data_6WV8 # _model_server_result.job_id w7Xi9N_jseInWrg_Yri5bA _model_server_result.datetime_utc '2024-11-15 14:58:31' _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 6wv8 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":501}' # _entry.id 6WV8 # _exptl.entry_id 6WV8 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 450.696 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description PHYLLOQUINONE _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 6WV8 _cell.length_a 55.167 _cell.length_b 61.49 _cell.length_c 167.211 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6WV8 _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _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,C _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 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 # _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 disulf ? disulf1 A SG CYS 186 A CYS 188 1_555 A SG CYS 194 A CYS 196 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? covale ? covale1 A C LEU 64 A LEU 64 1_555 A N1 CRO 65 A CRO 66 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.406 ? covale ? covale2 A C3 CRO 65 A CRO 66 1_555 A N VAL 66 A VAL 68 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.346 ? # _chem_comp.formula 'C31 H46 O2' _chem_comp.formula_weight 450.696 _chem_comp.id PQN _chem_comp.mon_nstd_flag . _chem_comp.name PHYLLOQUINONE _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 'VITAMIN K1;2-METHYL-3-PHYTYL-1,4-NAPHTHOQUINONE' # 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 C1 O1 PQN doub 301 n n C1 C2 PQN sing 302 n n C1 C10 PQN sing 303 n n C2 C2M PQN sing 304 n n C2 C3 PQN doub 305 n n C2M H2M1 PQN sing 306 n n C2M H2M2 PQN sing 307 n n C2M H2M3 PQN sing 308 n n C3 C4 PQN sing 309 n n C3 C11 PQN sing 310 n n C4 O4 PQN doub 311 n n C4 C5 PQN sing 312 n n C5 C6 PQN doub 313 n y C5 C10 PQN sing 314 n y C6 C7 PQN sing 315 n y C6 H6 PQN sing 316 n n C7 C8 PQN doub 317 n y C7 H7 PQN sing 318 n n C8 C9 PQN sing 319 n y C8 H8 PQN sing 320 n n C9 C10 PQN doub 321 n y C9 H9 PQN sing 322 n n C11 C12 PQN sing 323 n n C11 H111 PQN sing 324 n n C11 H112 PQN sing 325 n n C12 C13 PQN doub 326 e n C12 H12 PQN sing 327 n n C13 C14 PQN sing 328 n n C13 C15 PQN sing 329 n n C14 H141 PQN sing 330 n n C14 H142 PQN sing 331 n n C14 H143 PQN sing 332 n n C15 C16 PQN sing 333 n n C15 H151 PQN sing 334 n n C15 H152 PQN sing 335 n n C16 C17 PQN sing 336 n n C16 H161 PQN sing 337 n n C16 H162 PQN sing 338 n n C17 C18 PQN sing 339 n n C17 H171 PQN sing 340 n n C17 H172 PQN sing 341 n n C18 C19 PQN sing 342 n n C18 C20 PQN sing 343 n n C18 H18 PQN sing 344 n n C19 H191 PQN sing 345 n n C19 H192 PQN sing 346 n n C19 H193 PQN sing 347 n n C20 C21 PQN sing 348 n n C20 H201 PQN sing 349 n n C20 H202 PQN sing 350 n n C21 C22 PQN sing 351 n n C21 H211 PQN sing 352 n n C21 H212 PQN sing 353 n n C22 C23 PQN sing 354 n n C22 H221 PQN sing 355 n n C22 H222 PQN sing 356 n n C23 C24 PQN sing 357 n n C23 C25 PQN sing 358 n n C23 H23 PQN sing 359 n n C24 H241 PQN sing 360 n n C24 H242 PQN sing 361 n n C24 H243 PQN sing 362 n n C25 C26 PQN sing 363 n n C25 H251 PQN sing 364 n n C25 H252 PQN sing 365 n n C26 C27 PQN sing 366 n n C26 H261 PQN sing 367 n n C26 H262 PQN sing 368 n n C27 C28 PQN sing 369 n n C27 H271 PQN sing 370 n n C27 H272 PQN sing 371 n n C28 C29 PQN sing 372 n n C28 C30 PQN sing 373 n n C28 H28 PQN sing 374 n n C29 H291 PQN sing 375 n n C29 H292 PQN sing 376 n n C29 H293 PQN sing 377 n n C30 H301 PQN sing 378 n n C30 H302 PQN sing 379 n n C30 H303 PQN sing 380 n n # _atom_sites.entry_id 6WV8 _atom_sites.fract_transf_matrix[1][1] 0.018127 _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] 0.016263 _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] 0.00598 _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 PQN A 1 501 501 PQN PQN . C 3 HOH A 1 601 2 HOH HOH . C 3 HOH A 2 602 4 HOH HOH . C 3 HOH A 3 603 3 HOH HOH . C 3 HOH A 4 604 5 HOH HOH . C 3 HOH A 5 605 7 HOH HOH . C 3 HOH A 6 606 1 HOH HOH . C 3 HOH A 7 607 6 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 C C1 PQN . . . B 2 70.482 -0.933 55.889 1 63.21 ? C1 PQN 501 A 1 HETATM 2 O O1 PQN . . . B 2 69.369 -1.385 56.638 1 63.81 ? O1 PQN 501 A 1 HETATM 3 C C2 PQN . . . B 2 70.472 -1.076 54.467 1 67.03 ? C2 PQN 501 A 1 HETATM 4 C C2M PQN . . . B 2 69.396 -1.652 53.882 1 67.98 ? C2M PQN 501 A 1 HETATM 5 C C3 PQN . . . B 2 71.596 -0.615 53.671 1 68.24 ? C3 PQN 501 A 1 HETATM 6 C C4 PQN . . . B 2 72.7 -0.009 54.319 1 66.84 ? C4 PQN 501 A 1 HETATM 7 O O4 PQN . . . B 2 73.793 0.428 53.528 1 66.76 ? O4 PQN 501 A 1 HETATM 8 C C5 PQN . . . B 2 72.726 0.139 55.742 1 65.17 ? C5 PQN 501 A 1 HETATM 9 C C6 PQN . . . B 2 73.85 0.747 56.416 1 63.43 ? C6 PQN 501 A 1 HETATM 10 C C7 PQN . . . B 2 73.883 0.908 57.835 1 60.93 ? C7 PQN 501 A 1 HETATM 11 C C8 PQN . . . B 2 72.768 0.447 58.601 1 60.01 ? C8 PQN 501 A 1 HETATM 12 C C9 PQN . . . B 2 71.649 -0.156 57.941 1 61.73 ? C9 PQN 501 A 1 HETATM 13 C C10 PQN . . . B 2 71.6 -0.32 56.525 1 62.87 ? C10 PQN 501 A 1 HETATM 14 C C11 PQN . . . B 2 71.613 -0.758 52.132 1 70.71 ? C11 PQN 501 A 1 HETATM 15 C C12 PQN . . . B 2 71.597 -2.262 51.799 1 71.78 ? C12 PQN 501 A 1 HETATM 16 C C13 PQN . . . B 2 70.298 -2.789 51.196 1 73.53 ? C13 PQN 501 A 1 HETATM 17 C C14 PQN . . . B 2 69.962 -4.299 51.13 1 70.17 ? C14 PQN 501 A 1 HETATM 18 C C15 PQN . . . B 2 69.799 -1.698 50.183 1 75.09 ? C15 PQN 501 A 1 HETATM 19 C C16 PQN . . . B 2 69.028 -0.691 50.657 1 74.42 ? C16 PQN 501 A 1 HETATM 20 C C17 PQN . . . B 2 69.382 0.593 49.894 1 77.81 ? C17 PQN 501 A 1 HETATM 21 C C18 PQN . . . B 2 68.314 1.71 50.049 1 74.75 ? C18 PQN 501 A 1 HETATM 22 C C19 PQN . . . B 2 67.463 1.371 51.264 1 69.67 ? C19 PQN 501 A 1 HETATM 23 C C20 PQN . . . B 2 67.407 1.805 48.788 1 75.62 ? C20 PQN 501 A 1 HETATM 24 C C21 PQN . . . B 2 67.516 3.203 48.13 1 84.05 ? C21 PQN 501 A 1 HETATM 25 C C22 PQN . . . B 2 66.12 3.886 48.07 1 85.73 ? C22 PQN 501 A 1 HETATM 26 C C23 PQN . . . B 2 65.921 4.76 46.785 1 93.07 ? C23 PQN 501 A 1 HETATM 27 C C24 PQN . . . B 2 67.279 5.067 46.124 1 90.89 ? C24 PQN 501 A 1 HETATM 28 C C25 PQN . . . B 2 65.217 6.078 47.129 1 109.82 ? C25 PQN 501 A 1 # _model_server_stats.io_time_ms 17 _model_server_stats.parse_time_ms 16 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 287 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 28 #