data_8BUH # _model_server_result.job_id '_BlTVQ-70k9Tu3t2b5qArg' _model_server_result.datetime_utc '2024-11-26 12:31:31' _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 8buh # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"N","auth_seq_id":1101}' # _entry.id 8BUH # _exptl.entry_id 8BUH _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 448.521 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 6-[[[2-[[(2~{R})-1-oxidanylbutan-2-yl]amino]-9-propan-2-yl-purin-6-yl]amino]methyl]-3-pyridin-2-yl-1~{H}-pyridin-2-one _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 8BUH _cell.length_a 249.143 _cell.length_b 249.143 _cell.length_c 217.39 _cell.Z_PDB 18 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8BUH _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 1 1 D,E,F,P,Q,R,S 2 1 G,H,I,T,U,V,W,X 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 R N N ? 5 W 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 ? ? ? ? ? ? ? ? ? ? ? ? 2.051 ? disulf ? disulf2 G SG CYS 22 G CYS 18 1_555 G SG CYS 317 G CYS 313 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.012 ? covale ? covale1 B C TYR 184 B TYR 892 1_555 B N TPO 185 B TPO 893 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? covale ? covale2 B C TPO 185 B TPO 893 1_555 B N ASN 186 B ASN 894 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale3 E C TYR 184 E TYR 892 1_555 E N TPO 185 E TPO 893 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale4 E C TPO 185 E TPO 893 1_555 E N ASN 186 E ASN 894 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.337 ? covale ? covale5 H C TYR 184 H TYR 892 1_555 H N TPO 185 H TPO 893 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.334 ? covale ? covale6 H C TPO 185 H TPO 893 1_555 H N ASN 186 H ASN 894 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? # _chem_comp.formula 'C23 H28 N8 O2' _chem_comp.formula_weight 448.521 _chem_comp.id RR9 _chem_comp.mon_nstd_flag . _chem_comp.name 6-[[[2-[[(2~{R})-1-oxidanylbutan-2-yl]amino]-9-propan-2-yl-purin-6-yl]amino]methyl]-3-pyridin-2-yl-1~{H}-pyridin-2-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 C1 C2 RR9 sing 275 n n C3 C2 RR9 sing 276 n n C2 N1 RR9 sing 277 n n C4 N1 RR9 sing 278 n y C4 N2 RR9 doub 279 n y N1 C5 RR9 sing 280 n y N2 C6 RR9 sing 281 n y C5 N8 RR9 doub 282 n y C5 C6 RR9 sing 283 n y N8 C19 RR9 sing 284 n y C6 C7 RR9 doub 285 n y C19 N7 RR9 sing 286 n n C19 N6 RR9 doub 287 n y C7 N6 RR9 sing 288 n y C7 N3 RR9 sing 289 n n N7 C20 RR9 sing 290 n n C23 C22 RR9 sing 291 n n N3 C8 RR9 sing 292 n n C22 C20 RR9 sing 293 n n C20 C21 RR9 sing 294 n n C8 C9 RR9 sing 295 n n O2 C21 RR9 sing 296 n n C9 N4 RR9 sing 297 n n C9 C10 RR9 doub 298 n n N4 C18 RR9 sing 299 n n C10 C11 RR9 sing 300 n n C18 O1 RR9 doub 301 n n C18 C12 RR9 sing 302 n n C11 C12 RR9 doub 303 n n C12 C13 RR9 sing 304 n n N5 C13 RR9 doub 305 n y N5 C17 RR9 sing 306 n y C13 C14 RR9 sing 307 n y C17 C16 RR9 doub 308 n y C14 C15 RR9 doub 309 n y C16 C15 RR9 sing 310 n y C1 H2 RR9 sing 311 n n C1 H3 RR9 sing 312 n n C1 H1 RR9 sing 313 n n C2 H4 RR9 sing 314 n n O2 H23 RR9 sing 315 n n C3 H6 RR9 sing 316 n n C3 H7 RR9 sing 317 n n C3 H5 RR9 sing 318 n n C4 H8 RR9 sing 319 n n C10 H13 RR9 sing 320 n n C11 H14 RR9 sing 321 n n C14 H15 RR9 sing 322 n n C15 H16 RR9 sing 323 n n C16 H17 RR9 sing 324 n n C17 H18 RR9 sing 325 n n C21 H21 RR9 sing 326 n n C21 H22 RR9 sing 327 n n C22 H25 RR9 sing 328 n n C22 H24 RR9 sing 329 n n C23 H27 RR9 sing 330 n n C23 H28 RR9 sing 331 n n C23 H26 RR9 sing 332 n n C20 H20 RR9 sing 333 n n C8 H10 RR9 sing 334 n n C8 H11 RR9 sing 335 n n N3 H9 RR9 sing 336 n n N4 H12 RR9 sing 337 n n N7 H19 RR9 sing 338 n n # _atom_sites.entry_id 8BUH _atom_sites.fract_transf_matrix[1][1] 0.004014 _atom_sites.fract_transf_matrix[1][2] 0.002317 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.004635 _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] 0.0046 _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 1 SO4 SO4 . K 4 SO4 A 1 1202 9 SO4 SO4 . L 4 SO4 A 1 1203 11 SO4 SO4 . M 4 SO4 A 1 1204 12 SO4 SO4 . N 5 RR9 B 1 1101 1101 RR9 WX3 . O 4 SO4 C 1 301 7 SO4 SO4 . P 4 SO4 D 1 1201 3 SO4 SO4 . Q 4 SO4 D 1 1202 6 SO4 SO4 . R 5 RR9 E 1 1101 1101 RR9 WX3 . S 4 SO4 F 1 301 2 SO4 SO4 . T 4 SO4 G 1 1201 5 SO4 SO4 . U 4 SO4 G 1 1202 8 SO4 SO4 . V 4 SO4 G 1 1203 10 SO4 SO4 . W 5 RR9 H 1 1101 1101 RR9 WX3 . X 4 SO4 I 1 301 4 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 C1 RR9 . . . N 5 -60.678 24.516 -11.258 1 116.36 ? C1 RR9 1101 B 1 HETATM 2 N N1 RR9 . . . N 5 -61.773 24.801 -9.074 1 115.36 ? N1 RR9 1101 B 1 HETATM 3 O O1 RR9 . . . N 5 -66.656 23.139 -1.1 1 143.69 ? O1 RR9 1101 B 1 HETATM 4 C C2 RR9 . . . N 5 -60.912 25.445 -10.084 1 108.97 ? C2 RR9 1101 B 1 HETATM 5 N N2 RR9 . . . N 5 -63.581 23.914 -8.075 1 122.71 ? N2 RR9 1101 B 1 HETATM 6 O O2 RR9 . . . N 5 -56.853 22.892 -3.779 1 159.8 ? O2 RR9 1101 B 1 HETATM 7 C C3 RR9 . . . N 5 -61.519 26.764 -10.51 1 122 ? C3 RR9 1101 B 1 HETATM 8 C C4 RR9 . . . N 5 -63.104 24.494 -9.152 1 120.08 ? C4 RR9 1101 B 1 HETATM 9 C C5 RR9 . . . N 5 -61.361 24.354 -7.845 1 121.54 ? C5 RR9 1101 B 1 HETATM 10 C C7 RR9 . . . N 5 -62.275 23.283 -5.951 1 125.6 ? C7 RR9 1101 B 1 HETATM 11 C C9 RR9 . . . N 5 -63.621 22.885 -2.841 1 142.61 ? C9 RR9 1101 B 1 HETATM 12 C C10 RR9 . . . N 5 -62.846 23.806 -2.222 1 155.73 ? C10 RR9 1101 B 1 HETATM 13 C C11 RR9 . . . N 5 -63.357 24.559 -1.155 1 152.27 ? C11 RR9 1101 B 1 HETATM 14 C C12 RR9 . . . N 5 -64.666 24.381 -0.727 1 149.52 ? C12 RR9 1101 B 1 HETATM 15 C C14 RR9 . . . N 5 -64.405 25.688 1.411 1 150.17 ? C14 RR9 1101 B 1 HETATM 16 C C15 RR9 . . . N 5 -64.972 26.442 2.418 1 158.62 ? C15 RR9 1101 B 1 HETATM 17 C C16 RR9 . . . N 5 -66.322 26.695 2.39 1 149.86 ? C16 RR9 1101 B 1 HETATM 18 C C17 RR9 . . . N 5 -67.055 26.182 1.344 1 147.34 ? C17 RR9 1101 B 1 HETATM 19 C C18 RR9 . . . N 5 -65.486 23.392 -1.393 1 145.85 ? C18 RR9 1101 B 1 HETATM 20 C C21 RR9 . . . N 5 -57.982 23.561 -3.226 1 150.78 ? C21 RR9 1101 B 1 HETATM 21 C C22 RR9 . . . N 5 -57.633 25.766 -4.429 1 127.69 ? C22 RR9 1101 B 1 HETATM 22 C C23 RR9 . . . N 5 -58.189 26.843 -5.327 1 128.17 ? C23 RR9 1101 B 1 HETATM 23 C C13 RR9 . . . N 5 -65.209 25.188 0.396 1 150.99 ? C13 RR9 1101 B 1 HETATM 24 C C19 RR9 . . . N 5 -60.025 23.908 -6.095 1 127.82 ? C19 RR9 1101 B 1 HETATM 25 C C20 RR9 . . . N 5 -58.565 24.566 -4.219 1 130.62 ? C20 RR9 1101 B 1 HETATM 26 C C6 RR9 . . . N 5 -62.477 23.819 -7.238 1 122.78 ? C6 RR9 1101 B 1 HETATM 27 C C8 RR9 . . . N 5 -63.088 22.062 -3.989 1 129.9 ? C8 RR9 1101 B 1 HETATM 28 N N3 RR9 . . . N 5 -63.28 22.722 -5.26 1 123.22 ? N3 RR9 1101 B 1 HETATM 29 N N4 RR9 . . . N 5 -64.908 22.694 -2.427 1 142.34 ? N4 RR9 1101 B 1 HETATM 30 N N5 RR9 . . . N 5 -66.529 25.447 0.353 1 150.71 ? N5 RR9 1101 B 1 HETATM 31 N N6 RR9 . . . N 5 -61.043 23.35 -5.402 1 125.68 ? N6 RR9 1101 B 1 HETATM 32 N N7 RR9 . . . N 5 -58.814 23.936 -5.515 1 125.29 ? N7 RR9 1101 B 1 HETATM 33 N N8 RR9 . . . N 5 -60.128 24.437 -7.329 1 129.14 ? N8 RR9 1101 B 1 HETATM 34 H H2 RR9 . . . N 5 -60.069 24.937 -11.889 0 140.02 ? H2 RR9 1101 B 1 HETATM 35 H H3 RR9 . . . N 5 -61.525 24.331 -11.699 0 140.02 ? H3 RR9 1101 B 1 HETATM 36 H H1 RR9 . . . N 5 -60.29 23.682 -10.94 0 140.02 ? H1 RR9 1101 B 1 HETATM 37 H H4 RR9 . . . N 5 -60.03 25.625 -9.663 0 131.15 ? H4 RR9 1101 B 1 HETATM 38 H H23 RR9 . . . N 5 -56.57 22.33 -3.213 0 192.15 ? H23 RR9 1101 B 1 HETATM 39 H H6 RR9 . . . N 5 -62.433 26.618 -10.81 0 146.79 ? H6 RR9 1101 B 1 HETATM 40 H H7 RR9 . . . N 5 -60.995 27.143 -11.236 0 146.79 ? H7 RR9 1101 B 1 HETATM 41 H H5 RR9 . . . N 5 -61.52 27.379 -9.755 0 146.79 ? H5 RR9 1101 B 1 HETATM 42 H H8 RR9 . . . N 5 -63.632 24.684 -9.916 0 144.48 ? H8 RR9 1101 B 1 HETATM 43 H H13 RR9 . . . N 5 -61.958 23.942 -2.508 0 187.26 ? H13 RR9 1101 B 1 HETATM 44 H H14 RR9 . . . N 5 -62.808 25.193 -0.722 0 183.11 ? H14 RR9 1101 B 1 HETATM 45 H H15 RR9 . . . N 5 -63.473 25.511 1.41 0 180.6 ? H15 RR9 1101 B 1 HETATM 46 H H16 RR9 . . . N 5 -64.437 26.779 3.118 0 190.73 ? H16 RR9 1101 B 1 HETATM 47 H H17 RR9 . . . N 5 -66.736 27.206 3.067 0 180.23 ? H17 RR9 1101 B 1 HETATM 48 H H18 RR9 . . . N 5 -67.983 26.356 1.318 0 177.2 ? H18 RR9 1101 B 1 HETATM 49 H H21 RR9 . . . N 5 -58.672 22.905 -2.99 0 181.33 ? H21 RR9 1101 B 1 HETATM 50 H H22 RR9 . . . N 5 -57.718 24.033 -2.407 0 181.33 ? H22 RR9 1101 B 1 HETATM 51 H H25 RR9 . . . N 5 -57.431 26.16 -3.553 0 153.62 ? H25 RR9 1101 B 1 HETATM 52 H H24 RR9 . . . N 5 -56.789 25.442 -4.812 0 153.62 ? H24 RR9 1101 B 1 HETATM 53 H H27 RR9 . . . N 5 -59.006 27.202 -4.938 0 154.2 ? H27 RR9 1101 B 1 HETATM 54 H H28 RR9 . . . N 5 -58.387 26.467 -6.203 0 154.2 ? H28 RR9 1101 B 1 HETATM 55 H H26 RR9 . . . N 5 -57.536 27.558 -5.422 0 154.2 ? H26 RR9 1101 B 1 HETATM 56 H H20 RR9 . . . N 5 -59.444 24.874 -3.856 0 157.13 ? H20 RR9 1101 B 1 HETATM 57 H H10 RR9 . . . N 5 -62.133 21.894 -3.854 0 156.27 ? H10 RR9 1101 B 1 HETATM 58 H H11 RR9 . . . N 5 -63.542 21.194 -4.005 0 156.27 ? H11 RR9 1101 B 1 HETATM 59 H H9 RR9 . . . N 5 -64.094 22.757 -5.594 0 148.26 ? H9 RR9 1101 B 1 HETATM 60 H H12 RR9 . . . N 5 -65.399 22.096 -2.836 0 171.2 ? H12 RR9 1101 B 1 HETATM 61 H H19 RR9 . . . N 5 -58.137 23.559 -5.932 0 150.74 ? H19 RR9 1101 B 1 # _model_server_stats.io_time_ms 127 _model_server_stats.parse_time_ms 49 _model_server_stats.create_model_time_ms 62 _model_server_stats.query_time_ms 349 _model_server_stats.encode_time_ms 20 _model_server_stats.element_count 61 #