data_6YQ8
#
_model_server_result.job_id            '_vJWVEg659HFyniIBUhcHw' 
_model_server_result.datetime_utc      '2024-11-15 01:16:40' 
_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          6yq8 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"N","auth_seq_id":206}' 
#
_entry.id    6YQ8 
#
_exptl.entry_id    6YQ8 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              62.068 
_entity.id                          5 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            1,2-ETHANEDIOL 
_entity.pdbx_number_of_molecules    7 
_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            6YQ8 
_cell.length_a            153.514 
_cell.length_b            153.514 
_cell.length_c            39.358 
_cell.Z_PDB               6 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6YQ8 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        173 
_symmetry.space_group_name_Hall    'P 6c' 
_symmetry.space_group_name_H-M     'P 63' 
#
_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,F,G,H,I,J,K,L,M,N,O,P,Q,R,S,T,U 
_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
? 5 F N N 
? 5 L N N 
? 5 M N N 
? 5 N N N 
? 5 P N N 
? 5 R N N 
? 5 S 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
covale ? covale1 A SG CYS 84 A CYS 84 1_555 C CAC CYC . A CYC 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.769 ? 
covale ? covale2 B C GLY 71 B GLY 71 1_555 B N MEN 72 B MEN 72 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? 
covale ? covale3 B C MEN 72 B MEN 72 1_555 B N ALA 73 B ALA 73 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? 
covale ? covale4 B SG CYS 82 B CYS 82 1_555 I CAC CYC . B CYC 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.765 ? 
covale ? covale5 B SG CYS 153 B CYS 153 1_555 J CAC CYC . B CYC 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.769 ? 
#
_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 169 n n 
C1 C2 EDO sing 170 n n 
C1 H11 EDO sing 171 n n 
C1 H12 EDO sing 172 n n 
O1 HO1 EDO sing 173 n n 
C2 O2 EDO sing 174 n n 
C2 H21 EDO sing 175 n n 
C2 H22 EDO sing 176 n n 
O2 HO2 EDO sing 177 n n 
#
_atom_sites.entry_id                     6YQ8 
_atom_sites.fract_transf_matrix[1][1]    0.006514 
_atom_sites.fract_transf_matrix[1][2]    0.003761 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.007522 
_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]    0.025408 
_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 3 CYC A 1 201 489 CYC CYC . 
D 4 GOL A 1 202 501 GOL GOL . 
E 4 GOL A 1 203 601 GOL GOL . 
F 5 EDO A 1 204 701 EDO EDO . 
G 6 PGE A 1 205 801 PGE PGE . 
H 6 PGE A 1 206 1101 PGE PGE . 
I 3 CYC B 1 201 500 CYC CYC . 
J 3 CYC B 1 202 501 CYC CYC . 
K 4 GOL B 1 203 701 GOL GOL . 
L 5 EDO B 1 204 801 EDO EDO . 
M 5 EDO B 1 205 901 EDO EDO . 
N 5 EDO B 1 206 1001 EDO EDO . 
O 6 PGE B 1 207 1201 PGE PGE . 
P 5 EDO B 1 208 1301 EDO EDO . 
Q 6 PGE B 1 209 1401 PGE PGE . 
R 5 EDO B 1 210 1501 EDO EDO . 
S 5 EDO B 1 211 1601 EDO EDO . 
T 7 HOH A 1 301 98 HOH HOH . 
T 7 HOH A 2 302 245 HOH HOH . 
T 7 HOH A 3 303 254 HOH HOH . 
T 7 HOH A 4 304 134 HOH HOH . 
T 7 HOH A 5 305 193 HOH HOH . 
T 7 HOH A 6 306 196 HOH HOH . 
T 7 HOH A 7 307 61 HOH HOH . 
T 7 HOH A 8 308 231 HOH HOH . 
T 7 HOH A 9 309 223 HOH HOH . 
T 7 HOH A 10 310 205 HOH HOH . 
T 7 HOH A 11 311 101 HOH HOH . 
T 7 HOH A 12 312 81 HOH HOH . 
T 7 HOH A 13 313 211 HOH HOH . 
T 7 HOH A 14 314 90 HOH HOH . 
T 7 HOH A 15 315 143 HOH HOH . 
T 7 HOH A 16 316 107 HOH HOH . 
T 7 HOH A 17 317 145 HOH HOH . 
T 7 HOH A 18 318 110 HOH HOH . 
T 7 HOH A 19 319 9 HOH HOH . 
T 7 HOH A 20 320 122 HOH HOH . 
T 7 HOH A 21 321 198 HOH HOH . 
T 7 HOH A 22 322 79 HOH HOH . 
T 7 HOH A 23 323 21 HOH HOH . 
T 7 HOH A 24 324 54 HOH HOH . 
T 7 HOH A 25 325 41 HOH HOH . 
T 7 HOH A 26 326 230 HOH HOH . 
T 7 HOH A 27 327 130 HOH HOH . 
T 7 HOH A 28 328 187 HOH HOH . 
T 7 HOH A 29 329 111 HOH HOH . 
T 7 HOH A 30 330 105 HOH HOH . 
T 7 HOH A 31 331 118 HOH HOH . 
T 7 HOH A 32 332 47 HOH HOH . 
T 7 HOH A 33 333 239 HOH HOH . 
T 7 HOH A 34 334 75 HOH HOH . 
T 7 HOH A 35 335 20 HOH HOH . 
T 7 HOH A 36 336 235 HOH HOH . 
T 7 HOH A 37 337 37 HOH HOH . 
T 7 HOH A 38 338 133 HOH HOH . 
T 7 HOH A 39 339 244 HOH HOH . 
T 7 HOH A 40 340 242 HOH HOH . 
T 7 HOH A 41 341 123 HOH HOH . 
T 7 HOH A 42 342 102 HOH HOH . 
T 7 HOH A 43 343 248 HOH HOH . 
T 7 HOH A 44 344 85 HOH HOH . 
T 7 HOH A 45 345 92 HOH HOH . 
T 7 HOH A 46 346 129 HOH HOH . 
T 7 HOH A 47 347 251 HOH HOH . 
T 7 HOH A 48 348 229 HOH HOH . 
T 7 HOH A 49 349 48 HOH HOH . 
T 7 HOH A 50 350 204 HOH HOH . 
T 7 HOH A 51 351 237 HOH HOH . 
T 7 HOH A 52 352 39 HOH HOH . 
T 7 HOH A 53 353 108 HOH HOH . 
T 7 HOH A 54 354 106 HOH HOH . 
T 7 HOH A 55 355 15 HOH HOH . 
T 7 HOH A 56 356 203 HOH HOH . 
T 7 HOH A 57 357 151 HOH HOH . 
T 7 HOH A 58 358 121 HOH HOH . 
T 7 HOH A 59 359 97 HOH HOH . 
T 7 HOH A 60 360 160 HOH HOH . 
T 7 HOH A 61 361 188 HOH HOH . 
T 7 HOH A 62 362 181 HOH HOH . 
T 7 HOH A 63 363 96 HOH HOH . 
T 7 HOH A 64 364 115 HOH HOH . 
T 7 HOH A 65 365 114 HOH HOH . 
T 7 HOH A 66 366 212 HOH HOH . 
T 7 HOH A 67 367 169 HOH HOH . 
T 7 HOH A 68 368 201 HOH HOH . 
T 7 HOH A 69 369 152 HOH HOH . 
T 7 HOH A 70 370 202 HOH HOH . 
T 7 HOH A 71 371 190 HOH HOH . 
T 7 HOH A 72 372 232 HOH HOH . 
T 7 HOH A 73 373 153 HOH HOH . 
T 7 HOH A 74 374 217 HOH HOH . 
T 7 HOH A 75 375 199 HOH HOH . 
T 7 HOH A 76 376 208 HOH HOH . 
T 7 HOH A 77 377 159 HOH HOH . 
T 7 HOH A 78 378 155 HOH HOH . 
U 7 HOH B 1 301 215 HOH HOH . 
U 7 HOH B 2 302 176 HOH HOH . 
U 7 HOH B 3 303 128 HOH HOH . 
U 7 HOH B 4 304 53 HOH HOH . 
U 7 HOH B 5 305 127 HOH HOH . 
U 7 HOH B 6 306 164 HOH HOH . 
U 7 HOH B 7 307 150 HOH HOH . 
U 7 HOH B 8 308 246 HOH HOH . 
U 7 HOH B 9 309 182 HOH HOH . 
U 7 HOH B 10 310 179 HOH HOH . 
U 7 HOH B 11 311 93 HOH HOH . 
U 7 HOH B 12 312 184 HOH HOH . 
U 7 HOH B 13 313 17 HOH HOH . 
U 7 HOH B 14 314 140 HOH HOH . 
U 7 HOH B 15 315 238 HOH HOH . 
U 7 HOH B 16 316 192 HOH HOH . 
U 7 HOH B 17 317 14 HOH HOH . 
U 7 HOH B 18 318 233 HOH HOH . 
U 7 HOH B 19 319 178 HOH HOH . 
U 7 HOH B 20 320 46 HOH HOH . 
U 7 HOH B 21 321 227 HOH HOH . 
U 7 HOH B 22 322 241 HOH HOH . 
U 7 HOH B 23 323 216 HOH HOH . 
U 7 HOH B 24 324 163 HOH HOH . 
U 7 HOH B 25 325 206 HOH HOH . 
U 7 HOH B 26 326 89 HOH HOH . 
U 7 HOH B 27 327 185 HOH HOH . 
U 7 HOH B 28 328 73 HOH HOH . 
U 7 HOH B 29 329 186 HOH HOH . 
U 7 HOH B 30 330 136 HOH HOH . 
U 7 HOH B 31 331 28 HOH HOH . 
U 7 HOH B 32 332 60 HOH HOH . 
U 7 HOH B 33 333 65 HOH HOH . 
U 7 HOH B 34 334 36 HOH HOH . 
U 7 HOH B 35 335 6 HOH HOH . 
U 7 HOH B 36 336 42 HOH HOH . 
U 7 HOH B 37 337 24 HOH HOH . 
U 7 HOH B 38 338 67 HOH HOH . 
U 7 HOH B 39 339 8 HOH HOH . 
U 7 HOH B 40 340 2 HOH HOH . 
U 7 HOH B 41 341 35 HOH HOH . 
U 7 HOH B 42 342 18 HOH HOH . 
U 7 HOH B 43 343 22 HOH HOH . 
U 7 HOH B 44 344 1 HOH HOH . 
U 7 HOH B 45 345 113 HOH HOH . 
U 7 HOH B 46 346 44 HOH HOH . 
U 7 HOH B 47 347 87 HOH HOH . 
U 7 HOH B 48 348 131 HOH HOH . 
U 7 HOH B 49 349 80 HOH HOH . 
U 7 HOH B 50 350 214 HOH HOH . 
U 7 HOH B 51 351 13 HOH HOH . 
U 7 HOH B 52 352 62 HOH HOH . 
U 7 HOH B 53 353 109 HOH HOH . 
U 7 HOH B 54 354 125 HOH HOH . 
U 7 HOH B 55 355 177 HOH HOH . 
U 7 HOH B 56 356 94 HOH HOH . 
U 7 HOH B 57 357 77 HOH HOH . 
U 7 HOH B 58 358 219 HOH HOH . 
U 7 HOH B 59 359 210 HOH HOH . 
U 7 HOH B 60 360 180 HOH HOH . 
U 7 HOH B 61 361 3 HOH HOH . 
U 7 HOH B 62 362 30 HOH HOH . 
U 7 HOH B 63 363 174 HOH HOH . 
U 7 HOH B 64 364 7 HOH HOH . 
U 7 HOH B 65 365 240 HOH HOH . 
U 7 HOH B 66 366 57 HOH HOH . 
U 7 HOH B 67 367 12 HOH HOH . 
U 7 HOH B 68 368 38 HOH HOH . 
U 7 HOH B 69 369 26 HOH HOH . 
U 7 HOH B 70 370 23 HOH HOH . 
U 7 HOH B 71 371 58 HOH HOH . 
U 7 HOH B 72 372 95 HOH HOH . 
U 7 HOH B 73 373 59 HOH HOH . 
U 7 HOH B 74 374 119 HOH HOH . 
U 7 HOH B 75 375 63 HOH HOH . 
U 7 HOH B 76 376 228 HOH HOH . 
U 7 HOH B 77 377 200 HOH HOH . 
U 7 HOH B 78 378 157 HOH HOH . 
U 7 HOH B 79 379 234 HOH HOH . 
U 7 HOH B 80 380 11 HOH HOH . 
U 7 HOH B 81 381 27 HOH HOH . 
U 7 HOH B 82 382 99 HOH HOH . 
U 7 HOH B 83 383 72 HOH HOH . 
U 7 HOH B 84 384 195 HOH HOH . 
U 7 HOH B 85 385 86 HOH HOH . 
U 7 HOH B 86 386 91 HOH HOH . 
U 7 HOH B 87 387 45 HOH HOH . 
U 7 HOH B 88 388 194 HOH HOH . 
U 7 HOH B 89 389 116 HOH HOH . 
U 7 HOH B 90 390 76 HOH HOH . 
U 7 HOH B 91 391 156 HOH HOH . 
U 7 HOH B 92 392 84 HOH HOH . 
U 7 HOH B 93 393 103 HOH HOH . 
U 7 HOH B 94 394 221 HOH HOH . 
U 7 HOH B 95 395 100 HOH HOH . 
U 7 HOH B 96 396 226 HOH HOH . 
U 7 HOH B 97 397 51 HOH HOH . 
U 7 HOH B 98 398 74 HOH HOH . 
U 7 HOH B 99 399 4 HOH HOH . 
U 7 HOH B 100 400 197 HOH HOH . 
U 7 HOH B 101 401 104 HOH HOH . 
U 7 HOH B 102 402 82 HOH HOH . 
U 7 HOH B 103 403 124 HOH HOH . 
U 7 HOH B 104 404 50 HOH HOH . 
U 7 HOH B 105 405 220 HOH HOH . 
U 7 HOH B 106 406 144 HOH HOH . 
U 7 HOH B 107 407 34 HOH HOH . 
U 7 HOH B 108 408 56 HOH HOH . 
U 7 HOH B 109 409 213 HOH HOH . 
U 7 HOH B 110 410 88 HOH HOH . 
U 7 HOH B 111 411 138 HOH HOH . 
U 7 HOH B 112 412 162 HOH HOH . 
U 7 HOH B 113 413 247 HOH HOH . 
U 7 HOH B 114 414 250 HOH HOH . 
U 7 HOH B 115 415 225 HOH HOH . 
U 7 HOH B 116 416 142 HOH HOH . 
U 7 HOH B 117 417 120 HOH HOH . 
U 7 HOH B 118 418 252 HOH HOH . 
U 7 HOH B 119 419 161 HOH HOH . 
U 7 HOH B 120 420 83 HOH HOH . 
U 7 HOH B 121 421 168 HOH HOH . 
U 7 HOH B 122 422 222 HOH HOH . 
U 7 HOH B 123 423 166 HOH HOH . 
U 7 HOH B 124 424 224 HOH HOH . 
U 7 HOH B 125 425 243 HOH HOH . 
U 7 HOH B 126 426 218 HOH HOH . 
U 7 HOH B 127 427 236 HOH HOH . 
U 7 HOH B 128 428 154 HOH HOH . 
U 7 HOH B 129 429 139 HOH HOH . 
U 7 HOH B 130 430 257 HOH HOH . 
U 7 HOH B 131 431 165 HOH HOH . 
U 7 HOH B 132 432 149 HOH HOH . 
U 7 HOH B 133 433 141 HOH HOH . 
U 7 HOH B 134 434 207 HOH HOH . 
U 7 HOH B 135 435 33 HOH HOH . 
U 7 HOH B 136 436 167 HOH HOH . 
U 7 HOH B 137 437 189 HOH HOH . 
U 7 HOH B 138 438 148 HOH HOH . 
U 7 HOH B 139 439 255 HOH HOH . 
U 7 HOH B 140 440 253 HOH HOH . 
U 7 HOH B 141 441 249 HOH HOH . 
U 7 HOH B 142 442 209 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 . . . N 5 69.81 -67.175 13.859 1 114.79 ? C1 EDO 206 B 1 
HETATM 2 O O1 EDO . . . N 5 69.994 -66.222 12.799 1 111.45 ? O1 EDO 206 B 1 
HETATM 3 C C2 EDO . . . N 5 68.353 -67.614 14.003 1 118.51 ? C2 EDO 206 B 1 
HETATM 4 O O2 EDO . . . N 5 68.04 -68.71 13.135 1 121.3 ? O2 EDO 206 B 1 
HETATM 5 H H11 EDO . . . N 5 70.145 -66.733 14.8 1 137.82 ? H11 EDO 206 B 1 
HETATM 6 H H12 EDO . . . N 5 70.429 -68.053 13.662 1 137.82 ? H12 EDO 206 B 1 
HETATM 7 H HO1 EDO . . . N 5 70.691 -65.598 13.044 1 133.81 ? HO1 EDO 206 B 1 
HETATM 8 H H21 EDO . . . N 5 68.166 -67.909 15.038 1 142.28 ? H21 EDO 206 B 1 
HETATM 9 H H22 EDO . . . N 5 67.699 -66.771 13.77 1 142.28 ? H22 EDO 206 B 1 
HETATM 10 H HO2 EDO . . . N 5 67.113 -68.958 13.251 1 145.63 ? HO2 EDO 206 B 1 
#
_model_server_stats.io_time_ms              19 
_model_server_stats.parse_time_ms           21 
_model_server_stats.create_model_time_ms    33 
_model_server_stats.query_time_ms           329 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           10 
#