data_5VNV # _model_server_result.job_id Q2xqxMtg7-nWOr86nrLmzw _model_server_result.datetime_utc '2024-11-08 19:45:30' _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 5vnv # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":201}' # _entry.id 5VNV # _exptl.entry_id 5VNV _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 238.278 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'PENTAETHYLENE GLYCOL' _entity.pdbx_number_of_molecules 3 _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 5VNV _cell.length_a 106.751 _cell.length_b 106.751 _cell.length_c 52.232 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5VNV _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 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 _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 ? 2 B N N ? 2 C N N ? 2 D 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 disulf ? disulf1 A SG CYS 22 A CYS 22 1_555 A SG CYS 95 A CYS 95 1_555 ? ? ? ? A ? ? ? ? ? ? ? 2.055 ? disulf ? disulf2 A SG CYS 22 A CYS 22 1_555 A SG CYS 95 A CYS 95 1_555 ? ? ? ? B ? ? ? ? ? ? ? 2.051 ? metalc ? metalc1 A OE1 GLN 13 A GLN 13 1_555 G K K . A K 206 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.977 ? metalc ? metalc2 A OH TYR 27 A TYR 27 1_555 G K K . A K 206 4_554 ? ? ? ? ? ? ? ? ? ? ? ? 2.88 ? metalc ? metalc3 A O ILE 28 A ILE 28 1_555 E K K . A K 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.823 ? metalc ? metalc4 A OD2 ASP 30 A ASP 30 1_555 G K K . A K 206 4_554 ? ? ? ? ? ? ? ? ? ? ? ? 3.161 ? metalc ? metalc5 A O HIS 53 A HIS 53 1_555 H K K . A K 207 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.671 ? metalc ? metalc6 A OG1 THR 55 A THR 55 1_555 H K K . A K 207 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.712 ? metalc ? metalc7 A OD1 ASN 56 A ASN 56 1_555 H K K . A K 207 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.922 ? metalc ? metalc8 A O THR 57 A THR 57 1_555 F K K . A K 205 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.567 ? metalc ? metalc9 A O THR 57 A THR 57 1_555 F K K . A K 205 10_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.906 ? metalc ? metalc10 A O GLY 65 A GLY 65 1_555 H K K . A K 207 8_556 ? ? ? ? ? ? ? ? ? ? ? ? 2.87 ? metalc ? metalc11 A O ASN 73 A ASN 73 1_555 E K K . A K 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.63 ? metalc ? metalc12 A OD1 ASN 76 A ASN 76 1_555 E K K . A K 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.676 ? metalc ? metalc13 A O GLU 120 A GLU 120 1_555 G K K . A K 206 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.616 ? metalc ? metalc14 E K K . A K 204 1_555 J O HOH . A HOH 327 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.715 ? metalc ? metalc15 E K K . A K 204 1_555 J O HOH . A HOH 332 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.058 ? metalc ? metalc16 E K K . A K 204 1_555 J O HOH . A HOH 378 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.813 ? metalc ? metalc17 F K K . A K 205 1_555 I O1 FMT . A FMT 208 10_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.278 ? metalc ? metalc18 F K K . A K 205 1_555 I O2 FMT . A FMT 208 10_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.24 ? metalc ? metalc19 F K K . A K 205 1_555 J O HOH . A HOH 303 10_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.872 ? metalc ? metalc20 F K K . A K 205 1_555 J O HOH . A HOH 358 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.749 ? metalc ? metalc21 F K K . A K 205 1_555 J O HOH . A HOH 358 10_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.406 ? metalc ? metalc22 G K K . A K 206 1_555 J O HOH . A HOH 327 3_545 ? ? ? ? ? ? ? ? ? ? ? ? 2.827 ? metalc ? metalc23 H K K . A K 207 1_555 J O HOH . A HOH 316 8_556 ? ? ? ? ? ? ? ? ? ? ? ? 2.753 ? metalc ? metalc24 H K K . A K 207 1_555 J O HOH . A HOH 335 10_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.742 ? metalc ? metalc25 H K K . A K 207 1_555 J O HOH . A HOH 414 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.758 ? # _chem_comp.formula 'C10 H22 O6' _chem_comp.formula_weight 238.278 _chem_comp.id 1PE _chem_comp.mon_nstd_flag . _chem_comp.name 'PENTAETHYLENE GLYCOL' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms PEG400 # 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 OH2 C12 1PE sing 1 n n OH2 HO2 1PE sing 2 n n C12 C22 1PE sing 3 n n C12 H121 1PE sing 4 n n C12 H122 1PE sing 5 n n C22 OH3 1PE sing 6 n n C22 H221 1PE sing 7 n n C22 H222 1PE sing 8 n n OH3 C23 1PE sing 9 n n C13 C23 1PE sing 10 n n C13 OH4 1PE sing 11 n n C13 H131 1PE sing 12 n n C13 H132 1PE sing 13 n n C23 H231 1PE sing 14 n n C23 H232 1PE sing 15 n n OH4 C24 1PE sing 16 n n C14 C24 1PE sing 17 n n C14 OH5 1PE sing 18 n n C14 H141 1PE sing 19 n n C14 H142 1PE sing 20 n n C24 H241 1PE sing 21 n n C24 H242 1PE sing 22 n n OH5 C25 1PE sing 23 n n C15 C25 1PE sing 24 n n C15 OH6 1PE sing 25 n n C15 H151 1PE sing 26 n n C15 H152 1PE sing 27 n n C25 H251 1PE sing 28 n n C25 H252 1PE sing 29 n n OH6 C26 1PE sing 30 n n C16 C26 1PE sing 31 n n C16 OH7 1PE sing 32 n n C16 H161 1PE sing 33 n n C16 H162 1PE sing 34 n n C26 H261 1PE sing 35 n n C26 H262 1PE sing 36 n n OH7 HO7 1PE sing 37 n n # _atom_sites.entry_id 5VNV _atom_sites.fract_transf_matrix[1][1] 0.009368 _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] 0.009368 _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] 0.019145 _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 1PE A 1 201 1 1PE PEG . C 2 1PE A 1 202 2 1PE PEG . D 2 1PE A 1 203 3 1PE PEG . E 3 K A 1 204 4 K K . F 3 K A 1 205 5 K K . G 3 K A 1 206 6 K K . H 3 K A 1 207 7 K K . I 4 FMT A 1 208 8 FMT FMT . J 5 HOH A 1 301 102 HOH HOH . J 5 HOH A 2 302 95 HOH HOH . J 5 HOH A 3 303 137 HOH HOH . J 5 HOH A 4 304 101 HOH HOH . J 5 HOH A 5 305 128 HOH HOH . J 5 HOH A 6 306 46 HOH HOH . J 5 HOH A 7 307 61 HOH HOH . J 5 HOH A 8 308 110 HOH HOH . J 5 HOH A 9 309 136 HOH HOH . J 5 HOH A 10 310 51 HOH HOH . J 5 HOH A 11 311 33 HOH HOH . J 5 HOH A 12 312 21 HOH HOH . J 5 HOH A 13 313 72 HOH HOH . J 5 HOH A 14 314 65 HOH HOH . J 5 HOH A 15 315 114 HOH HOH . J 5 HOH A 16 316 103 HOH HOH . J 5 HOH A 17 317 139 HOH HOH . J 5 HOH A 18 318 77 HOH HOH . J 5 HOH A 19 319 70 HOH HOH . J 5 HOH A 20 320 89 HOH HOH . J 5 HOH A 21 321 10 HOH HOH . J 5 HOH A 22 322 34 HOH HOH . J 5 HOH A 23 323 97 HOH HOH . J 5 HOH A 24 324 50 HOH HOH . J 5 HOH A 25 325 107 HOH HOH . J 5 HOH A 26 326 71 HOH HOH . J 5 HOH A 27 327 73 HOH HOH . J 5 HOH A 28 328 17 HOH HOH . J 5 HOH A 29 329 68 HOH HOH . J 5 HOH A 30 330 82 HOH HOH . J 5 HOH A 31 331 9 HOH HOH . J 5 HOH A 32 332 56 HOH HOH . J 5 HOH A 33 333 31 HOH HOH . J 5 HOH A 34 334 87 HOH HOH . J 5 HOH A 35 335 42 HOH HOH . J 5 HOH A 36 336 48 HOH HOH . J 5 HOH A 37 337 27 HOH HOH . J 5 HOH A 38 338 11 HOH HOH . J 5 HOH A 39 339 23 HOH HOH . J 5 HOH A 40 340 55 HOH HOH . J 5 HOH A 41 341 13 HOH HOH . J 5 HOH A 42 342 44 HOH HOH . J 5 HOH A 43 343 66 HOH HOH . J 5 HOH A 44 344 141 HOH HOH . J 5 HOH A 45 345 104 HOH HOH . J 5 HOH A 46 346 52 HOH HOH . J 5 HOH A 47 347 100 HOH HOH . J 5 HOH A 48 348 83 HOH HOH . J 5 HOH A 49 349 24 HOH HOH . J 5 HOH A 50 350 12 HOH HOH . J 5 HOH A 51 351 57 HOH HOH . J 5 HOH A 52 352 32 HOH HOH . J 5 HOH A 53 353 111 HOH HOH . J 5 HOH A 54 354 123 HOH HOH . J 5 HOH A 55 355 99 HOH HOH . J 5 HOH A 56 356 19 HOH HOH . J 5 HOH A 57 357 40 HOH HOH . J 5 HOH A 58 358 25 HOH HOH . J 5 HOH A 59 359 92 HOH HOH . J 5 HOH A 60 360 142 HOH HOH . J 5 HOH A 61 361 22 HOH HOH . J 5 HOH A 62 362 84 HOH HOH . J 5 HOH A 63 363 16 HOH HOH . J 5 HOH A 64 364 49 HOH HOH . J 5 HOH A 65 365 58 HOH HOH . J 5 HOH A 66 366 129 HOH HOH . J 5 HOH A 67 367 113 HOH HOH . J 5 HOH A 68 368 26 HOH HOH . J 5 HOH A 69 369 138 HOH HOH . J 5 HOH A 70 370 96 HOH HOH . J 5 HOH A 71 371 88 HOH HOH . J 5 HOH A 72 372 112 HOH HOH . J 5 HOH A 73 373 130 HOH HOH . J 5 HOH A 74 374 135 HOH HOH . J 5 HOH A 75 375 59 HOH HOH . J 5 HOH A 76 376 122 HOH HOH . J 5 HOH A 77 377 85 HOH HOH . J 5 HOH A 78 378 30 HOH HOH . J 5 HOH A 79 379 47 HOH HOH . J 5 HOH A 80 380 118 HOH HOH . J 5 HOH A 81 381 14 HOH HOH . J 5 HOH A 82 382 18 HOH HOH . J 5 HOH A 83 383 106 HOH HOH . J 5 HOH A 84 384 105 HOH HOH . J 5 HOH A 85 385 29 HOH HOH . J 5 HOH A 86 386 74 HOH HOH . J 5 HOH A 87 387 126 HOH HOH . J 5 HOH A 88 388 80 HOH HOH . J 5 HOH A 89 389 15 HOH HOH . J 5 HOH A 90 390 60 HOH HOH . J 5 HOH A 91 391 45 HOH HOH . J 5 HOH A 92 392 78 HOH HOH . J 5 HOH A 93 393 63 HOH HOH . J 5 HOH A 94 394 98 HOH HOH . J 5 HOH A 95 395 28 HOH HOH . J 5 HOH A 96 396 38 HOH HOH . J 5 HOH A 97 397 41 HOH HOH . J 5 HOH A 98 398 86 HOH HOH . J 5 HOH A 99 399 90 HOH HOH . J 5 HOH A 100 400 43 HOH HOH . J 5 HOH A 101 401 69 HOH HOH . J 5 HOH A 102 402 64 HOH HOH . J 5 HOH A 103 403 20 HOH HOH . J 5 HOH A 104 404 132 HOH HOH . J 5 HOH A 105 405 54 HOH HOH . J 5 HOH A 106 406 37 HOH HOH . J 5 HOH A 107 407 91 HOH HOH . J 5 HOH A 108 408 94 HOH HOH . J 5 HOH A 109 409 93 HOH HOH . J 5 HOH A 110 410 36 HOH HOH . J 5 HOH A 111 411 75 HOH HOH . J 5 HOH A 112 412 79 HOH HOH . J 5 HOH A 113 413 81 HOH HOH . J 5 HOH A 114 414 62 HOH HOH . J 5 HOH A 115 415 140 HOH HOH . J 5 HOH A 116 416 121 HOH HOH . J 5 HOH A 117 417 35 HOH HOH . J 5 HOH A 118 418 108 HOH HOH . J 5 HOH A 119 419 109 HOH HOH . J 5 HOH A 120 420 53 HOH HOH . J 5 HOH A 121 421 133 HOH HOH . J 5 HOH A 122 422 39 HOH HOH . J 5 HOH A 123 423 125 HOH HOH . J 5 HOH A 124 424 131 HOH HOH . J 5 HOH A 125 425 120 HOH HOH . J 5 HOH A 126 426 127 HOH HOH . J 5 HOH A 127 427 115 HOH HOH . J 5 HOH A 128 428 124 HOH HOH . J 5 HOH A 129 429 134 HOH HOH . J 5 HOH A 130 430 76 HOH HOH . J 5 HOH A 131 431 67 HOH HOH . J 5 HOH A 132 432 116 HOH HOH . J 5 HOH A 133 433 117 HOH HOH . J 5 HOH A 134 434 119 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 OH2 1PE . . . B 2 3.797 -1.619 -5.122 0.49 43.53 ? OH2 1PE 201 A 1 HETATM 2 C C12 1PE . . . B 2 2.705 -2.493 -5.192 0.49 43.18 ? C12 1PE 201 A 1 HETATM 3 C C22 1PE . . . B 2 2.127 -2.69 -3.791 0.49 42.51 ? C22 1PE 201 A 1 HETATM 4 O OH3 1PE . . . B 2 2.385 -4.001 -3.368 0.49 41.56 ? OH3 1PE 201 A 1 HETATM 5 C C13 1PE . . . B 2 3.611 -5.481 -1.924 0.49 38.8 ? C13 1PE 201 A 1 HETATM 6 C C23 1PE . . . B 2 3.508 -4.085 -2.541 0.49 40.25 ? C23 1PE 201 A 1 HETATM 7 O OH4 1PE . . . B 2 4.593 -5.443 -0.922 0.49 39.17 ? OH4 1PE 201 A 1 HETATM 8 C C14 1PE . . . B 2 5.533 -4.37 1.016 0.49 38.71 ? C14 1PE 201 A 1 HETATM 9 C C24 1PE . . . B 2 4.332 -4.497 0.076 0.49 38.09 ? C24 1PE 201 A 1 HETATM 10 O OH5 1PE . . . B 2 5.261 -3.373 1.969 0.49 39.54 ? OH5 1PE 201 A 1 HETATM 11 C C15 1PE . . . B 2 3.816 -2.568 3.741 0.49 41.79 ? C15 1PE 201 A 1 HETATM 12 C C25 1PE . . . B 2 3.978 -3.477 2.526 0.49 40.31 ? C25 1PE 201 A 1 HETATM 13 O OH6 1PE . . . B 2 2.455 -2.595 4.083 0.49 42.74 ? OH6 1PE 201 A 1 HETATM 14 C C16 1PE . . . B 2 1.125 -4.046 5.416 0.49 44.06 ? C16 1PE 201 A 1 HETATM 15 C C26 1PE . . . B 2 2.187 -2.947 5.41 0.49 43.27 ? C26 1PE 201 A 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 25 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 316 _model_server_stats.encode_time_ms 10 _model_server_stats.element_count 15 #