data_5Y8W
#
_model_server_result.job_id            In_XmPkKgTkOTWFkmb63mg 
_model_server_result.datetime_utc      '2024-10-19 03:46:53' 
_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          5y8w 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":203}' 
#
_entry.id    5Y8W 
#
_exptl.entry_id    5Y8W 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              62.068 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            1,2-ETHANEDIOL 
_entity.pdbx_number_of_molecules    5 
_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            5Y8W 
_cell.length_a            38.97 
_cell.length_b            48.2 
_cell.length_c            77.68 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5Y8W 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        19 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 21 21 21' 
#
_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,E,F,G,H,I,J,K 
_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
? 3 C N N 
? 3 D N N 
? 3 E N N 
? 3 F N N 
? 3 G 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
metalc ? metalc1 A O TYR 110 A TYR 137 1_555 I NA NA . A NA 208 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.471 ? 
metalc ? metalc2 A O ILE 111 A ILE 138 1_555 I NA NA . A NA 208 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.532 ? 
metalc ? metalc3 A O ASN 113 A ASN 140 1_555 I NA NA . A NA 208 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.272 ? 
metalc ? metalc4 I NA NA . A NA 208 1_555 K O HOH . A HOH 356 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.401 ? 
metalc ? metalc5 I NA NA . A NA 208 1_555 K O HOH . A HOH 357 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.252 ? 
metalc ? metalc6 I NA NA . A NA 208 1_555 K O HOH . A HOH 360 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.201 ? 
#
_chem_comp.formula           'C2 H6 O2' 
_chem_comp.formula_weight    62.068 
_chem_comp.id                EDO 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              1,2-ETHANEDIOL 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     'ETHYLENE GLYCOL' 
#
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
C1 O1 EDO sing 122 n n 
C1 C2 EDO sing 123 n n 
C1 H11 EDO sing 124 n n 
C1 H12 EDO sing 125 n n 
O1 HO1 EDO sing 126 n n 
C2 O2 EDO sing 127 n n 
C2 H21 EDO sing 128 n n 
C2 H22 EDO sing 129 n n 
O2 HO2 EDO sing 130 n n 
#
_atom_sites.entry_id                     5Y8W 
_atom_sites.fract_transf_matrix[1][1]    0.025661 
_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]    0.020747 
_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]    0.012873 
_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 8PU A 1 201 1 8PU E0F . 
C 3 EDO A 1 202 1 EDO EDO . 
D 3 EDO A 1 203 2 EDO EDO . 
E 3 EDO A 1 204 3 EDO EDO . 
F 3 EDO A 1 205 4 EDO EDO . 
G 3 EDO A 1 206 6 EDO EDO . 
H 4 NO3 A 1 207 1 NO3 NO3 . 
I 5 NA A 1 208 1 NA NA . 
J 6 GOL A 1 209 1 GOL GOL . 
K 7 HOH A 1 301 2 HOH HOH . 
K 7 HOH A 2 302 15 HOH HOH . 
K 7 HOH A 3 303 14 HOH HOH . 
K 7 HOH A 4 304 37 HOH HOH . 
K 7 HOH A 5 305 21 HOH HOH . 
K 7 HOH A 6 306 62 HOH HOH . 
K 7 HOH A 7 307 67 HOH HOH . 
K 7 HOH A 8 308 17 HOH HOH . 
K 7 HOH A 9 309 56 HOH HOH . 
K 7 HOH A 10 310 26 HOH HOH . 
K 7 HOH A 11 311 38 HOH HOH . 
K 7 HOH A 12 312 12 HOH HOH . 
K 7 HOH A 13 313 43 HOH HOH . 
K 7 HOH A 14 314 61 HOH HOH . 
K 7 HOH A 15 315 44 HOH HOH . 
K 7 HOH A 16 316 58 HOH HOH . 
K 7 HOH A 17 317 55 HOH HOH . 
K 7 HOH A 18 318 23 HOH HOH . 
K 7 HOH A 19 319 49 HOH HOH . 
K 7 HOH A 20 320 19 HOH HOH . 
K 7 HOH A 21 321 13 HOH HOH . 
K 7 HOH A 22 322 27 HOH HOH . 
K 7 HOH A 23 323 33 HOH HOH . 
K 7 HOH A 24 324 10 HOH HOH . 
K 7 HOH A 25 325 30 HOH HOH . 
K 7 HOH A 26 326 7 HOH HOH . 
K 7 HOH A 27 327 18 HOH HOH . 
K 7 HOH A 28 328 42 HOH HOH . 
K 7 HOH A 29 329 1 HOH HOH . 
K 7 HOH A 30 330 4 HOH HOH . 
K 7 HOH A 31 331 3 HOH HOH . 
K 7 HOH A 32 332 36 HOH HOH . 
K 7 HOH A 33 333 59 HOH HOH . 
K 7 HOH A 34 334 28 HOH HOH . 
K 7 HOH A 35 335 16 HOH HOH . 
K 7 HOH A 36 336 53 HOH HOH . 
K 7 HOH A 37 337 22 HOH HOH . 
K 7 HOH A 38 338 69 HOH HOH . 
K 7 HOH A 39 339 31 HOH HOH . 
K 7 HOH A 40 340 48 HOH HOH . 
K 7 HOH A 41 341 20 HOH HOH . 
K 7 HOH A 42 342 41 HOH HOH . 
K 7 HOH A 43 343 6 HOH HOH . 
K 7 HOH A 44 344 11 HOH HOH . 
K 7 HOH A 45 345 46 HOH HOH . 
K 7 HOH A 46 346 52 HOH HOH . 
K 7 HOH A 47 347 50 HOH HOH . 
K 7 HOH A 48 348 25 HOH HOH . 
K 7 HOH A 49 349 8 HOH HOH . 
K 7 HOH A 50 350 24 HOH HOH . 
K 7 HOH A 51 351 34 HOH HOH . 
K 7 HOH A 52 352 47 HOH HOH . 
K 7 HOH A 53 353 39 HOH HOH . 
K 7 HOH A 54 354 9 HOH HOH . 
K 7 HOH A 55 355 51 HOH HOH . 
K 7 HOH A 56 356 35 HOH HOH . 
K 7 HOH A 57 357 60 HOH HOH . 
K 7 HOH A 58 358 57 HOH HOH . 
K 7 HOH A 59 359 40 HOH HOH . 
K 7 HOH A 60 360 45 HOH HOH . 
K 7 HOH A 61 361 68 HOH HOH . 
K 7 HOH A 62 362 63 HOH HOH . 
K 7 HOH A 63 363 66 HOH HOH . 
K 7 HOH A 64 364 65 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 C1 EDO . . . D 3 -12.354 -0.093 -9.629 1 43.85 ? C1 EDO 203 A 1 
HETATM 2 O O1 EDO . . . D 3 -12.053 0.33 -8.274 1 31.52 ? O1 EDO 203 A 1 
HETATM 3 C C2 EDO . . . D 3 -11.268 -1 -10.207 1 43.29 ? C2 EDO 203 A 1 
HETATM 4 O O2 EDO . . . D 3 -11.198 -2.122 -9.293 1 48.62 ? O2 EDO 203 A 1 
#
_model_server_stats.io_time_ms              7 
_model_server_stats.parse_time_ms           9 
_model_server_stats.create_model_time_ms    2 
_model_server_stats.query_time_ms           309 
_model_server_stats.encode_time_ms          6 
_model_server_stats.element_count           4 
#