data_3QAI
#
_model_server_result.job_id            DB8Ft_QcFgJriRJgYNgKzA 
_model_server_result.datetime_utc      '2024-11-24 13:38:53' 
_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          3qai 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":302}' 
#
_entry.id    3QAI 
#
_exptl.entry_id    3QAI 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              434.56 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            N~8~-(cyclopropylmethyl)-2-(2,6-diazaspiro[3.3]hept-2-yl)-N~4~-[2-(methylsulfanyl)phenyl]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            3QAI 
_cell.length_a            83.132 
_cell.length_b            86.295 
_cell.length_c            136.598 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3QAI 
_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
? 3 D N N 
? 3 G N N 
#
_chem_comp.formula           'C22 H26 N8 S' 
_chem_comp.formula_weight    434.56 
_chem_comp.id                XNN 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              N~8~-(cyclopropylmethyl)-2-(2,6-diazaspiro[3.3]hept-2-yl)-N~4~-[2-(methylsulfanyl)phenyl]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 XNN sing 380 n n 
C01 H01 XNN sing 381 n n 
C01 H01A XNN sing 382 n n 
C01 H01B XNN sing 383 n n 
C03 S02 XNN sing 384 n n 
C08 C03 XNN doub 385 n y 
C03 C04 XNN sing 386 n y 
C05 C04 XNN doub 387 n y 
C04 H04 XNN sing 388 n n 
C06 C05 XNN sing 389 n y 
C05 H05 XNN sing 390 n n 
C07 C06 XNN doub 391 n y 
C06 H06 XNN sing 392 n n 
C07 C08 XNN sing 393 n y 
C07 H07 XNN sing 394 n n 
N09 C08 XNN sing 395 n n 
C10 N09 XNN sing 396 n n 
N09 HN09 XNN sing 397 n n 
N11 C10 XNN doub 398 n y 
C19 C10 XNN sing 399 n y 
C12 N11 XNN sing 400 n y 
N25 C12 XNN sing 401 n n 
N13 C12 XNN doub 402 n y 
N13 C14 XNN sing 403 n y 
C15 C14 XNN doub 404 n y 
C14 C19 XNN sing 405 n y 
N20 C15 XNN sing 406 n n 
C15 N16 XNN sing 407 n y 
N16 C17 XNN doub 408 n y 
C17 N18 XNN sing 409 n y 
C17 H17 XNN sing 410 n n 
C19 N18 XNN doub 411 n y 
C21 N20 XNN sing 412 n n 
N20 HN20 XNN sing 413 n n 
C21 C22 XNN sing 414 n n 
C21 H21 XNN sing 415 n n 
C21 H21A XNN sing 416 n n 
C23 C22 XNN sing 417 n n 
C24 C22 XNN sing 418 n n 
C22 H22 XNN sing 419 n n 
C23 C24 XNN sing 420 n n 
C23 H23 XNN sing 421 n n 
C23 H23A XNN sing 422 n n 
C24 H24 XNN sing 423 n n 
C24 H24A XNN sing 424 n n 
C26 N25 XNN sing 425 n n 
N25 C31 XNN sing 426 n n 
C27 C26 XNN sing 427 n n 
C26 H26 XNN sing 428 n n 
C26 H26A XNN sing 429 n n 
C28 C27 XNN sing 430 n n 
C30 C27 XNN sing 431 n n 
C27 C31 XNN sing 432 n n 
C28 N29 XNN sing 433 n n 
C28 H28 XNN sing 434 n n 
C28 H28A XNN sing 435 n n 
N29 C30 XNN sing 436 n n 
N29 HN29 XNN sing 437 n n 
C30 H30 XNN sing 438 n n 
C30 H30A XNN sing 439 n n 
C31 H31 XNN sing 440 n n 
C31 H31A XNN sing 441 n n 
#
_atom_sites.entry_id                     3QAI 
_atom_sites.fract_transf_matrix[1][1]    0.012029 
_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]    0.011588 
_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]    0.007321 
_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 SO4 A 1 301 1 SO4 SO4 . 
D 3 XNN A 1 302 1 XNN XNN . 
E 2 SO4 B 1 301 2 SO4 SO4 . 
F 2 SO4 B 1 302 3 SO4 SO4 . 
G 3 XNN B 1 303 2 XNN XNN . 
H 4 HOH A 1 401 5 HOH HOH . 
H 4 HOH A 2 402 7 HOH HOH . 
H 4 HOH A 3 403 8 HOH HOH . 
H 4 HOH A 4 404 9 HOH HOH . 
H 4 HOH A 5 405 11 HOH HOH . 
H 4 HOH A 6 406 16 HOH HOH . 
H 4 HOH A 7 407 19 HOH HOH . 
H 4 HOH A 8 408 21 HOH HOH . 
H 4 HOH A 9 409 23 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 3 HOH HOH . 
I 4 HOH B 4 404 4 HOH HOH . 
I 4 HOH B 5 405 6 HOH HOH . 
I 4 HOH B 6 406 10 HOH HOH . 
I 4 HOH B 7 407 12 HOH HOH . 
I 4 HOH B 8 408 13 HOH HOH . 
I 4 HOH B 9 409 14 HOH HOH . 
I 4 HOH B 10 410 15 HOH HOH . 
I 4 HOH B 11 411 17 HOH HOH . 
I 4 HOH B 12 412 18 HOH HOH . 
I 4 HOH B 13 413 20 HOH HOH . 
I 4 HOH B 14 414 22 HOH HOH . 
I 4 HOH B 15 415 24 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 XNN . . . D 3 -2.779 -1.148 13.676 0.79 52.35 ? C01 XNN 302 A 1 
HETATM 2 S S02 XNN . . . D 3 -1.996 -0.844 15.313 0.79 49.93 ? S02 XNN 302 A 1 
HETATM 3 C C03 XNN . . . D 3 -2.757 0.58 16.073 0.79 52.51 ? C03 XNN 302 A 1 
HETATM 4 C C04 XNN . . . D 3 -2.804 1.791 15.404 0.79 51.56 ? C04 XNN 302 A 1 
HETATM 5 C C05 XNN . . . D 3 -3.432 2.908 15.969 0.79 54.33 ? C05 XNN 302 A 1 
HETATM 6 C C06 XNN . . . D 3 -4.01 2.773 17.22 0.79 55.48 ? C06 XNN 302 A 1 
HETATM 7 C C07 XNN . . . D 3 -3.969 1.542 17.903 0.79 59.34 ? C07 XNN 302 A 1 
HETATM 8 C C08 XNN . . . D 3 -3.358 0.39 17.354 0.79 59.7 ? C08 XNN 302 A 1 
HETATM 9 N N09 XNN . . . D 3 -3.174 -0.925 17.92 1 63.06 ? N09 XNN 302 A 1 
HETATM 10 C C10 XNN . . . D 3 -4.157 -1.52 18.814 1 63.15 ? C10 XNN 302 A 1 
HETATM 11 N N11 XNN . . . D 3 -5.191 -0.781 19.237 1 65.7 ? N11 XNN 302 A 1 
HETATM 12 C C12 XNN . . . D 3 -6.18 -1.387 20.079 1 70.57 ? C12 XNN 302 A 1 
HETATM 13 N N13 XNN . . . D 3 -6.137 -2.682 20.496 1 68.7 ? N13 XNN 302 A 1 
HETATM 14 C C14 XNN . . . D 3 -5.059 -3.443 20.064 1 65.8 ? C14 XNN 302 A 1 
HETATM 15 C C15 XNN . . . D 3 -4.973 -4.876 20.493 1 64.73 ? C15 XNN 302 A 1 
HETATM 16 N N16 XNN . . . D 3 -3.917 -5.632 20.08 1 64.74 ? N16 XNN 302 A 1 
HETATM 17 C C17 XNN . . . D 3 -2.991 -4.99 19.261 1 56.19 ? C17 XNN 302 A 1 
HETATM 18 N N18 XNN . . . D 3 -2.983 -3.723 18.817 1 55.6 ? N18 XNN 302 A 1 
HETATM 19 C C19 XNN . . . D 3 -4.048 -2.934 19.235 1 66.63 ? C19 XNN 302 A 1 
HETATM 20 N N20 XNN . . . D 3 -5.99 -5.269 21.325 1 69.12 ? N20 XNN 302 A 1 
HETATM 21 C C21 XNN . . . D 3 -6.208 -6.677 21.755 1 67.33 ? C21 XNN 302 A 1 
HETATM 22 C C22 XNN . . . D 3 -6.135 -7.871 20.84 1 74.41 ? C22 XNN 302 A 1 
HETATM 23 C C23 XNN . . . D 3 -7.391 -8.473 20.184 1 71.46 ? C23 XNN 302 A 1 
HETATM 24 C C24 XNN . . . D 3 -6.709 -9.225 21.305 1 79.51 ? C24 XNN 302 A 1 
HETATM 25 N N25 XNN . . . D 3 -7.256 -0.601 20.617 1 73.27 ? N25 XNN 302 A 1 
HETATM 26 C C26 XNN . . . D 3 -8.485 -0.988 21.431 1 76.14 ? C26 XNN 302 A 1 
HETATM 27 C C27 XNN . . . D 3 -8.961 0.487 21.358 1 81.68 ? C27 XNN 302 A 1 
HETATM 28 C C28 XNN . . . D 3 -9.223 1.049 22.792 1 77.77 ? C28 XNN 302 A 1 
HETATM 29 N N29 XNN . . . D 3 -10.688 1.087 22.456 1 87.68 ? N29 XNN 302 A 1 
HETATM 30 C C30 XNN . . . D 3 -10.329 1.137 20.991 1 82.21 ? C30 XNN 302 A 1 
HETATM 31 C C31 XNN . . . D 3 -7.799 0.792 20.365 1 73.27 ? C31 XNN 302 A 1 
#
_model_server_stats.io_time_ms              8 
_model_server_stats.parse_time_ms           6 
_model_server_stats.create_model_time_ms    5 
_model_server_stats.query_time_ms           281 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           31 
#