data_8BUH
#
_model_server_result.job_id            xke78OqiXbtI1htUN02oEw 
_model_server_result.datetime_utc      '2024-11-07 00:46:47' 
_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":"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              135 
_model_server_stats.parse_time_ms           27 
_model_server_stats.create_model_time_ms    75 
_model_server_stats.query_time_ms           325 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           61 
#