data_8GNG
#
_model_server_result.job_id            QfapWuLLLU6YCzCXctX-CQ 
_model_server_result.datetime_utc      '2024-12-04 08:17:45' 
_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          8gng 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"Q","auth_seq_id":402}' 
#
_entry.id    8GNG 
#
_exptl.entry_id    8GNG 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              384.429 
_entity.id                          4 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            8-[(~{E})-2-(3,4-dimethoxyphenyl)ethenyl]-1,3-diethyl-7-methyl-purine-2,6-dione 
_entity.pdbx_number_of_molecules    2 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         97.72 
_cell.angle_beta          91.44 
_cell.angle_gamma         89.38 
_cell.entry_id            8GNG 
_cell.length_a            74.59 
_cell.length_b            134.84 
_cell.length_c            42.15 
_cell.Z_PDB               2 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 8GNG 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        1 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 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 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,B,C,G,H,I,J,K,L,M,N,O,W 1 1 
D,E,F,P,Q,R,S,T,U,V 2 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
? 4 G N N 
? 4 Q 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 78 A CYS 71 1_555 A SG CYS 166 A CYS 159 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.018 ? 
disulf ? disulf2 A SG CYS 81 A CYS 74 1_555 A SG CYS 153 A CYS 146 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.083 ? 
disulf ? disulf3 A SG CYS 84 A CYS 77 1_555 A SG CYS 173 A CYS 166 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.005 ? 
disulf ? disulf4 A SG CYS 266 A CYS 259 1_555 A SG CYS 269 A CYS 262 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.068 ? 
disulf ? disulf5 B SG CYS 23 L CYS 23 1_555 B SG CYS 88 L CYS 88 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.073 ? 
disulf ? disulf6 B SG CYS 134 L CYS 134 1_555 B SG CYS 194 L CYS 194 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.007 ? 
disulf ? disulf7 C SG CYS 22 H CYS 22 1_555 C SG CYS 96 H CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.081 ? 
disulf ? disulf8 C SG CYS 151 H CYS 151 1_555 C SG CYS 206 H CYS 206 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? 
disulf ? disulf9 D SG CYS 78 X CYS 71 1_555 D SG CYS 166 X CYS 159 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.08 ? 
disulf ? disulf10 D SG CYS 81 X CYS 74 1_555 D SG CYS 153 X CYS 146 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.067 ? 
disulf ? disulf11 D SG CYS 84 X CYS 77 1_555 D SG CYS 173 X CYS 166 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.047 ? 
disulf ? disulf12 D SG CYS 266 X CYS 259 1_555 D SG CYS 269 X CYS 262 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.051 ? 
disulf ? disulf13 E SG CYS 23 Y CYS 23 1_555 E SG CYS 88 Y CYS 88 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.094 ? 
disulf ? disulf14 E SG CYS 134 Y CYS 134 1_555 E SG CYS 194 Y CYS 194 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.992 ? 
disulf ? disulf15 F SG CYS 22 Z CYS 22 1_555 F SG CYS 96 Z CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.09 ? 
disulf ? disulf16 F SG CYS 151 Z CYS 151 1_555 F SG CYS 206 Z CYS 206 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.997 ? 
metalc ? metalc1 B OD1 ASP 56 L ASP 56 1_555 O K K . L K 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.203 ? 
metalc ? metalc2 E OD1 ASP 56 Y ASP 56 1_555 V K K . Y K 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.875 ? 
#
_chem_comp.formula           'C20 H24 N4 O4' 
_chem_comp.formula_weight    384.429 
_chem_comp.id                JQ9 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              8-[(~{E})-2-(3,4-dimethoxyphenyl)ethenyl]-1,3-diethyl-7-methyl-purine-2,6-dione 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     istradefylline 
#
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
C22 C21 JQ9 sing 173 n n 
C12 C11 JQ9 sing 174 n n 
O2 C2 JQ9 doub 175 n n 
C21 N3 JQ9 sing 176 n n 
C2 N3 JQ9 sing 177 n n 
C2 N1 JQ9 sing 178 n n 
C11 N1 JQ9 sing 179 n n 
N3 C4 JQ9 sing 180 n n 
N1 C6 JQ9 sing 181 n n 
C4 N9 JQ9 sing 182 n y 
C4 C5 JQ9 doub 183 n y 
C6 C5 JQ9 sing 184 n n 
C6 O6 JQ9 doub 185 n n 
N9 C8 JQ9 doub 186 n y 
C5 N7 JQ9 sing 187 n y 
C8 N7 JQ9 sing 188 n y 
C8 CA JQ9 sing 189 n n 
N7 C7 JQ9 sing 190 n n 
CB CA JQ9 doub 191 e n 
CB C1' JQ9 sing 192 n n 
C2' C1' JQ9 doub 193 n y 
C2' C3' JQ9 sing 194 n y 
C9' O3' JQ9 sing 195 n n 
C1' C6' JQ9 sing 196 n y 
O3' C3' JQ9 sing 197 n n 
C3' C4' JQ9 doub 198 n y 
C6' C5' JQ9 doub 199 n y 
C4' C5' JQ9 sing 200 n y 
C4' O4' JQ9 sing 201 n n 
O4' C8' JQ9 sing 202 n n 
C12 H1 JQ9 sing 203 n n 
C12 H2 JQ9 sing 204 n n 
C12 H3 JQ9 sing 205 n n 
C21 H4 JQ9 sing 206 n n 
C21 H5 JQ9 sing 207 n n 
C22 H6 JQ9 sing 208 n n 
C22 H7 JQ9 sing 209 n n 
C22 H8 JQ9 sing 210 n n 
C7 H9 JQ9 sing 211 n n 
C7 H10 JQ9 sing 212 n n 
C7 H11 JQ9 sing 213 n n 
C11 H12 JQ9 sing 214 n n 
C11 H13 JQ9 sing 215 n n 
CA H14 JQ9 sing 216 n n 
CB H15 JQ9 sing 217 n n 
C6' H16 JQ9 sing 218 n n 
C5' H17 JQ9 sing 219 n n 
C8' H18 JQ9 sing 220 n n 
C8' H19 JQ9 sing 221 n n 
C8' H20 JQ9 sing 222 n n 
C2' H21 JQ9 sing 223 n n 
C9' H22 JQ9 sing 224 n n 
C9' H23 JQ9 sing 225 n n 
C9' H24 JQ9 sing 226 n n 
#
_atom_sites.entry_id                     8GNG 
_atom_sites.fract_transf_matrix[1][1]    0.013407 
_atom_sites.fract_transf_matrix[1][2]    -0.000144 
_atom_sites.fract_transf_matrix[1][3]    0.000321 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.007417 
_atom_sites.fract_transf_matrix[2][3]    0.001003 
_atom_sites.fract_transf_matrix[3][1]    0 
_atom_sites.fract_transf_matrix[3][2]    0 
_atom_sites.fract_transf_matrix[3][3]    0.023948 
_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
G 4 JQ9 A 1 401 401 JQ9 KW2 . 
H 5 OLC A 1 402 402 OLC OLC . 
I 5 OLC A 1 403 403 OLC OLC . 
J 5 OLC A 1 404 404 OLC OLC . 
K 5 OLC A 1 405 406 OLC OLC . 
L 6 CL A 1 406 409 CL CL . 
M 5 OLC A 1 407 402 OLC OLC . 
N 5 OLC A 1 408 405 OLC OLC . 
O 7 K L 1 301 407 K K . 
P 5 OLC X 1 401 405 OLC OLC . 
Q 4 JQ9 X 1 402 401 JQ9 KW2 . 
R 5 OLC X 1 403 403 OLC OLC . 
S 5 OLC X 1 404 404 OLC OLC . 
T 5 OLC X 1 405 406 OLC OLC . 
U 6 CL X 1 406 410 CL CL . 
V 7 K Y 1 301 408 K K . 
W 8 HOH A 1 501 1 HOH HOH . 
W 8 HOH A 2 502 2 HOH HOH . 
W 8 HOH A 3 503 3 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 N N1 JQ9 . . . Q 4 -21.943 66.572 8.017 1 59.37 ? N1 JQ9 402 X 1 
HETATM 2 C C12 JQ9 . . . Q 4 -20.167 67.908 6.753 1 56.74 ? C12 JQ9 402 X 1 
HETATM 3 O O2 JQ9 . . . Q 4 -23.254 67.848 6.604 1 59.1 ? O2 JQ9 402 X 1 
HETATM 4 C C2 JQ9 . . . Q 4 -23.138 66.782 7.25 1 60.31 ? C2 JQ9 402 X 1 
HETATM 5 N N3 JQ9 . . . Q 4 -24.147 65.743 7.262 1 62.3 ? N3 JQ9 402 X 1 
HETATM 6 C C21 JQ9 . . . Q 4 -25.453 65.835 6.531 1 63.41 ? C21 JQ9 402 X 1 
HETATM 7 C C22 JQ9 . . . Q 4 -25.407 65.933 4.999 1 63.47 ? C22 JQ9 402 X 1 
HETATM 8 C C4 JQ9 . . . Q 4 -23.908 64.61 8.029 1 63.01 ? C4 JQ9 402 X 1 
HETATM 9 N N9 JQ9 . . . Q 4 -24.763 63.552 8.156 1 64.75 ? N9 JQ9 402 X 1 
HETATM 10 C C8 JQ9 . . . Q 4 -24.117 62.714 8.957 1 65.42 ? C8 JQ9 402 X 1 
HETATM 11 N N7 JQ9 . . . Q 4 -22.869 63.201 9.356 1 63.87 ? N7 JQ9 402 X 1 
HETATM 12 C C7 JQ9 . . . Q 4 -21.889 62.564 10.235 1 63.87 ? C7 JQ9 402 X 1 
HETATM 13 C C5 JQ9 . . . Q 4 -22.739 64.44 8.748 1 62.36 ? C5 JQ9 402 X 1 
HETATM 14 C C6 JQ9 . . . Q 4 -21.679 65.416 8.795 1 60.49 ? C6 JQ9 402 X 1 
HETATM 15 O O6 JQ9 . . . Q 4 -20.643 65.235 9.454 1 60.05 ? O6 JQ9 402 X 1 
HETATM 16 C C11 JQ9 . . . Q 4 -20.921 67.639 8.039 1 57.62 ? C11 JQ9 402 X 1 
HETATM 17 C CA JQ9 . . . Q 4 -24.522 61.451 9.394 1 67.43 ? CA JQ9 402 X 1 
HETATM 18 C CB JQ9 . . . Q 4 -25.803 61.092 9.473 1 69.43 ? CB JQ9 402 X 1 
HETATM 19 C C1' JQ9 . . . Q 4 -26.04 59.738 9.948 1 71.87 ? C1' JQ9 402 X 1 
HETATM 20 C C6' JQ9 . . . Q 4 -25.127 59.091 10.821 1 72.13 ? C6' JQ9 402 X 1 
HETATM 21 C C5' JQ9 . . . Q 4 -25.342 57.787 11.268 1 73.9 ? C5' JQ9 402 X 1 
HETATM 22 C C4' JQ9 . . . Q 4 -26.474 57.086 10.856 1 75.71 ? C4' JQ9 402 X 1 
HETATM 23 O O4' JQ9 . . . Q 4 -26.698 55.788 11.303 1 77.59 ? O4' JQ9 402 X 1 
HETATM 24 C C8' JQ9 . . . Q 4 -26.284 55.356 12.607 1 77.7 ? C8' JQ9 402 X 1 
HETATM 25 C C3' JQ9 . . . Q 4 -27.4 57.738 9.948 1 75.63 ? C3' JQ9 402 X 1 
HETATM 26 C C2' JQ9 . . . Q 4 -27.17 59.06 9.508 1 73.73 ? C2' JQ9 402 X 1 
HETATM 27 O O3' JQ9 . . . Q 4 -28.503 57.023 9.527 1 77.82 ? O3' JQ9 402 X 1 
HETATM 28 C C9' JQ9 . . . Q 4 -29.488 57.608 8.653 1 78.19 ? C9' JQ9 402 X 1 
#
_model_server_stats.io_time_ms              27 
_model_server_stats.parse_time_ms           200 
_model_server_stats.create_model_time_ms    107 
_model_server_stats.query_time_ms           281 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           28 
#