data_6C5Q
#
_model_server_result.job_id            lphS0Ho0xz1vMRkum3RDDA 
_model_server_result.datetime_utc      '2025-07-17 21:14:28' 
_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          6c5q 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"B","auth_seq_id":501}' 
#
_entry.id    6C5Q 
#
_exptl.entry_id    6C5Q 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              540.692 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            '2-{3-[(5-{[(1S)-1-(4-tert-butylphenyl)ethyl]carbamoyl}-2,3-dimethyl-1H-indol-1-yl)methyl]phenoxy}-2-methylpropanoic acid' 
_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         120 
_cell.entry_id            6C5Q 
_cell.length_a            65.19 
_cell.length_b            65.19 
_cell.length_c            368.45 
_cell.Z_PDB               12 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6C5Q 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        179 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 65 2 2' 
#
_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,C,D 
_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 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 2 B N N 
? 2 C 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
covale ? covale1 A C GLY 88 A GLY 284 1_555 A N CSO 89 A CSO 285 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? 
covale ? covale2 A C CSO 89 A CSO 285 1_555 A N GLN 90 A GLN 286 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? 
#
_chem_comp.formula           'C34 H40 N2 O4' 
_chem_comp.formula_weight    540.692 
_chem_comp.id                EKS 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              '2-{3-[(5-{[(1S)-1-(4-tert-butylphenyl)ethyl]carbamoyl}-2,3-dimethyl-1H-indol-1-yl)methyl]phenoxy}-2-methylpropanoic acid' 
_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
C40 C20 EKS sing 84 n n 
O23 C21 EKS doub 85 n n 
C39 C20 EKS sing 86 n n 
C20 C21 EKS sing 87 n n 
C20 O19 EKS sing 88 n n 
C11 C08 EKS sing 89 n n 
C21 O22 EKS sing 90 n n 
O19 C17 EKS sing 91 n n 
C18 C17 EKS doub 92 n y 
C18 C13 EKS sing 93 n y 
C12 C13 EKS sing 94 n n 
C12 N07 EKS sing 95 n n 
C17 C16 EKS sing 96 n y 
C08 N07 EKS sing 97 n y 
C08 C09 EKS doub 98 n y 
C13 C14 EKS doub 99 n y 
N07 C04 EKS sing 100 n y 
C16 C15 EKS doub 101 n y 
C10 C09 EKS sing 102 n n 
C14 C15 EKS sing 103 n y 
C09 C05 EKS sing 104 n y 
C04 C05 EKS doub 105 n y 
C04 C03 EKS sing 106 n y 
C05 C06 EKS sing 107 n y 
C03 C02 EKS doub 108 n y 
C06 C01 EKS doub 109 n y 
C02 C01 EKS sing 110 n y 
C01 C24 EKS sing 111 n n 
C24 O25 EKS doub 112 n n 
C24 N26 EKS sing 113 n n 
N26 C27 EKS sing 114 n n 
C27 C34 EKS sing 115 n n 
C27 C28 EKS sing 116 n n 
C29 C28 EKS doub 117 n y 
C29 C30 EKS sing 118 n y 
C28 C33 EKS sing 119 n y 
C30 C31 EKS doub 120 n y 
C33 C32 EKS doub 121 n y 
C31 C32 EKS sing 122 n y 
C31 C35 EKS sing 123 n n 
C38 C35 EKS sing 124 n n 
C35 C36 EKS sing 125 n n 
C35 C37 EKS sing 126 n n 
C10 H1 EKS sing 127 n n 
C10 H2 EKS sing 128 n n 
C10 H3 EKS sing 129 n n 
C15 H4 EKS sing 130 n n 
C02 H5 EKS sing 131 n n 
C03 H6 EKS sing 132 n n 
C06 H7 EKS sing 133 n n 
C11 H8 EKS sing 134 n n 
C11 H9 EKS sing 135 n n 
C11 H10 EKS sing 136 n n 
C12 H11 EKS sing 137 n n 
C12 H12 EKS sing 138 n n 
C14 H13 EKS sing 139 n n 
C16 H14 EKS sing 140 n n 
C18 H15 EKS sing 141 n n 
C27 H16 EKS sing 142 n n 
C29 H17 EKS sing 143 n n 
C30 H18 EKS sing 144 n n 
C32 H19 EKS sing 145 n n 
C33 H20 EKS sing 146 n n 
C34 H21 EKS sing 147 n n 
C34 H22 EKS sing 148 n n 
C34 H23 EKS sing 149 n n 
C36 H24 EKS sing 150 n n 
C36 H25 EKS sing 151 n n 
C36 H26 EKS sing 152 n n 
C37 H27 EKS sing 153 n n 
C37 H28 EKS sing 154 n n 
C37 H29 EKS sing 155 n n 
C38 H30 EKS sing 156 n n 
C38 H31 EKS sing 157 n n 
C38 H32 EKS sing 158 n n 
C39 H33 EKS sing 159 n n 
C39 H34 EKS sing 160 n n 
C39 H35 EKS sing 161 n n 
C40 H36 EKS sing 162 n n 
C40 H37 EKS sing 163 n n 
C40 H38 EKS sing 164 n n 
N26 H39 EKS sing 165 n n 
O22 H40 EKS sing 166 n n 
#
_atom_sites.entry_id                     6C5Q 
_atom_sites.fract_transf_matrix[1][1]    0.01534 
_atom_sites.fract_transf_matrix[1][2]    0.008856 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.017713 
_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]    0.002714 
_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
B 2 EKS A 1 501 1 EKS LIG . 
C 2 EKS A 1 502 2 EKS LIG . 
D 3 HOH A 1 601 15 HOH HOH . 
D 3 HOH A 2 602 30 HOH HOH . 
D 3 HOH A 3 603 17 HOH HOH . 
D 3 HOH A 4 604 26 HOH HOH . 
D 3 HOH A 5 605 21 HOH HOH . 
D 3 HOH A 6 606 5 HOH HOH . 
D 3 HOH A 7 607 3 HOH HOH . 
D 3 HOH A 8 608 1 HOH HOH . 
D 3 HOH A 9 609 33 HOH HOH . 
D 3 HOH A 10 610 10 HOH HOH . 
D 3 HOH A 11 611 19 HOH HOH . 
D 3 HOH A 12 612 2 HOH HOH . 
D 3 HOH A 13 613 8 HOH HOH . 
D 3 HOH A 14 614 32 HOH HOH . 
D 3 HOH A 15 615 16 HOH HOH . 
D 3 HOH A 16 616 4 HOH HOH . 
D 3 HOH A 17 617 20 HOH HOH . 
D 3 HOH A 18 618 11 HOH HOH . 
D 3 HOH A 19 619 23 HOH HOH . 
D 3 HOH A 20 620 24 HOH HOH . 
D 3 HOH A 21 621 25 HOH HOH . 
D 3 HOH A 22 622 31 HOH HOH . 
D 3 HOH A 23 623 9 HOH HOH . 
D 3 HOH A 24 624 22 HOH HOH . 
D 3 HOH A 25 625 18 HOH HOH . 
D 3 HOH A 26 626 7 HOH HOH . 
D 3 HOH A 27 627 14 HOH HOH . 
D 3 HOH A 28 628 6 HOH HOH . 
D 3 HOH A 29 629 13 HOH HOH . 
D 3 HOH A 30 630 29 HOH HOH . 
D 3 HOH A 31 631 12 HOH HOH . 
D 3 HOH A 32 632 27 HOH HOH . 
D 3 HOH A 33 633 34 HOH HOH . 
D 3 HOH A 34 634 28 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 C10 EKS . . . B 2 19.498 -25.653 17.427 1 43.77 ? C10 EKS 501 A 1 
HETATM 2 C C13 EKS . . . B 2 25.078 -24.182 16.766 1 45.93 ? C13 EKS 501 A 1 
HETATM 3 C C15 EKS . . . B 2 24.926 -22.004 17.748 1 44.98 ? C15 EKS 501 A 1 
HETATM 4 C C17 EKS . . . B 2 26.898 -22.602 16.483 1 51.43 ? C17 EKS 501 A 1 
HETATM 5 C C20 EKS . . . B 2 28.963 -22.961 15.035 1 57.28 ? C20 EKS 501 A 1 
HETATM 6 C C21 EKS . . . B 2 29.309 -24.374 15.535 1 67.79 ? C21 EKS 501 A 1 
HETATM 7 C C24 EKS . . . B 2 21.698 -28.506 21.95 1 50.14 ? C24 EKS 501 A 1 
HETATM 8 C C28 EKS . . . B 2 22.462 -29.286 25.216 1 71.73 ? C28 EKS 501 A 1 
HETATM 9 C C01 EKS . . . B 2 22.182 -27.778 20.644 1 49.2 ? C01 EKS 501 A 1 
HETATM 10 C C02 EKS . . . B 2 23.543 -27.735 20.32 1 45.84 ? C02 EKS 501 A 1 
HETATM 11 C C03 EKS . . . B 2 23.975 -27.096 19.149 1 48.17 ? C03 EKS 501 A 1 
HETATM 12 C C04 EKS . . . B 2 23.018 -26.507 18.302 1 50.87 ? C04 EKS 501 A 1 
HETATM 13 C C05 EKS . . . B 2 21.681 -26.558 18.614 1 55.15 ? C05 EKS 501 A 1 
HETATM 14 C C06 EKS . . . B 2 21.24 -27.198 19.792 1 55.47 ? C06 EKS 501 A 1 
HETATM 15 C C08 EKS . . . B 2 22.008 -25.461 16.671 1 48.95 ? C08 EKS 501 A 1 
HETATM 16 C C09 EKS . . . B 2 21.012 -25.883 17.565 1 51.07 ? C09 EKS 501 A 1 
HETATM 17 C C11 EKS . . . B 2 21.763 -24.684 15.376 1 43.5 ? C11 EKS 501 A 1 
HETATM 18 C C12 EKS . . . B 2 24.499 -25.602 16.476 1 44.68 ? C12 EKS 501 A 1 
HETATM 19 C C14 EKS . . . B 2 24.373 -23.255 17.515 1 47.17 ? C14 EKS 501 A 1 
HETATM 20 C C16 EKS . . . B 2 26.182 -21.687 17.234 1 48.6 ? C16 EKS 501 A 1 
HETATM 21 C C18 EKS . . . B 2 26.332 -23.858 16.257 1 44.58 ? C18 EKS 501 A 1 
HETATM 22 C C27 EKS . . . B 2 22.168 -30.048 23.929 1 58.96 ? C27 EKS 501 A 1 
HETATM 23 C C29 EKS . . . B 2 23.127 -28.07 25.204 1 75.7 ? C29 EKS 501 A 1 
HETATM 24 C C30 EKS . . . B 2 23.375 -27.41 26.407 1 77.63 ? C30 EKS 501 A 1 
HETATM 25 C C31 EKS . . . B 2 22.957 -27.97 27.61 1 78.57 ? C31 EKS 501 A 1 
HETATM 26 C C32 EKS . . . B 2 22.295 -29.186 27.616 1 77.39 ? C32 EKS 501 A 1 
HETATM 27 C C33 EKS . . . B 2 22.047 -29.843 26.423 1 76.39 ? C33 EKS 501 A 1 
HETATM 28 C C34 EKS . . . B 2 22.854 -31.415 24 1 58.91 ? C34 EKS 501 A 1 
HETATM 29 C C35 EKS . . . B 2 23.227 -27.246 28.949 1 77.57 ? C35 EKS 501 A 1 
HETATM 30 C C36 EKS . . . B 2 24.749 -27.322 29.294 1 78.47 ? C36 EKS 501 A 1 
HETATM 31 C C37 EKS . . . B 2 22.419 -27.915 30.064 1 73.07 ? C37 EKS 501 A 1 
HETATM 32 C C38 EKS . . . B 2 22.804 -25.784 28.826 1 77.2 ? C38 EKS 501 A 1 
HETATM 33 C C39 EKS . . . B 2 30.294 -22.21 14.829 1 52.51 ? C39 EKS 501 A 1 
HETATM 34 C C40 EKS . . . B 2 28.259 -23.025 13.655 1 52.58 ? C40 EKS 501 A 1 
HETATM 35 N N07 EKS . . . B 2 23.192 -25.843 17.136 1 45.51 ? N07 EKS 501 A 1 
HETATM 36 N N26 EKS . . . B 2 22.641 -29.352 22.732 1 53.68 ? N26 EKS 501 A 1 
HETATM 37 O O19 EKS . . . B 2 28.193 -22.201 15.989 1 57.51 ? O19 EKS 501 A 1 
HETATM 38 O O22 EKS . . . B 2 29.314 -24.624 16.769 1 72.28 ? O22 EKS 501 A 1 
HETATM 39 O O23 EKS . . . B 2 29.595 -25.289 14.713 1 71.95 -1 O23 EKS 501 A 1 
HETATM 40 O O25 EKS . . . B 2 20.57 -28.399 22.307 1 53.56 ? O25 EKS 501 A 1 
#
_model_server_stats.io_time_ms              64 
_model_server_stats.parse_time_ms           10 
_model_server_stats.create_model_time_ms    3 
_model_server_stats.query_time_ms           337 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           40 
#