data_1VJT # _model_server_result.job_id fHw234WCIrIP4NF02fLLDQ _model_server_result.datetime_utc '2025-01-07 09:28:38' _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 1vjt # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":500}' # _entry.id 1VJT # _exptl.entry_id 1VJT _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 663.425 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description NICOTINAMIDE-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 101.99 _cell.angle_gamma 90 _cell.entry_id 1VJT _cell.length_a 75.722 _cell.length_b 79.815 _cell.length_c 89.222 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1VJT _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 1 2 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details author_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 # 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_756 -x+2,y,-z+1 -1 0 0 0 1 0 0 0 -1 132.908935 0 87.275522 # _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 # 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 covale ? covale1 A C HIS 12 A HIS 0 1_555 A N MSE 13 A MSE 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.326 ? covale ? covale2 A C MSE 13 A MSE 1 1_555 A N LYS 14 A LYS 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale3 A C TYR 47 A TYR 35 1_555 A N MSE 48 A MSE 36 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.321 ? covale ? covale4 A C MSE 48 A MSE 36 1_555 A N MSE 49 A MSE 37 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.325 ? covale ? covale5 A C MSE 49 A MSE 37 1_555 A N ASP 50 A ASP 38 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale6 A C ASN 133 A ASN 121 1_555 A N MSE 134 A MSE 122 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? covale ? covale7 A C MSE 134 A MSE 122 1_555 A N VAL 135 A VAL 123 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale8 A C ASP 147 A ASP 135 1_555 A N MSE 148 A MSE 136 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.325 ? covale ? covale9 A C MSE 148 A MSE 136 1_555 A N LYS 149 A LYS 137 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.325 ? covale ? covale10 A C LYS 157 A LYS 145 1_555 A N MSE 158 A MSE 146 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale11 A C MSE 158 A MSE 146 1_555 A N LYS 159 A LYS 147 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? covale ? covale12 A C LYS 160 A LYS 148 1_555 A N MSE 161 A MSE 149 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? covale ? covale13 A C MSE 161 A MSE 149 1_555 A N ALA 162 A ALA 150 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale14 A C LEU 167 A LEU 155 1_555 A N MSE 168 A MSE 156 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.325 ? covale ? covale15 A C MSE 168 A MSE 156 1_555 A N GLN 169 A GLN 157 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.335 ? covale ? covale16 A C GLN 260 A GLN 248 1_555 A N MSE 261 A MSE 249 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale17 A C MSE 261 A MSE 249 1_555 A N SER 262 A SER 250 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? covale ? covale18 A C ALA 265 A ALA 253 1_555 A N MSE 266 A MSE 254 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale19 A C MSE 266 A MSE 254 1_555 A N ASP 267 A ASP 255 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale20 A C ASP 267 A ASP 255 1_555 A N MSE 268 A MSE 256 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? covale ? covale21 A C MSE 268 A MSE 256 1_555 A N TYR 269 A TYR 257 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.337 ? covale ? covale22 A C GLY 273 A GLY 261 1_555 A N MSE 274 A MSE 262 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.325 ? covale ? covale23 A C MSE 274 A MSE 262 1_555 A N LEU 275 A LEU 263 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? covale ? covale24 A C GLY 337 A GLY 325 1_555 A N MSE 338 A MSE 326 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? covale ? covale25 A C MSE 338 A MSE 326 1_555 A N LYS 339 A LYS 327 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? covale ? covale26 A C VAL 391 A VAL 379 1_555 A N MSE 392 A MSE 380 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale27 A C MSE 392 A MSE 380 1_555 A N GLU 393 A GLU 381 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale28 A C ARG 427 A ARG 415 1_555 A N MSE 428 A MSE 416 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? covale ? covale29 A C MSE 428 A MSE 416 1_555 A N GLU 429 A GLU 417 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? # _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 256 n n PA O2A NAD sing 257 n n PA O5B NAD sing 258 n n PA O3 NAD sing 259 n n O2A HOA2 NAD sing 260 n n O5B C5B NAD sing 261 n n C5B C4B NAD sing 262 n n C5B H51A NAD sing 263 n n C5B H52A NAD sing 264 n n C4B O4B NAD sing 265 n n C4B C3B NAD sing 266 n n C4B H4B NAD sing 267 n n O4B C1B NAD sing 268 n n C3B O3B NAD sing 269 n n C3B C2B NAD sing 270 n n C3B H3B NAD sing 271 n n O3B HO3A NAD sing 272 n n C2B O2B NAD sing 273 n n C2B C1B NAD sing 274 n n C2B H2B NAD sing 275 n n O2B HO2A NAD sing 276 n n C1B N9A NAD sing 277 n n C1B H1B NAD sing 278 n n N9A C8A NAD sing 279 n y N9A C4A NAD sing 280 n y C8A N7A NAD doub 281 n y C8A H8A NAD sing 282 n n N7A C5A NAD sing 283 n y C5A C6A NAD sing 284 n y C5A C4A NAD doub 285 n y C6A N6A NAD sing 286 n n C6A N1A NAD doub 287 n y N6A H61A NAD sing 288 n n N6A H62A NAD sing 289 n n N1A C2A NAD sing 290 n y C2A N3A NAD doub 291 n y C2A H2A NAD sing 292 n n N3A C4A NAD sing 293 n y O3 PN NAD sing 294 n n PN O1N NAD doub 295 n n PN O2N NAD sing 296 n n PN O5D NAD sing 297 n n O5D C5D NAD sing 298 n n C5D C4D NAD sing 299 n n C5D H51N NAD sing 300 n n C5D H52N NAD sing 301 n n C4D O4D NAD sing 302 n n C4D C3D NAD sing 303 n n C4D H4D NAD sing 304 n n O4D C1D NAD sing 305 n n C3D O3D NAD sing 306 n n C3D C2D NAD sing 307 n n C3D H3D NAD sing 308 n n O3D HO3N NAD sing 309 n n C2D O2D NAD sing 310 n n C2D C1D NAD sing 311 n n C2D H2D NAD sing 312 n n O2D HO2N NAD sing 313 n n C1D N1N NAD sing 314 n n C1D H1D NAD sing 315 n n N1N C2N NAD sing 316 n y N1N C6N NAD doub 317 n y C2N C3N NAD doub 318 n y C2N H2N NAD sing 319 n n C3N C7N NAD sing 320 n n C3N C4N NAD sing 321 n y C7N O7N NAD doub 322 n n C7N N7N NAD sing 323 n n N7N H71N NAD sing 324 n n N7N H72N NAD sing 325 n n C4N C5N NAD doub 326 n y C4N H4N NAD sing 327 n n C5N C6N NAD sing 328 n y C5N H5N NAD sing 329 n n C6N H6N NAD sing 330 n n # _atom_sites.entry_id 1VJT _atom_sites.fract_transf_matrix[1][1] 0.013206 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.002805 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.012529 _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] 0.011458 _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 NAD A 1 500 500 NAD NAD . C 3 HOH A 1 501 1 HOH HOH . C 3 HOH A 2 502 2 HOH HOH . C 3 HOH A 3 503 3 HOH HOH . C 3 HOH A 4 504 4 HOH HOH . C 3 HOH A 5 505 5 HOH HOH . C 3 HOH A 6 506 6 HOH HOH . C 3 HOH A 7 507 7 HOH HOH . C 3 HOH A 8 508 8 HOH HOH . C 3 HOH A 9 509 9 HOH HOH . C 3 HOH A 10 510 10 HOH HOH . C 3 HOH A 11 511 11 HOH HOH . C 3 HOH A 12 512 12 HOH HOH . C 3 HOH A 13 513 13 HOH HOH . C 3 HOH A 14 514 14 HOH HOH . C 3 HOH A 15 515 15 HOH HOH . C 3 HOH A 16 516 16 HOH HOH . C 3 HOH A 17 517 17 HOH HOH . C 3 HOH A 18 518 18 HOH HOH . C 3 HOH A 19 519 19 HOH HOH . C 3 HOH A 20 520 20 HOH HOH . C 3 HOH A 21 521 21 HOH HOH . C 3 HOH A 22 522 22 HOH HOH . C 3 HOH A 23 523 23 HOH HOH . C 3 HOH A 24 524 24 HOH HOH . C 3 HOH A 25 525 25 HOH HOH . C 3 HOH A 26 526 26 HOH HOH . C 3 HOH A 27 527 27 HOH HOH . C 3 HOH A 28 528 28 HOH HOH . C 3 HOH A 29 529 29 HOH HOH . C 3 HOH A 30 530 30 HOH HOH . C 3 HOH A 31 531 31 HOH HOH . C 3 HOH A 32 532 32 HOH HOH . C 3 HOH A 33 533 33 HOH HOH . C 3 HOH A 34 534 34 HOH HOH . C 3 HOH A 35 535 35 HOH HOH . C 3 HOH A 36 536 36 HOH HOH . C 3 HOH A 37 537 37 HOH HOH . C 3 HOH A 38 538 38 HOH HOH . C 3 HOH A 39 539 39 HOH HOH . C 3 HOH A 40 540 40 HOH HOH . C 3 HOH A 41 541 41 HOH HOH . C 3 HOH A 42 542 42 HOH HOH . C 3 HOH A 43 543 43 HOH HOH . C 3 HOH A 44 544 44 HOH HOH . C 3 HOH A 45 545 45 HOH HOH . C 3 HOH A 46 546 46 HOH HOH . C 3 HOH A 47 547 47 HOH HOH . C 3 HOH A 48 548 48 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 . . . B 2 63.491 3.477 11.615 1 46.39 ? PA NAD 500 A 1 HETATM 2 O O1A NAD . . . B 2 62.303 3.115 10.808 1 46.4 ? O1A NAD 500 A 1 HETATM 3 O O2A NAD . . . B 2 64.537 2.431 11.518 1 47.03 ? O2A NAD 500 A 1 HETATM 4 O O5B NAD . . . B 2 64.013 4.929 11.142 1 45.78 ? O5B NAD 500 A 1 HETATM 5 C C5B NAD . . . B 2 65.296 5.42 11.458 1 44.29 ? C5B NAD 500 A 1 HETATM 6 C C4B NAD . . . B 2 65.949 5.86 10.16 1 43.43 ? C4B NAD 500 A 1 HETATM 7 O O4B NAD . . . B 2 67.092 6.646 10.438 1 43.27 ? O4B NAD 500 A 1 HETATM 8 C C3B NAD . . . B 2 66.411 4.667 9.333 1 42.77 ? C3B NAD 500 A 1 HETATM 9 O O3B NAD . . . B 2 65.9 4.748 8.024 1 43.1 ? O3B NAD 500 A 1 HETATM 10 C C2B NAD . . . B 2 67.917 4.781 9.316 1 42.29 ? C2B NAD 500 A 1 HETATM 11 O O2B NAD . . . B 2 68.44 4.35 8.083 1 42.35 ? O2B NAD 500 A 1 HETATM 12 C C1B NAD . . . B 2 68.143 6.27 9.572 1 41.35 ? C1B NAD 500 A 1 HETATM 13 N N9A NAD . . . B 2 69.467 6.622 10.125 1 40.19 ? N9A NAD 500 A 1 HETATM 14 C C8A NAD . . . B 2 70.244 5.899 10.993 1 39.46 ? C8A NAD 500 A 1 HETATM 15 N N7A NAD . . . B 2 71.376 6.594 11.223 1 38.97 ? N7A NAD 500 A 1 HETATM 16 C C5A NAD . . . B 2 71.338 7.745 10.525 1 39.71 ? C5A NAD 500 A 1 HETATM 17 C C6A NAD . . . B 2 72.242 8.805 10.408 1 40.26 ? C6A NAD 500 A 1 HETATM 18 N N6A NAD . . . B 2 73.517 8.603 10.756 1 38.78 ? N6A NAD 500 A 1 HETATM 19 N N1A NAD . . . B 2 71.91 9.879 9.588 1 39.76 ? N1A NAD 500 A 1 HETATM 20 C C2A NAD . . . B 2 70.712 9.883 8.903 1 39.44 ? C2A NAD 500 A 1 HETATM 21 N N3A NAD . . . B 2 69.838 8.816 9.025 1 39.79 ? N3A NAD 500 A 1 HETATM 22 C C4A NAD . . . B 2 70.14 7.771 9.825 1 39.55 ? C4A NAD 500 A 1 HETATM 23 O O3 NAD . . . B 2 63.082 3.697 13.163 1 46.79 ? O3 NAD 500 A 1 HETATM 24 P PN NAD . . . B 2 61.723 4.439 13.636 1 45.73 ? PN NAD 500 A 1 HETATM 25 O O1N NAD . . . B 2 60.755 3.448 14.164 1 45.23 ? O1N NAD 500 A 1 HETATM 26 O O2N NAD . . . B 2 61.279 5.341 12.559 1 47.33 ? O2N NAD 500 A 1 HETATM 27 O O5D NAD . . . B 2 62.3 5.348 14.849 1 46.02 ? O5D NAD 500 A 1 HETATM 28 C C5D NAD . . . B 2 62.943 6.596 14.662 1 45.62 ? C5D NAD 500 A 1 HETATM 29 C C4D NAD . . . B 2 63.249 7.253 16.009 1 45.92 ? C4D NAD 500 A 1 HETATM 30 O O4D NAD . . . B 2 62.095 7.911 16.519 1 45.79 ? O4D NAD 500 A 1 HETATM 31 C C3D NAD . . . B 2 63.68 6.24 17.065 1 46.33 ? C3D NAD 500 A 1 HETATM 32 O O3D NAD . . . B 2 64.796 6.709 17.786 1 46.65 ? O3D NAD 500 A 1 HETATM 33 C C2D NAD . . . B 2 62.472 6.084 17.969 1 46.27 ? C2D NAD 500 A 1 HETATM 34 O O2D NAD . . . B 2 62.848 5.815 19.303 1 45.58 ? O2D NAD 500 A 1 HETATM 35 C C1D NAD . . . B 2 61.743 7.417 17.808 1 46.27 ? C1D NAD 500 A 1 HETATM 36 N N1N NAD . . . B 2 60.279 7.253 17.966 1 45.41 ? N1N NAD 500 A 1 # _model_server_stats.io_time_ms 61 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 12 _model_server_stats.query_time_ms 291 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 36 #