data_7OEE # _model_server_result.job_id WFzliPZAhnU0erub3CWVhg _model_server_result.datetime_utc '2024-11-25 19:44:11' _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 7oee # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":601}' # _entry.id 7OEE # _exptl.entry_id 7OEE _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 482.618 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 4-[(4,4-dimethylpiperidin-1-yl)methyl]-~{N}-[[(3~{S})-1-[6-(methylamino)pyrimidin-4-yl]-3-oxidanyl-piperidin-3-yl]methyl]-2-oxidanyl-benzamide _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 7OEE _cell.length_a 63.8 _cell.length_b 63.8 _cell.length_c 224.73 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7OEE _symmetry.cell_setting ? _symmetry.Int_Tables_number 154 _symmetry.space_group_name_Hall 'P 32 2"' _symmetry.space_group_name_H-M 'P 32 2 1' # _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,D,E,F _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 3 _struct_asym.id C _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 B _struct_conn.ptnr1_label_atom_id SG _struct_conn.ptnr1_label_comp_id CYS _struct_conn.ptnr1_label_seq_id 233 _struct_conn.ptnr1_auth_asym_id B _struct_conn.ptnr1_auth_comp_id CYS _struct_conn.ptnr1_auth_seq_id 338 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id B _struct_conn.ptnr2_label_atom_id SG _struct_conn.ptnr2_label_comp_id CYS _struct_conn.ptnr2_label_seq_id 283 _struct_conn.ptnr2_auth_asym_id B _struct_conn.ptnr2_auth_comp_id CYS _struct_conn.ptnr2_auth_seq_id 388 _struct_conn.ptnr2_symmetry 1_555 _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 2.034 _struct_conn.pdbx_value_order ? # _chem_comp.formula 'C26 H38 N6 O3' _chem_comp.formula_weight 482.618 _chem_comp.id VB2 _chem_comp.mon_nstd_flag . _chem_comp.name 4-[(4,4-dimethylpiperidin-1-yl)methyl]-~{N}-[[(3~{S})-1-[6-(methylamino)pyrimidin-4-yl]-3-oxidanyl-piperidin-3-yl]methyl]-2-oxidanyl-benzamide _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 C07 C08 VB2 sing 382 n n C07 N06 VB2 sing 383 n n C34 N06 VB2 sing 384 n n C34 C35 VB2 sing 385 n n C09 C08 VB2 doub 386 n y C09 C10 VB2 sing 387 n y C08 C11 VB2 sing 388 n y N06 C05 VB2 sing 389 n n C10 C14 VB2 doub 390 n y C35 C02 VB2 sing 391 n n C05 C04 VB2 sing 392 n n C11 C12 VB2 doub 393 n y C01 C02 VB2 sing 394 n n C14 C12 VB2 sing 395 n y C14 C15 VB2 sing 396 n n C12 O13 VB2 sing 397 n n C02 C04 VB2 sing 398 n n C02 C03 VB2 sing 399 n n N16 C15 VB2 sing 400 n n N16 C17 VB2 sing 401 n n C15 O33 VB2 doub 402 n n C30 N29 VB2 sing 403 n n C17 C18 VB2 sing 404 n n N29 C28 VB2 sing 405 n n C22 C18 VB2 sing 406 n n C22 N23 VB2 sing 407 n n C31 C28 VB2 doub 408 n y C31 C24 VB2 sing 409 n y C18 O32 VB2 sing 410 n n C18 C19 VB2 sing 411 n n C28 N27 VB2 sing 412 n y C19 C20 VB2 sing 413 n n N23 C24 VB2 sing 414 n n N23 C21 VB2 sing 415 n n C24 N25 VB2 doub 416 n y N27 C26 VB2 doub 417 n y N25 C26 VB2 sing 418 n y C21 C20 VB2 sing 419 n n C10 H1 VB2 sing 420 n n C17 H2 VB2 sing 421 n n C17 H3 VB2 sing 422 n n C20 H4 VB2 sing 423 n n C20 H5 VB2 sing 424 n n C21 H6 VB2 sing 425 n n C21 H7 VB2 sing 426 n n C22 H8 VB2 sing 427 n n C22 H9 VB2 sing 428 n n C26 H10 VB2 sing 429 n n C01 H11 VB2 sing 430 n n C01 H12 VB2 sing 431 n n C01 H13 VB2 sing 432 n n C03 H14 VB2 sing 433 n n C03 H15 VB2 sing 434 n n C03 H16 VB2 sing 435 n n C04 H17 VB2 sing 436 n n C04 H18 VB2 sing 437 n n C05 H19 VB2 sing 438 n n C05 H20 VB2 sing 439 n n C07 H21 VB2 sing 440 n n C07 H22 VB2 sing 441 n n C09 H23 VB2 sing 442 n n C11 H24 VB2 sing 443 n n C19 H25 VB2 sing 444 n n C19 H26 VB2 sing 445 n n C30 H27 VB2 sing 446 n n C30 H28 VB2 sing 447 n n C30 H29 VB2 sing 448 n n C31 H30 VB2 sing 449 n n C34 H31 VB2 sing 450 n n C34 H32 VB2 sing 451 n n C35 H33 VB2 sing 452 n n C35 H34 VB2 sing 453 n n N16 H36 VB2 sing 454 n n N29 H37 VB2 sing 455 n n O13 H38 VB2 sing 456 n n O32 H39 VB2 sing 457 n n # _atom_sites.entry_id 7OEE _atom_sites.fract_transf_matrix[1][1] 0.015674 _atom_sites.fract_transf_matrix[1][2] 0.009049 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.018099 _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] 0.00445 _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 3 VB2 A 1 601 1 VB2 LIG . D 4 ACT B 1 401 2 ACT ACT . E 5 HOH A 1 701 19 HOH HOH . E 5 HOH A 2 702 4 HOH HOH . E 5 HOH A 3 703 28 HOH HOH . E 5 HOH A 4 704 33 HOH HOH . E 5 HOH A 5 705 26 HOH HOH . E 5 HOH A 6 706 11 HOH HOH . E 5 HOH A 7 707 22 HOH HOH . E 5 HOH A 8 708 2 HOH HOH . E 5 HOH A 9 709 7 HOH HOH . E 5 HOH A 10 710 23 HOH HOH . E 5 HOH A 11 711 5 HOH HOH . E 5 HOH A 12 712 24 HOH HOH . E 5 HOH A 13 713 8 HOH HOH . E 5 HOH A 14 714 18 HOH HOH . E 5 HOH A 15 715 42 HOH HOH . E 5 HOH A 16 716 50 HOH HOH . E 5 HOH A 17 717 15 HOH HOH . E 5 HOH A 18 718 43 HOH HOH . E 5 HOH A 19 719 45 HOH HOH . E 5 HOH A 20 720 37 HOH HOH . F 5 HOH B 1 501 31 HOH HOH . F 5 HOH B 2 502 48 HOH HOH . F 5 HOH B 3 503 3 HOH HOH . F 5 HOH B 4 504 46 HOH HOH . F 5 HOH B 5 505 25 HOH HOH . F 5 HOH B 6 506 34 HOH HOH . F 5 HOH B 7 507 27 HOH HOH . F 5 HOH B 8 508 1 HOH HOH . F 5 HOH B 9 509 20 HOH HOH . F 5 HOH B 10 510 9 HOH HOH . F 5 HOH B 11 511 6 HOH HOH . F 5 HOH B 12 512 13 HOH HOH . F 5 HOH B 13 513 12 HOH HOH . F 5 HOH B 14 514 35 HOH HOH . F 5 HOH B 15 515 41 HOH HOH . F 5 HOH B 16 516 21 HOH HOH . F 5 HOH B 17 517 10 HOH HOH . F 5 HOH B 18 518 16 HOH HOH . F 5 HOH B 19 519 47 HOH HOH . F 5 HOH B 20 520 32 HOH HOH . F 5 HOH B 21 521 14 HOH HOH . F 5 HOH B 22 522 30 HOH HOH . F 5 HOH B 23 523 29 HOH HOH . F 5 HOH B 24 524 17 HOH HOH . F 5 HOH B 25 525 39 HOH HOH . F 5 HOH B 26 526 38 HOH HOH . F 5 HOH B 27 527 54 HOH HOH . F 5 HOH B 28 528 40 HOH HOH . F 5 HOH B 29 529 44 HOH HOH . F 5 HOH B 30 530 49 HOH HOH . F 5 HOH B 31 531 52 HOH HOH . F 5 HOH B 32 532 36 HOH HOH . F 5 HOH B 33 533 51 HOH HOH . F 5 HOH B 34 534 53 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 C10 VB2 . . . C 3 -45.104 31.249 22.099 1 74.55 ? C10 VB2 601 A 1 HETATM 2 C C15 VB2 . . . C 3 -44.967 33.298 23.514 1 83.37 ? C15 VB2 601 A 1 HETATM 3 C C17 VB2 . . . C 3 -44.951 35.746 24.07 1 77.11 ? C17 VB2 601 A 1 HETATM 4 C C20 VB2 . . . C 3 -43.827 35.263 27.721 1 55.3 ? C20 VB2 601 A 1 HETATM 5 C C21 VB2 . . . C 3 -42.492 36.058 27.651 1 59.56 ? C21 VB2 601 A 1 HETATM 6 C C22 VB2 . . . C 3 -42.885 36.54 25.177 1 54.02 ? C22 VB2 601 A 1 HETATM 7 C C24 VB2 . . . C 3 -41.279 37.928 26.474 1 52.73 ? C24 VB2 601 A 1 HETATM 8 C C26 VB2 . . . C 3 -39.785 39.159 27.756 1 48.82 ? C26 VB2 601 A 1 HETATM 9 C C28 VB2 . . . C 3 -40.18 39.778 25.565 1 44.82 ? C28 VB2 601 A 1 HETATM 10 C C01 VB2 . . . C 3 -43.633 24.039 22.682 1 56.06 ? C01 VB2 601 A 1 HETATM 11 C C02 VB2 . . . C 3 -42.618 25.016 23.294 1 55.25 ? C02 VB2 601 A 1 HETATM 12 C C03 VB2 . . . C 3 -41.932 24.369 24.503 1 47.72 ? C03 VB2 601 A 1 HETATM 13 C C04 VB2 . . . C 3 -43.398 26.235 23.71 1 50.56 ? C04 VB2 601 A 1 HETATM 14 C C05 VB2 . . . C 3 -43.626 27.136 22.524 1 60.62 ? C05 VB2 601 A 1 HETATM 15 C C07 VB2 . . . C 3 -42.714 28.482 21.091 1 56.17 ? C07 VB2 601 A 1 HETATM 16 C C08 VB2 . . . C 3 -43.274 29.754 21.74 1 62.98 ? C08 VB2 601 A 1 HETATM 17 C C09 VB2 . . . C 3 -44.589 30.111 21.502 1 67.88 ? C09 VB2 601 A 1 HETATM 18 C C11 VB2 . . . C 3 -42.479 30.563 22.551 1 64.66 ? C11 VB2 601 A 1 HETATM 19 C C12 VB2 . . . C 3 -42.993 31.71 23.141 1 67.93 ? C12 VB2 601 A 1 HETATM 20 C C14 VB2 . . . C 3 -44.319 32.055 22.903 1 76.7 ? C14 VB2 601 A 1 HETATM 21 C C18 VB2 . . . C 3 -44.308 36.098 25.414 1 60.37 ? C18 VB2 601 A 1 HETATM 22 C C19 VB2 . . . C 3 -44.347 34.88 26.331 1 54.54 ? C19 VB2 601 A 1 HETATM 23 C C30 VB2 . . . C 3 -40.892 41.379 23.709 1 68.13 ? C30 VB2 601 A 1 HETATM 24 C C31 VB2 . . . C 3 -41.061 38.75 25.412 1 46.13 ? C31 VB2 601 A 1 HETATM 25 C C34 VB2 . . . C 3 -41.964 26.495 21.308 1 56.58 ? C34 VB2 601 A 1 HETATM 26 C C35 VB2 . . . C 3 -41.532 25.353 22.264 1 53.32 ? C35 VB2 601 A 1 HETATM 27 N N06 VB2 . . . C 3 -42.496 27.515 21.962 1 58.86 ? N06 VB2 601 A 1 HETATM 28 N N16 VB2 . . . C 3 -44.297 34.589 23.467 1 77.65 ? N16 VB2 601 A 1 HETATM 29 N N23 VB2 . . . C 3 -42.206 36.806 26.41 1 56.2 ? N23 VB2 601 A 1 HETATM 30 N N25 VB2 . . . C 3 -40.648 38.136 27.625 1 51.41 ? N25 VB2 601 A 1 HETATM 31 N N27 VB2 . . . C 3 -39.555 39.96 26.707 1 43.96 ? N27 VB2 601 A 1 HETATM 32 N N29 VB2 . . . C 3 -39.863 40.713 24.494 1 56.95 ? N29 VB2 601 A 1 HETATM 33 O O13 VB2 . . . C 3 -42.183 32.504 23.971 1 65.53 ? O13 VB2 601 A 1 HETATM 34 O O32 VB2 . . . C 3 -44.984 37.183 25.995 1 64.23 ? O32 VB2 601 A 1 HETATM 35 O O33 VB2 . . . C 3 -46.036 33.211 24.041 1 82.78 ? O33 VB2 601 A 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 265 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 35 #