data_6RPG
#
_model_server_result.job_id            VtXQSnInFBoO9ySbB6QzCw 
_model_server_result.datetime_utc      '2024-12-27 11:24:53' 
_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          6rpg 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":201}' 
#
_entry.id    6RPG 
#
_exptl.entry_id    6RPG 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              915.088 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            ~{N}-[2-[[4-[[3-[3-[[4-[(2-acetamidoethylamino)methyl]-5-[(5-cyanopyridin-3-yl)methoxy]-2-methyl-phenoxy]methyl]-2-methyl-phenyl]-2-methyl-phenyl]methoxy]-2-[(5-cyanopyridin-3-yl)methoxy]-5-methyl-phenyl]methylamino]ethyl]ethanamide 
_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         120 
_cell.entry_id            6RPG 
_cell.length_a            75.894 
_cell.length_b            75.894 
_cell.length_c            98.205 
_cell.Z_PDB               12 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6RPG 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        152 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 31 2 1' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    dimeric 
_pdbx_struct_assembly.oligomeric_count      2 
_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 
_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 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      2 
_struct_asym.id                             C 
_struct_asym.pdbx_modified                  N 
_struct_asym.pdbx_blank_PDB_chainid_flag    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
disulf ? disulf1 A SG CYS 23 A CYS 40 1_555 A SG CYS 97 A CYS 114 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.967 ? 
disulf ? disulf2 B SG CYS 23 B CYS 40 1_555 B SG CYS 97 B CYS 114 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.975 ? 
#
_chem_comp.formula           'C54 H58 N8 O6' 
_chem_comp.formula_weight    915.088 
_chem_comp.id                KDW 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              ~{N}-[2-[[4-[[3-[3-[[4-[(2-acetamidoethylamino)methyl]-5-[(5-cyanopyridin-3-yl)methoxy]-2-methyl-phenoxy]methyl]-2-methyl-phenyl]-2-methyl-phenyl]methoxy]-2-[(5-cyanopyridin-3-yl)methoxy]-5-methyl-phenyl]methylamino]ethyl]ethanamide 
_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 C39 KDW sing 173 n n 
N5 C39 KDW sing 174 n n 
N5 C38 KDW sing 175 n n 
C39 O4 KDW doub 176 n n 
C38 C37 KDW sing 177 n n 
C36 N4 KDW sing 178 n n 
C36 C35 KDW sing 179 n n 
N4 C37 KDW sing 180 n n 
C35 C41 KDW doub 181 n y 
C35 C34 KDW sing 182 n y 
C41 C42 KDW sing 183 n y 
O5 C34 KDW sing 184 n n 
O5 C44 KDW sing 185 n n 
C43 C42 KDW sing 186 n n 
C42 C32 KDW doub 187 n y 
C34 C33 KDW doub 188 n y 
C46 N6 KDW doub 189 n y 
C46 C45 KDW sing 190 n y 
N6 C47 KDW sing 191 n y 
C44 C45 KDW sing 192 n n 
C45 C49 KDW doub 193 n y 
C47 C48 KDW doub 194 n y 
C32 C33 KDW sing 195 n y 
C32 O3 KDW sing 196 n n 
C49 C48 KDW sing 197 n y 
C48 C50 KDW sing 198 n n 
C50 N7 KDW trip 199 n n 
O3 C31 KDW sing 200 n n 
C31 C28 KDW sing 201 n n 
C27 C28 KDW doub 202 n y 
C27 C26 KDW sing 203 n y 
C28 C29 KDW sing 204 n y 
C26 C25 KDW doub 205 n y 
C29 C30 KDW sing 206 n n 
C29 C24 KDW doub 207 n y 
C25 C24 KDW sing 208 n y 
C24 C21 KDW sing 209 n n 
C21 C20 KDW doub 210 n y 
C21 C22 KDW sing 211 n y 
C20 C19 KDW sing 212 n y 
C23 C22 KDW sing 213 n n 
C22 C17 KDW doub 214 n y 
C19 C18 KDW doub 215 n y 
C17 C18 KDW sing 216 n y 
C17 C16 KDW sing 217 n n 
C16 O2 KDW sing 218 n n 
O2 C15 KDW sing 219 n n 
C15 C14 KDW doub 220 n y 
C15 C51 KDW sing 221 n y 
C14 C6 KDW sing 222 n y 
C53 C51 KDW sing 223 n n 
N3 C13 KDW trip 224 n n 
C51 C52 KDW doub 225 n y 
C7 C8 KDW sing 226 n n 
C7 O1 KDW sing 227 n n 
C12 C8 KDW doub 228 n y 
C12 C11 KDW sing 229 n y 
C13 C11 KDW sing 230 n n 
C6 O1 KDW sing 231 n n 
C6 C5 KDW doub 232 n y 
C8 C9 KDW sing 233 n y 
C11 C10 KDW doub 234 n y 
C52 C5 KDW sing 235 n y 
C5 C4 KDW sing 236 n n 
C9 N2 KDW doub 237 n y 
C10 N2 KDW sing 238 n y 
C4 N1 KDW sing 239 n n 
N1 C3 KDW sing 240 n n 
C2 C3 KDW sing 241 n n 
C2 N KDW sing 242 n n 
N C1 KDW sing 243 n n 
O C1 KDW doub 244 n n 
C1 C KDW sing 245 n n 
N1 H1 KDW sing 246 n n 
C4 H3 KDW sing 247 n n 
C4 H4 KDW sing 248 n n 
C7 H5 KDW sing 249 n n 
C7 H6 KDW sing 250 n n 
C10 H7 KDW sing 251 n n 
C12 H8 KDW sing 252 n n 
C14 H9 KDW sing 253 n n 
C16 H10 KDW sing 254 n n 
C16 H11 KDW sing 255 n n 
C2 H12 KDW sing 256 n n 
C2 H13 KDW sing 257 n n 
C3 H14 KDW sing 258 n n 
C3 H15 KDW sing 259 n n 
C9 H16 KDW sing 260 n n 
N H17 KDW sing 261 n n 
C H18 KDW sing 262 n n 
C H19 KDW sing 263 n n 
C H20 KDW sing 264 n n 
C18 H21 KDW sing 265 n n 
C19 H22 KDW sing 266 n n 
C20 H23 KDW sing 267 n n 
C23 H24 KDW sing 268 n n 
C23 H25 KDW sing 269 n n 
C23 H26 KDW sing 270 n n 
C25 H27 KDW sing 271 n n 
C26 H28 KDW sing 272 n n 
C27 H29 KDW sing 273 n n 
C30 H30 KDW sing 274 n n 
C30 H31 KDW sing 275 n n 
C30 H32 KDW sing 276 n n 
C31 H33 KDW sing 277 n n 
C31 H34 KDW sing 278 n n 
C33 H35 KDW sing 279 n n 
C36 H36 KDW sing 280 n n 
C36 H37 KDW sing 281 n n 
C37 H38 KDW sing 282 n n 
C37 H39 KDW sing 283 n n 
C38 H40 KDW sing 284 n n 
C38 H41 KDW sing 285 n n 
C40 H42 KDW sing 286 n n 
C40 H43 KDW sing 287 n n 
C40 H44 KDW sing 288 n n 
C41 H45 KDW sing 289 n n 
C43 H46 KDW sing 290 n n 
C43 H47 KDW sing 291 n n 
C43 H48 KDW sing 292 n n 
C44 H49 KDW sing 293 n n 
C44 H50 KDW sing 294 n n 
C46 H51 KDW sing 295 n n 
C47 H52 KDW sing 296 n n 
C49 H53 KDW sing 297 n n 
C52 H54 KDW sing 298 n n 
C53 H55 KDW sing 299 n n 
C53 H56 KDW sing 300 n n 
C53 H57 KDW sing 301 n n 
N4 H58 KDW sing 302 n n 
N5 H60 KDW sing 303 n n 
#
_atom_sites.entry_id                     6RPG 
_atom_sites.fract_transf_matrix[1][1]    0.013176 
_atom_sites.fract_transf_matrix[1][2]    0.007607 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.015215 
_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]    0.010183 
_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 KDW B 1 201 201 KDW KDW . 
D 3 HOH A 1 201 201 HOH HOH . 
D 3 HOH A 2 202 202 HOH HOH . 
E 3 HOH B 1 301 302 HOH HOH . 
E 3 HOH B 2 302 301 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 N N1 KDW . . . C 2 -1.752 -28.1 -5.309 1 92.66 ? N1 KDW 201 B 1 
HETATM 2 N N3 KDW . . . C 2 4.009 -32.415 -8.505 1 84.65 ? N3 KDW 201 B 1 
HETATM 3 C C4 KDW . . . C 2 -2.17 -26.708 -5.371 1 84.32 ? C4 KDW 201 B 1 
HETATM 4 C C5 KDW . . . C 2 -2.395 -26.227 -6.778 1 73.1 ? C5 KDW 201 B 1 
HETATM 5 C C6 KDW . . . C 2 -1.528 -26.593 -7.8 1 69.32 ? C6 KDW 201 B 1 
HETATM 6 C C7 KDW . . . C 2 0.603 -27.478 -8.349 1 71.82 ? C7 KDW 201 B 1 
HETATM 7 C C8 KDW . . . C 2 1.709 -28.253 -7.707 1 75.55 ? C8 KDW 201 B 1 
HETATM 8 C C10 KDW . . . C 2 3.762 -29.571 -6.481 1 77.61 ? C10 KDW 201 B 1 
HETATM 9 C C13 KDW . . . C 2 3.646 -31.4 -8.131 1 85.78 ? C13 KDW 201 B 1 
HETATM 10 C C15 KDW . . . C 2 -2.82 -25.362 -9.372 1 64.09 ? C15 KDW 201 B 1 
HETATM 11 C C1 KDW . . . C 2 -4.817 -30.223 -3.477 1 101.88 ? C1 KDW 201 B 1 
HETATM 12 C C11 KDW . . . C 2 3.207 -30.126 -7.623 1 77.9 ? C11 KDW 201 B 1 
HETATM 13 C C12 KDW . . . C 2 2.167 -29.446 -8.243 1 76.53 ? C12 KDW 201 B 1 
HETATM 14 C C14 KDW . . . C 2 -1.742 -26.171 -9.092 1 65.22 ? C14 KDW 201 B 1 
HETATM 15 C C16 KDW . . . C 2 -2.2 -25.074 -11.645 1 64.58 ? C16 KDW 201 B 1 
HETATM 16 C C2 KDW . . . C 2 -4.127 -28.649 -5.204 1 94.37 ? C2 KDW 201 B 1 
HETATM 17 C C3 KDW . . . C 2 -2.748 -28.953 -4.67 1 92.36 ? C3 KDW 201 B 1 
HETATM 18 C C9 KDW . . . C 2 2.33 -27.803 -6.558 1 77.46 ? C9 KDW 201 B 1 
HETATM 19 N N2 KDW . . . C 2 3.337 -28.431 -5.945 1 81.68 ? N2 KDW 201 B 1 
HETATM 20 O O1 KDW . . . C 2 -0.466 -27.356 -7.42 1 68.21 ? O1 KDW 201 B 1 
HETATM 21 O O2 KDW . . . C 2 -3.143 -24.887 -10.605 1 66.38 ? O2 KDW 201 B 1 
HETATM 22 O O3 KDW . . . C 2 -1.488 -25.691 -21.027 1 79.12 ? O3 KDW 201 B 1 
HETATM 23 N N KDW . . . C 2 -5.135 -29.342 -4.422 1 101.66 ? N KDW 201 B 1 
HETATM 24 C C KDW . . . C 2 -5.489 -30.04 -2.152 1 95.73 ? C KDW 201 B 1 
HETATM 25 O O KDW . . . C 2 -4.012 -31.124 -3.678 1 100.57 ? O KDW 201 B 1 
HETATM 26 C C17 KDW . . . C 2 -2.751 -24.482 -12.91 1 63.77 ? C17 KDW 201 B 1 
HETATM 27 C C18 KDW . . . C 2 -3.35 -23.231 -12.889 1 60.98 ? C18 KDW 201 B 1 
HETATM 28 C C19 KDW . . . C 2 -3.827 -22.66 -14.047 1 60.54 ? C19 KDW 201 B 1 
HETATM 29 C C20 KDW . . . C 2 -3.718 -23.33 -15.245 1 63.88 ? C20 KDW 201 B 1 
HETATM 30 C C21 KDW . . . C 2 -3.126 -24.587 -15.286 1 65.53 ? C21 KDW 201 B 1 
HETATM 31 C C22 KDW . . . C 2 -2.638 -25.18 -14.115 1 63.13 ? C22 KDW 201 B 1 
HETATM 32 C C23 KDW . . . C 2 -2.005 -26.545 -14.142 1 63.26 ? C23 KDW 201 B 1 
HETATM 33 C C24 KDW . . . C 2 -3.023 -25.292 -16.595 1 67.03 ? C24 KDW 201 B 1 
HETATM 34 C C25 KDW . . . C 2 -4 -26.224 -16.914 1 70.22 ? C25 KDW 201 B 1 
HETATM 35 C C26 KDW . . . C 2 -3.959 -26.879 -18.124 1 69.37 ? C26 KDW 201 B 1 
HETATM 36 C C27 KDW . . . C 2 -2.954 -26.606 -19.023 1 70.67 ? C27 KDW 201 B 1 
HETATM 37 C C28 KDW . . . C 2 -1.968 -25.677 -18.726 1 70.89 ? C28 KDW 201 B 1 
HETATM 38 C C29 KDW . . . C 2 -1.982 -25.015 -17.495 1 68.47 ? C29 KDW 201 B 1 
HETATM 39 C C30 KDW . . . C 2 -0.878 -24.055 -17.14 1 69.21 ? C30 KDW 201 B 1 
HETATM 40 C C31 KDW . . . C 2 -0.92 -25.38 -19.759 1 74.03 ? C31 KDW 201 B 1 
HETATM 41 C C32 KDW . . . C 2 -0.836 -25.219 -22.123 1 80.76 ? C32 KDW 201 B 1 
HETATM 42 C C33 KDW . . . C 2 0.486 -24.851 -22.111 1 85.65 ? C33 KDW 201 B 1 
HETATM 43 C C34 KDW . . . C 2 1.075 -24.383 -23.26 1 87.78 ? C34 KDW 201 B 1 
HETATM 44 C C35 KDW . . . C 2 0.351 -24.274 -24.442 1 89.64 ? C35 KDW 201 B 1 
HETATM 45 C C36 KDW . . . C 2 0.995 -23.745 -25.697 1 92.9 ? C36 KDW 201 B 1 
HETATM 46 C C37 KDW . . . C 2 0.19 -21.453 -25.597 1 102.59 ? C37 KDW 201 B 1 
HETATM 47 C C38 KDW . . . C 2 -0.561 -21.509 -26.907 1 104.69 ? C38 KDW 201 B 1 
HETATM 48 C C39 KDW . . . C 2 0.985 -19.855 -27.817 1 108.42 ? C39 KDW 201 B 1 
HETATM 49 C C40 KDW . . . C 2 0.728 -18.711 -28.747 1 106.01 ? C40 KDW 201 B 1 
HETATM 50 C C41 KDW . . . C 2 -0.98 -24.657 -24.425 1 85.56 ? C41 KDW 201 B 1 
HETATM 51 C C42 KDW . . . C 2 -1.598 -25.13 -23.278 1 82.49 ? C42 KDW 201 B 1 
HETATM 52 C C43 KDW . . . C 2 -3.046 -25.525 -23.288 1 86.11 ? C43 KDW 201 B 1 
HETATM 53 C C44 KDW . . . C 2 2.767 -22.937 -22.454 1 89.82 ? C44 KDW 201 B 1 
HETATM 54 C C45 KDW . . . C 2 4.258 -22.955 -22.392 1 89.34 ? C45 KDW 201 B 1 
HETATM 55 C C46 KDW . . . C 2 4.989 -23.984 -22.956 1 90.69 ? C46 KDW 201 B 1 
HETATM 56 C C47 KDW . . . C 2 6.985 -23.074 -22.343 1 92.26 ? C47 KDW 201 B 1 
HETATM 57 C C48 KDW . . . C 2 6.357 -21.988 -21.748 1 90.49 ? C48 KDW 201 B 1 
HETATM 58 C C49 KDW . . . C 2 4.971 -21.939 -21.777 1 88.78 ? C49 KDW 201 B 1 
HETATM 59 C C50 KDW . . . C 2 7.105 -20.93 -21.125 1 89.25 ? C50 KDW 201 B 1 
HETATM 60 C C51 KDW . . . C 2 -3.697 -24.961 -8.382 1 63.05 ? C51 KDW 201 B 1 
HETATM 61 C C52 KDW . . . C 2 -3.468 -25.413 -7.093 1 66.25 ? C52 KDW 201 B 1 
HETATM 62 C C53 KDW . . . C 2 -4.847 -24.048 -8.689 1 62.12 ? C53 KDW 201 B 1 
HETATM 63 N N4 KDW . . . C 2 1.357 -22.332 -25.627 1 97.12 ? N4 KDW 201 B 1 
HETATM 64 N N5 KDW . . . C 2 0.219 -20.929 -27.986 1 106.71 ? N5 KDW 201 B 1 
HETATM 65 N N6 KDW . . . C 2 6.322 -24.061 -22.943 1 92.17 ? N6 KDW 201 B 1 
HETATM 66 N N7 KDW . . . C 2 7.67 -20.077 -20.621 1 87.08 ? N7 KDW 201 B 1 
HETATM 67 O O4 KDW . . . C 2 1.85 -19.805 -26.95 1 106.49 ? O4 KDW 201 B 1 
HETATM 68 O O5 KDW . . . C 2 2.375 -23.992 -23.324 1 87.94 ? O5 KDW 201 B 1 
#
_model_server_stats.io_time_ms              51 
_model_server_stats.parse_time_ms           11 
_model_server_stats.create_model_time_ms    2 
_model_server_stats.query_time_ms           272 
_model_server_stats.encode_time_ms          9 
_model_server_stats.element_count           68 
#