data_3JY0
#
_model_server_result.job_id            kfN6O-_lmQJm12H5PcaWlA 
_model_server_result.datetime_utc      '2025-06-22 02:36:08' 
_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          3jy0 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"B","auth_seq_id":1000}' 
#
_entry.id    3JY0 
#
_exptl.entry_id    3JY0 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              335.809 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            8-chloro-2-{[(3S)-3-hydroxypyrrolidin-1-yl]methyl}[1]benzothieno[3,2-d]pyrimidin-4(3H)-one 
_entity.pdbx_number_of_molecules    1 
_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            3JY0 
_cell.length_a            98.286 
_cell.length_b            98.286 
_cell.length_c            80.58 
_cell.Z_PDB               6 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3JY0 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        170 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 65' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    monomeric 
_pdbx_struct_assembly.oligomeric_count      1 
_pdbx_struct_assembly.details               author_and_software_defined_assembly 
_pdbx_struct_assembly.id                    1 
#
_pdbx_struct_assembly_gen.asym_id_list       A,B 
_pdbx_struct_assembly_gen.assembly_id        1 
_pdbx_struct_assembly_gen.oper_expression    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 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      2 
_struct_asym.id                             B 
_struct_asym.pdbx_modified                  N 
_struct_asym.pdbx_blank_PDB_chainid_flag    N 
#
_chem_comp.formula           'C15 H14 Cl N3 O2 S' 
_chem_comp.formula_weight    335.809 
_chem_comp.id                LYG 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              8-chloro-2-{[(3S)-3-hydroxypyrrolidin-1-yl]methyl}[1]benzothieno[3,2-d]pyrimidin-4(3H)-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
C15 C1 LYG sing 192 n n 
O1 C1 LYG sing 193 n n 
C1 C2 LYG sing 194 n n 
C1 H1 LYG sing 195 n n 
C4 N1 LYG sing 196 n n 
C15 N1 LYG sing 197 n n 
N1 C3 LYG sing 198 n n 
O1 HO1 LYG sing 199 n n 
S1 C12 LYG sing 200 n y 
S1 C13 LYG sing 201 n y 
C9 CL1 LYG sing 202 n n 
C3 C2 LYG sing 203 n n 
C2 H2 LYG sing 204 n n 
C2 H2A LYG sing 205 n n 
C6 N2 LYG sing 206 n n 
C5 N2 LYG doub 207 n n 
O2 C14 LYG doub 208 n n 
C3 H3 LYG sing 209 n n 
C3 H3A LYG sing 210 n n 
C14 N3 LYG sing 211 n n 
N3 C5 LYG sing 212 n n 
N3 HN3 LYG sing 213 n n 
C5 C4 LYG sing 214 n n 
C4 H4 LYG sing 215 n n 
C4 H4A LYG sing 216 n n 
C13 C6 LYG doub 217 n y 
C7 C6 LYG sing 218 n y 
C12 C7 LYG sing 219 n y 
C7 C8 LYG doub 220 n y 
C9 C8 LYG sing 221 n y 
C8 H8 LYG sing 222 n n 
C10 C9 LYG doub 223 n y 
C11 C10 LYG sing 224 n y 
C10 H10 LYG sing 225 n n 
C11 C12 LYG doub 226 n y 
C11 H11 LYG sing 227 n n 
C14 C13 LYG sing 228 n n 
C15 H15 LYG sing 229 n n 
C15 H15A LYG sing 230 n n 
#
_atom_sites.entry_id                     3JY0 
_atom_sites.fract_transf_matrix[1][1]    0.010174 
_atom_sites.fract_transf_matrix[1][2]    0.005874 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.011748 
_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]    0.01241 
_atom_sites.fract_transf_vector[1]       0 
_atom_sites.fract_transf_vector[2]       0 
_atom_sites.fract_transf_vector[3]       0 
#
_pdbx_nonpoly_scheme.asym_id          B 
_pdbx_nonpoly_scheme.entity_id        2 
_pdbx_nonpoly_scheme.mon_id           LYG 
_pdbx_nonpoly_scheme.pdb_strand_id    A 
_pdbx_nonpoly_scheme.ndb_seq_num      1 
_pdbx_nonpoly_scheme.pdb_seq_num      1000 
_pdbx_nonpoly_scheme.auth_seq_num     1000 
_pdbx_nonpoly_scheme.pdb_mon_id       LYG 
_pdbx_nonpoly_scheme.auth_mon_id      LYG 
_pdbx_nonpoly_scheme.pdb_ins_code     . 
#
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 LYG . . . B 2 -37.613 -5.447 4.208 1 32.11 ? C1 LYG 1000 A 1 
HETATM 2 N N1 LYG . . . B 2 -37.647 -3.583 2.995 1 37.87 ? N1 LYG 1000 A 1 
HETATM 3 O O1 LYG . . . B 2 -36.563 -6.288 3.783 1 31.57 ? O1 LYG 1000 A 1 
HETATM 4 S S1 LYG . . . B 2 -41.338 -2.926 -2.607 1 25.8 ? S1 LYG 1000 A 1 
HETATM 5 CL CL1 LYG . . . B 2 -45.676 -1.086 1.096 1 36.44 ? CL1 LYG 1000 A 1 
HETATM 6 C C2 LYG . . . B 2 -36.833 -4.293 4.873 1 31.77 ? C2 LYG 1000 A 1 
HETATM 7 N N2 LYG . . . B 2 -40.157 -2.354 1.021 1 25.64 ? N2 LYG 1000 A 1 
HETATM 8 O O2 LYG . . . B 2 -38.256 -3.608 -2.387 1 23.11 ? O2 LYG 1000 A 1 
HETATM 9 C C3 LYG . . . B 2 -36.268 -3.587 3.62 1 33.41 ? C3 LYG 1000 A 1 
HETATM 10 N N3 LYG . . . B 2 -38.225 -3.117 -0.174 1 22.59 ? N3 LYG 1000 A 1 
HETATM 11 C C4 LYG . . . B 2 -38.007 -2.505 2.084 1 27.53 ? C4 LYG 1000 A 1 
HETATM 12 C C5 LYG . . . B 2 -38.901 -2.668 0.924 1 26.2 ? C5 LYG 1000 A 1 
HETATM 13 C C6 LYG . . . B 2 -40.856 -2.483 -0.179 1 22.26 ? C6 LYG 1000 A 1 
HETATM 14 C C7 LYG . . . B 2 -42.242 -2.191 -0.37 1 21.91 ? C7 LYG 1000 A 1 
HETATM 15 C C8 LYG . . . B 2 -43.168 -1.747 0.527 1 24.31 ? C8 LYG 1000 A 1 
HETATM 16 C C9 LYG . . . B 2 -44.439 -1.593 0.004 1 29.47 ? C9 LYG 1000 A 1 
HETATM 17 C C10 LYG . . . B 2 -44.833 -1.833 -1.286 1 24.37 ? C10 LYG 1000 A 1 
HETATM 18 C C11 LYG . . . B 2 -43.908 -2.252 -2.209 1 21.77 ? C11 LYG 1000 A 1 
HETATM 19 C C12 LYG . . . B 2 -42.666 -2.416 -1.679 1 20.02 ? C12 LYG 1000 A 1 
HETATM 20 C C13 LYG . . . B 2 -40.213 -2.895 -1.307 1 21.97 ? C13 LYG 1000 A 1 
HETATM 21 C C14 LYG . . . B 2 -38.843 -3.253 -1.382 1 22.84 ? C14 LYG 1000 A 1 
HETATM 22 C C15 LYG . . . B 2 -38.19 -4.965 2.872 1 33.57 ? C15 LYG 1000 A 1 
#
_model_server_stats.io_time_ms              23 
_model_server_stats.parse_time_ms           26 
_model_server_stats.create_model_time_ms    12 
_model_server_stats.query_time_ms           1328 
_model_server_stats.encode_time_ms          8 
_model_server_stats.element_count           22 
#