data_5I9I
#
_model_server_result.job_id            s4koD0esMSImSqzYpilrfw 
_model_server_result.datetime_utc      '2024-10-28 02:21:32' 
_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          5i9i 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":501}' 
#
_entry.id    5I9I 
#
_exptl.entry_id    5I9I 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              666.771 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "N-[2-(diethylamino)ethyl]-2-{2-[(4-fluorobenzyl)sulfanyl]-4-oxo-4,5,6,7-tetrahydro-1H-cyclopenta[d]pyrimidin-1-yl}-N-{[ 4'-(trifluoromethyl)biphenyl-4-yl]methyl}acetamide" 
_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          115.5 
_cell.angle_gamma         90 
_cell.entry_id            5I9I 
_cell.length_a            115.9 
_cell.length_b            82.41 
_cell.length_c            96.47 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5I9I 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        5 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'C 1 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
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,G 1 1 
B,D,E,F,H 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           'C36 H38 F4 N4 O2 S' 
_chem_comp.formula_weight    666.771 
_chem_comp.id                5HV 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              "N-[2-(diethylamino)ethyl]-2-{2-[(4-fluorobenzyl)sulfanyl]-4-oxo-4,5,6,7-tetrahydro-1H-cyclopenta[d]pyrimidin-1-yl}-N-{[ 4'-(trifluoromethyl)biphenyl-4-yl]methyl}acetamide" 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     Darapladib 
#
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
O68 C67 5HV doub 1 n n 
C63 C60 5HV sing 2 n n 
C63 C66 5HV sing 3 n n 
C60 C57 5HV sing 4 n n 
C67 C66 5HV sing 5 n n 
C67 N69 5HV sing 6 n n 
C66 C56 5HV doub 7 n n 
C57 C56 5HV sing 8 n n 
C56 N55 5HV sing 9 n n 
N69 C70 5HV doub 10 n n 
N55 C70 5HV sing 11 n n 
N55 C52 5HV sing 12 n n 
C70 S71 5HV sing 13 n n 
C12 C09 5HV sing 14 n n 
O51 C50 5HV doub 15 n n 
C72 S71 5HV sing 16 n n 
C72 C75 5HV sing 17 n n 
C52 C50 5HV sing 18 n n 
C50 N22 5HV sing 19 n n 
C09 N08 5HV sing 20 n n 
C75 C84 5HV doub 21 n y 
C75 C76 5HV sing 22 n y 
C84 C82 5HV sing 23 n y 
C16 N08 5HV sing 24 n n 
C16 C19 5HV sing 25 n n 
N22 C19 5HV sing 26 n n 
N22 C23 5HV sing 27 n n 
N08 C05 5HV sing 28 n n 
C76 C78 5HV doub 29 n y 
C82 C80 5HV doub 30 n y 
C05 C01 5HV sing 31 n n 
C23 C26 5HV sing 32 n n 
C78 C80 5HV sing 33 n y 
C80 F81 5HV sing 34 n n 
C34 C26 5HV doub 35 n y 
C34 C32 5HV sing 36 n y 
C26 C27 5HV sing 37 n y 
C32 C31 5HV doub 38 n y 
C27 C29 5HV doub 39 n y 
C31 C29 5HV sing 40 n y 
C31 C36 5HV sing 41 n n 
C44 C36 5HV doub 42 n y 
C44 C42 5HV sing 43 n y 
C36 C37 5HV sing 44 n y 
C42 C41 5HV doub 45 n y 
C37 C39 5HV doub 46 n y 
C41 C39 5HV sing 47 n y 
C41 C46 5HV sing 48 n n 
F48 C46 5HV sing 49 n n 
C46 F47 5HV sing 50 n n 
C46 F49 5HV sing 51 n n 
C01 H1 5HV sing 52 n n 
C01 H2 5HV sing 53 n n 
C01 H3 5HV sing 54 n n 
C05 H4 5HV sing 55 n n 
C05 H5 5HV sing 56 n n 
C09 H7 5HV sing 57 n n 
C09 H8 5HV sing 58 n n 
C12 H9 5HV sing 59 n n 
C12 H10 5HV sing 60 n n 
C12 H11 5HV sing 61 n n 
C16 H12 5HV sing 62 n n 
C16 H13 5HV sing 63 n n 
C19 H14 5HV sing 64 n n 
C19 H15 5HV sing 65 n n 
C23 H16 5HV sing 66 n n 
C23 H17 5HV sing 67 n n 
C27 H18 5HV sing 68 n n 
C29 H19 5HV sing 69 n n 
C32 H20 5HV sing 70 n n 
C34 H21 5HV sing 71 n n 
C37 H22 5HV sing 72 n n 
C39 H23 5HV sing 73 n n 
C42 H24 5HV sing 74 n n 
C44 H25 5HV sing 75 n n 
C52 H26 5HV sing 76 n n 
C52 H27 5HV sing 77 n n 
C57 H28 5HV sing 78 n n 
C57 H29 5HV sing 79 n n 
C60 H30 5HV sing 80 n n 
C60 H31 5HV sing 81 n n 
C63 H32 5HV sing 82 n n 
C63 H33 5HV sing 83 n n 
C72 H34 5HV sing 84 n n 
C72 H35 5HV sing 85 n n 
C76 H36 5HV sing 86 n n 
C78 H37 5HV sing 87 n n 
C82 H38 5HV sing 88 n n 
C84 H39 5HV sing 89 n n 
#
_atom_sites.entry_id                     5I9I 
_atom_sites.fract_transf_matrix[1][1]    0.008628 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.004115 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.012134 
_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]    0.011484 
_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 5HV A 1 501 1 5HV LIG . 
D 2 5HV B 1 501 1 5HV LIG . 
E 3 SO4 B 1 502 1 SO4 SO4 . 
F 3 SO4 B 1 503 2 SO4 SO4 . 
G 4 HOH A 1 601 1 HOH HOH . 
G 4 HOH A 2 602 5 HOH HOH . 
G 4 HOH A 3 603 3 HOH HOH . 
G 4 HOH A 4 604 6 HOH HOH . 
H 4 HOH B 1 601 4 HOH HOH . 
H 4 HOH B 2 602 2 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 C C01 5HV . . . D 2 137.865 45.651 112.6 1 50.03 ? C01 5HV 501 B 1 
HETATM 2 C C05 5HV . . . D 2 139.103 45.722 111.723 1 38.72 ? C05 5HV 501 B 1 
HETATM 3 N N08 5HV . . . D 2 138.826 45.407 110.344 1 39.78 ? N08 5HV 501 B 1 
HETATM 4 C C09 5HV . . . D 2 137.654 46.092 109.828 1 52.47 ? C09 5HV 501 B 1 
HETATM 5 C C12 5HV . . . D 2 136.821 45.287 108.788 1 29.06 ? C12 5HV 501 B 1 
HETATM 6 C C16 5HV . . . D 2 140.003 45.768 109.544 1 22.7 ? C16 5HV 501 B 1 
HETATM 7 C C19 5HV . . . D 2 140.192 44.583 108.556 1 26.1 ? C19 5HV 501 B 1 
HETATM 8 N N22 5HV . . . D 2 141.139 44.84 107.426 1 30.47 ? N22 5HV 501 B 1 
HETATM 9 C C23 5HV . . . D 2 140.67 44.907 106.021 1 28.13 ? C23 5HV 501 B 1 
HETATM 10 C C26 5HV . . . D 2 139.871 43.6 105.649 1 30.51 ? C26 5HV 501 B 1 
HETATM 11 C C27 5HV . . . D 2 138.851 43.635 104.694 1 33.12 ? C27 5HV 501 B 1 
HETATM 12 C C29 5HV . . . D 2 138.154 42.474 104.367 1 29.39 ? C29 5HV 501 B 1 
HETATM 13 C C31 5HV . . . D 2 138.503 41.261 104.983 1 27.56 ? C31 5HV 501 B 1 
HETATM 14 C C32 5HV . . . D 2 139.477 41.225 105.942 1 27.46 ? C32 5HV 501 B 1 
HETATM 15 C C34 5HV . . . D 2 140.182 42.395 106.26 1 27.29 ? C34 5HV 501 B 1 
HETATM 16 C C36 5HV . . . D 2 137.794 40.09 104.757 1 28.72 ? C36 5HV 501 B 1 
HETATM 17 C C37 5HV . . . D 2 136.397 40.249 104.613 1 32.12 ? C37 5HV 501 B 1 
HETATM 18 C C39 5HV . . . D 2 135.58 39.133 104.442 1 35.3 ? C39 5HV 501 B 1 
HETATM 19 C C41 5HV . . . D 2 136.152 37.842 104.447 1 36.67 ? C41 5HV 501 B 1 
HETATM 20 C C42 5HV . . . D 2 137.549 37.665 104.635 1 29.11 ? C42 5HV 501 B 1 
HETATM 21 C C44 5HV . . . D 2 138.372 38.798 104.804 1 31.42 ? C44 5HV 501 B 1 
HETATM 22 C C46 5HV . . . D 2 135.189 36.645 104.271 1 33.41 ? C46 5HV 501 B 1 
HETATM 23 F F47 5HV . . . D 2 134.773 36.501 102.999 1 25.77 ? F47 5HV 501 B 1 
HETATM 24 F F48 5HV . . . D 2 135.793 35.539 104.735 1 33.07 ? F48 5HV 501 B 1 
HETATM 25 F F49 5HV . . . D 2 134.124 36.881 105.048 1 31.01 ? F49 5HV 501 B 1 
HETATM 26 C C50 5HV . . . D 2 142.57 44.97 107.696 1 34.61 ? C50 5HV 501 B 1 
HETATM 27 O O51 5HV . . . D 2 143.034 44.908 108.839 1 28.08 ? O51 5HV 501 B 1 
HETATM 28 C C52 5HV . . . D 2 143.484 45.214 106.508 1 31.97 ? C52 5HV 501 B 1 
HETATM 29 N N55 5HV . . . D 2 144.842 44.796 106.891 1 33.27 ? N55 5HV 501 B 1 
HETATM 30 C C56 5HV . . . D 2 145.609 45.664 107.603 1 33.09 ? C56 5HV 501 B 1 
HETATM 31 C C57 5HV . . . D 2 145.311 47.109 108.093 1 23.22 ? C57 5HV 501 B 1 
HETATM 32 C C60 5HV . . . D 2 146.549 47.544 108.821 1 26.77 ? C60 5HV 501 B 1 
HETATM 33 C C63 5HV . . . D 2 147.541 46.433 108.756 1 26.16 ? C63 5HV 501 B 1 
HETATM 34 C C66 5HV . . . D 2 146.903 45.277 107.992 1 32.08 ? C66 5HV 501 B 1 
HETATM 35 C C67 5HV . . . D 2 147.352 43.978 107.632 1 32.82 ? C67 5HV 501 B 1 
HETATM 36 O O68 5HV . . . D 2 148.474 43.606 107.944 1 30.13 ? O68 5HV 501 B 1 
HETATM 37 N N69 5HV . . . D 2 146.538 43.138 106.912 1 32.11 ? N69 5HV 501 B 1 
HETATM 38 C C70 5HV . . . D 2 145.292 43.539 106.552 1 32.62 ? C70 5HV 501 B 1 
HETATM 39 S S71 5HV . . . D 2 144.258 42.402 105.633 1 36.29 ? S71 5HV 501 B 1 
HETATM 40 C C72 5HV . . . D 2 145.122 40.795 105.63 1 27.35 ? C72 5HV 501 B 1 
HETATM 41 C C75 5HV . . . D 2 144.062 39.676 105.502 1 27.36 ? C75 5HV 501 B 1 
HETATM 42 C C76 5HV . . . D 2 143.328 39.292 106.649 1 28.68 ? C76 5HV 501 B 1 
HETATM 43 C C78 5HV . . . D 2 142.371 38.29 106.574 1 25.74 ? C78 5HV 501 B 1 
HETATM 44 C C80 5HV . . . D 2 142.145 37.674 105.344 1 29.63 ? C80 5HV 501 B 1 
HETATM 45 F F81 5HV . . . D 2 141.232 36.726 105.261 1 35.67 ? F81 5HV 501 B 1 
HETATM 46 C C82 5HV . . . D 2 142.873 38.05 104.199 1 36.34 ? C82 5HV 501 B 1 
HETATM 47 C C84 5HV . . . D 2 143.845 39.063 104.275 1 27.15 ? C84 5HV 501 B 1 
#
_model_server_stats.io_time_ms              71 
_model_server_stats.parse_time_ms           14 
_model_server_stats.create_model_time_ms    5 
_model_server_stats.query_time_ms           276 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           47 
#