data_7ZZF
#
_model_server_result.job_id            ORBLk8GOFEKu2LZfu1UqWw 
_model_server_result.datetime_utc      '2024-10-19 13:24:32' 
_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          7zzf 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":302}' 
#
_entry.id    7ZZF 
#
_exptl.entry_id    7ZZF 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              679.644 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            (1~{R},23~{R},24~{S},25~{R})-14-[[(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methyl]-7-azanyl-24,25-bis(oxidanyl)-26-oxa-2,4,6,9,14,17,21-heptazatetracyclo[21.2.1.0^{2,10}.0^{3,8}]hexacosa-3(8),4,6,9-tetraen-11-yne-18,20-dione 
_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            7ZZF 
_cell.length_a            63.532 
_cell.length_b            74.848 
_cell.length_c            119.339 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 7ZZF 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        23 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'I 2 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 
_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' 2_655 -x+1,-y,z -1 0 0 0 -1 0 0 0 1 63.532 0 0 
3 'crystal symmetry operation' 3_655 -x+1,y,-z -1 0 0 0 1 0 0 0 -1 63.532 0 0 
4 'crystal symmetry operation' 4_555 x,-y,-z 1 0 0 0 -1 0 0 0 -1 0 0 0 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      3 
_struct_asym.id                             C 
_struct_asym.pdbx_modified                  N 
_struct_asym.pdbx_blank_PDB_chainid_flag    N 
#
_chem_comp.formula           'C28 H33 N13 O8' 
_chem_comp.formula_weight    679.644 
_chem_comp.id                KHX 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              (1~{R},23~{R},24~{S},25~{R})-14-[[(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methyl]-7-azanyl-24,25-bis(oxidanyl)-26-oxa-2,4,6,9,14,17,21-heptazatetracyclo[21.2.1.0^{2,10}.0^{3,8}]hexacosa-3(8),4,6,9-tetraen-11-yne-18,20-dione 
_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
N C KHX sing 193 n n 
N4 C4 KHX sing 194 n y 
N4 C3 KHX doub 195 n y 
C C4 KHX doub 196 n y 
C N1 KHX sing 197 n y 
C4 C2 KHX sing 198 n y 
C3 N3 KHX sing 199 n y 
N1 C1 KHX doub 200 n y 
C27 O7 KHX sing 201 n n 
C27 C26 KHX sing 202 n n 
C27 C5 KHX sing 203 n n 
O6 C26 KHX sing 204 n n 
C2 N3 KHX sing 205 n y 
C2 N2 KHX doub 206 n y 
N3 C5 KHX sing 207 n n 
C26 C6 KHX sing 208 n n 
C1 N2 KHX sing 209 n y 
C5 O KHX sing 210 n n 
C6 O KHX sing 211 n n 
C6 C7 KHX sing 212 n n 
O1 C10 KHX doub 213 n n 
C7 N5 KHX sing 214 n n 
N10 C20 KHX sing 215 n n 
C10 C11 KHX sing 216 n n 
C10 N6 KHX sing 217 n n 
C11 C12 KHX sing 218 n n 
C20 N11 KHX doub 219 n y 
C20 C19 KHX sing 220 n y 
C9 N6 KHX sing 221 n n 
C9 C8 KHX sing 222 n n 
N5 C8 KHX sing 223 n n 
N5 C25 KHX sing 224 n n 
N11 C21 KHX sing 225 n y 
N9 C19 KHX sing 226 n y 
N9 C18 KHX doub 227 n y 
C19 C22 KHX doub 228 n y 
N7 C12 KHX sing 229 n n 
N7 C13 KHX sing 230 n n 
C12 O2 KHX doub 231 n n 
C21 N12 KHX doub 232 n y 
C25 C24 KHX sing 233 n n 
C18 C23 KHX sing 234 n n 
C18 N8 KHX sing 235 n y 
C24 C23 KHX trip 236 n n 
C22 N12 KHX sing 237 n y 
C22 N8 KHX sing 238 n y 
O3 C15 KHX sing 239 n n 
O3 C14 KHX sing 240 n n 
N8 C15 KHX sing 241 n n 
C13 C14 KHX sing 242 n n 
C15 C16 KHX sing 243 n n 
C14 C17 KHX sing 244 n n 
C16 C17 KHX sing 245 n n 
C16 O4 KHX sing 246 n n 
C17 O5 KHX sing 247 n n 
C7 H1 KHX sing 248 n n 
C7 H2 KHX sing 249 n n 
C8 H3 KHX sing 250 n n 
C8 H4 KHX sing 251 n n 
C9 H5 KHX sing 252 n n 
C9 H6 KHX sing 253 n n 
C1 H7 KHX sing 254 n n 
O5 H8 KHX sing 255 n n 
C5 H9 KHX sing 256 n n 
C6 H10 KHX sing 257 n n 
O4 H11 KHX sing 258 n n 
C3 H12 KHX sing 259 n n 
N H13 KHX sing 260 n n 
N H14 KHX sing 261 n n 
C11 H15 KHX sing 262 n n 
C11 H16 KHX sing 263 n n 
C13 H17 KHX sing 264 n n 
C13 H18 KHX sing 265 n n 
C14 H19 KHX sing 266 n n 
C15 H20 KHX sing 267 n n 
C16 H21 KHX sing 268 n n 
C17 H22 KHX sing 269 n n 
C21 H23 KHX sing 270 n n 
C25 H24 KHX sing 271 n n 
C25 H25 KHX sing 272 n n 
C26 H26 KHX sing 273 n n 
C27 H27 KHX sing 274 n n 
N10 H28 KHX sing 275 n n 
N10 H29 KHX sing 276 n n 
N6 H31 KHX sing 277 n n 
N7 H32 KHX sing 278 n n 
O6 H33 KHX sing 279 n n 
O7 H34 KHX sing 280 n n 
#
_atom_sites.entry_id                     7ZZF 
_atom_sites.fract_transf_matrix[1][1]    0.01574 
_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]    0.01336 
_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]    0.008379 
_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 CIT A 1 301 265 CIT CIT . 
C 3 KHX A 1 302 1 KHX XXX . 
D 4 HOH A 1 401 31 HOH HOH . 
D 4 HOH A 2 402 19 HOH HOH . 
D 4 HOH A 3 403 7 HOH HOH . 
D 4 HOH A 4 404 40 HOH HOH . 
D 4 HOH A 5 405 41 HOH HOH . 
D 4 HOH A 6 406 1 HOH HOH . 
D 4 HOH A 7 407 33 HOH HOH . 
D 4 HOH A 8 408 42 HOH HOH . 
D 4 HOH A 9 409 5 HOH HOH . 
D 4 HOH A 10 410 39 HOH HOH . 
D 4 HOH A 11 411 2 HOH HOH . 
D 4 HOH A 12 412 6 HOH HOH . 
D 4 HOH A 13 413 8 HOH HOH . 
D 4 HOH A 14 414 23 HOH HOH . 
D 4 HOH A 15 415 38 HOH HOH . 
D 4 HOH A 16 416 16 HOH HOH . 
D 4 HOH A 17 417 10 HOH HOH . 
D 4 HOH A 18 418 22 HOH HOH . 
D 4 HOH A 19 419 21 HOH HOH . 
D 4 HOH A 20 420 37 HOH HOH . 
D 4 HOH A 21 421 12 HOH HOH . 
D 4 HOH A 22 422 9 HOH HOH . 
D 4 HOH A 23 423 24 HOH HOH . 
D 4 HOH A 24 424 20 HOH HOH . 
D 4 HOH A 25 425 3 HOH HOH . 
D 4 HOH A 26 426 18 HOH HOH . 
D 4 HOH A 27 427 36 HOH HOH . 
D 4 HOH A 28 428 25 HOH HOH . 
D 4 HOH A 29 429 30 HOH HOH . 
D 4 HOH A 30 430 27 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 KHX . . . C 3 20.294 4.205 8.062 1 39.48 ? N1 KHX 302 A 1 
HETATM 2 C C7 KHX . . . C 3 14.346 9.554 10.756 1 41.12 ? C7 KHX 302 A 1 
HETATM 3 C C8 KHX . . . C 3 13.172 8.846 12.762 1 39.88 ? C8 KHX 302 A 1 
HETATM 4 N N2 KHX . . . C 3 19.699 6.329 9.032 1 40.34 ? N2 KHX 302 A 1 
HETATM 5 C C9 KHX . . . C 3 12.752 7.523 12.16 1 37.8 ? C9 KHX 302 A 1 
HETATM 6 O O1 KHX . . . C 3 14.051 6.062 10.17 1 42.16 ? O1 KHX 302 A 1 
HETATM 7 C C1 KHX . . . C 3 20.531 5.32 8.759 1 39.86 ? C1 KHX 302 A 1 
HETATM 8 O O5 KHX . . . C 3 19.997 7.024 16.261 1 47.96 ? O5 KHX 302 A 1 
HETATM 9 C C5 KHX . . . C 3 17.334 8.282 9.13 1 43.12 ? C5 KHX 302 A 1 
HETATM 10 C C6 KHX . . . C 3 15.702 9.604 10.08 1 40.54 ? C6 KHX 302 A 1 
HETATM 11 N N3 KHX . . . C 3 17.402 6.956 8.536 1 42.08 ? N3 KHX 302 A 1 
HETATM 12 C C4 KHX . . . C 3 18.093 5.011 7.763 1 40.75 ? C4 KHX 302 A 1 
HETATM 13 O O4 KHX . . . C 3 19.93 9.722 16.605 1 42.38 ? O4 KHX 302 A 1 
HETATM 14 C C3 KHX . . . C 3 16.416 6.302 7.838 1 41.69 ? C3 KHX 302 A 1 
HETATM 15 O O3 KHX . . . C 3 19.186 8.155 13.459 1 41.16 ? O3 KHX 302 A 1 
HETATM 16 C C2 KHX . . . C 3 18.492 6.112 8.497 1 41.77 ? C2 KHX 302 A 1 
HETATM 17 N N4 KHX . . . C 3 16.776 5.141 7.356 1 39.69 ? N4 KHX 302 A 1 
HETATM 18 N N KHX . . . C 3 18.841 2.907 6.822 1 38.47 ? N KHX 302 A 1 
HETATM 19 C C KHX . . . C 3 19.064 4.013 7.54 1 39.7 ? C KHX 302 A 1 
HETATM 20 O O KHX . . . C 3 16.302 8.296 10.101 1 41.13 ? O KHX 302 A 1 
HETATM 21 C C10 KHX . . . C 3 14.333 5.846 11.345 1 43.1 ? C10 KHX 302 A 1 
HETATM 22 C C11 KHX . . . C 3 15.347 4.785 11.719 1 43.67 ? C11 KHX 302 A 1 
HETATM 23 C C12 KHX . . . C 3 16.251 5.216 12.856 1 44.07 ? C12 KHX 302 A 1 
HETATM 24 C C13 KHX . . . C 3 17.035 7.252 13.972 1 43.05 ? C13 KHX 302 A 1 
HETATM 25 C C14 KHX . . . C 3 18.506 7.231 14.341 1 42.34 ? C14 KHX 302 A 1 
HETATM 26 C C15 KHX . . . C 3 19.871 9.119 14.237 1 40.66 ? C15 KHX 302 A 1 
HETATM 27 C C16 KHX . . . C 3 19.125 9.176 15.566 1 43.3 ? C16 KHX 302 A 1 
HETATM 28 C C17 KHX . . . C 3 18.84 7.689 15.763 1 45.66 ? C17 KHX 302 A 1 
HETATM 29 C C18 KHX . . . C 3 18.916 11.115 12.993 1 39.8 ? C18 KHX 302 A 1 
HETATM 30 C C19 KHX . . . C 3 20.692 12.159 12.445 1 40.5 ? C19 KHX 302 A 1 
HETATM 31 C C20 KHX . . . C 3 21.693 13.027 11.974 1 39.97 ? C20 KHX 302 A 1 
HETATM 32 C C21 KHX . . . C 3 23.231 11.575 12.913 1 39.63 ? C21 KHX 302 A 1 
HETATM 33 C C22 KHX . . . C 3 21.105 11.034 13.135 1 40.23 ? C22 KHX 302 A 1 
HETATM 34 C C23 KHX . . . C 3 17.564 10.703 13.132 1 40.94 ? C23 KHX 302 A 1 
HETATM 35 C C24 KHX . . . C 3 16.378 10.581 13.098 1 42.04 ? C24 KHX 302 A 1 
HETATM 36 C C25 KHX . . . C 3 14.914 10.502 12.963 1 41.39 ? C25 KHX 302 A 1 
HETATM 37 C C26 KHX . . . C 3 15.691 9.967 8.604 1 43.42 ? C26 KHX 302 A 1 
HETATM 38 C C27 KHX . . . C 3 17.034 9.406 8.117 1 42.79 ? C27 KHX 302 A 1 
HETATM 39 N N10 KHX . . . C 3 21.448 14.153 11.298 1 39.57 ? N10 KHX 302 A 1 
HETATM 40 N N11 KHX . . . C 3 22.978 12.697 12.234 1 39.41 ? N11 KHX 302 A 1 
HETATM 41 N N12 KHX . . . C 3 22.369 10.682 13.402 1 39.99 ? N12 KHX 302 A 1 
HETATM 42 N N5 KHX . . . C 3 14.433 9.35 12.207 1 42.75 ? N5 KHX 302 A 1 
HETATM 43 N N6 KHX . . . C 3 13.774 6.505 12.357 1 41.6 ? N6 KHX 302 A 1 
HETATM 44 N N7 KHX . . . C 3 16.732 6.456 12.788 1 42.99 ? N7 KHX 302 A 1 
HETATM 45 N N8 KHX . . . C 3 19.952 10.365 13.49 1 40.27 ? N8 KHX 302 A 1 
HETATM 46 N N9 KHX . . . C 3 19.305 12.21 12.359 1 38.12 ? N9 KHX 302 A 1 
HETATM 47 O O2 KHX . . . C 3 16.525 4.446 13.774 1 46.41 ? O2 KHX 302 A 1 
HETATM 48 O O6 KHX . . . C 3 15.603 11.374 8.412 1 43.7 ? O6 KHX 302 A 1 
HETATM 49 O O7 KHX . . . C 3 18.054 10.397 8.128 1 42.25 ? O7 KHX 302 A 1 
#
_model_server_stats.io_time_ms              68 
_model_server_stats.parse_time_ms           10 
_model_server_stats.create_model_time_ms    5 
_model_server_stats.query_time_ms           321 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           49 
#