data_3Q92 # _model_server_result.job_id q7Pr09zx_AH408-rkFjMMw _model_server_result.datetime_utc '2024-11-13 09:18:03' _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 3q92 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":301}' # _entry.id 3Q92 # _exptl.entry_id 3Q92 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 422.55 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description N~8~-(cyclopropylmethyl)-N~4~-[2-(methylsulfanyl)phenyl]-2-(piperazin-1-yl)pyrimido[5,4-d]pyrimidine-4,8-diamine _entity.pdbx_number_of_molecules 2 _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 3Q92 _cell.length_a 82.88 _cell.length_b 86.073 _cell.length_c 136.65 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3Q92 _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 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,G,H,I _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 C N N ? 2 E N N # _chem_comp.formula 'C21 H26 N8 S' _chem_comp.formula_weight 422.55 _chem_comp.id XNB _chem_comp.mon_nstd_flag . _chem_comp.name N~8~-(cyclopropylmethyl)-N~4~-[2-(methylsulfanyl)phenyl]-2-(piperazin-1-yl)pyrimido[5,4-d]pyrimidine-4,8-diamine _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 S02 C01 XNB sing 380 n n C01 H01 XNB sing 381 n n C01 H01A XNB sing 382 n n C01 H01B XNB sing 383 n n C03 S02 XNB sing 384 n n C08 C03 XNB doub 385 n y C03 C04 XNB sing 386 n y C05 C04 XNB doub 387 n y C04 H04 XNB sing 388 n n C06 C05 XNB sing 389 n y C05 H05 XNB sing 390 n n C07 C06 XNB doub 391 n y C06 H06 XNB sing 392 n n C07 C08 XNB sing 393 n y C07 H07 XNB sing 394 n n N09 C08 XNB sing 395 n n C10 N09 XNB sing 396 n n N09 HN09 XNB sing 397 n n N11 C10 XNB doub 398 n y C19 C10 XNB sing 399 n y C12 N11 XNB sing 400 n y N25 C12 XNB sing 401 n n N13 C12 XNB doub 402 n y N13 C14 XNB sing 403 n y C15 C14 XNB doub 404 n y C14 C19 XNB sing 405 n y N20 C15 XNB sing 406 n n C15 N16 XNB sing 407 n y N16 C17 XNB doub 408 n y C17 N18 XNB sing 409 n y C17 H17 XNB sing 410 n n C19 N18 XNB doub 411 n y C21 N20 XNB sing 412 n n N20 HN20 XNB sing 413 n n C22 C21 XNB sing 414 n n C21 H21 XNB sing 415 n n C21 H21A XNB sing 416 n n C24 C22 XNB sing 417 n n C23 C22 XNB sing 418 n n C22 H22 XNB sing 419 n n C24 C23 XNB sing 420 n n C23 H23 XNB sing 421 n n C23 H23A XNB sing 422 n n C24 H24 XNB sing 423 n n C24 H24A XNB sing 424 n n C26 N25 XNB sing 425 n n N25 C30 XNB sing 426 n n C27 C26 XNB sing 427 n n C26 H26 XNB sing 428 n n C26 H26A XNB sing 429 n n C27 N28 XNB sing 430 n n C27 H27 XNB sing 431 n n C27 H27A XNB sing 432 n n N28 C29 XNB sing 433 n n N28 HN28 XNB sing 434 n n C29 C30 XNB sing 435 n n C29 H29 XNB sing 436 n n C29 H29A XNB sing 437 n n C30 H30 XNB sing 438 n n C30 H30A XNB sing 439 n n # _atom_sites.entry_id 3Q92 _atom_sites.fract_transf_matrix[1][1] 0.012066 _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] 0.011618 _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] 0.007318 _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 2 XNB A 1 301 1 XNB XNB . D 3 SO4 A 1 302 1 SO4 SO4 . E 2 XNB B 1 301 2 XNB XNB . F 3 SO4 B 1 302 2 SO4 SO4 . G 3 SO4 B 1 303 3 SO4 SO4 . H 4 HOH A 1 401 3 HOH HOH . H 4 HOH A 2 402 4 HOH HOH . H 4 HOH A 3 403 7 HOH HOH . H 4 HOH A 4 404 9 HOH HOH . H 4 HOH A 5 405 10 HOH HOH . H 4 HOH A 6 406 12 HOH HOH . H 4 HOH A 7 407 13 HOH HOH . H 4 HOH A 8 408 17 HOH HOH . H 4 HOH A 9 409 18 HOH HOH . H 4 HOH A 10 410 22 HOH HOH . H 4 HOH A 11 411 23 HOH HOH . H 4 HOH A 12 412 25 HOH HOH . H 4 HOH A 13 413 31 HOH HOH . H 4 HOH A 14 414 32 HOH HOH . H 4 HOH A 15 415 36 HOH HOH . H 4 HOH A 16 416 41 HOH HOH . H 4 HOH A 17 417 45 HOH HOH . H 4 HOH A 18 418 49 HOH HOH . I 4 HOH B 1 401 1 HOH HOH . I 4 HOH B 2 402 2 HOH HOH . I 4 HOH B 3 403 5 HOH HOH . I 4 HOH B 4 404 6 HOH HOH . I 4 HOH B 5 405 8 HOH HOH . I 4 HOH B 6 406 11 HOH HOH . I 4 HOH B 7 407 14 HOH HOH . I 4 HOH B 8 408 15 HOH HOH . I 4 HOH B 9 409 16 HOH HOH . I 4 HOH B 10 410 19 HOH HOH . I 4 HOH B 11 411 20 HOH HOH . I 4 HOH B 12 412 21 HOH HOH . I 4 HOH B 13 413 24 HOH HOH . I 4 HOH B 14 414 26 HOH HOH . I 4 HOH B 15 415 27 HOH HOH . I 4 HOH B 16 416 28 HOH HOH . I 4 HOH B 17 417 29 HOH HOH . I 4 HOH B 18 418 30 HOH HOH . I 4 HOH B 19 419 33 HOH HOH . I 4 HOH B 20 420 34 HOH HOH . I 4 HOH B 21 421 35 HOH HOH . I 4 HOH B 22 422 37 HOH HOH . I 4 HOH B 23 423 38 HOH HOH . I 4 HOH B 24 424 39 HOH HOH . I 4 HOH B 25 425 40 HOH HOH . I 4 HOH B 26 426 42 HOH HOH . I 4 HOH B 27 427 43 HOH HOH . I 4 HOH B 28 428 44 HOH HOH . I 4 HOH B 29 429 46 HOH HOH . I 4 HOH B 30 430 47 HOH HOH . I 4 HOH B 31 431 48 HOH HOH . I 4 HOH B 32 432 50 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 C01 XNB . . . C 2 -2.494 -1.262 13.896 1 48.7 ? C01 XNB 301 A 1 HETATM 2 S S02 XNB . . . C 2 -1.702 -0.766 15.456 1 45.4 ? S02 XNB 301 A 1 HETATM 3 C C03 XNB . . . C 2 -2.553 0.642 16.139 1 49.71 ? C03 XNB 301 A 1 HETATM 4 C C04 XNB . . . C 2 -2.635 1.878 15.488 1 49.01 ? C04 XNB 301 A 1 HETATM 5 C C05 XNB . . . C 2 -3.355 2.931 16.063 1 52.92 ? C05 XNB 301 A 1 HETATM 6 C C06 XNB . . . C 2 -3.984 2.74 17.291 1 44.9 ? C06 XNB 301 A 1 HETATM 7 C C07 XNB . . . C 2 -3.904 1.493 17.939 1 49.47 ? C07 XNB 301 A 1 HETATM 8 C C08 XNB . . . C 2 -3.196 0.397 17.382 1 54.75 ? C08 XNB 301 A 1 HETATM 9 N N09 XNB . . . C 2 -3.077 -0.929 17.986 1 51.35 ? N09 XNB 301 A 1 HETATM 10 C C10 XNB . . . C 2 -4.007 -1.465 18.924 1 48.03 ? C10 XNB 301 A 1 HETATM 11 N N11 XNB . . . C 2 -5.025 -0.637 19.386 1 53.07 ? N11 XNB 301 A 1 HETATM 12 C C12 XNB . . . C 2 -5.991 -1.152 20.321 1 55.42 ? C12 XNB 301 A 1 HETATM 13 N N13 XNB . . . C 2 -5.955 -2.449 20.784 1 51.67 ? N13 XNB 301 A 1 HETATM 14 C C14 XNB . . . C 2 -4.949 -3.267 20.329 1 52.96 ? C14 XNB 301 A 1 HETATM 15 C C15 XNB . . . C 2 -4.862 -4.717 20.805 1 57.52 ? C15 XNB 301 A 1 HETATM 16 N N16 XNB . . . C 2 -3.843 -5.476 20.327 1 59.37 ? N16 XNB 301 A 1 HETATM 17 C C17 XNB . . . C 2 -2.934 -4.903 19.422 1 44.6 ? C17 XNB 301 A 1 HETATM 18 N N18 XNB . . . C 2 -2.93 -3.668 18.951 1 44.7 ? N18 XNB 301 A 1 HETATM 19 C C19 XNB . . . C 2 -3.955 -2.841 19.414 1 51.31 ? C19 XNB 301 A 1 HETATM 20 N N20 XNB . . . C 2 -5.87 -5.099 21.699 1 56.22 ? N20 XNB 301 A 1 HETATM 21 C C21 XNB . . . C 2 -5.943 -6.449 22.275 1 54.55 ? C21 XNB 301 A 1 HETATM 22 C C22 XNB . . . C 2 -6.071 -7.764 21.543 1 65.91 ? C22 XNB 301 A 1 HETATM 23 C C23 XNB . . . C 2 -7.206 -8.069 20.555 1 69.78 ? C23 XNB 301 A 1 HETATM 24 C C24 XNB . . . C 2 -7.217 -8.706 21.916 1 77.59 ? C24 XNB 301 A 1 HETATM 25 N N25 XNB . . . C 2 -7.077 -0.334 20.826 1 56.13 ? N25 XNB 301 A 1 HETATM 26 C C26 XNB . . . C 2 -7.23 1.083 20.395 1 54.53 ? C26 XNB 301 A 1 HETATM 27 C C27 XNB . . . C 2 -8.685 1.613 20.335 1 57.03 ? C27 XNB 301 A 1 HETATM 28 N N28 XNB . . . C 2 -9.435 1.312 21.564 1 64.07 ? N28 XNB 301 A 1 HETATM 29 C C29 XNB . . . C 2 -9.499 -0.13 21.835 1 57.42 ? C29 XNB 301 A 1 HETATM 30 C C30 XNB . . . C 2 -8.112 -0.836 21.795 1 56.94 ? C30 XNB 301 A 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 10 _model_server_stats.query_time_ms 272 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 30 #