,K,L,M,N,O,P,Q,R,S,T,U,V,W,X,Y,Z,AA,BA,CA,DA,EA _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 ? 5 J N N ? 5 W N 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 O ALA 135 A ALA 147 1_555 E MG MG . A MG 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.692 ? metalc ? metalc2 A O ILE 340 A ILE 352 1_555 D MG MG . A MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.609 ? metalc ? metalc3 C O2P FAD . A FAD 601 1_555 D MG MG . A MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.672 ? metalc ? metalc4 C O1P FAD . A FAD 601 1_555 E MG MG . A MG 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.722 ? metalc ? metalc5 C O2A FAD . A FAD 601 1_555 F MG MG . A MG 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.874 ? metalc ? metalc6 C O1A FAD . A FAD 601 1_555 G MG MG . A MG 605 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.837 ? metalc ? metalc7 B O ALA 135 H ALA 147 1_555 T MG MG . H MG 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.664 ? metalc ? metalc8 B O ILE 340 H ILE 352 1_555 S MG MG . H MG 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.601 ? metalc ? metalc9 R O2P FAD . H FAD 602 1_555 S MG MG . H MG 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.655 ? metalc ? metalc10 R O1P FAD . H FAD 602 1_555 T MG MG . H MG 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.597 ? metalc ? metalc11 R O2A FAD . H FAD 602 1_555 U MG MG . H MG 605 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.803 ? metalc ? metalc12 R O1A FAD . H FAD 602 1_555 V MG MG . H MG 606 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.811 ? # _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 367 n n PA O2A NAD sing 368 n n PA O5B NAD sing 369 n n PA O3 NAD sing 370 n n O2A HOA2 NAD sing 371 n n O5B C5B NAD sing 372 n n C5B C4B NAD sing 373 n n C5B H51A NAD sing 374 n n C5B H52A NAD sing 375 n n C4B O4B NAD sing 376 n n C4B C3B NAD sing 377 n n C4B H4B NAD sing 378 n n O4B C1B NAD sing 379 n n C3B O3B NAD sing 380 n n C3B C2B NAD sing 381 n n C3B H3B NAD sing 382 n n O3B HO3A NAD sing 383 n n C2B O2B NAD sing 384 n n C2B C1B NAD sing 385 n n C2B H2B NAD sing 386 n n O2B HO2A NAD sing 387 n n C1B N9A NAD sing 388 n n C1B H1B NAD sing 389 n n N9A C8A NAD sing 390 n y N9A C4A NAD sing 391 n y C8A N7A NAD doub 392 n y C8A H8A NAD sing 393 n n N7A C5A NAD sing 394 n y C5A C6A NAD sing 395 n y C5A C4A NAD doub 396 n y C6A N6A NAD sing 397 n n C6A N1A NAD doub 398 n y N6A H61A NAD sing 399 n n N6A H62A NAD sing 400 n n N1A C2A NAD sing 401 n y C2A N3A NAD doub 402 n y C2A H2A NAD sing 403 n n N3A C4A NAD sing 404 n y O3 PN NAD sing 405 n n PN O1N NAD doub 406 n n PN O2N NAD sing 407 n n PN O5D NAD sing 408 n n O5D C5D NAD sing 409 n n C5D C4D NAD sing 410 n n C5D H51N NAD sing 411 n n C5D H52N NAD sing 412 n n C4D O4D NAD sing 413 n n C4D C3D NAD sing 414 n n C4D H4D NAD sing 415 n n O4D C1D NAD sing 416 n n C3D O3D NAD sing 417 n n C3D C2D NAD sing 418 n n C3D H3D NAD sing 419 n n O3D HO3N NAD sing 420 n n C2D O2D NAD sing 421 n n C2D C1D NAD sing 422 n n C2D H2D NAD sing 423 n n O2D HO2N NAD sing 424 n n C1D N1N NAD sing 425 n n C1D H1D NAD sing 426 n n N1N C2N NAD sing 427 n y N1N C6N NAD doub 428 n y C2N C3N NAD doub 429 n y C2N H2N NAD sing 430 n n C3N C7N NAD sing 431 n n C3N C4N NAD sing 432 n y C7N O7N NAD doub 433 n n C7N N7N NAD sing 434 n n N7N H71N NAD sing 435 n n N7N H72N NAD sing 436 n n C4N C5N NAD doub 437 n y C4N H4N NAD sing 438 n n C5N C6N NAD sing 439 n y C5N H5N NAD sing 440 n n C6N H6N NAD sing 441 n n # _atom_sites.entry_id 5JWB _atom_sites.fract_transf_matrix[1][1] 0.005221 _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] 0.005221 _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] 0.010958 _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 2 FAD A 1 601 601 FAD FAD . D 3 MG A 1 602 602 MG MG . E 3 MG A 1 603 603 MG MG . F 3 MG A 1 604 604 MG MG . G 3 MG A 1 605 605 MG MG . H 4 TRT A 1 606 606 TRT TRT . I 4 TRT A 1 607 607 TRT TRT . J 5 NAD A 1 608 608 NAD NAD . K 4 TRT A 1 609 609 TRT TRT . L 6 ACT A 1 610 610 ACT ACT . M 6 ACT A 1 611 611 ACT ACT . N 6 ACT A 1 612 612 ACT ACT . O 6 ACT A 1 613 613 ACT ACT . P 7 CXS A 1 614 614 CXS CXS . Q 4 TRT H 1 601 601 TRT TRT . R 2 FAD H 1 602 602 FAD FAD . S 3 MG H 1 603 603 MG MG . T 3 MG H 1 604 604 MG MG . U 3 MG H 1 605 605 MG MG . V 3 MG H 1 606 606 MG MG . W 5 NAD H 1 607 607 NAD NAD . X 4 TRT H 1 608 608 TRT TRT . Y 4 TRT H 1 609 609 TRT TRT . Z 6 ACT H 1 610 610 ACT ACT . AA 6 ACT H 1 611 611 ACT ACT . BA 6 ACT H 1 612 612 ACT ACT . CA 7 CXS H 1 613 613 CXS CXS . DA 8 HOH A 1 701 701 HOH HOH . DA 8 HOH A 2 702 702 HOH HOH . DA 8 HOH A 3 703 703 HOH HOH . DA 8 HOH A 4 704 704 HOH HOH . DA 8 HOH A 5 705 705 HOH HOH . DA 8 HOH A 6 706 706 HOH HOH . DA 8 HOH A 7 707 707 HOH HOH . DA 8 HOH A 8 708 708 HOH HOH . DA 8 HOH A 9 709 709 HOH HOH . DA 8 HOH A 10 710 710 HOH HOH . DA 8 HOH A 11 711 711 HOH HOH . DA 8 HOH A 12 712 712 HOH HOH . DA 8 HOH A 13 713 713 HOH HOH . DA 8 HOH A 14 714 714 HOH HOH . EA 8 HOH H 1 701 701 HOH HOH . EA 8 HOH H 2 702 702 HOH HOH . EA 8 HOH H 3 703 703 HOH HOH . EA 8 HOH H 4 704 704 HOH HOH . EA 8 HOH H 5 705 705 HOH HOH . EA 8 HOH H 6 706 706 HOH HOH . EA 8 HOH H 7 707 707 HOH HOH . EA 8 HOH H 8 708 708 HOH HOH . EA 8 HOH H 9 709 709 HOH HOH . EA 8 HOH H 10 710 710 HOH HOH . EA 8 HOH H 11 711 711 HOH HOH . EA 8 HOH H 12 712 712 HOH HOH . EA 8 HOH H 13 713 713 HOH HOH . EA 8 HOH H 14 714 714 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 . . . W 5 23.371 -5.246 18.99 1 56.42 ? PA NAD 607 H 1 HETATM 2 O O1A NAD . . . W 5 23.187 -3.81 19.392 1 63.87 ? O1A NAD 607 H 1 HETATM 3 O O2A NAD . . . W 5 23.113 -6.115 20.174 1 54.74 ? O2A NAD 607 H 1 HETATM 4 O O5B NAD . . . W 5 22.399 -5.596 17.807 1 53.06 ? O5B NAD 607 H 1 HETATM 5 C C5B NAD . . . W 5 22.433 -6.858 17.182 1 44.62 ? C5B NAD 607 H 1 HETATM 6 C C4B NAD . . . W 5 21.172 -6.999 16.406 1 46.4 ? C4B NAD 607 H 1 HETATM 7 O O4B NAD . . . W 5 21.222 -8.132 15.467 1 51.17 ? O4B NAD 607 H 1 HETATM 8 C C3B NAD . . . W 5 20.043 -7.204 17.344 1 45.79 ? C3B NAD 607 H 1 HETATM 9 O O3B NAD . . . W 5 19.155 -6.063 17.133 1 44.08 ? O3B NAD 607 H 1 HETATM 10 C C2B NAD . . . W 5 19.427 -8.51 16.992 1 50.83 ? C2B NAD 607 H 1 HETATM 11 O O2B NAD . . . W 5 17.966 -8.42 16.931 1 49.97 ? O2B NAD 607 H 1 HETATM 12 C C1B NAD . . . W 5 19.945 -8.886 15.659 1 49.71 ? C1B NAD 607 H 1 HETATM 13 N N9A NAD . . . W 5 20.217 -10.27 15.459 1 50.51 ? N9A NAD 607 H 1 HETATM 14 C C8A NAD . . . W 5 20.862 -11.043 16.336 1 48.73 ? C8A NAD 607 H 1 HETATM 15 N N7A NAD . . . W 5 20.999 -12.329 15.814 1 51.8 ? N7A NAD 607 H 1 HETATM 16 C C5A NAD . . . W 5 20.368 -12.223 14.492 1 41.93 ? C5A NAD 607 H 1 HETATM 17 C C6A NAD . . . W 5 20.152 -13.112 13.465 1 40.22 ? C6A NAD 607 H 1 HETATM 18 N N6A NAD . . . W 5 20.581 -14.481 13.549 1 37.96 ? N6A NAD 607 H 1 HETATM 19 N N1A NAD . . . W 5 19.506 -12.67 12.338 1 37.6 ? N1A NAD 607 H 1 HETATM 20 C C2A NAD . . . W 5 19.101 -11.37 12.267 1 41.72 ? C2A NAD 607 H 1 HETATM 21 N N3A NAD . . . W 5 19.258 -10.397 13.238 1 42.92 ? N3A NAD 607 H 1 HETATM 22 C C4A NAD . . . W 5 19.894 -10.883 14.323 1 45.39 ? C4A NAD 607 H 1 HETATM 23 O O3 NAD . . . W 5 24.894 -5.479 18.565 1 57.76 ? O3 NAD 607 H 1 HETATM 24 P PN NAD . . . W 5 25.965 -4.356 18.11 1 55.48 ? PN NAD 607 H 1 HETATM 25 O O1N NAD . . . W 5 27.177 -5.058 17.637 1 55.23 ? O1N NAD 607 H 1 HETATM 26 O O2N NAD . . . W 5 25.547 -3.554 16.926 1 42.88 ? O2N NAD 607 H 1 HETATM 27 O O5D NAD . . . W 5 26.315 -3.397 19.331 1 50.61 ? O5D NAD 607 H 1 HETATM 28 C C5D NAD . . . W 5 26.977 -3.955 20.46 1 45.46 ? C5D NAD 607 H 1 HETATM 29 C C4D NAD . . . W 5 27.163 -2.961 21.546 1 48.97 ? C4D NAD 607 H 1 HETATM 30 O O4D NAD . . . W 5 28.136 -1.916 21.076 1 48.57 ? O4D NAD 607 H 1 HETATM 31 C C3D NAD . . . W 5 25.877 -2.297 21.773 1 47.51 ? C3D NAD 607 H 1 HETATM 32 O O3D NAD . . . W 5 25.672 -2.17 23.2 1 41.15 ? O3D NAD 607 H 1 HETATM 33 C C2D NAD . . . W 5 25.954 -0.965 21.157 1 46.25 ? C2D NAD 607 H 1 HETATM 34 O O2D NAD . . . W 5 25.181 -0.011 21.888 1 44.35 ? O2D NAD 607 H 1 HETATM 35 C C1D NAD . . . W 5 27.393 -0.623 21.128 1 44.66 ? C1D NAD 607 H 1 HETATM 36 N N1N NAD . . . W 5 27.611 0.09 19.953 1 48.17 ? N1N NAD 607 H 1 HETATM 37 C C2N NAD . . . W 5 27.301 1.445 19.842 1 42.61 ? C2N NAD 607 H 1 HETATM 38 C C3N NAD . . . W 5 27.521 2.147 18.623 1 42.46 ? C3N NAD 607 H 1 HETATM 39 C C7N NAD . . . W 5 27.166 3.614 18.5 1 42.41 ? C7N NAD 607 H 1 HETATM 40 O O7N NAD . . . W 5 26.941 4.267 19.532 1 40.85 ? O7N NAD 607 H 1 HETATM 41 N N7N NAD . . . W 5 27.096 4.151 17.181 1 41.31 ? N7N NAD 607 H 1 HETATM 42 C C4N NAD . . . W 5 28.085 1.464 17.479 1 39.19 ? C4N NAD 607 H 1 HETATM 43 C C5N NAD . . . W 5 28.369 0.075 17.657 1 39.9 ? C5N NAD 607 H 1 HETATM 44 C C6N NAD . . . W 5 28.13 -0.523 18.856 1 41.68 ? C6N NAD 607 H 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 18 _model_server_stats.create_model_time_ms 16 _model_server_stats.query_time_ms 292 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 44 #