data_8BUK # _model_server_result.job_id MBgUnJeKP6ilNxo6er_r6A _model_server_result.datetime_utc '2024-11-29 22:55:31' _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 8buk # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"W","auth_seq_id":1101}' # _entry.id 8BUK # _exptl.entry_id 8BUK _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 404.508 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description (2~{R})-2-[[6-(naphthalen-2-ylmethylamino)-9-propan-2-yl-purin-2-yl]amino]butan-1-ol _entity.pdbx_number_of_molecules 3 _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 8BUK _cell.length_a 248.824 _cell.length_b 248.824 _cell.length_c 217.984 _cell.Z_PDB 18 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8BUK _symmetry.cell_setting ? _symmetry.Int_Tables_number 152 _symmetry.space_group_name_Hall 'P 31 2"' _symmetry.space_group_name_H-M 'P 31 2 1' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? trimeric 3 author_defined_assembly 1 ? trimeric 3 author_defined_assembly 2 ? trimeric 3 author_defined_assembly 3 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,C,J,K,L,M,N,O,P,Q 1 1 D,E,F,R,S,T,U,V,W,X,Y 2 1 G,H,I,Z,AA,BA,CA,DA,EA,FA,GA 3 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 ? 5 N N N ? 5 W N N ? 5 CA N 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 disulf ? disulf1 A SG CYS 22 A CYS 18 1_555 A SG CYS 317 A CYS 313 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf2 G SG CYS 22 G CYS 18 1_555 G SG CYS 317 G CYS 313 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.05 ? covale ? covale1 B C TYR 184 B TYR 892 1_555 B N TPO 185 B TPO 893 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale2 B C TPO 185 B TPO 893 1_555 B N ASN 186 B ASN 894 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? covale ? covale3 E C TYR 184 E TYR 892 1_555 E N TPO 185 E TPO 893 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? covale ? covale4 E C TPO 185 E TPO 893 1_555 E N ASN 186 E ASN 894 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.334 ? covale ? covale5 H C TYR 184 H TYR 892 1_555 H N TPO 185 H TPO 893 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.324 ? covale ? covale6 H C TPO 185 H TPO 893 1_555 H N ASN 186 H ASN 894 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? # _chem_comp.formula 'C23 H28 N6 O' _chem_comp.formula_weight 404.508 _chem_comp.id RWE _chem_comp.mon_nstd_flag . _chem_comp.name (2~{R})-2-[[6-(naphthalen-2-ylmethylamino)-9-propan-2-yl-purin-2-yl]amino]butan-1-ol _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 C21 C20 RWE doub 295 n y C21 C22 RWE sing 296 n y C20 C1 RWE sing 297 n y C22 C23 RWE doub 298 n y C1 C19 RWE doub 299 n y C1 C4 RWE sing 300 n y C23 C4 RWE sing 301 n y C19 C18 RWE sing 302 n y C4 C3 RWE doub 303 n y C18 C2 RWE doub 304 n y C3 C2 RWE sing 305 n y C2 C5 RWE sing 306 n n O1 C15 RWE sing 307 n n C15 C14 RWE sing 308 n n C5 N1 RWE sing 309 n n C14 C16 RWE sing 310 n n C14 N6 RWE sing 311 n n N1 C6 RWE sing 312 n n N2 C6 RWE doub 313 n y N2 C7 RWE sing 314 n y C16 C17 RWE sing 315 n n N6 C7 RWE sing 316 n n C6 C9 RWE sing 317 n y C7 N3 RWE doub 318 n y C9 C8 RWE doub 319 n y C9 N4 RWE sing 320 n y N3 C8 RWE sing 321 n y C8 N5 RWE sing 322 n y N4 C10 RWE doub 323 n y C10 N5 RWE sing 324 n y N5 C11 RWE sing 325 n n C13 C11 RWE sing 326 n n C11 C12 RWE sing 327 n n C10 H101 RWE sing 328 n n C13 H132 RWE sing 329 n n C13 H131 RWE sing 330 n n C13 H133 RWE sing 331 n n C15 H151 RWE sing 332 n n C15 H152 RWE sing 333 n n C17 H172 RWE sing 334 n n C17 H173 RWE sing 335 n n C17 H171 RWE sing 336 n n C20 H201 RWE sing 337 n n C21 H211 RWE sing 338 n n C11 H111 RWE sing 339 n n C12 H122 RWE sing 340 n n C12 H123 RWE sing 341 n n C12 H121 RWE sing 342 n n C14 H141 RWE sing 343 n n C16 H161 RWE sing 344 n n C16 H162 RWE sing 345 n n C18 H181 RWE sing 346 n n C19 H191 RWE sing 347 n n C22 H221 RWE sing 348 n n C23 H231 RWE sing 349 n n C3 H31 RWE sing 350 n n C5 H52 RWE sing 351 n n C5 H51 RWE sing 352 n n N1 H11 RWE sing 353 n n N6 H61 RWE sing 354 n n O1 H12 RWE sing 355 n n # _atom_sites.entry_id 8BUK _atom_sites.fract_transf_matrix[1][1] 0.004019 _atom_sites.fract_transf_matrix[1][2] 0.00232 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.004641 _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] 0.004587 _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 J 4 SO4 A 1 1201 3 SO4 SO4 . K 4 SO4 A 1 1202 5 SO4 SO4 . L 4 SO4 A 1 1203 6 SO4 SO4 . M 4 SO4 A 1 1204 27 SO4 SO4 . N 5 RWE B 1 1101 1101 RWE D08 . O 4 SO4 C 1 301 4 SO4 SO4 . P 4 SO4 C 1 302 22 SO4 SO4 . Q 4 SO4 C 1 303 30 SO4 SO4 . R 4 SO4 D 1 1201 2 SO4 SO4 . S 4 SO4 D 1 1202 7 SO4 SO4 . T 4 SO4 D 1 1203 20 SO4 SO4 . U 4 SO4 D 1 1204 29 SO4 SO4 . V 4 SO4 D 1 1205 35 SO4 SO4 . W 5 RWE E 1 1101 1101 RWE D08 . X 6 CIT F 1 301 301 CIT CIT . Y 4 SO4 F 1 302 21 SO4 SO4 . Z 4 SO4 G 1 1201 1 SO4 SO4 . AA 4 SO4 G 1 1202 8 SO4 SO4 . BA 4 SO4 G 1 1203 13 SO4 SO4 . CA 5 RWE H 1 1101 1101 RWE D08 . DA 4 SO4 H 1 1102 33 SO4 SO4 . EA 4 SO4 I 1 301 12 SO4 SO4 . FA 4 SO4 I 1 302 32 SO4 SO4 . GA 4 SO4 I 1 303 34 SO4 SO4 . # 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 RWE . . . W 5 103.1 -72.785 45.613 1 112.33 ? C10 RWE 1101 E 1 HETATM 2 C C13 RWE . . . W 5 105.83 -74.717 45.911 1 109.44 ? C13 RWE 1101 E 1 HETATM 3 C C15 RWE . . . W 5 109.076 -69.293 49.394 1 111.48 ? C15 RWE 1101 E 1 HETATM 4 C C17 RWE . . . W 5 108.247 -72.245 49.7 1 107.63 ? C17 RWE 1101 E 1 HETATM 5 C C20 RWE . . . W 5 107.127 -63.866 43.573 1 121.26 ? C20 RWE 1101 E 1 HETATM 6 C C21 RWE . . . W 5 106.731 -63.222 42.444 1 125.82 ? C21 RWE 1101 E 1 HETATM 7 C C11 RWE . . . W 5 104.725 -74.275 46.846 1 109.54 ? C11 RWE 1101 E 1 HETATM 8 C C12 RWE . . . W 5 103.67 -75.346 47.002 1 110.29 ? C12 RWE 1101 E 1 HETATM 9 C C14 RWE . . . W 5 108.229 -70.073 48.382 1 112.31 ? C14 RWE 1101 E 1 HETATM 10 C C16 RWE . . . W 5 108.52 -71.574 48.397 1 108.79 ? C16 RWE 1101 E 1 HETATM 11 C C18 RWE . . . W 5 105.696 -66.146 46.134 1 120.04 ? C18 RWE 1101 E 1 HETATM 12 C C19 RWE . . . W 5 106.595 -65.371 45.466 1 121 ? C19 RWE 1101 E 1 HETATM 13 C C1 RWE . . . W 5 106.218 -64.685 44.297 1 121.2 ? C1 RWE 1101 E 1 HETATM 14 C C2 RWE . . . W 5 104.36 -66.281 45.677 1 119.12 ? C2 RWE 1101 E 1 HETATM 15 C C22 RWE . . . W 5 105.413 -63.354 41.976 1 125.61 ? C22 RWE 1101 E 1 HETATM 16 C C23 RWE . . . W 5 104.518 -64.129 42.642 1 122.39 ? C23 RWE 1101 E 1 HETATM 17 C C3 RWE . . . W 5 103.983 -65.637 44.531 1 120.39 ? C3 RWE 1101 E 1 HETATM 18 C C4 RWE . . . W 5 104.888 -64.816 43.821 1 121.77 ? C4 RWE 1101 E 1 HETATM 19 C C5 RWE . . . W 5 103.398 -67.155 46.448 1 117.22 ? C5 RWE 1101 E 1 HETATM 20 C C6 RWE . . . W 5 104.051 -69.505 46.469 1 114.14 ? C6 RWE 1101 E 1 HETATM 21 C C7 RWE . . . W 5 105.814 -70.189 47.837 1 111.53 ? C7 RWE 1101 E 1 HETATM 22 C C8 RWE . . . W 5 104.602 -71.772 46.829 1 107.2 ? C8 RWE 1101 E 1 HETATM 23 C C9 RWE . . . W 5 103.771 -70.861 46.206 1 112.06 ? C9 RWE 1101 E 1 HETATM 24 N N1 RWE . . . W 5 103.329 -68.507 45.938 1 116.97 ? N1 RWE 1101 E 1 HETATM 25 N N2 RWE . . . W 5 105.07 -69.199 47.297 1 114.39 ? N2 RWE 1101 E 1 HETATM 26 N N3 RWE . . . W 5 105.623 -71.511 47.656 1 110.03 ? N3 RWE 1101 E 1 HETATM 27 N N4 RWE . . . W 5 102.817 -71.515 45.431 1 115.42 ? N4 RWE 1101 E 1 HETATM 28 N N5 RWE . . . W 5 104.152 -73 46.446 1 109.78 ? N5 RWE 1101 E 1 HETATM 29 N N6 RWE . . . W 5 106.811 -69.816 48.649 1 111.4 ? N6 RWE 1101 E 1 HETATM 30 O O1 RWE . . . W 5 108.621 -67.945 49.557 1 114.77 ? O1 RWE 1101 E 1 HETATM 31 H H101 RWE . . . W 5 102.619 -73.493 45.205 0 134.85 ? H101 RWE 1101 E 1 HETATM 32 H H132 RWE . . . W 5 105.458 -74.89 45.029 0 131.37 ? H132 RWE 1101 E 1 HETATM 33 H H131 RWE . . . W 5 106.241 -75.529 46.255 0 131.37 ? H131 RWE 1101 E 1 HETATM 34 H H133 RWE . . . W 5 106.501 -74.015 45.848 0 131.37 ? H133 RWE 1101 E 1 HETATM 35 H H151 RWE . . . W 5 109.041 -69.754 50.26 0 133.82 ? H151 RWE 1101 E 1 HETATM 36 H H152 RWE . . . W 5 110.008 -69.286 49.09 0 133.82 ? H152 RWE 1101 E 1 HETATM 37 H H172 RWE . . . W 5 108.853 -71.899 50.377 0 129.21 ? H172 RWE 1101 E 1 HETATM 38 H H173 RWE . . . W 5 107.328 -72.071 49.969 0 129.21 ? H173 RWE 1101 E 1 HETATM 39 H H171 RWE . . . W 5 108.38 -73.204 49.606 0 129.21 ? H171 RWE 1101 E 1 HETATM 40 H H201 RWE . . . W 5 108.014 -63.77 43.881 0 145.56 ? H201 RWE 1101 E 1 HETATM 41 H H211 RWE . . . W 5 107.344 -62.682 41.972 0 151.03 ? H211 RWE 1101 E 1 HETATM 42 H H111 RWE . . . W 5 105.136 -74.141 47.741 0 131.5 ? H111 RWE 1101 E 1 HETATM 43 H H122 RWE . . . W 5 102.962 -75.022 47.585 0 132.4 ? H122 RWE 1101 E 1 HETATM 44 H H123 RWE . . . W 5 104.072 -76.142 47.392 0 132.4 ? H123 RWE 1101 E 1 HETATM 45 H H121 RWE . . . W 5 103.298 -75.564 46.13 0 132.4 ? H121 RWE 1101 E 1 HETATM 46 H H141 RWE . . . W 5 108.437 -69.741 47.462 0 134.81 ? H141 RWE 1101 E 1 HETATM 47 H H161 RWE . . . W 5 107.976 -72.003 47.702 0 130.59 ? H161 RWE 1101 E 1 HETATM 48 H H162 RWE . . . W 5 109.463 -71.711 48.165 0 130.59 ? H162 RWE 1101 E 1 HETATM 49 H H181 RWE . . . W 5 105.966 -66.601 46.913 0 144.09 ? H181 RWE 1101 E 1 HETATM 50 H H191 RWE . . . W 5 107.478 -65.292 45.789 0 145.24 ? H191 RWE 1101 E 1 HETATM 51 H H221 RWE . . . W 5 105.147 -62.901 41.192 0 150.78 ? H221 RWE 1101 E 1 HETATM 52 H H231 RWE . . . W 5 103.636 -64.211 42.315 0 146.92 ? H231 RWE 1101 E 1 HETATM 53 H H31 RWE . . . W 5 103.107 -65.741 44.21 0 144.51 ? H31 RWE 1101 E 1 HETATM 54 H H52 RWE . . . W 5 102.504 -66.756 46.413 0 140.71 ? H52 RWE 1101 E 1 HETATM 55 H H51 RWE . . . W 5 103.675 -67.184 47.388 0 140.71 ? H51 RWE 1101 E 1 HETATM 56 H H11 RWE . . . W 5 102.796 -68.678 45.258 0 140.41 ? H11 RWE 1101 E 1 HETATM 57 H H61 RWE . . . W 5 106.606 -69.389 49.391 0 133.72 ? H61 RWE 1101 E 1 HETATM 58 H H12 RWE . . . W 5 109.134 -67.552 50.103 0 137.77 ? H12 RWE 1101 E 1 # _model_server_stats.io_time_ms 150 _model_server_stats.parse_time_ms 28 _model_server_stats.create_model_time_ms 80 _model_server_stats.query_time_ms 308 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 58 #