data_4R5Y
#
_model_server_result.job_id            Vlfr2qUWBR-s8ZtUrI4zOQ 
_model_server_result.datetime_utc      '2024-11-22 05:27:00' 
_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          4r5y 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":801}' 
#
_entry.id    4R5Y 
#
_exptl.entry_id    4R5Y 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              478.423 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            5-({(1R,1aS,6bR)-1-[5-(trifluoromethyl)-1H-benzimidazol-2-yl]-1a,6b-dihydro-1H-cyclopropa[b][1]benzofuran-5-yl}oxy)-3,4-dihydro-1,8-naphthyridin-2(1H)-one 
_entity.pdbx_number_of_molecules    2 
_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         90 
_cell.entry_id            4R5Y 
_cell.length_a            49.395 
_cell.length_b            101.601 
_cell.length_c            109.786 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 4R5Y 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        19 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 21 21 21' 
#
loop_
_pdbx_struct_assembly.method_details
_pdbx_struct_assembly.oligomeric_details
_pdbx_struct_assembly.oligomeric_count
_pdbx_struct_assembly.details
_pdbx_struct_assembly.id
PISA monomeric 1 author_and_software_defined_assembly 1 
PISA monomeric 1 author_and_software_defined_assembly 2 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,C 1 1 
B,D 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
? 2 C N N 
? 2 D N N 
#
_chem_comp.formula           'C25 H17 F3 N4 O3' 
_chem_comp.formula_weight    478.423 
_chem_comp.id                3K3 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              5-({(1R,1aS,6bR)-1-[5-(trifluoromethyl)-1H-benzimidazol-2-yl]-1a,6b-dihydro-1H-cyclopropa[b][1]benzofuran-5-yl}oxy)-3,4-dihydro-1,8-naphthyridin-2(1H)-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
F C19 3K3 sing 1 n n 
C17 C16 3K3 doub 2 n y 
C17 C18 3K3 sing 3 n y 
C16 C15 3K3 sing 4 n y 
C19 C18 3K3 sing 5 n n 
C19 F1 3K3 sing 6 n n 
C19 F2 3K3 sing 7 n n 
C18 C20 3K3 doub 8 n y 
C15 N 3K3 sing 9 n y 
C15 C21 3K3 doub 10 n y 
N C14 3K3 sing 11 n y 
C20 C21 3K3 sing 12 n y 
C21 N1 3K3 sing 13 n y 
C9 O2 3K3 sing 14 n n 
C9 C13 3K3 sing 15 n n 
C9 C10 3K3 sing 16 n n 
O2 C8 3K3 sing 17 n n 
C14 N1 3K3 doub 18 n y 
C14 C13 3K3 sing 19 n n 
C13 C10 3K3 sing 20 n n 
C10 C11 3K3 sing 21 n n 
C8 C7 3K3 doub 22 n y 
C8 C11 3K3 sing 23 n y 
C7 C6 3K3 sing 24 n y 
C11 C12 3K3 doub 25 n y 
C6 C5 3K3 doub 26 n y 
C12 C5 3K3 sing 27 n y 
C5 O1 3K3 sing 28 n n 
O1 C4 3K3 sing 29 n n 
C22 C4 3K3 doub 30 n y 
C22 C23 3K3 sing 31 n y 
C4 C3 3K3 sing 32 n y 
C23 N2 3K3 doub 33 n y 
C3 C2 3K3 sing 34 n n 
C3 C24 3K3 doub 35 n y 
N2 C24 3K3 sing 36 n y 
C2 C1 3K3 sing 37 n n 
C24 N3 3K3 sing 38 n n 
C1 C 3K3 sing 39 n n 
N3 C 3K3 sing 40 n n 
C O 3K3 doub 41 n n 
C17 H1 3K3 sing 42 n n 
C16 H2 3K3 sing 43 n n 
C20 H3 3K3 sing 44 n n 
N H4 3K3 sing 45 n n 
C13 H6 3K3 sing 46 n n 
C9 H7 3K3 sing 47 n n 
C10 H8 3K3 sing 48 n n 
C7 H9 3K3 sing 49 n n 
C6 H10 3K3 sing 50 n n 
C12 H11 3K3 sing 51 n n 
C22 H12 3K3 sing 52 n n 
C23 H13 3K3 sing 53 n n 
N3 H14 3K3 sing 54 n n 
C2 H15 3K3 sing 55 n n 
C2 H16 3K3 sing 56 n n 
C1 H17 3K3 sing 57 n n 
C1 H18 3K3 sing 58 n n 
#
_atom_sites.entry_id                     4R5Y 
_atom_sites.fract_transf_matrix[1][1]    0.020245 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.009842 
_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]    0.009109 
_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
C 2 3K3 A 1 801 1 3K3 DUM . 
D 2 3K3 B 1 801 1 3K3 DUM . 
#
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 F F2 3K3 . . . D 2 17.744 -12.948 -17.473 1 49.19 ? F2 3K3 801 B 1 
HETATM 2 C C19 3K3 . . . D 2 18.371 -12.274 -18.428 1 49.85 ? C19 3K3 801 B 1 
HETATM 3 F F 3K3 . . . D 2 17.809 -12.506 -19.607 1 49.9 ? F 3K3 801 B 1 
HETATM 4 F F1 3K3 . . . D 2 18.257 -10.983 -18.158 1 49.99 ? F1 3K3 801 B 1 
HETATM 5 C C18 3K3 . . . D 2 19.836 -12.654 -18.419 1 50.01 ? C18 3K3 801 B 1 
HETATM 6 C C17 3K3 . . . D 2 20.333 -13.765 -19.102 1 49.81 ? C17 3K3 801 B 1 
HETATM 7 C C16 3K3 . . . D 2 21.692 -14.068 -19.056 1 49.67 ? C16 3K3 801 B 1 
HETATM 8 C C20 3K3 . . . D 2 20.714 -11.849 -17.7 1 49.81 ? C20 3K3 801 B 1 
HETATM 9 C C21 3K3 . . . D 2 22.069 -12.151 -17.647 1 49.97 ? C21 3K3 801 B 1 
HETATM 10 C C15 3K3 . . . D 2 22.559 -13.258 -18.327 1 49.92 ? C15 3K3 801 B 1 
HETATM 11 N N 3K3 . . . D 2 23.897 -13.298 -18.102 1 50.52 ? N 3K3 801 B 1 
HETATM 12 N N1 3K3 . . . D 2 23.11 -11.555 -17.036 1 50.11 ? N1 3K3 801 B 1 
HETATM 13 C C14 3K3 . . . D 2 24.237 -12.251 -17.303 1 50.49 ? C14 3K3 801 B 1 
HETATM 14 C C13 3K3 . . . D 2 25.603 -11.895 -16.809 1 50.29 ? C13 3K3 801 B 1 
HETATM 15 C C9 3K3 . . . D 2 26.71 -12.55 -17.644 1 50.16 ? C9 3K3 801 B 1 
HETATM 16 O O2 3K3 . . . D 2 28.009 -11.947 -17.451 1 50 ? O2 3K3 801 B 1 
HETATM 17 C C10 3K3 . . . D 2 26.347 -13.111 -16.261 1 49.98 ? C10 3K3 801 B 1 
HETATM 18 C C11 3K3 . . . D 2 27.458 -12.649 -15.395 1 49.52 ? C11 3K3 801 B 1 
HETATM 19 C C8 3K3 . . . D 2 28.381 -11.978 -16.134 1 49.62 ? C8 3K3 801 B 1 
HETATM 20 C C7 3K3 . . . D 2 29.52 -11.435 -15.556 1 49.64 ? C7 3K3 801 B 1 
HETATM 21 C C6 3K3 . . . D 2 29.694 -11.591 -14.179 1 49.6 ? C6 3K3 801 B 1 
HETATM 22 C C12 3K3 . . . D 2 27.602 -12.8 -14.015 1 49.44 ? C12 3K3 801 B 1 
HETATM 23 C C5 3K3 . . . D 2 28.739 -12.257 -13.399 1 49.34 ? C5 3K3 801 B 1 
HETATM 24 O O1 3K3 . . . D 2 28.939 -12.401 -12.041 1 48.93 ? O1 3K3 801 B 1 
HETATM 25 C C4 3K3 . . . D 2 28.808 -11.353 -11.159 1 48.75 ? C4 3K3 801 B 1 
HETATM 26 C C22 3K3 . . . D 2 28.486 -10.09 -11.633 1 48.67 ? C22 3K3 801 B 1 
HETATM 27 C C23 3K3 . . . D 2 28.346 -9.035 -10.744 1 48.81 ? C23 3K3 801 B 1 
HETATM 28 N N2 3K3 . . . D 2 28.508 -9.228 -9.429 1 49.05 ? N2 3K3 801 B 1 
HETATM 29 C C24 3K3 . . . D 2 28.809 -10.447 -8.929 1 49.16 ? C24 3K3 801 B 1 
HETATM 30 N N3 3K3 . . . D 2 28.955 -10.577 -7.59 1 48.58 ? N3 3K3 801 B 1 
HETATM 31 C C 3K3 . . . D 2 29.623 -11.584 -7.036 1 48.63 ? C 3K3 801 B 1 
HETATM 32 O O 3K3 . . . D 2 29.84 -11.623 -5.835 1 48.5 ? O 3K3 801 B 1 
HETATM 33 C C3 3K3 . . . D 2 28.969 -11.527 -9.787 1 49.02 ? C3 3K3 801 B 1 
HETATM 34 C C2 3K3 . . . D 2 29.302 -12.878 -9.201 1 49.31 ? C2 3K3 801 B 1 
HETATM 35 C C1 3K3 . . . D 2 30.122 -12.705 -7.925 1 48.73 ? C1 3K3 801 B 1 
#
_model_server_stats.io_time_ms              6 
_model_server_stats.parse_time_ms           6 
_model_server_stats.create_model_time_ms    18 
_model_server_stats.query_time_ms           249 
_model_server_stats.encode_time_ms          1 
_model_server_stats.element_count           35 
#