data_6NXZ
#
_model_server_result.job_id            5-uucAZmxi25Fu6HNX2p2A 
_model_server_result.datetime_utc      '2024-11-15 06:02:18' 
_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          6nxz 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"B","auth_seq_id":101}' 
#
_entry.id    6NXZ 
#
_exptl.entry_id    6NXZ 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              578.571 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            '2-[4-[(2~{R})-4-[4-(6-carboxy-1~{H}-benzimidazol-2-yl)phenoxy]-2-oxidanyl-butoxy]phenyl]-1~{H}-benzimidazole-5-carboxylic acid' 
_entity.pdbx_number_of_molecules    1 
_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            6NXZ 
_cell.length_a            67.617 
_cell.length_b            67.617 
_cell.length_c            51.977 
_cell.Z_PDB               16 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6NXZ 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        98 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'I 41 2 2' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    tetrameric 
_pdbx_struct_assembly.oligomeric_count      4 
_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,E,F 
_pdbx_struct_assembly_gen.assembly_id        1 
_pdbx_struct_assembly_gen.oper_expression    1,2,3,4 
#
loop_
_pdbx_struct_oper_list.id
_pdbx_struct_oper_list.type
_pdbx_struct_oper_list.name
_pdbx_struct_oper_list.symmetry_operation
_pdbx_struct_oper_list.matrix[1][1]
_pdbx_struct_oper_list.matrix[1][2]
_pdbx_struct_oper_list.matrix[1][3]
_pdbx_struct_oper_list.matrix[2][1]
_pdbx_struct_oper_list.matrix[2][2]
_pdbx_struct_oper_list.matrix[2][3]
_pdbx_struct_oper_list.matrix[3][1]
_pdbx_struct_oper_list.matrix[3][2]
_pdbx_struct_oper_list.matrix[3][3]
_pdbx_struct_oper_list.vector[1]
_pdbx_struct_oper_list.vector[2]
_pdbx_struct_oper_list.vector[3]
1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 
2 'crystal symmetry operation' 8_555 -y,-x,-z 0 -1 0 -1 0 0 0 0 -1 0 0 0 
3 'crystal symmetry operation' 10_555 -x,-y,z -1 0 0 0 -1 0 0 0 1 0 0 0 
4 'crystal symmetry operation' 15_555 y,x,-z 0 1 0 1 0 0 0 0 -1 0 0 0 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      2 
_struct_asym.id                             B 
_struct_asym.pdbx_modified                  N 
_struct_asym.pdbx_blank_PDB_chainid_flag    N 
#
_chem_comp.formula           'C32 H26 N4 O7' 
_chem_comp.formula_weight    578.571 
_chem_comp.id                D49 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              '2-[4-[(2~{R})-4-[4-(6-carboxy-1~{H}-benzimidazol-2-yl)phenoxy]-2-oxidanyl-butoxy]phenyl]-1~{H}-benzimidazole-5-carboxylic 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
O35 C9 D49 sing 83 n n 
C11 O10 D49 sing 84 n n 
C37 O10 D49 sing 85 n n 
C37 C36 D49 sing 86 n n 
C8 C9 D49 sing 87 n n 
C8 O7 D49 sing 88 n n 
C9 C36 D49 sing 89 n n 
C8 H2 D49 sing 90 n n 
C8 H3 D49 sing 91 n n 
C9 H4 D49 sing 92 n n 
O35 H8 D49 sing 93 n n 
C36 H9 D49 sing 94 n n 
C36 H10 D49 sing 95 n n 
C37 H11 D49 sing 96 n n 
C37 H12 D49 sing 97 n n 
C11 C1 D49 sing 98 n y 
C1 C2 D49 doub 99 n y 
C2 C3 D49 sing 100 n y 
C3 C4 D49 doub 101 n y 
C4 C5 D49 sing 102 n y 
C5 C11 D49 doub 103 n y 
C3 C13 D49 sing 104 n n 
C13 N1 D49 sing 105 n y 
N1 C7 D49 sing 106 n y 
C7 C10 D49 doub 107 n y 
C10 N2 D49 sing 108 n y 
N2 C13 D49 doub 109 n y 
C10 C6 D49 sing 110 n y 
C6 C12 D49 doub 111 n y 
C12 C14 D49 sing 112 n y 
C14 C15 D49 doub 113 n y 
C15 C7 D49 sing 114 n y 
C14 C16 D49 sing 115 n n 
C16 O2 D49 sing 116 n n 
C16 O1 D49 doub 117 n n 
O7 C17 D49 sing 118 n n 
C17 C18 D49 sing 119 n y 
C18 C19 D49 doub 120 n y 
C19 C20 D49 sing 121 n y 
C20 C21 D49 doub 122 n y 
C21 C22 D49 sing 123 n y 
C22 C17 D49 doub 124 n y 
C20 C32 D49 sing 125 n n 
C32 N3 D49 sing 126 n y 
N3 C24 D49 sing 127 n y 
C24 C25 D49 doub 128 n y 
C25 N4 D49 sing 129 n y 
N4 C32 D49 doub 130 n y 
C25 C27 D49 sing 131 n y 
C27 C28 D49 doub 132 n y 
C28 C29 D49 sing 133 n y 
C29 C30 D49 doub 134 n y 
C30 C24 D49 sing 135 n y 
C28 C31 D49 sing 136 n n 
C31 O3 D49 doub 137 n n 
C31 O4 D49 sing 138 n n 
C1 H1 D49 sing 139 n n 
C2 H5 D49 sing 140 n n 
C4 H6 D49 sing 141 n n 
C5 H7 D49 sing 142 n n 
N1 H13 D49 sing 143 n n 
C6 H14 D49 sing 144 n n 
C12 H15 D49 sing 145 n n 
C15 H16 D49 sing 146 n n 
O2 H17 D49 sing 147 n n 
C18 H18 D49 sing 148 n n 
C19 H19 D49 sing 149 n n 
C21 H20 D49 sing 150 n n 
C22 H21 D49 sing 151 n n 
N3 H22 D49 sing 152 n n 
C27 H23 D49 sing 153 n n 
C29 H24 D49 sing 154 n n 
C30 H25 D49 sing 155 n n 
O4 H26 D49 sing 156 n n 
#
_atom_sites.entry_id                     6NXZ 
_atom_sites.fract_transf_matrix[1][1]    0.014789 
_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]    0.014789 
_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]    0.019239 
_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 D49 A 1 101 1 D49 D49 . 
C 3 MRD A 1 102 61 MRD MRD . 
D 3 MRD A 1 103 62 MRD MRD . 
E 4 PO4 A 1 104 63 PO4 PO4 . 
F 5 HOH A 1 201 13 HOH HOH . 
F 5 HOH A 2 202 27 HOH HOH . 
F 5 HOH A 3 203 29 HOH HOH . 
F 5 HOH A 4 204 41 HOH HOH . 
F 5 HOH A 5 205 52 HOH HOH . 
F 5 HOH A 6 206 7 HOH HOH . 
F 5 HOH A 7 207 30 HOH HOH . 
F 5 HOH A 8 208 10 HOH HOH . 
F 5 HOH A 9 209 26 HOH HOH . 
F 5 HOH A 10 210 28 HOH HOH . 
F 5 HOH A 11 211 34 HOH HOH . 
F 5 HOH A 12 212 6 HOH HOH . 
F 5 HOH A 13 213 57 HOH HOH . 
F 5 HOH A 14 214 14 HOH HOH . 
F 5 HOH A 15 215 12 HOH HOH . 
F 5 HOH A 16 216 19 HOH HOH . 
F 5 HOH A 17 217 17 HOH HOH . 
F 5 HOH A 18 218 3 HOH HOH . 
F 5 HOH A 19 219 18 HOH HOH . 
F 5 HOH A 20 220 15 HOH HOH . 
F 5 HOH A 21 221 56 HOH HOH . 
F 5 HOH A 22 222 55 HOH HOH . 
F 5 HOH A 23 223 2 HOH HOH . 
F 5 HOH A 24 224 42 HOH HOH . 
F 5 HOH A 25 225 40 HOH HOH . 
F 5 HOH A 26 226 1 HOH HOH . 
F 5 HOH A 27 227 31 HOH HOH . 
F 5 HOH A 28 228 16 HOH HOH . 
F 5 HOH A 29 229 49 HOH HOH . 
F 5 HOH A 30 230 5 HOH HOH . 
F 5 HOH A 31 231 38 HOH HOH . 
F 5 HOH A 32 232 8 HOH HOH . 
F 5 HOH A 33 233 45 HOH HOH . 
F 5 HOH A 34 234 51 HOH HOH . 
F 5 HOH A 35 235 24 HOH HOH . 
F 5 HOH A 36 236 35 HOH HOH . 
F 5 HOH A 37 237 11 HOH HOH . 
F 5 HOH A 38 238 25 HOH HOH . 
F 5 HOH A 39 239 21 HOH HOH . 
F 5 HOH A 40 240 4 HOH HOH . 
F 5 HOH A 41 241 32 HOH HOH . 
F 5 HOH A 42 242 46 HOH HOH . 
F 5 HOH A 43 243 53 HOH HOH . 
F 5 HOH A 44 244 47 HOH HOH . 
F 5 HOH A 45 245 23 HOH HOH . 
F 5 HOH A 46 246 33 HOH HOH . 
F 5 HOH A 47 247 43 HOH HOH . 
F 5 HOH A 48 248 54 HOH HOH . 
F 5 HOH A 49 249 58 HOH HOH . 
F 5 HOH A 50 250 48 HOH HOH . 
F 5 HOH A 51 251 44 HOH HOH . 
F 5 HOH A 52 252 37 HOH HOH . 
F 5 HOH A 53 253 22 HOH HOH . 
F 5 HOH A 54 254 20 HOH HOH . 
F 5 HOH A 55 255 36 HOH HOH . 
F 5 HOH A 56 256 9 HOH HOH . 
F 5 HOH A 57 257 50 HOH HOH . 
F 5 HOH A 58 258 39 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 O O7 D49 . . . B 2 -2.158 0.256 3.447 0.5 26.69 ? O7 D49 101 A 1 
HETATM 2 C C8 D49 . . . B 2 -0.818 -0.285 3.349 0.5 31.25 ? C8 D49 101 A 1 
HETATM 3 C C9 D49 . . . B 2 0.239 0.812 3.383 0.5 31.82 ? C9 D49 101 A 1 
HETATM 4 O O10 D49 . . . B 2 3.684 -0.783 2.881 0.5 26.82 ? O10 D49 101 A 1 
HETATM 5 C C11 D49 . . . B 2 4.406 -1.925 2.608 0.5 19.7 ? C11 D49 101 A 1 
HETATM 6 O O35 D49 . . . B 2 0.193 1.693 2.233 0.5 32.22 ? O35 D49 101 A 1 
HETATM 7 C C36 D49 . . . B 2 1.684 0.34 3.593 0.5 33.01 ? C36 D49 101 A 1 
HETATM 8 C C37 D49 . . . B 2 2.243 -0.844 2.834 0.5 31.65 ? C37 D49 101 A 1 
#
_model_server_stats.io_time_ms              6 
_model_server_stats.parse_time_ms           8 
_model_server_stats.create_model_time_ms    1 
_model_server_stats.query_time_ms           311 
_model_server_stats.encode_time_ms          1 
_model_server_stats.element_count           8 
#