data_6YNV # _model_server_result.job_id kp76yn5O4I_RIcqGQ-74PQ _model_server_result.datetime_utc '2025-03-03 11:46:57' _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 6ynv # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":900}' # _entry.id 6YNV # _exptl.entry_id 6YNV _exptl.method 'ELECTRON MICROSCOPY' # _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 90 _cell.angle_gamma 90 _cell.entry_id 6YNV _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 6YNV _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 PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B _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 # _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 # _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 6YNV _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 # _pdbx_nonpoly_scheme.asym_id B _pdbx_nonpoly_scheme.entity_id 2 _pdbx_nonpoly_scheme.mon_id NAD _pdbx_nonpoly_scheme.pdb_strand_id e _pdbx_nonpoly_scheme.ndb_seq_num 1 _pdbx_nonpoly_scheme.pdb_seq_num 900 _pdbx_nonpoly_scheme.auth_seq_num 900 _pdbx_nonpoly_scheme.pdb_mon_id NAD _pdbx_nonpoly_scheme.auth_mon_id NAD _pdbx_nonpoly_scheme.pdb_ins_code . # 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 2 144.935 272.029 250.16 1 76.76 ? PA NAD 900 e 1 HETATM 2 O O1A NAD . . . B 2 145.942 272.437 249.124 1 76.76 ? O1A NAD 900 e 1 HETATM 3 O O2A NAD . . . B 2 144.753 270.563 250.407 1 76.76 ? O2A NAD 900 e 1 HETATM 4 O O5B NAD . . . B 2 145.295 272.769 251.611 1 76.76 ? O5B NAD 900 e 1 HETATM 5 C C5B NAD . . . B 2 144.73 274.062 251.822 1 76.76 ? C5B NAD 900 e 1 HETATM 6 C C4B NAD . . . B 2 145.701 275.109 252.463 1 76.76 ? C4B NAD 900 e 1 HETATM 7 O O4B NAD . . . B 2 144.936 275.806 253.703 1 76.76 ? O4B NAD 900 e 1 HETATM 8 C C3B NAD . . . B 2 146.763 274.579 252.954 1 76.76 ? C3B NAD 900 e 1 HETATM 9 O O3B NAD . . . B 2 147.869 275.584 252.961 1 76.76 ? O3B NAD 900 e 1 HETATM 10 C C2B NAD . . . B 2 146.374 274.251 254.405 1 76.76 ? C2B NAD 900 e 1 HETATM 11 O O2B NAD . . . B 2 147.488 274.177 255.169 1 76.76 ? O2B NAD 900 e 1 HETATM 12 C C1B NAD . . . B 2 145.565 275.46 254.802 1 76.76 ? C1B NAD 900 e 1 HETATM 13 N N9A NAD . . . B 2 144.634 275.104 255.862 1 76.76 ? N9A NAD 900 e 1 HETATM 14 C C8A NAD . . . B 2 143.863 274.086 256.191 1 76.76 ? C8A NAD 900 e 1 HETATM 15 N N7A NAD . . . B 2 143.243 274.417 257.341 1 76.76 ? N7A NAD 900 e 1 HETATM 16 C C5A NAD . . . B 2 143.653 275.646 257.696 1 76.76 ? C5A NAD 900 e 1 HETATM 17 C C6A NAD . . . B 2 143.325 276.445 258.785 1 76.76 ? C6A NAD 900 e 1 HETATM 18 N N6A NAD . . . B 2 142.414 276.234 259.936 1 76.76 ? N6A NAD 900 e 1 HETATM 19 N N1A NAD . . . B 2 143.868 277.636 258.922 1 76.76 ? N1A NAD 900 e 1 HETATM 20 C C2A NAD . . . B 2 144.763 278.085 257.978 1 76.76 ? C2A NAD 900 e 1 HETATM 21 N N3A NAD . . . B 2 145.087 277.319 256.922 1 76.76 ? N3A NAD 900 e 1 HETATM 22 C C4A NAD . . . B 2 144.521 276.085 256.786 1 76.76 ? C4A NAD 900 e 1 HETATM 23 O O3 NAD . . . B 2 143.486 272.672 249.745 1 76.76 ? O3 NAD 900 e 1 HETATM 24 P PN NAD . . . B 2 143.07 273.102 248.162 1 76.76 ? PN NAD 900 e 1 HETATM 25 O O1N NAD . . . B 2 141.542 273.03 248.031 1 76.76 ? O1N NAD 900 e 1 HETATM 26 O O2N NAD . . . B 2 143.728 274.402 247.812 1 76.76 ? O2N NAD 900 e 1 HETATM 27 O O5D NAD . . . B 2 143.724 271.925 247.253 1 76.76 ? O5D NAD 900 e 1 HETATM 28 C C5D NAD . . . B 2 144.035 272.241 245.927 1 76.76 ? C5D NAD 900 e 1 HETATM 29 C C4D NAD . . . B 2 144.273 270.969 245.132 1 76.76 ? C4D NAD 900 e 1 HETATM 30 O O4D NAD . . . B 2 145.361 270.055 245.886 1 76.76 ? O4D NAD 900 e 1 HETATM 31 C C3D NAD . . . B 2 143.198 270.231 245.074 1 76.76 ? C3D NAD 900 e 1 HETATM 32 O O3D NAD . . . B 2 142.316 270.648 243.899 1 76.76 ? O3D NAD 900 e 1 HETATM 33 C C2D NAD . . . B 2 143.733 268.862 244.84 1 76.76 ? C2D NAD 900 e 1 HETATM 34 O O2D NAD . . . B 2 143.853 268.613 243.491 1 76.76 ? O2D NAD 900 e 1 HETATM 35 C C1D NAD . . . B 2 145.153 268.871 245.495 1 76.76 ? C1D NAD 900 e 1 HETATM 36 N N1N NAD . . . B 2 145.157 267.94 246.665 1 76.76 ? N1N NAD 900 e 1 HETATM 37 C C2N NAD . . . B 2 145.143 266.586 246.451 1 76.76 ? C2N NAD 900 e 1 HETATM 38 C C3N NAD . . . B 2 145.143 265.714 247.525 1 76.76 ? C3N NAD 900 e 1 HETATM 39 C C7N NAD . . . B 2 145.138 264.172 247.251 1 76.76 ? C7N NAD 900 e 1 HETATM 40 O O7N NAD . . . B 2 145.158 263.403 248.161 1 76.76 ? O7N NAD 900 e 1 HETATM 41 N N7N NAD . . . B 2 145.12 263.696 245.844 1 76.76 ? N7N NAD 900 e 1 HETATM 42 C C4N NAD . . . B 2 145.153 266.194 248.801 1 76.76 ? C4N NAD 900 e 1 HETATM 43 C C5N NAD . . . B 2 145.166 267.55 249.016 1 76.76 ? C5N NAD 900 e 1 HETATM 44 C C6N NAD . . . B 2 145.166 268.426 247.933 1 76.76 ? C6N NAD 900 e 1 HETATM 45 H H51A NAD . . . B 2 144.442 274.408 250.968 1 76.76 ? H51A NAD 900 e 1 HETATM 46 H H52A NAD . . . B 2 143.97 273.968 252.41 1 76.76 ? H52A NAD 900 e 1 HETATM 47 H H4B NAD . . . B 2 145.947 275.778 251.814 1 76.76 ? H4B NAD 900 e 1 HETATM 48 H H3B NAD . . . B 2 147.027 273.789 252.474 1 76.76 ? H3B NAD 900 e 1 HETATM 49 H HO3A NAD . . . B 2 148.583 275.204 252.71 1 76.76 ? HO3A NAD 900 e 1 HETATM 50 H H2B NAD . . . B 2 145.841 273.45 254.45 1 76.76 ? H2B NAD 900 e 1 HETATM 51 H HO2A NAD . . . B 2 148.013 274.8 254.933 1 76.76 ? HO2A NAD 900 e 1 HETATM 52 H H1B NAD . . . B 2 146.163 276.158 255.087 1 76.76 ? H1B NAD 900 e 1 HETATM 53 H H8A NAD . . . B 2 143.767 273.295 255.719 1 76.76 ? H8A NAD 900 e 1 HETATM 54 H H61A NAD . . . B 2 141.622 275.933 259.803 1 76.76 ? H61A NAD 900 e 1 HETATM 55 H H62A NAD . . . B 2 142.681 276.408 260.732 1 76.76 ? H62A NAD 900 e 1 HETATM 56 H H2A NAD . . . B 2 145.129 278.926 258.1 1 76.76 ? H2A NAD 900 e 1 HETATM 57 H H51N NAD . . . B 2 143.3 272.735 245.543 1 76.76 ? H51N NAD 900 e 1 HETATM 58 H H52N NAD . . . B 2 144.83 272.789 245.918 1 76.76 ? H52N NAD 900 e 1 HETATM 59 H H4D NAD . . . B 2 144.569 271.173 244.235 1 76.76 ? H4D NAD 900 e 1 HETATM 60 H H3D NAD . . . B 2 142.71 270.262 245.907 1 76.76 ? H3D NAD 900 e 1 HETATM 61 H HO3N NAD . . . B 2 141.856 269.979 243.652 1 76.76 ? HO3N NAD 900 e 1 HETATM 62 H H2D NAD . . . B 2 143.167 268.206 245.263 1 76.76 ? H2D NAD 900 e 1 HETATM 63 H HO2N NAD . . . B 2 144.432 268.003 243.376 1 76.76 ? HO2N NAD 900 e 1 HETATM 64 H H1D NAD . . . B 2 145.816 268.612 244.845 1 76.76 ? H1D NAD 900 e 1 HETATM 65 H H2N NAD . . . B 2 145.136 266.25 245.588 1 76.76 ? H2N NAD 900 e 1 HETATM 66 H H71N NAD . . . B 2 145.121 262.855 245.671 1 76.76 ? H71N NAD 900 e 1 HETATM 67 H H72N NAD . . . B 2 145.109 264.266 245.202 1 76.76 ? H72N NAD 900 e 1 HETATM 68 H H4N NAD . . . B 2 145.155 265.601 249.515 1 76.76 ? H4N NAD 900 e 1 HETATM 69 H H5N NAD . . . B 2 145.173 267.887 249.88 1 76.76 ? H5N NAD 900 e 1 HETATM 70 H H6N NAD . . . B 2 145.173 269.34 248.078 1 76.76 ? H6N NAD 900 e 1 # _model_server_stats.io_time_ms 17 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 301 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 70 #