data_2JKQ # _model_server_result.job_id IYCymusTkLmeDn0HglNwgw _model_server_result.datetime_utc '2024-11-17 00:37:23' _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 2jkq # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":1687}' # _entry.id 2JKQ # _exptl.entry_id 2JKQ _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 562.106 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "4-(1,4'-bipiperidin-1'-yl)-7-({5-chloro-2-[(2-methoxyphenyl)amino]pyrimidin-4-yl}amino)-2-methyl-2,3-dihydro-1H-isoindol-1-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 95.42 _cell.angle_gamma 90 _cell.entry_id 2JKQ _cell.length_a 44.523 _cell.length_b 44.887 _cell.length_c 66.435 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2JKQ _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 1 21 1' # _pdbx_struct_assembly.method_details PQS _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 # _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 46 _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id CYS _struct_conn.ptnr1_auth_seq_id 456 _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 49 _struct_conn.ptnr2_auth_asym_id A _struct_conn.ptnr2_auth_comp_id CYS _struct_conn.ptnr2_auth_seq_id 459 _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 2.027 _struct_conn.pdbx_value_order ? # _chem_comp.formula 'C30 H36 Cl N7 O2' _chem_comp.formula_weight 562.106 _chem_comp.id VG8 _chem_comp.mon_nstd_flag . _chem_comp.name "4-(1,4'-bipiperidin-1'-yl)-7-({5-chloro-2-[(2-methoxyphenyl)amino]pyrimidin-4-yl}amino)-2-methyl-2,3-dihydro-1H-isoindol-1-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 CBJ CBL VG8 sing 376 n n CBJ NBI VG8 sing 377 n n CBL CBN VG8 sing 378 n n CBN CBM VG8 sing 379 n n CBM CBK VG8 sing 380 n n CBK NBI VG8 sing 381 n n NBI CBH VG8 sing 382 n n CBH CBF VG8 sing 383 n n CBH CBG VG8 sing 384 n n CBF CBD VG8 sing 385 n n CBD NBC VG8 sing 386 n n CBG CBE VG8 sing 387 n n CBE NBC VG8 sing 388 n n NBC CBB VG8 sing 389 n n CBB CAZ VG8 sing 390 n y CBB CAY VG8 doub 391 n y CAZ CAO VG8 doub 392 n y CAO CAJ VG8 sing 393 n y CAY CAX VG8 sing 394 n n CAY CAN VG8 sing 395 n y CAX NAU VG8 sing 396 n n NAU CAT VG8 sing 397 n n NAU CAM VG8 sing 398 n n CAM OAI VG8 doub 399 n n CAM CAN VG8 sing 400 n n CAN CAJ VG8 doub 401 n y CAJ NAE VG8 sing 402 n n NAE C4 VG8 sing 403 n n C4 N3 VG8 sing 404 n y C4 C5 VG8 doub 405 n y N3 C2 VG8 doub 406 n y C5 CL5 VG8 sing 407 n n C5 C6 VG8 sing 408 n y C6 N1 VG8 doub 409 n y N1 C2 VG8 sing 410 n y C2 NAH VG8 sing 411 n n NAH CAL VG8 sing 412 n n CAL CAP VG8 sing 413 n y CAL CAQ VG8 doub 414 n y CAP CAV VG8 doub 415 n y CAV CBA VG8 sing 416 n y CBA CAW VG8 doub 417 n y CAW CAQ VG8 sing 418 n y CAQ OAR VG8 sing 419 n n OAR CAS VG8 sing 420 n n CBJ HBJ1 VG8 sing 421 n n CBJ HBJ2 VG8 sing 422 n n CBL HBL1 VG8 sing 423 n n CBL HBL2 VG8 sing 424 n n CBN HBN1 VG8 sing 425 n n CBN HBN2 VG8 sing 426 n n CBM HBM1 VG8 sing 427 n n CBM HBM2 VG8 sing 428 n n CBK HBK1 VG8 sing 429 n n CBK HBK2 VG8 sing 430 n n CBH HBH VG8 sing 431 n n CBF HBF1 VG8 sing 432 n n CBF HBF2 VG8 sing 433 n n CBG HBG1 VG8 sing 434 n n CBG HBG2 VG8 sing 435 n n CBD HBD1 VG8 sing 436 n n CBD HBD2 VG8 sing 437 n n CBE HBE1 VG8 sing 438 n n CBE HBE2 VG8 sing 439 n n CAZ HAZ VG8 sing 440 n n CAO HAO VG8 sing 441 n n CAX HAX1 VG8 sing 442 n n CAX HAX2 VG8 sing 443 n n CAT HAT1 VG8 sing 444 n n CAT HAT2 VG8 sing 445 n n CAT HAT3 VG8 sing 446 n n NAE HAE VG8 sing 447 n n C6 H6 VG8 sing 448 n n NAH HAH VG8 sing 449 n n CAP HAP VG8 sing 450 n n CAV HAV VG8 sing 451 n n CBA HBA VG8 sing 452 n n CAW HAW VG8 sing 453 n n CAS HAS1 VG8 sing 454 n n CAS HAS2 VG8 sing 455 n n CAS HAS3 VG8 sing 456 n n # _atom_sites.entry_id 2JKQ _atom_sites.fract_transf_matrix[1][1] 0.02246 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.002131 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.022278 _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] 0.01512 _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 VG8 A 1 1687 1687 VG8 VG8 . C 3 HOH A 1 2001 2001 HOH HOH . C 3 HOH A 2 2002 2002 HOH HOH . C 3 HOH A 3 2003 2003 HOH HOH . C 3 HOH A 4 2004 2004 HOH HOH . C 3 HOH A 5 2005 2005 HOH HOH . C 3 HOH A 6 2006 2006 HOH HOH . C 3 HOH A 7 2007 2007 HOH HOH . C 3 HOH A 8 2008 2008 HOH HOH . C 3 HOH A 9 2009 2009 HOH HOH . C 3 HOH A 10 2010 2010 HOH HOH . C 3 HOH A 11 2011 2011 HOH HOH . C 3 HOH A 12 2012 2012 HOH HOH . C 3 HOH A 13 2013 2013 HOH HOH . C 3 HOH A 14 2014 2014 HOH HOH . C 3 HOH A 15 2015 2015 HOH HOH . C 3 HOH A 16 2016 2016 HOH HOH . C 3 HOH A 17 2017 2017 HOH HOH . C 3 HOH A 18 2018 2018 HOH HOH . C 3 HOH A 19 2019 2019 HOH HOH . C 3 HOH A 20 2020 2020 HOH HOH . C 3 HOH A 21 2021 2021 HOH HOH . C 3 HOH A 22 2022 2022 HOH HOH . C 3 HOH A 23 2023 2023 HOH HOH . C 3 HOH A 24 2024 2024 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 CBJ VG8 . . . B 2 15.225 -3.554 26.741 1 45.94 ? CBJ VG8 1687 A 1 HETATM 2 C CBL VG8 . . . B 2 16.035 -4.854 27.144 1 46.15 ? CBL VG8 1687 A 1 HETATM 3 C CBN VG8 . . . B 2 16.964 -4.587 28.348 1 45.44 ? CBN VG8 1687 A 1 HETATM 4 C CBM VG8 . . . B 2 17.969 -3.447 28.044 1 46 ? CBM VG8 1687 A 1 HETATM 5 C CBK VG8 . . . B 2 17.306 -2.369 27.123 1 45.84 ? CBK VG8 1687 A 1 HETATM 6 N NBI VG8 . . . B 2 15.85 -2.373 27.41 1 45.19 ? NBI VG8 1687 A 1 HETATM 7 C CBH VG8 . . . B 2 15.262 -1.041 27.054 1 43.67 ? CBH VG8 1687 A 1 HETATM 8 C CBF VG8 . . . B 2 14.58 -1.005 25.659 1 42.97 ? CBF VG8 1687 A 1 HETATM 9 C CBD VG8 . . . B 2 13.979 0.389 25.411 1 40.68 ? CBD VG8 1687 A 1 HETATM 10 C CBG VG8 . . . B 2 14.3 -0.535 28.171 1 41.34 ? CBG VG8 1687 A 1 HETATM 11 C CBE VG8 . . . B 2 12.877 -0.228 27.659 1 39.05 ? CBE VG8 1687 A 1 HETATM 12 N NBC VG8 . . . B 2 12.903 0.619 26.417 1 38.3 ? NBC VG8 1687 A 1 HETATM 13 C CBB VG8 . . . B 2 11.885 1.597 26.248 1 34.98 ? CBB VG8 1687 A 1 HETATM 14 C CAZ VG8 . . . B 2 11.094 1.912 27.35 1 33.87 ? CAZ VG8 1687 A 1 HETATM 15 C CAO VG8 . . . B 2 10.073 2.844 27.259 1 32.35 ? CAO VG8 1687 A 1 HETATM 16 C CAY VG8 . . . B 2 11.62 2.247 25.04 1 32.72 ? CAY VG8 1687 A 1 HETATM 17 C CAX VG8 . . . B 2 12.309 2.115 23.676 1 31.36 ? CAX VG8 1687 A 1 HETATM 18 N NAU VG8 . . . B 2 11.545 3.071 22.875 1 30.76 ? NAU VG8 1687 A 1 HETATM 19 C CAT VG8 . . . B 2 11.775 3.348 21.451 1 28.84 ? CAT VG8 1687 A 1 HETATM 20 C CAM VG8 . . . B 2 10.605 3.652 23.613 1 30.96 ? CAM VG8 1687 A 1 HETATM 21 O OAI VG8 . . . B 2 9.836 4.5 23.16 1 29.44 ? OAI VG8 1687 A 1 HETATM 22 C CAN VG8 . . . B 2 10.6 3.193 24.935 1 31.53 ? CAN VG8 1687 A 1 HETATM 23 C CAJ VG8 . . . B 2 9.81 3.489 26.056 1 31.62 ? CAJ VG8 1687 A 1 HETATM 24 N NAE VG8 . . . B 2 8.804 4.387 26.022 1 30.65 ? NAE VG8 1687 A 1 HETATM 25 C C4 VG8 . . . B 2 7.511 3.995 26.063 1 29.32 ? C4 VG8 1687 A 1 HETATM 26 N N3 VG8 . . . B 2 7.16 2.846 26.675 1 28.91 ? N3 VG8 1687 A 1 HETATM 27 C C5 VG8 . . . B 2 6.495 4.75 25.479 1 28.7 ? C5 VG8 1687 A 1 HETATM 28 CL CL5 VG8 . . . B 2 6.822 6.257 24.674 1 27.91 ? CL5 VG8 1687 A 1 HETATM 29 C C6 VG8 . . . B 2 5.186 4.272 25.557 1 28.23 ? C6 VG8 1687 A 1 HETATM 30 N N1 VG8 . . . B 2 4.909 3.128 26.167 1 27.39 ? N1 VG8 1687 A 1 HETATM 31 C C2 VG8 . . . B 2 5.886 2.414 26.73 1 27.62 ? C2 VG8 1687 A 1 HETATM 32 N NAH VG8 . . . B 2 5.576 1.266 27.324 1 27.07 ? NAH VG8 1687 A 1 HETATM 33 C CAL VG8 . . . B 2 6.432 0.542 28.055 1 26.78 ? CAL VG8 1687 A 1 HETATM 34 C CAP VG8 . . . B 2 7.716 0.249 27.604 1 26.54 ? CAP VG8 1687 A 1 HETATM 35 C CAV VG8 . . . B 2 8.586 -0.507 28.386 1 26.37 ? CAV VG8 1687 A 1 HETATM 36 C CBA VG8 . . . B 2 8.177 -0.996 29.62 1 26.31 ? CBA VG8 1687 A 1 HETATM 37 C CAW VG8 . . . B 2 6.892 -0.712 30.069 1 27.35 ? CAW VG8 1687 A 1 HETATM 38 C CAQ VG8 . . . B 2 6.02 0.05 29.289 1 27.04 ? CAQ VG8 1687 A 1 HETATM 39 O OAR VG8 . . . B 2 4.763 0.321 29.718 1 26.74 ? OAR VG8 1687 A 1 HETATM 40 C CAS VG8 . . . B 2 4.378 -0.687 30.687 1 26.63 ? CAS VG8 1687 A 1 # _model_server_stats.io_time_ms 64 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 283 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 40 #