data_8BUH # _model_server_result.job_id PBAJWRCyVybjjmtXu2wr_g _model_server_result.datetime_utc '2024-11-07 00:41:47' _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":"R","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 . . . R 5 -118.503 52.31 -47.31 1 119.07 ? C1 RR9 1101 E 1 HETATM 2 N N1 RR9 . . . R 5 -116.634 53.686 -46.495 1 108.16 ? N1 RR9 1101 E 1 HETATM 3 O O1 RR9 . . . R 5 -107.711 56.312 -43.983 1 142.95 ? O1 RR9 1101 E 1 HETATM 4 C C2 RR9 . . . R 5 -118.112 53.623 -46.66 1 121.08 ? C2 RR9 1101 E 1 HETATM 5 N N2 RR9 . . . R 5 -114.552 53.146 -45.777 1 108.26 ? N2 RR9 1101 E 1 HETATM 6 O O2 RR9 . . . R 5 -114.612 59.457 -50.68 1 138.99 ? O2 RR9 1101 E 1 HETATM 7 C C3 RR9 . . . R 5 -118.778 53.929 -45.35 1 120.76 ? C3 RR9 1101 E 1 HETATM 8 C C4 RR9 . . . R 5 -115.834 52.852 -45.754 1 104.13 ? C4 RR9 1101 E 1 HETATM 9 C C5 RR9 . . . R 5 -115.773 54.617 -47.019 1 112.28 ? C5 RR9 1101 E 1 HETATM 10 C C7 RR9 . . . R 5 -113.458 55.108 -47.018 1 124.42 ? C7 RR9 1101 E 1 HETATM 11 C C9 RR9 . . . R 5 -110.446 56.578 -46.164 1 130.06 ? C9 RR9 1101 E 1 HETATM 12 C C10 RR9 . . . R 5 -110.921 57.816 -45.896 1 141.99 ? C10 RR9 1101 E 1 HETATM 13 C C11 RR9 . . . R 5 -110.288 58.617 -44.932 1 152.05 ? C11 RR9 1101 E 1 HETATM 14 C C12 RR9 . . . R 5 -109.186 58.148 -44.227 1 141.83 ? C12 RR9 1101 E 1 HETATM 15 C C14 RR9 . . . R 5 -108.479 60.382 -43.293 1 128.95 ? C14 RR9 1101 E 1 HETATM 16 C C15 RR9 . . . R 5 -107.828 61.107 -42.316 1 135.55 ? C15 RR9 1101 E 1 HETATM 17 C C16 RR9 . . . R 5 -107.228 60.441 -41.277 1 139.03 ? C16 RR9 1101 E 1 HETATM 18 C C17 RR9 . . . R 5 -107.305 59.069 -41.252 1 131.86 ? C17 RR9 1101 E 1 HETATM 19 C C18 RR9 . . . R 5 -108.683 56.828 -44.534 1 139.03 ? C18 RR9 1101 E 1 HETATM 20 C C21 RR9 . . . R 5 -114.553 59.737 -49.254 1 137.23 ? C21 RR9 1101 E 1 HETATM 21 C C22 RR9 . . . R 5 -116.946 59.186 -48.444 1 128.23 ? C22 RR9 1101 E 1 HETATM 22 C C23 RR9 . . . R 5 -117.617 59.039 -49.761 1 122.03 ? C23 RR9 1101 E 1 HETATM 23 C C13 RR9 . . . R 5 -108.504 58.996 -43.213 1 133.73 ? C13 RR9 1101 E 1 HETATM 24 C C19 RR9 . . . R 5 -115.032 56.392 -48.172 1 123.89 ? C19 RR9 1101 E 1 HETATM 25 C C20 RR9 . . . R 5 -115.465 58.808 -48.441 1 135.85 ? C20 RR9 1101 E 1 HETATM 26 C C6 RR9 . . . R 5 -114.504 54.275 -46.578 1 112.3 ? C6 RR9 1101 E 1 HETATM 27 C C8 RR9 . . . R 5 -111.089 55.681 -47.195 1 130.7 ? C8 RR9 1101 E 1 HETATM 28 N N3 RR9 . . . R 5 -112.18 54.89 -46.675 1 121.39 ? N3 RR9 1101 E 1 HETATM 29 N N4 RR9 . . . R 5 -109.357 56.105 -45.491 1 133.21 ? N4 RR9 1101 E 1 HETATM 30 N N5 RR9 . . . R 5 -107.93 58.34 -42.188 1 129.19 ? N5 RR9 1101 E 1 HETATM 31 N N6 RR9 . . . R 5 -113.757 56.157 -47.808 1 135.05 ? N6 RR9 1101 E 1 HETATM 32 N N7 RR9 . . . R 5 -115.239 57.454 -48.962 1 120.94 ? N7 RR9 1101 E 1 HETATM 33 N N8 RR9 . . . R 5 -116.094 55.654 -47.806 1 114.23 ? N8 RR9 1101 E 1 HETATM 34 H H2 RR9 . . . R 5 -119.456 52.315 -47.505 0 143.27 ? H2 RR9 1101 E 1 HETATM 35 H H3 RR9 . . . R 5 -118.299 51.576 -46.705 0 143.27 ? H3 RR9 1101 E 1 HETATM 36 H H1 RR9 . . . R 5 -118.004 52.197 -48.138 0 143.27 ? H1 RR9 1101 E 1 HETATM 37 H H4 RR9 . . . R 5 -118.414 54.331 -47.289 0 145.69 ? H4 RR9 1101 E 1 HETATM 38 H H23 RR9 . . . R 5 -114.158 58.761 -50.837 0 167.18 ? H23 RR9 1101 E 1 HETATM 39 H H6 RR9 . . . R 5 -118.561 53.233 -44.705 0 145.3 ? H6 RR9 1101 E 1 HETATM 40 H H7 RR9 . . . R 5 -119.742 53.965 -45.476 0 145.3 ? H7 RR9 1101 E 1 HETATM 41 H H5 RR9 . . . R 5 -118.462 54.788 -45.018 0 145.3 ? H5 RR9 1101 E 1 HETATM 42 H H8 RR9 . . . R 5 -116.182 52.119 -45.264 0 125.35 ? H8 RR9 1101 E 1 HETATM 43 H H13 RR9 . . . R 5 -111.677 58.142 -46.356 0 170.78 ? H13 RR9 1101 E 1 HETATM 44 H H14 RR9 . . . R 5 -110.613 59.486 -44.759 0 182.85 ? H14 RR9 1101 E 1 HETATM 45 H H15 RR9 . . . R 5 -108.906 60.824 -44.015 0 155.13 ? H15 RR9 1101 E 1 HETATM 46 H H16 RR9 . . . R 5 -107.797 62.049 -42.364 0 163.05 ? H16 RR9 1101 E 1 HETATM 47 H H17 RR9 . . . R 5 -106.774 60.913 -40.597 0 167.23 ? H17 RR9 1101 E 1 HETATM 48 H H18 RR9 . . . R 5 -106.896 58.608 -40.536 0 158.62 ? H18 RR9 1101 E 1 HETATM 49 H H21 RR9 . . . R 5 -113.629 59.629 -48.94 0 165.07 ? H21 RR9 1101 E 1 HETATM 50 H H22 RR9 . . . R 5 -114.822 60.667 -49.093 0 165.07 ? H22 RR9 1101 E 1 HETATM 51 H H25 RR9 . . . R 5 -117.413 58.623 -47.79 0 154.27 ? H25 RR9 1101 E 1 HETATM 52 H H24 RR9 . . . R 5 -117.031 60.118 -48.151 0 154.27 ? H24 RR9 1101 E 1 HETATM 53 H H27 RR9 . . . R 5 -118.555 59.283 -49.677 0 146.83 ? H27 RR9 1101 E 1 HETATM 54 H H28 RR9 . . . R 5 -117.548 58.116 -50.06 0 146.83 ? H28 RR9 1101 E 1 HETATM 55 H H26 RR9 . . . R 5 -117.187 59.622 -50.411 0 146.83 ? H26 RR9 1101 E 1 HETATM 56 H H20 RR9 . . . R 5 -115.213 58.848 -47.475 0 163.42 ? H20 RR9 1101 E 1 HETATM 57 H H10 RR9 . . . R 5 -111.423 56.233 -47.931 0 157.23 ? H10 RR9 1101 E 1 HETATM 58 H H11 RR9 . . . R 5 -110.409 55.079 -47.56 0 157.23 ? H11 RR9 1101 E 1 HETATM 59 H H9 RR9 . . . R 5 -111.996 54.238 -46.111 0 146.06 ? H9 RR9 1101 E 1 HETATM 60 H H12 RR9 . . . R 5 -109.066 55.299 -45.671 0 160.25 ? H12 RR9 1101 E 1 HETATM 61 H H19 RR9 . . . R 5 -115.24 57.338 -49.834 0 145.53 ? H19 RR9 1101 E 1 # _model_server_stats.io_time_ms 136 _model_server_stats.parse_time_ms 25 _model_server_stats.create_model_time_ms 83 _model_server_stats.query_time_ms 279 _model_server_stats.encode_time_ms 8 _model_server_stats.element_count 61 #