data_6BR3
#
_model_server_result.job_id            3e6gzDFrM8zuAUmQ-HE0zw 
_model_server_result.datetime_utc      '2025-03-05 18:30:56' 
_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          6br3 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":502}' 
#
_entry.id    6BR3 
#
_exptl.entry_id    6BR3 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              507.553 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            '{cis-3-[(5R)-5-[(7-fluoro-1,1-dimethyl-1H-inden-5-yl)carbamoyl]-2-methoxy-7,8-dihydro-1,6-naphthyridine-6(5H)-carbonyl]cyclobutyl}acetic 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            6BR3 
_cell.length_a            99.537 
_cell.length_b            99.537 
_cell.length_c            127.524 
_cell.Z_PDB               12 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6BR3 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        169 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 61' 
#
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 dimeric 2 author_and_software_defined_assembly 2 
PISA monomeric 1 author_and_software_defined_assembly 3 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,C,D,G 1 1 
A,B,C,D,E,F,G,H 2 1 
B,E,F,H 3 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
? 3 D N N 
? 3 F N N 
#
_chem_comp.formula           'C28 H30 F N3 O5' 
_chem_comp.formula_weight    507.553 
_chem_comp.id                E3V 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              '{cis-3-[(5R)-5-[(7-fluoro-1,1-dimethyl-1H-inden-5-yl)carbamoyl]-2-methoxy-7,8-dihydro-1,6-naphthyridine-6(5H)-carbonyl]cyclobutyl}acetic 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
C32 C33 E3V doub 83 n n 
C32 C31 E3V sing 84 n n 
C4 C5 E3V doub 85 n y 
C4 C3 E3V sing 86 n y 
O2 C1 E3V sing 87 n n 
O2 C3 E3V sing 88 n n 
C33 C34 E3V sing 89 n n 
C5 C6 E3V sing 90 n y 
C3 N13 E3V doub 91 n y 
C31 C30 E3V doub 92 n y 
C31 C37 E3V sing 93 n y 
C30 C29 E3V sing 94 n y 
C34 C36 E3V sing 95 n n 
C34 C37 E3V sing 96 n n 
C34 C35 E3V sing 97 n n 
N13 C12 E3V sing 98 n y 
C6 C12 E3V doub 99 n y 
C6 C7 E3V sing 100 n n 
C37 C38 E3V doub 101 n y 
C29 N28 E3V sing 102 n n 
C29 C40 E3V doub 103 n y 
N28 C26 E3V sing 104 n n 
C12 C11 E3V sing 105 n n 
C7 C26 E3V sing 106 n n 
C7 N9 E3V sing 107 n n 
C26 O27 E3V doub 108 n n 
C38 C40 E3V sing 109 n y 
C38 F39 E3V sing 110 n n 
N9 C10 E3V sing 111 n n 
N9 C14 E3V sing 112 n n 
C11 C10 E3V sing 113 n n 
O15 C14 E3V doub 114 n n 
C14 C16 E3V sing 115 n n 
O23 C22 E3V doub 116 n n 
C18 C16 E3V sing 117 n n 
C18 C19 E3V sing 118 n n 
C16 C25 E3V sing 119 n n 
C22 O24 E3V sing 120 n n 
C22 C21 E3V sing 121 n n 
C25 C19 E3V sing 122 n n 
C19 C21 E3V sing 123 n n 
C4 H1 E3V sing 124 n n 
C5 H2 E3V sing 125 n n 
C7 H3 E3V sing 126 n n 
C10 H4 E3V sing 127 n n 
C10 H5 E3V sing 128 n n 
C21 H6 E3V sing 129 n n 
C21 H7 E3V sing 130 n n 
C30 H8 E3V sing 131 n n 
C40 H9 E3V sing 132 n n 
C32 H10 E3V sing 133 n n 
C11 H11 E3V sing 134 n n 
C11 H12 E3V sing 135 n n 
C33 H13 E3V sing 136 n n 
C18 H14 E3V sing 137 n n 
C18 H15 E3V sing 138 n n 
C25 H16 E3V sing 139 n n 
C25 H17 E3V sing 140 n n 
C16 H18 E3V sing 141 n n 
C19 H19 E3V sing 142 n n 
C35 H20 E3V sing 143 n n 
C35 H21 E3V sing 144 n n 
C35 H22 E3V sing 145 n n 
C36 H23 E3V sing 146 n n 
C36 H24 E3V sing 147 n n 
C36 H25 E3V sing 148 n n 
C1 H26 E3V sing 149 n n 
C1 H27 E3V sing 150 n n 
C1 H28 E3V sing 151 n n 
N28 H29 E3V sing 152 n n 
O24 H30 E3V sing 153 n n 
#
_atom_sites.entry_id                     6BR3 
_atom_sites.fract_transf_matrix[1][1]    0.010047 
_atom_sites.fract_transf_matrix[1][2]    0.0058 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.011601 
_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]    0.007842 
_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 MPD A 1 501 599 MPD MPD . 
D 3 E3V A 1 502 1100 E3V LIG . 
E 2 MPD B 1 501 599 MPD MPD . 
F 3 E3V B 1 502 1100 E3V LIG . 
G 4 HOH A 1 601 1103 HOH HOH . 
G 4 HOH A 2 602 1101 HOH HOH . 
H 4 HOH B 1 601 1120 HOH HOH . 
H 4 HOH B 2 602 1119 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 C4 E3V . . . D 3 20.195 79.397 0.592 1 47.41 ? C4 E3V 502 A 1 
HETATM 2 C C5 E3V . . . D 3 21.276 78.889 1.27 1 48.44 ? C5 E3V 502 A 1 
HETATM 3 C C6 E3V . . . D 3 21.447 79.174 2.606 1 51.11 ? C6 E3V 502 A 1 
HETATM 4 C C7 E3V . . . D 3 22.604 78.623 3.372 1 52.37 ? C7 E3V 502 A 1 
HETATM 5 C C10 E3V . . . D 3 22.107 80.503 4.981 1 49.87 ? C10 E3V 502 A 1 
HETATM 6 C C21 E3V . . . D 3 27.105 82.188 7.513 1 85.39 ? C21 E3V 502 A 1 
HETATM 7 C C22 E3V . . . D 3 28.251 81.704 6.679 1 95.71 ? C22 E3V 502 A 1 
HETATM 8 C C26 E3V . . . D 3 22.171 77.263 3.855 1 51.41 ? C26 E3V 502 A 1 
HETATM 9 C C30 E3V . . . D 3 21.56 74.31 1.732 1 50.73 ? C30 E3V 502 A 1 
HETATM 10 C C40 E3V . . . D 3 20.976 74.567 4.024 1 49.78 ? C40 E3V 502 A 1 
HETATM 11 C C31 E3V . . . D 3 20.795 73.154 1.697 1 49.14 ? C31 E3V 502 A 1 
HETATM 12 C C37 E3V . . . D 3 20.115 72.694 2.81 1 49.04 ? C37 E3V 502 A 1 
HETATM 13 C C29 E3V . . . D 3 21.652 75.033 2.909 1 51.37 ? C29 E3V 502 A 1 
HETATM 14 C C38 E3V . . . D 3 20.216 73.421 3.983 1 48.56 ? C38 E3V 502 A 1 
HETATM 15 C C12 E3V . . . D 3 20.506 79.976 3.222 1 50.39 ? C12 E3V 502 A 1 
HETATM 16 C C3 E3V . . . D 3 19.313 80.179 1.305 1 48.35 ? C3 E3V 502 A 1 
HETATM 17 C C14 E3V . . . D 3 24.182 79.182 5.186 1 58.14 ? C14 E3V 502 A 1 
HETATM 18 C C32 E3V . . . D 3 20.583 72.266 0.527 1 47.53 ? C32 E3V 502 A 1 
HETATM 19 C C11 E3V . . . D 3 20.643 80.323 4.66 1 51.86 ? C11 E3V 502 A 1 
HETATM 20 C C33 E3V . . . D 3 19.799 71.108 1.102 1 47.25 ? C33 E3V 502 A 1 
HETATM 21 C C18 E3V . . . D 3 25.276 81.484 5.841 1 67.86 ? C18 E3V 502 A 1 
HETATM 22 C C25 E3V . . . D 3 25.665 80.004 7.249 1 66.65 ? C25 E3V 502 A 1 
HETATM 23 C C16 E3V . . . D 3 24.523 80.225 6.261 1 62.18 ? C16 E3V 502 A 1 
HETATM 24 C C19 E3V . . . D 3 25.757 81.533 7.284 1 74.61 ? C19 E3V 502 A 1 
HETATM 25 C C34 E3V . . . D 3 19.35 71.434 2.509 1 48.12 ? C34 E3V 502 A 1 
HETATM 26 C C35 E3V . . . D 3 19.644 70.286 3.443 1 45.88 ? C35 E3V 502 A 1 
HETATM 27 C C36 E3V . . . D 3 17.859 71.697 2.537 1 46.92 ? C36 E3V 502 A 1 
HETATM 28 C C1 E3V . . . D 3 17.066 80.065 1.141 1 47.42 ? C1 E3V 502 A 1 
HETATM 29 N N13 E3V . . . D 3 19.445 80.487 2.599 1 48.89 ? N13 E3V 502 A 1 
HETATM 30 N N9 E3V . . . D 3 22.947 79.376 4.584 1 53.22 ? N9 E3V 502 A 1 
HETATM 31 N N28 E3V . . . D 3 22.433 76.226 2.96 1 51.23 ? N28 E3V 502 A 1 
HETATM 32 O O15 E3V . . . D 3 24.932 78.264 4.885 1 57.03 ? O15 E3V 502 A 1 
HETATM 33 O O27 E3V . . . D 3 21.613 77.14 4.937 1 50.22 ? O27 E3V 502 A 1 
HETATM 34 O O24 E3V . . . D 3 28.986 80.776 6.988 1 100.23 ? O24 E3V 502 A 1 
HETATM 35 O O23 E3V . . . D 3 28.36 82.445 5.543 1 99.53 ? O23 E3V 502 A 1 
HETATM 36 O O2 E3V . . . D 3 18.226 80.696 0.628 1 50.75 ? O2 E3V 502 A 1 
HETATM 37 F F39 E3V . . . D 3 19.581 73.036 5.095 1 46.99 ? F39 E3V 502 A 1 
#
_model_server_stats.io_time_ms              13 
_model_server_stats.parse_time_ms           21 
_model_server_stats.create_model_time_ms    4 
_model_server_stats.query_time_ms           287 
_model_server_stats.encode_time_ms          1 
_model_server_stats.element_count           37 
#