data_6EMM # _model_server_result.job_id FsXez6pE-8RUq7fdnJTDWw _model_server_result.datetime_utc '2025-01-12 15:35:37' _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 6emm # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":301}' # _entry.id 6EMM # _exptl.entry_id 6EMM _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 90 _cell.angle_gamma 90 _cell.entry_id 6EMM _cell.length_a 129.789 _cell.length_b 129.789 _cell.length_c 129.789 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6EMM _symmetry.cell_setting ? _symmetry.Int_Tables_number 197 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 2 3' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _pdbx_struct_assembly.details software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3,4 # 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_575 -x,-y+2,z -1 0 0 0 -1 0 0 0 1 0 259.578 0 3 'crystal symmetry operation' 3_556 -x,y,-z+1 -1 0 0 0 1 0 0 0 -1 0 0 129.789 4 'crystal symmetry operation' 4_576 x,-y+2,-z+1 1 0 0 0 -1 0 0 0 -1 0 259.578 129.789 # _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 # _struct_conn.conn_type_id disulf _struct_conn.details ? _struct_conn.id disulf1 _struct_conn.ptnr1_label_asym_id A _struct_conn.ptnr1_label_atom_id SG _struct_conn.ptnr1_label_comp_id CYS _struct_conn.ptnr1_label_seq_id 257 _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id CYS _struct_conn.ptnr1_auth_seq_id 255 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id A _struct_conn.ptnr2_label_atom_id SG _struct_conn.ptnr2_label_comp_id CYS _struct_conn.ptnr2_label_seq_id 257 _struct_conn.ptnr2_auth_asym_id A _struct_conn.ptnr2_auth_comp_id CYS _struct_conn.ptnr2_auth_seq_id 255 _struct_conn.ptnr2_symmetry 4_576 _struct_conn.pdbx_ptnr1_PDB_ins_code ? _struct_conn.pdbx_ptnr1_label_alt_id A _struct_conn.pdbx_ptnr1_standard_comp_id ? _struct_conn.pdbx_ptnr2_PDB_ins_code ? _struct_conn.pdbx_ptnr2_label_alt_id A _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 2.923 _struct_conn.pdbx_value_order ? # _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 237 n n PA O2A NAD sing 238 n n PA O5B NAD sing 239 n n PA O3 NAD sing 240 n n O2A HOA2 NAD sing 241 n n O5B C5B NAD sing 242 n n C5B C4B NAD sing 243 n n C5B H51A NAD sing 244 n n C5B H52A NAD sing 245 n n C4B O4B NAD sing 246 n n C4B C3B NAD sing 247 n n C4B H4B NAD sing 248 n n O4B C1B NAD sing 249 n n C3B O3B NAD sing 250 n n C3B C2B NAD sing 251 n n C3B H3B NAD sing 252 n n O3B HO3A NAD sing 253 n n C2B O2B NAD sing 254 n n C2B C1B NAD sing 255 n n C2B H2B NAD sing 256 n n O2B HO2A NAD sing 257 n n C1B N9A NAD sing 258 n n C1B H1B NAD sing 259 n n N9A C8A NAD sing 260 n y N9A C4A NAD sing 261 n y C8A N7A NAD doub 262 n y C8A H8A NAD sing 263 n n N7A C5A NAD sing 264 n y C5A C6A NAD sing 265 n y C5A C4A NAD doub 266 n y C6A N6A NAD sing 267 n n C6A N1A NAD doub 268 n y N6A H61A NAD sing 269 n n N6A H62A NAD sing 270 n n N1A C2A NAD sing 271 n y C2A N3A NAD doub 272 n y C2A H2A NAD sing 273 n n N3A C4A NAD sing 274 n y O3 PN NAD sing 275 n n PN O1N NAD doub 276 n n PN O2N NAD sing 277 n n PN O5D NAD sing 278 n n O5D C5D NAD sing 279 n n C5D C4D NAD sing 280 n n C5D H51N NAD sing 281 n n C5D H52N NAD sing 282 n n C4D O4D NAD sing 283 n n C4D C3D NAD sing 284 n n C4D H4D NAD sing 285 n n O4D C1D NAD sing 286 n n C3D O3D NAD sing 287 n n C3D C2D NAD sing 288 n n C3D H3D NAD sing 289 n n O3D HO3N NAD sing 290 n n C2D O2D NAD sing 291 n n C2D C1D NAD sing 292 n n C2D H2D NAD sing 293 n n O2D HO2N NAD sing 294 n n C1D N1N NAD sing 295 n n C1D H1D NAD sing 296 n n N1N C2N NAD sing 297 n y N1N C6N NAD doub 298 n y C2N C3N NAD doub 299 n y C2N H2N NAD sing 300 n n C3N C7N NAD sing 301 n n C3N C4N NAD sing 302 n y C7N O7N NAD doub 303 n n C7N N7N NAD sing 304 n n N7N H71N NAD sing 305 n n N7N H72N NAD sing 306 n n C4N C5N NAD doub 307 n y C4N H4N NAD sing 308 n n C5N C6N NAD sing 309 n y C5N H5N NAD sing 310 n n C6N H6N NAD sing 311 n n # _atom_sites.entry_id 6EMM _atom_sites.fract_transf_matrix[1][1] 0.007705 _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] 0.007705 _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] 0.007705 _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 1 301 301 NAD NAD . C 3 PEG A 1 302 1 PEG PEG . D 4 SAL A 1 303 1 SAL SAL . E 5 PG4 A 1 304 1 PG4 PG4 . F 6 HOH A 1 401 512 HOH HOH . F 6 HOH A 2 402 526 HOH HOH . F 6 HOH A 3 403 514 HOH HOH . F 6 HOH A 4 404 524 HOH HOH . F 6 HOH A 5 405 530 HOH HOH . F 6 HOH A 6 406 513 HOH HOH . F 6 HOH A 7 407 504 HOH HOH . F 6 HOH A 8 408 425 HOH HOH . F 6 HOH A 9 409 510 HOH HOH . F 6 HOH A 10 410 408 HOH HOH . F 6 HOH A 11 411 422 HOH HOH . F 6 HOH A 12 412 515 HOH HOH . F 6 HOH A 13 413 537 HOH HOH . F 6 HOH A 14 414 442 HOH HOH . F 6 HOH A 15 415 445 HOH HOH . F 6 HOH A 16 416 532 HOH HOH . F 6 HOH A 17 417 16 HOH HOH . F 6 HOH A 18 418 457 HOH HOH . F 6 HOH A 19 419 462 HOH HOH . F 6 HOH A 20 420 506 HOH HOH . F 6 HOH A 21 421 423 HOH HOH . F 6 HOH A 22 422 466 HOH HOH . F 6 HOH A 23 423 511 HOH HOH . F 6 HOH A 24 424 469 HOH HOH . F 6 HOH A 25 425 5 HOH HOH . F 6 HOH A 26 426 508 HOH HOH . F 6 HOH A 27 427 19 HOH HOH . F 6 HOH A 28 428 533 HOH HOH . F 6 HOH A 29 429 507 HOH HOH . F 6 HOH A 30 430 536 HOH HOH . F 6 HOH A 31 431 531 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 12.625 114.081 46.33 1 51.57 ? PA NAD 301 A 1 HETATM 2 O O1A NAD . . . B 2 13.184 114.902 45.225 1 59.27 ? O1A NAD 301 A 1 HETATM 3 O O2A NAD . . . B 2 13.738 113.327 47.072 1 44.39 ? O2A NAD 301 A 1 HETATM 4 O O5B NAD . . . B 2 11.468 113.099 45.763 1 52.79 ? O5B NAD 301 A 1 HETATM 5 C C5B NAD . . . B 2 10.336 113.708 45.109 1 42.9 ? C5B NAD 301 A 1 HETATM 6 C C4B NAD . . . B 2 9.7 112.709 44.183 1 43.12 ? C4B NAD 301 A 1 HETATM 7 O O4B NAD . . . B 2 8.619 113.354 43.471 1 46.84 ? O4B NAD 301 A 1 HETATM 8 C C3B NAD . . . B 2 10.636 112.126 43.115 1 51.03 ? C3B NAD 301 A 1 HETATM 9 O O3B NAD . . . B 2 10.46 110.72 42.993 1 47.27 ? O3B NAD 301 A 1 HETATM 10 C C2B NAD . . . B 2 10.219 112.885 41.85 1 56.12 ? C2B NAD 301 A 1 HETATM 11 O O2B NAD . . . B 2 10.469 112.204 40.625 1 53.04 ? O2B NAD 301 A 1 HETATM 12 C C1B NAD . . . B 2 8.724 113.042 42.1 1 50.42 ? C1B NAD 301 A 1 HETATM 13 N N9A NAD . . . B 2 8.114 114.114 41.328 1 47.18 ? N9A NAD 301 A 1 HETATM 14 C C8A NAD . . . B 2 8.641 115.357 41.099 1 48.17 ? C8A NAD 301 A 1 HETATM 15 N N7A NAD . . . B 2 7.94 116.091 40.269 1 53.58 ? N7A NAD 301 A 1 HETATM 16 C C5A NAD . . . B 2 6.87 115.276 39.934 1 49.16 ? C5A NAD 301 A 1 HETATM 17 C C6A NAD . . . B 2 5.783 115.452 39.058 1 44.29 ? C6A NAD 301 A 1 HETATM 18 N N6A NAD . . . B 2 5.589 116.552 38.329 1 46.57 ? N6A NAD 301 A 1 HETATM 19 N N1A NAD . . . B 2 4.903 114.434 38.935 1 46.66 ? N1A NAD 301 A 1 HETATM 20 C C2A NAD . . . B 2 5.106 113.321 39.648 1 52.03 ? C2A NAD 301 A 1 HETATM 21 N N3A NAD . . . B 2 6.097 113.037 40.5 1 55.37 ? N3A NAD 301 A 1 HETATM 22 C C4A NAD . . . B 2 6.955 114.059 40.591 1 49.08 ? C4A NAD 301 A 1 HETATM 23 O O3 NAD . . . B 2 11.926 115.031 47.399 1 45.95 ? O3 NAD 301 A 1 HETATM 24 P PN NAD . . . B 2 11.721 114.953 48.98 1 49.42 ? PN NAD 301 A 1 HETATM 25 O O1N NAD . . . B 2 12.828 115.648 49.679 1 43.01 ? O1N NAD 301 A 1 HETATM 26 O O2N NAD . . . B 2 11.402 113.555 49.349 1 42.7 ? O2N NAD 301 A 1 HETATM 27 O O5D NAD . . . B 2 10.408 115.846 49.107 1 54.46 ? O5D NAD 301 A 1 HETATM 28 C C5D NAD . . . B 2 9.122 115.269 48.805 1 49.48 ? C5D NAD 301 A 1 HETATM 29 C C4D NAD . . . B 2 8.062 116.258 49.201 1 45.88 ? C4D NAD 301 A 1 HETATM 30 O O4D NAD . . . B 2 8.282 116.679 50.566 1 49.99 ? O4D NAD 301 A 1 HETATM 31 C C3D NAD . . . B 2 8.037 117.532 48.363 1 46.87 ? C3D NAD 301 A 1 HETATM 32 O O3D NAD . . . B 2 6.686 117.891 48.135 1 38.23 ? O3D NAD 301 A 1 HETATM 33 C C2D NAD . . . B 2 8.798 118.529 49.242 1 45.83 ? C2D NAD 301 A 1 HETATM 34 O O2D NAD . . . B 2 8.433 119.889 49.045 1 48.99 ? O2D NAD 301 A 1 HETATM 35 C C1D NAD . . . B 2 8.343 118.078 50.614 1 43.3 ? C1D NAD 301 A 1 HETATM 36 N N1N NAD . . . B 2 9.289 118.486 51.732 1 39 ? N1N NAD 301 A 1 HETATM 37 C C2N NAD . . . B 2 10.544 117.998 51.762 1 33.13 ? C2N NAD 301 A 1 HETATM 38 C C3N NAD . . . B 2 11.426 118.418 52.742 1 34.57 ? C3N NAD 301 A 1 HETATM 39 C C7N NAD . . . B 2 12.834 117.924 52.876 1 44.17 ? C7N NAD 301 A 1 HETATM 40 O O7N NAD . . . B 2 13.538 118.339 53.825 1 40.98 ? O7N NAD 301 A 1 HETATM 41 N N7N NAD . . . B 2 13.272 117.029 51.982 1 48.66 ? N7N NAD 301 A 1 HETATM 42 C C4N NAD . . . B 2 10.985 119.346 53.685 1 36.18 ? C4N NAD 301 A 1 HETATM 43 C C5N NAD . . . B 2 9.687 119.817 53.638 1 32.7 ? C5N NAD 301 A 1 HETATM 44 C C6N NAD . . . B 2 8.845 119.371 52.647 1 34.44 ? C6N NAD 301 A 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 12 _model_server_stats.query_time_ms 307 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 44 #