data_8GV3 # _model_server_result.job_id sovfYpURBo0c6Bs-NITjag _model_server_result.datetime_utc '2024-10-19 17:19:31' _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 8gv3 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":403}' # _entry.id 8GV3 # _exptl.entry_id 8GV3 _exptl.method 'ELECTRON MICROSCOPY' # _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 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 8GV3 _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 8GV3 _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 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,D,E,F,G,H,I,J _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 ? _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 E N N ? 3 I 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 SG CYS 45 A CYS 44 1_555 D ZN ZN . A ZN 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.297 ? metalc ? metalc2 A NE2 HIS 67 A HIS 66 1_555 D ZN ZN . A ZN 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.304 ? metalc ? metalc3 A SG CYS 97 A CYS 96 1_555 C ZN ZN . A ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.334 ? metalc ? metalc4 A SG CYS 100 A CYS 99 1_555 C ZN ZN . A ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.329 ? metalc ? metalc5 A SG CYS 103 A CYS 102 1_555 C ZN ZN . A ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.318 ? metalc ? metalc6 A SG CYS 111 A CYS 110 1_555 C ZN ZN . A ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.317 ? metalc ? metalc7 A SG CYS 174 A CYS 173 1_555 D ZN ZN . A ZN 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.296 ? metalc ? metalc8 D ZN ZN . A ZN 402 1_555 F N25 WKZ . A WKZ 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.696 ? metalc ? metalc9 B SG CYS 45 B CYS 44 1_555 H ZN ZN . B ZN 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.298 ? metalc ? metalc10 B NE2 HIS 67 B HIS 66 1_555 H ZN ZN . B ZN 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.303 ? metalc ? metalc11 B SG CYS 97 B CYS 96 1_555 G ZN ZN . B ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.335 ? metalc ? metalc12 B SG CYS 100 B CYS 99 1_555 G ZN ZN . B ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.328 ? metalc ? metalc13 B SG CYS 103 B CYS 102 1_555 G ZN ZN . B ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.319 ? metalc ? metalc14 B SG CYS 111 B CYS 110 1_555 G ZN ZN . B ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.316 ? metalc ? metalc15 B SG CYS 174 B CYS 173 1_555 H ZN ZN . B ZN 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.296 ? metalc ? metalc16 H ZN ZN . B ZN 402 1_555 J N25 WKZ . B WKZ 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.691 ? # _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 235 n n PA O2A NAD sing 236 n n PA O5B NAD sing 237 n n PA O3 NAD sing 238 n n O2A HOA2 NAD sing 239 n n O5B C5B NAD sing 240 n n C5B C4B NAD sing 241 n n C5B H51A NAD sing 242 n n C5B H52A NAD sing 243 n n C4B O4B NAD sing 244 n n C4B C3B NAD sing 245 n n C4B H4B NAD sing 246 n n O4B C1B NAD sing 247 n n C3B O3B NAD sing 248 n n C3B C2B NAD sing 249 n n C3B H3B NAD sing 250 n n O3B HO3A NAD sing 251 n n C2B O2B NAD sing 252 n n C2B C1B NAD sing 253 n n C2B H2B NAD sing 254 n n O2B HO2A NAD sing 255 n n C1B N9A NAD sing 256 n n C1B H1B NAD sing 257 n n N9A C8A NAD sing 258 n y N9A C4A NAD sing 259 n y C8A N7A NAD doub 260 n y C8A H8A NAD sing 261 n n N7A C5A NAD sing 262 n y C5A C6A NAD sing 263 n y C5A C4A NAD doub 264 n y C6A N6A NAD sing 265 n n C6A N1A NAD doub 266 n y N6A H61A NAD sing 267 n n N6A H62A NAD sing 268 n n N1A C2A NAD sing 269 n y C2A N3A NAD doub 270 n y C2A H2A NAD sing 271 n n N3A C4A NAD sing 272 n y O3 PN NAD sing 273 n n PN O1N NAD doub 274 n n PN O2N NAD sing 275 n n PN O5D NAD sing 276 n n O5D C5D NAD sing 277 n n C5D C4D NAD sing 278 n n C5D H51N NAD sing 279 n n C5D H52N NAD sing 280 n n C4D O4D NAD sing 281 n n C4D C3D NAD sing 282 n n C4D H4D NAD sing 283 n n O4D C1D NAD sing 284 n n C3D O3D NAD sing 285 n n C3D C2D NAD sing 286 n n C3D H3D NAD sing 287 n n O3D HO3N NAD sing 288 n n C2D O2D NAD sing 289 n n C2D C1D NAD sing 290 n n C2D H2D NAD sing 291 n n O2D HO2N NAD sing 292 n n C1D N1N NAD sing 293 n n C1D H1D NAD sing 294 n n N1N C2N NAD sing 295 n y N1N C6N NAD doub 296 n y C2N C3N NAD doub 297 n y C2N H2N NAD sing 298 n n C3N C7N NAD sing 299 n n C3N C4N NAD sing 300 n y C7N O7N NAD doub 301 n n C7N N7N NAD sing 302 n n N7N H71N NAD sing 303 n n N7N H72N NAD sing 304 n n C4N C5N NAD doub 305 n y C4N H4N NAD sing 306 n n C5N C6N NAD sing 307 n y C5N H5N NAD sing 308 n n C6N H6N NAD sing 309 n n # _atom_sites.entry_id 8GV3 _atom_sites.fract_transf_matrix[1][1] 1 _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] 1 _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] 1 _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 ZN A 1 401 400 ZN ZN . D 2 ZN A 1 402 401 ZN ZN . E 3 NAD A 1 403 500 NAD NAD . F 4 WKZ A 1 404 501 WKZ NY1 . G 2 ZN B 1 401 400 ZN ZN . H 2 ZN B 1 402 401 ZN ZN . I 3 NAD B 1 403 500 NAD NAD . J 4 WKZ B 1 404 501 WKZ NY1 . # 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 . . . E 3 115.438 114.886 105.078 1 62.55 ? PA NAD 403 A 1 HETATM 2 O O1A NAD . . . E 3 115.162 113.593 105.86 1 62.55 ? O1A NAD 403 A 1 HETATM 3 O O2A NAD . . . E 3 116.712 115.5 105.574 1 62.55 ? O2A NAD 403 A 1 HETATM 4 O O5B NAD . . . E 3 114.187 115.942 105.293 1 62.55 ? O5B NAD 403 A 1 HETATM 5 C C5B NAD . . . E 3 113.094 115.547 106.117 1 62.55 ? C5B NAD 403 A 1 HETATM 6 C C4B NAD . . . E 3 111.967 116.626 106.037 1 62.55 ? C4B NAD 403 A 1 HETATM 7 O O4B NAD . . . E 3 110.646 116.06 106.701 1 62.55 ? O4B NAD 403 A 1 HETATM 8 C C3B NAD . . . E 3 112.289 117.646 106.689 1 62.55 ? C3B NAD 403 A 1 HETATM 9 O O3B NAD . . . E 3 112.018 118.874 105.878 1 62.55 ? O3B NAD 403 A 1 HETATM 10 C C2B NAD . . . E 3 111.335 117.672 108.064 1 62.55 ? C2B NAD 403 A 1 HETATM 11 O O2B NAD . . . E 3 111.13 119.021 108.488 1 62.55 ? O2B NAD 403 A 1 HETATM 12 C C1B NAD . . . E 3 110.232 117.137 107.724 1 62.55 ? C1B NAD 403 A 1 HETATM 13 N N9A NAD . . . E 3 109.596 116.533 108.932 1 62.55 ? N9A NAD 403 A 1 HETATM 14 C C8A NAD . . . E 3 109.878 115.932 110.106 1 62.55 ? C8A NAD 403 A 1 HETATM 15 N N7A NAD . . . E 3 108.724 115.661 110.705 1 62.55 ? N7A NAD 403 A 1 HETATM 16 C C5A NAD . . . E 3 107.735 116.095 109.91 1 62.55 ? C5A NAD 403 A 1 HETATM 17 C C6A NAD . . . E 3 106.387 116.07 110.039 1 62.55 ? C6A NAD 403 A 1 HETATM 18 N N6A NAD . . . E 3 105.585 115.564 111.081 1 62.55 ? N6A NAD 403 A 1 HETATM 19 N N1A NAD . . . E 3 105.611 116.577 109.077 1 62.55 ? N1A NAD 403 A 1 HETATM 20 C C2A NAD . . . E 3 106.182 117.117 107.969 1 62.55 ? C2A NAD 403 A 1 HETATM 21 N N3A NAD . . . E 3 107.5 117.146 107.843 1 62.55 ? N3A NAD 403 A 1 HETATM 22 C C4A NAD . . . E 3 108.288 116.632 108.812 1 62.55 ? C4A NAD 403 A 1 HETATM 23 O O3 NAD . . . E 3 115.568 114.552 103.449 1 62.55 ? O3 NAD 403 A 1 HETATM 24 P PN NAD . . . E 3 116.388 113.3 102.836 1 62.55 ? PN NAD 403 A 1 HETATM 25 O O1N NAD . . . E 3 117.823 113.394 103.205 1 62.55 ? O1N NAD 403 A 1 HETATM 26 O O2N NAD . . . E 3 116.244 113.3 101.333 1 62.55 ? O2N NAD 403 A 1 HETATM 27 O O5D NAD . . . E 3 115.748 111.88 103.44 1 62.55 ? O5D NAD 403 A 1 HETATM 28 C C5D NAD . . . E 3 114.392 111.727 103.369 1 62.55 ? C5D NAD 403 A 1 HETATM 29 C C4D NAD . . . E 3 114.045 110.203 103.632 1 62.55 ? C4D NAD 403 A 1 HETATM 30 O O4D NAD . . . E 3 114.082 109.418 102.293 1 62.55 ? O4D NAD 403 A 1 HETATM 31 C C3D NAD . . . E 3 114.943 109.675 104.38 1 62.55 ? C3D NAD 403 A 1 HETATM 32 O O3D NAD . . . E 3 114.33 108.924 105.464 1 62.55 ? O3D NAD 403 A 1 HETATM 33 C C2D NAD . . . E 3 115.802 108.632 103.434 1 62.55 ? C2D NAD 403 A 1 HETATM 34 O O2D NAD . . . E 3 116.346 107.544 104.294 1 62.55 ? O2D NAD 403 A 1 HETATM 35 C C1D NAD . . . E 3 114.942 108.174 102.621 1 62.55 ? C1D NAD 403 A 1 HETATM 36 N N1N NAD . . . E 3 115.592 107.661 101.344 1 62.55 ? N1N NAD 403 A 1 HETATM 37 C C2N NAD . . . E 3 115.123 106.523 100.784 1 62.55 ? C2N NAD 403 A 1 HETATM 38 C C3N NAD . . . E 3 115.696 106.042 99.626 1 62.55 ? C3N NAD 403 A 1 HETATM 39 C C7N NAD . . . E 3 115.167 104.78 99.005 1 62.55 ? C7N NAD 403 A 1 HETATM 40 O O7N NAD . . . E 3 115.686 104.354 97.984 1 62.55 ? O7N NAD 403 A 1 HETATM 41 N N7N NAD . . . E 3 114.021 104.063 99.614 1 62.55 ? N7N NAD 403 A 1 HETATM 42 C C4N NAD . . . E 3 116.715 106.699 99.058 1 62.55 ? C4N NAD 403 A 1 HETATM 43 C C5N NAD . . . E 3 117.177 107.829 99.619 1 62.55 ? C5N NAD 403 A 1 HETATM 44 C C6N NAD . . . E 3 116.592 108.311 100.792 1 62.55 ? C6N NAD 403 A 1 # _model_server_stats.io_time_ms 61 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 332 _model_server_stats.encode_time_ms 14 _model_server_stats.element_count 44 #