data_1HVR # _model_server_result.job_id NfGT-U5mmqQuZXqvljOCxA _model_server_result.datetime_utc '2025-02-28 02:52:16' _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 1hvr # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":263}' # _entry.id 1HVR # _exptl.entry_id 1HVR _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 606.752 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '[4R-(4ALPHA,5ALPHA,6BETA,7BETA)]-HEXAHYDRO-5,6-DIHYDROXY-1,3-BIS[2-NAPHTHYL-METHYL]-4,7-BIS(PHENYLMETHYL)-2H-1,3-DIAZEPIN-2-ONE' _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 120 _cell.entry_id 1HVR _cell.length_a 62.8 _cell.length_b 62.8 _cell.length_c 83.5 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1HVR _symmetry.cell_setting ? _symmetry.Int_Tables_number 169 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 61' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 C _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 covale ? covale1 A C ILE 66 A ILE 66 1_555 A N CSO 67 A CSO 67 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? covale ? covale2 A C CSO 67 A CSO 67 1_555 A N GLY 68 A GLY 68 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.335 ? covale ? covale3 B C ILE 66 B ILE 66 1_555 B N CSO 67 B CSO 67 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.303 ? covale ? covale4 B C CSO 67 B CSO 67 1_555 B N GLY 68 B GLY 68 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? # _chem_comp.formula 'C41 H38 N2 O3' _chem_comp.formula_weight 606.752 _chem_comp.id XK2 _chem_comp.mon_nstd_flag . _chem_comp.name '[4R-(4ALPHA,5ALPHA,6BETA,7BETA)]-HEXAHYDRO-5,6-DIHYDROXY-1,3-BIS[2-NAPHTHYL-METHYL]-4,7-BIS(PHENYLMETHYL)-2H-1,3-DIAZEPIN-2-ONE' _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 C1 O1 XK2 doub 388 n n C1 N2 XK2 sing 389 n n C1 N7 XK2 sing 390 n n N2 C2 XK2 sing 391 n n N2 C3 XK2 sing 392 n n C2 C20 XK2 sing 393 n n C2 H21A XK2 sing 394 n n C2 H22A XK2 sing 395 n n C3 C4 XK2 sing 396 n n C3 C31 XK2 sing 397 n n C3 H3 XK2 sing 398 n n C4 O4 XK2 sing 399 n n C4 C5 XK2 sing 400 n n C4 H4 XK2 sing 401 n n O4 HO4 XK2 sing 402 n n C5 O5 XK2 sing 403 n n C5 C6 XK2 sing 404 n n C5 H5 XK2 sing 405 n n O5 HO5 XK2 sing 406 n n C6 N7 XK2 sing 407 n n C6 C61 XK2 sing 408 n n C6 H6 XK2 sing 409 n n N7 C7 XK2 sing 410 n n C7 C70 XK2 sing 411 n n C7 H71A XK2 sing 412 n n C7 H72 XK2 sing 413 n n C20 C21 XK2 doub 414 n y C20 C29 XK2 sing 415 n y C21 C22 XK2 sing 416 n y C21 H21 XK2 sing 417 n n C22 C23 XK2 doub 418 n y C22 H22 XK2 sing 419 n n C23 C24 XK2 sing 420 n y C23 C28 XK2 sing 421 n y C24 C25 XK2 doub 422 n y C24 H24 XK2 sing 423 n n C25 C26 XK2 sing 424 n y C25 H25 XK2 sing 425 n n C26 C27 XK2 doub 426 n y C26 H26 XK2 sing 427 n n C27 C28 XK2 sing 428 n y C27 H27 XK2 sing 429 n n C28 C29 XK2 doub 430 n y C29 H29 XK2 sing 431 n n C31 C32 XK2 sing 432 n n C31 H311 XK2 sing 433 n n C31 H312 XK2 sing 434 n n C32 C33 XK2 doub 435 n y C32 C37 XK2 sing 436 n y C33 C34 XK2 sing 437 n y C33 H33 XK2 sing 438 n n C34 C35 XK2 doub 439 n y C34 H34 XK2 sing 440 n n C35 C36 XK2 sing 441 n y C35 H35 XK2 sing 442 n n C36 C37 XK2 doub 443 n y C36 H36 XK2 sing 444 n n C37 H37 XK2 sing 445 n n C61 C62 XK2 sing 446 n n C61 H611 XK2 sing 447 n n C61 H612 XK2 sing 448 n n C62 C63 XK2 doub 449 n y C62 C67 XK2 sing 450 n y C63 C64 XK2 sing 451 n y C63 H63 XK2 sing 452 n n C64 C65 XK2 doub 453 n y C64 H64 XK2 sing 454 n n C65 C66 XK2 sing 455 n y C65 H65 XK2 sing 456 n n C66 C67 XK2 doub 457 n y C66 H66 XK2 sing 458 n n C67 H67 XK2 sing 459 n n C70 C71 XK2 doub 460 n y C70 C79 XK2 sing 461 n y C71 C72 XK2 sing 462 n y C71 H71 XK2 sing 463 n n C72 C73 XK2 doub 464 n y C72 C77 XK2 sing 465 n y C73 C74 XK2 sing 466 n y C73 H73 XK2 sing 467 n n C74 C75 XK2 doub 468 n y C74 H74 XK2 sing 469 n n C75 C76 XK2 sing 470 n y C75 H75 XK2 sing 471 n n C76 C77 XK2 doub 472 n y C76 H76 XK2 sing 473 n n C77 C78 XK2 sing 474 n y C78 C79 XK2 doub 475 n y C78 H78 XK2 sing 476 n n C79 H79 XK2 sing 477 n n # _atom_sites.entry_id 1HVR _atom_sites.fract_transf_matrix[1][1] 0.015924 _atom_sites.fract_transf_matrix[1][2] 0.009193 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.018387 _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] 0.011976 _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 C _pdbx_nonpoly_scheme.entity_id 2 _pdbx_nonpoly_scheme.mon_id XK2 _pdbx_nonpoly_scheme.pdb_strand_id A _pdbx_nonpoly_scheme.ndb_seq_num 1 _pdbx_nonpoly_scheme.pdb_seq_num 263 _pdbx_nonpoly_scheme.auth_seq_num 263 _pdbx_nonpoly_scheme.pdb_mon_id XK2 _pdbx_nonpoly_scheme.auth_mon_id XK2 _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 C C1 XK2 . . . C 2 -8.611 15.06 27.954 1 19.9 ? C1 XK2 263 A 1 HETATM 2 O O1 XK2 . . . C 2 -7.939 14.039 27.941 1 20.46 ? O1 XK2 263 A 1 HETATM 3 N N2 XK2 . . . C 2 -8.461 15.923 26.905 1 18.96 ? N2 XK2 263 A 1 HETATM 4 C C2 XK2 . . . C 2 -7.854 15.351 25.696 1 17.53 ? C2 XK2 263 A 1 HETATM 5 C C3 XK2 . . . C 2 -8.627 17.388 27.011 1 16.64 ? C3 XK2 263 A 1 HETATM 6 C C4 XK2 . . . C 2 -10.029 17.91 27.298 1 16.75 ? C4 XK2 263 A 1 HETATM 7 O O4 XK2 . . . C 2 -9.929 19.274 26.998 1 17.2 ? O4 XK2 263 A 1 HETATM 8 C C5 XK2 . . . C 2 -10.461 17.645 28.733 1 16.33 ? C5 XK2 263 A 1 HETATM 9 O O5 XK2 . . . C 2 -11.692 18.254 29.02 1 16.28 ? O5 XK2 263 A 1 HETATM 10 C C6 XK2 . . . C 2 -10.657 16.152 28.964 1 17.82 ? C6 XK2 263 A 1 HETATM 11 N N7 XK2 . . . C 2 -9.461 15.294 29.004 1 18.56 ? N7 XK2 263 A 1 HETATM 12 C C7 XK2 . . . C 2 -9.271 14.491 30.215 1 19.97 ? C7 XK2 263 A 1 HETATM 13 C C20 XK2 . . . C 2 -8.381 15.73 24.336 1 19.6 ? C20 XK2 263 A 1 HETATM 14 C C21 XK2 . . . C 2 -9.769 15.712 24.022 1 21.97 ? C21 XK2 263 A 1 HETATM 15 C C22 XK2 . . . C 2 -10.195 15.919 22.694 1 22.13 ? C22 XK2 263 A 1 HETATM 16 C C23 XK2 . . . C 2 -9.219 16.152 21.693 1 22.78 ? C23 XK2 263 A 1 HETATM 17 C C24 XK2 . . . C 2 -9.608 16.304 20.349 1 23.58 ? C24 XK2 263 A 1 HETATM 18 C C25 XK2 . . . C 2 -8.626 16.508 19.349 1 26.36 ? C25 XK2 263 A 1 HETATM 19 C C26 XK2 . . . C 2 -7.263 16.562 19.662 1 24.91 ? C26 XK2 263 A 1 HETATM 20 C C27 XK2 . . . C 2 -6.86 16.403 21.006 1 26.98 ? C27 XK2 263 A 1 HETATM 21 C C28 XK2 . . . C 2 -7.828 16.192 22.022 1 23.18 ? C28 XK2 263 A 1 HETATM 22 C C29 XK2 . . . C 2 -7.408 15.983 23.346 1 20.82 ? C29 XK2 263 A 1 HETATM 23 C C31 XK2 . . . C 2 -7.476 17.972 27.894 1 17 ? C31 XK2 263 A 1 HETATM 24 C C32 XK2 . . . C 2 -6.124 17.89 27.193 1 23.02 ? C32 XK2 263 A 1 HETATM 25 C C33 XK2 . . . C 2 -5.226 16.826 27.494 1 27.22 ? C33 XK2 263 A 1 HETATM 26 C C34 XK2 . . . C 2 -4.029 16.667 26.75 1 21.82 ? C34 XK2 263 A 1 HETATM 27 C C35 XK2 . . . C 2 -3.73 17.585 25.723 1 23.48 ? C35 XK2 263 A 1 HETATM 28 C C36 XK2 . . . C 2 -4.607 18.66 25.432 1 21.61 ? C36 XK2 263 A 1 HETATM 29 C C37 XK2 . . . C 2 -5.803 18.811 26.163 1 21.66 ? C37 XK2 263 A 1 HETATM 30 C C61 XK2 . . . C 2 -11.712 15.451 28.079 1 20.34 ? C61 XK2 263 A 1 HETATM 31 C C62 XK2 . . . C 2 -12.31 14.248 28.779 1 20.04 ? C62 XK2 263 A 1 HETATM 32 C C63 XK2 . . . C 2 -13.167 14.422 29.898 1 20.49 ? C63 XK2 263 A 1 HETATM 33 C C64 XK2 . . . C 2 -13.7 13.281 30.542 1 19.34 ? C64 XK2 263 A 1 HETATM 34 C C65 XK2 . . . C 2 -13.374 11.982 30.058 1 19.9 ? C65 XK2 263 A 1 HETATM 35 C C66 XK2 . . . C 2 -12.529 11.814 28.944 1 18.58 ? C66 XK2 263 A 1 HETATM 36 C C67 XK2 . . . C 2 -11.992 12.954 28.304 1 19.66 ? C67 XK2 263 A 1 HETATM 37 C C70 XK2 . . . C 2 -9.374 15.148 31.571 1 20.15 ? C70 XK2 263 A 1 HETATM 38 C C71 XK2 . . . C 2 -10.228 14.492 32.477 1 22.33 ? C71 XK2 263 A 1 HETATM 39 C C72 XK2 . . . C 2 -10.272 14.926 33.8 1 24.26 ? C72 XK2 263 A 1 HETATM 40 C C73 XK2 . . . C 2 -11.156 14.282 34.709 1 29.56 ? C73 XK2 263 A 1 HETATM 41 C C74 XK2 . . . C 2 -11.245 14.748 36.044 1 29.18 ? C74 XK2 263 A 1 HETATM 42 C C75 XK2 . . . C 2 -10.435 15.837 36.451 1 26.45 ? C75 XK2 263 A 1 HETATM 43 C C76 XK2 . . . C 2 -9.54 16.475 35.553 1 25.15 ? C76 XK2 263 A 1 HETATM 44 C C77 XK2 . . . C 2 -9.455 16.028 34.212 1 23.89 ? C77 XK2 263 A 1 HETATM 45 C C78 XK2 . . . C 2 -8.605 16.691 33.288 1 21.8 ? C78 XK2 263 A 1 HETATM 46 C C79 XK2 . . . C 2 -8.574 16.252 31.962 1 18.98 ? C79 XK2 263 A 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 276 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 46 #