data_1RD4
#
_model_server_result.job_id            Gnav3KqC1C2ko8uJA7lyjw 
_model_server_result.datetime_utc      '2025-02-05 16:01:02' 
_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          1rd4 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"E","auth_seq_id":328}' 
#
_entry.id    1RD4 
#
_exptl.entry_id    1RD4 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              478.563 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            1-ACETYL-4-(4-{4-[(2-ETHOXYPHENYL)THIO]-3-NITROPHENYL}PYRIDIN-2-YL)PIPERAZINE 
_entity.pdbx_number_of_molecules    4 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         74.21 
_cell.angle_beta          90 
_cell.angle_gamma         87.26 
_cell.entry_id            1RD4 
_cell.length_a            45.96 
_cell.length_b            64.41 
_cell.length_c            66.21 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 1RD4 
_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
? monomeric 1 author_defined_assembly 1 
? monomeric 1 author_defined_assembly 2 
? monomeric 1 author_defined_assembly 3 
? monomeric 1 author_defined_assembly 4 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,E 1 1 
B,F 2 1 
C,G 3 1 
D,H 4 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
? 2 E N N 
? 2 F N N 
? 2 G N N 
? 2 H N N 
#
_chem_comp.formula           'C25 H26 N4 O4 S' 
_chem_comp.formula_weight    478.563 
_chem_comp.id                L08 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              1-ACETYL-4-(4-{4-[(2-ETHOXYPHENYL)THIO]-3-NITROPHENYL}PYRIDIN-2-YL)PIPERAZINE 
_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
O4 N3 L08 doub 171 n n 
N3 C11 L08 sing 172 n n 
N3 O3 L08 sing 173 n n 
C11 C10 L08 doub 174 n y 
C11 C12 L08 sing 175 n y 
C10 C15 L08 sing 176 n y 
C10 S1 L08 sing 177 n n 
C15 C14 L08 doub 178 n y 
C15 H15 L08 sing 179 n n 
C14 C13 L08 sing 180 n y 
C14 H14 L08 sing 181 n n 
C13 C12 L08 doub 182 n y 
C13 C16 L08 sing 183 n y 
C12 H12 L08 sing 184 n n 
C16 C8 L08 doub 185 n y 
C16 C17 L08 sing 186 n y 
C8 C35 L08 sing 187 n y 
C8 H8 L08 sing 188 n n 
C35 N20 L08 doub 189 n y 
C35 H35 L08 sing 190 n n 
N20 C18 L08 sing 191 n y 
C18 N1 L08 sing 192 n n 
C18 C17 L08 doub 193 n y 
N1 C19 L08 sing 194 n n 
N1 C22 L08 sing 195 n n 
C19 C20 L08 sing 196 n n 
C19 H191 L08 sing 197 n n 
C19 H192 L08 sing 198 n n 
C20 N2 L08 sing 199 n n 
C20 H201 L08 sing 200 n n 
C20 H202 L08 sing 201 n n 
N2 C21 L08 sing 202 n n 
N2 C23 L08 sing 203 n n 
C21 C22 L08 sing 204 n n 
C21 H211 L08 sing 205 n n 
C21 H212 L08 sing 206 n n 
C22 H221 L08 sing 207 n n 
C22 H222 L08 sing 208 n n 
C23 O2 L08 doub 209 n n 
C23 C24 L08 sing 210 n n 
C24 H241 L08 sing 211 n n 
C24 H242 L08 sing 212 n n 
C24 H243 L08 sing 213 n n 
C17 H17 L08 sing 214 n n 
S1 C1 L08 sing 215 n n 
C1 C2 L08 doub 216 n y 
C1 C6 L08 sing 217 n y 
C2 C3 L08 sing 218 n y 
C2 O7 L08 sing 219 n n 
C3 C4 L08 doub 220 n y 
C3 H3 L08 sing 221 n n 
C4 C5 L08 sing 222 n y 
C4 H4 L08 sing 223 n n 
C5 C6 L08 doub 224 n y 
C5 H5 L08 sing 225 n n 
C6 H6 L08 sing 226 n n 
O7 C9 L08 sing 227 n n 
C9 C33 L08 sing 228 n n 
C9 H91 L08 sing 229 n n 
C9 H92 L08 sing 230 n n 
C33 H331 L08 sing 231 n n 
C33 H332 L08 sing 232 n n 
C33 H333 L08 sing 233 n n 
#
_atom_sites.entry_id                     1RD4 
_atom_sites.fract_transf_matrix[1][1]    0.021758 
_atom_sites.fract_transf_matrix[1][2]    -0.001041 
_atom_sites.fract_transf_matrix[1][3]    0.000295 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.015543 
_atom_sites.fract_transf_matrix[2][3]    -0.004401 
_atom_sites.fract_transf_matrix[3][1]    0 
_atom_sites.fract_transf_matrix[3][2]    0 
_atom_sites.fract_transf_matrix[3][3]    0.015697 
_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
E 2 L08 A 1 328 328 L08 L08 . 
F 2 L08 B 1 1328 328 L08 L08 . 
G 2 L08 C 1 2328 328 L08 L08 . 
H 2 L08 D 1 3328 328 L08 L08 . 
#
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 O O4 L08 . . . E 2 1.29 -2.597 -7.052 1 28.62 ? O4 L08 328 A 1 
HETATM 2 N N3 L08 . . . E 2 2.156 -3.381 -6.693 1 24.5 ? N3 L08 328 A 1 
HETATM 3 C C11 L08 . . . E 2 2.049 -4.793 -6.919 1 22.14 ? C11 L08 328 A 1 
HETATM 4 C C10 L08 . . . E 2 3.229 -5.687 -6.861 1 23.43 ? C10 L08 328 A 1 
HETATM 5 C C15 L08 . . . E 2 3.029 -7.14 -7.106 1 22.25 ? C15 L08 328 A 1 
HETATM 6 C C14 L08 . . . E 2 1.744 -7.697 -7.392 1 21.38 ? C14 L08 328 A 1 
HETATM 7 C C13 L08 . . . E 2 0.542 -6.851 -7.462 1 19.58 ? C13 L08 328 A 1 
HETATM 8 C C12 L08 . . . E 2 0.708 -5.424 -7.226 1 19.56 ? C12 L08 328 A 1 
HETATM 9 C C16 L08 . . . E 2 -0.809 -7.493 -7.763 1 19.89 ? C16 L08 328 A 1 
HETATM 10 C C8 L08 . . . E 2 -1.887 -6.801 -8.473 1 19.43 ? C8 L08 328 A 1 
HETATM 11 C C35 L08 . . . E 2 -3.112 -7.534 -8.679 1 20.59 ? C35 L08 328 A 1 
HETATM 12 N N20 L08 . . . E 2 -3.281 -8.894 -8.206 1 23.71 ? N20 L08 328 A 1 
HETATM 13 C C18 L08 . . . E 2 -2.355 -9.552 -7.57 1 25.02 ? C18 L08 328 A 1 
HETATM 14 N N1 L08 . . . E 2 -2.52 -10.903 -7.087 1 29.53 ? N1 L08 328 A 1 
HETATM 15 C C19 L08 . . . E 2 -3.302 -10.987 -5.864 1 32.03 ? C19 L08 328 A 1 
HETATM 16 C C20 L08 . . . E 2 -4.414 -11.963 -6.092 1 31.66 ? C20 L08 328 A 1 
HETATM 17 N N2 L08 . . . E 2 -3.849 -13.246 -6.662 1 31.42 ? N2 L08 328 A 1 
HETATM 18 C C21 L08 . . . E 2 -3.062 -13.109 -7.965 1 31.58 ? C21 L08 328 A 1 
HETATM 19 C C22 L08 . . . E 2 -1.899 -12.036 -7.794 1 29.81 ? C22 L08 328 A 1 
HETATM 20 C C23 L08 . . . E 2 -4.897 -14.193 -6.872 1 31.2 ? C23 L08 328 A 1 
HETATM 21 O O2 L08 . . . E 2 -4.89 -15.321 -6.292 1 33.67 ? O2 L08 328 A 1 
HETATM 22 C C24 L08 . . . E 2 -6.083 -13.861 -7.806 1 32.42 ? C24 L08 328 A 1 
HETATM 23 C C17 L08 . . . E 2 -1.019 -8.855 -7.307 1 21.98 ? C17 L08 328 A 1 
HETATM 24 S S1 L08 . . . E 2 4.869 -4.979 -6.493 1 23.62 ? S1 L08 328 A 1 
HETATM 25 C C1 L08 . . . E 2 5.77 -6.298 -5.788 1 25.11 ? C1 L08 328 A 1 
HETATM 26 C C2 L08 . . . E 2 6.444 -7.273 -6.697 1 25.3 ? C2 L08 328 A 1 
HETATM 27 C C3 L08 . . . E 2 7.21 -8.394 -6.069 1 27.26 ? C3 L08 328 A 1 
HETATM 28 C C4 L08 . . . E 2 7.268 -8.494 -4.578 1 28.95 ? C4 L08 328 A 1 
HETATM 29 C C5 L08 . . . E 2 6.573 -7.495 -3.713 1 27.97 ? C5 L08 328 A 1 
HETATM 30 C C6 L08 . . . E 2 5.832 -6.407 -4.318 1 25.74 ? C6 L08 328 A 1 
HETATM 31 O O7 L08 . . . E 2 6.307 -7.069 -8.149 1 23.34 ? O7 L08 328 A 1 
HETATM 32 C C9 L08 . . . E 2 6.369 -8.212 -9.106 1 22.47 ? C9 L08 328 A 1 
HETATM 33 C C33 L08 . . . E 2 5.806 -7.728 -10.47 1 22.79 ? C33 L08 328 A 1 
HETATM 34 O O3 L08 . . . E 2 3.116 -2.829 -6.113 1 27.01 ? O3 L08 328 A 1 
#
_model_server_stats.io_time_ms              6 
_model_server_stats.parse_time_ms           5 
_model_server_stats.create_model_time_ms    8 
_model_server_stats.query_time_ms           241 
_model_server_stats.encode_time_ms          1 
_model_server_stats.element_count           34 
#