data_7DN9 # _model_server_result.job_id ZeOZOXAwYjqUl83bYgmorQ _model_server_result.datetime_utc '2024-11-25 20:29:21' _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 7dn9 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"O","auth_seq_id":401}' # _entry.id 7DN9 # _exptl.entry_id 7DN9 _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 4 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 104.8 _cell.angle_gamma 90 _cell.entry_id 7DN9 _cell.length_a 104.711 _cell.length_b 105.576 _cell.length_c 105.839 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7DN9 _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA dimeric 2 author_and_software_defined_assembly 1 PISA dimeric 2 author_and_software_defined_assembly 2 PISA dimeric 2 author_and_software_defined_assembly 3 PISA dimeric 2 author_and_software_defined_assembly 4 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,I,J,K 1 1 C,D,L,M,N 2 1 E,F,O,P,Q 3 1 G,H,R,S,T 4 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 I N N ? 3 L N N ? 3 O N N ? 3 R 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 B OG1 THR 32 B THR 48 1_555 J MG MG . B MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.86 ? metalc ? metalc2 J MG MG . B MG 201 1_555 K O1B GDP . B GDP 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.265 ? metalc ? metalc3 M MG MG . D MG 201 1_555 N O1B GDP . D GDP 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.286 ? metalc ? metalc4 F OG1 THR 32 F THR 48 1_555 P MG MG . F MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.96 ? metalc ? metalc5 P MG MG . F MG 201 1_555 Q O1B GDP . F GDP 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.423 ? metalc ? metalc6 H OG1 THR 32 H THR 48 1_555 S MG MG . H MG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.728 ? metalc ? metalc7 S MG MG . H MG 201 1_555 T O3B GDP . H GDP 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.753 ? metalc ? metalc8 S MG MG . H MG 201 1_555 T O1B GDP . H GDP 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.174 ? # _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 280 n n PA O2A NAD sing 281 n n PA O5B NAD sing 282 n n PA O3 NAD sing 283 n n O2A HOA2 NAD sing 284 n n O5B C5B NAD sing 285 n n C5B C4B NAD sing 286 n n C5B H51A NAD sing 287 n n C5B H52A NAD sing 288 n n C4B O4B NAD sing 289 n n C4B C3B NAD sing 290 n n C4B H4B NAD sing 291 n n O4B C1B NAD sing 292 n n C3B O3B NAD sing 293 n n C3B C2B NAD sing 294 n n C3B H3B NAD sing 295 n n O3B HO3A NAD sing 296 n n C2B O2B NAD sing 297 n n C2B C1B NAD sing 298 n n C2B H2B NAD sing 299 n n O2B HO2A NAD sing 300 n n C1B N9A NAD sing 301 n n C1B H1B NAD sing 302 n n N9A C8A NAD sing 303 n y N9A C4A NAD sing 304 n y C8A N7A NAD doub 305 n y C8A H8A NAD sing 306 n n N7A C5A NAD sing 307 n y C5A C6A NAD sing 308 n y C5A C4A NAD doub 309 n y C6A N6A NAD sing 310 n n C6A N1A NAD doub 311 n y N6A H61A NAD sing 312 n n N6A H62A NAD sing 313 n n N1A C2A NAD sing 314 n y C2A N3A NAD doub 315 n y C2A H2A NAD sing 316 n n N3A C4A NAD sing 317 n y O3 PN NAD sing 318 n n PN O1N NAD doub 319 n n PN O2N NAD sing 320 n n PN O5D NAD sing 321 n n O5D C5D NAD sing 322 n n C5D C4D NAD sing 323 n n C5D H51N NAD sing 324 n n C5D H52N NAD sing 325 n n C4D O4D NAD sing 326 n n C4D C3D NAD sing 327 n n C4D H4D NAD sing 328 n n O4D C1D NAD sing 329 n n C3D O3D NAD sing 330 n n C3D C2D NAD sing 331 n n C3D H3D NAD sing 332 n n O3D HO3N NAD sing 333 n n C2D O2D NAD sing 334 n n C2D C1D NAD sing 335 n n C2D H2D NAD sing 336 n n O2D HO2N NAD sing 337 n n C1D N1N NAD sing 338 n n C1D H1D NAD sing 339 n n N1N C2N NAD sing 340 n y N1N C6N NAD doub 341 n y C2N C3N NAD doub 342 n y C2N H2N NAD sing 343 n n C3N C7N NAD sing 344 n n C3N C4N NAD sing 345 n y C7N O7N NAD doub 346 n n C7N N7N NAD sing 347 n n N7N H71N NAD sing 348 n n N7N H72N NAD sing 349 n n C4N C5N NAD doub 350 n y C4N H4N NAD sing 351 n n C5N C6N NAD sing 352 n y C5N H5N NAD sing 353 n n C6N H6N NAD sing 354 n n # _atom_sites.entry_id 7DN9 _atom_sites.fract_transf_matrix[1][1] 0.00955 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.002524 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.009472 _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] 0.009773 _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 I 3 NAD A 1 401 401 NAD NAD . J 4 MG B 1 201 201 MG MG . K 5 GDP B 1 202 202 GDP GDP . L 3 NAD C 1 401 401 NAD NAD . M 4 MG D 1 201 201 MG MG . N 5 GDP D 1 202 202 GDP GDP . O 3 NAD E 1 401 401 NAD NAD . P 4 MG F 1 201 201 MG MG . Q 5 GDP F 1 202 202 GDP GDP . R 3 NAD G 1 401 401 NAD NAD . S 4 MG H 1 201 201 MG MG . T 5 GDP H 1 202 202 GDP GDP . # 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 . . . O 3 -24.993 39.713 -22.188 1 88.18 ? PA NAD 401 E 1 HETATM 2 O O1A NAD . . . O 3 -25.613 39.201 -23.447 1 61.9 ? O1A NAD 401 E 1 HETATM 3 O O2A NAD . . . O 3 -25.631 40.885 -21.519 1 72.57 ? O2A NAD 401 E 1 HETATM 4 O O5B NAD . . . O 3 -23.443 40.034 -22.445 1 69.64 ? O5B NAD 401 E 1 HETATM 5 C C5B NAD . . . O 3 -23.027 41.398 -22.701 1 53.29 ? C5B NAD 401 E 1 HETATM 6 C C4B NAD . . . O 3 -21.924 41.754 -21.734 1 73.37 ? C4B NAD 401 E 1 HETATM 7 O O4B NAD . . . O 3 -21.334 43.017 -22.143 1 82.23 ? O4B NAD 401 E 1 HETATM 8 C C3B NAD . . . O 3 -22.359 41.966 -20.275 1 72.21 ? C3B NAD 401 E 1 HETATM 9 O O3B NAD . . . O 3 -21.312 41.599 -19.387 1 59.93 ? O3B NAD 401 E 1 HETATM 10 C C2B NAD . . . O 3 -22.545 43.484 -20.229 1 71.38 ? C2B NAD 401 E 1 HETATM 11 O O2B NAD . . . O 3 -22.555 44.022 -18.924 1 53.26 ? O2B NAD 401 E 1 HETATM 12 C C1B NAD . . . O 3 -21.331 43.902 -21.048 1 74.78 ? C1B NAD 401 E 1 HETATM 13 N N9A NAD . . . O 3 -21.392 45.266 -21.555 1 66.62 ? N9A NAD 401 E 1 HETATM 14 C C8A NAD . . . O 3 -22.523 45.987 -21.846 1 61.2 ? C8A NAD 401 E 1 HETATM 15 N N7A NAD . . . O 3 -22.269 47.193 -22.289 1 65.32 ? N7A NAD 401 E 1 HETATM 16 C C5A NAD . . . O 3 -20.884 47.276 -22.29 1 72.1 ? C5A NAD 401 E 1 HETATM 17 C C6A NAD . . . O 3 -19.996 48.308 -22.653 1 75.74 ? C6A NAD 401 E 1 HETATM 18 N N6A NAD . . . O 3 -20.386 49.498 -23.101 1 65.64 ? N6A NAD 401 E 1 HETATM 19 N N1A NAD . . . O 3 -18.67 48.061 -22.53 1 79.79 ? N1A NAD 401 E 1 HETATM 20 C C2A NAD . . . O 3 -18.281 46.863 -22.078 1 77.73 ? C2A NAD 401 E 1 HETATM 21 N N3A NAD . . . O 3 -19.022 45.821 -21.71 1 75.48 ? N3A NAD 401 E 1 HETATM 22 C C4A NAD . . . O 3 -20.331 46.093 -21.839 1 71.55 ? C4A NAD 401 E 1 HETATM 23 O O3 NAD . . . O 3 -24.87 38.517 -21.125 1 82.55 ? O3 NAD 401 E 1 HETATM 24 P PN NAD . . . O 3 -25.731 38.091 -19.84 1 61.67 ? PN NAD 401 E 1 HETATM 25 O O1N NAD . . . O 3 -26.063 39.324 -19.067 1 51.58 ? O1N NAD 401 E 1 HETATM 26 O O2N NAD . . . O 3 -25.014 36.985 -19.138 1 59.29 ? O2N NAD 401 E 1 HETATM 27 O O5D NAD . . . O 3 -27.062 37.512 -20.519 1 56.36 ? O5D NAD 401 E 1 HETATM 28 C C5D NAD . . . O 3 -26.945 36.493 -21.542 1 62.35 ? C5D NAD 401 E 1 HETATM 29 C C4D NAD . . . O 3 -28.283 36.328 -22.217 1 60.42 ? C4D NAD 401 E 1 HETATM 30 O O4D NAD . . . O 3 -29.319 36.287 -21.217 1 49.69 ? O4D NAD 401 E 1 HETATM 31 C C3D NAD . . . O 3 -28.726 37.45 -23.164 1 58.13 ? C3D NAD 401 E 1 HETATM 32 O O3D NAD . . . O 3 -28.101 37.375 -24.44 1 52.48 ? O3D NAD 401 E 1 HETATM 33 C C2D NAD . . . O 3 -30.242 37.228 -23.196 1 56.39 ? C2D NAD 401 E 1 HETATM 34 O O2D NAD . . . O 3 -30.619 36.324 -24.222 1 54.72 ? O2D NAD 401 E 1 HETATM 35 C C1D NAD . . . O 3 -30.564 36.628 -21.824 1 55.83 ? C1D NAD 401 E 1 HETATM 36 N N1N NAD . . . O 3 -31.259 37.606 -20.937 1 56.81 ? N1N NAD 401 E 1 HETATM 37 C C2N NAD . . . O 3 -30.532 38.426 -20.107 1 45.52 ? C2N NAD 401 E 1 HETATM 38 C C3N NAD . . . O 3 -31.181 39.337 -19.28 1 42.06 ? C3N NAD 401 E 1 HETATM 39 C C7N NAD . . . O 3 -30.371 40.192 -18.338 1 44.92 ? C7N NAD 401 E 1 HETATM 40 O O7N NAD . . . O 3 -30.951 40.923 -17.539 1 43.37 ? O7N NAD 401 E 1 HETATM 41 N N7N NAD . . . O 3 -29.051 40.109 -18.411 1 52.24 ? N7N NAD 401 E 1 HETATM 42 C C4N NAD . . . O 3 -32.564 39.443 -19.344 1 47.09 ? C4N NAD 401 E 1 HETATM 43 C C5N NAD . . . O 3 -33.276 38.615 -20.18 1 57.75 ? C5N NAD 401 E 1 HETATM 44 C C6N NAD . . . O 3 -32.608 37.694 -20.954 1 62.62 ? C6N NAD 401 E 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 15 _model_server_stats.query_time_ms 263 _model_server_stats.encode_time_ms 10 _model_server_stats.element_count 44 #