data_6VDX
#
_model_server_result.job_id            baBM48-A1F9SZWp7ze_AIA 
_model_server_result.datetime_utc      '2024-11-28 01:53:24' 
_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          6vdx 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"E","auth_seq_id":303}' 
#
_entry.id    6VDX 
#
_exptl.entry_id    6VDX 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              106.12 
_entity.id                          4 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            DI(HYDROXYETHYL)ETHER 
_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            6VDX 
_cell.length_a            59.365 
_cell.length_b            67.585 
_cell.length_c            67.626 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6VDX 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        19 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 21 21 21' 
#
loop_
_pdbx_struct_assembly.method_details
_pdbx_struct_assembly.oligomeric_details
_pdbx_struct_assembly.oligomeric_count
_pdbx_struct_assembly.details
_pdbx_struct_assembly.id
PISA monomeric 1 author_and_software_defined_assembly 1 
PISA monomeric 1 author_and_software_defined_assembly 2 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,C,D,E,F,G,H,I,O 1 1 
B,J,K,L,M,N,P 2 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                      4 
_struct_asym.id                             E 
_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
covale ? covale1 C C6 T6C . A T6C 301 1_555 G O2D MNR . A MNR 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.5 ? 
covale ? covale2 C C6 T6C . A T6C 301 1_555 G CGD MNR . A MNR 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.525 ? 
covale ? covale3 J CL2 T6C . B T6C 301 1_555 M CBD MNR . B MNR 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.569 ? 
covale ? covale4 J CL2 T6C . B T6C 301 1_555 M O2D MNR . B MNR 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.529 ? 
covale ? covale5 J C2 T6C . B T6C 301 1_555 M CGD MNR . B MNR 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.496 ? 
covale ? covale6 J C2 T6C . B T6C 301 1_555 M O1D MNR . B MNR 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.371 ? 
metalc ? metalc1 A NE2 HIS 89 A HIS 89 1_555 G MN MNR . A MNR 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.297 ? 
metalc ? metalc2 B NE2 HIS 89 B HIS 89 1_555 M MN MNR . B MNR 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.189 ? 
#
_chem_comp.formula           'C4 H10 O3' 
_chem_comp.formula_weight    106.12 
_chem_comp.id                PEG 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              DI(HYDROXYETHYL)ETHER 
_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
C1 O1 PEG sing 328 n n 
C1 C2 PEG sing 329 n n 
C1 H11 PEG sing 330 n n 
C1 H12 PEG sing 331 n n 
O1 HO1 PEG sing 332 n n 
C2 O2 PEG sing 333 n n 
C2 H21 PEG sing 334 n n 
C2 H22 PEG sing 335 n n 
O2 C3 PEG sing 336 n n 
C3 C4 PEG sing 337 n n 
C3 H31 PEG sing 338 n n 
C3 H32 PEG sing 339 n n 
C4 O4 PEG sing 340 n n 
C4 H41 PEG sing 341 n n 
C4 H42 PEG sing 342 n n 
O4 HO4 PEG sing 343 n n 
#
_atom_sites.entry_id                     6VDX 
_atom_sites.fract_transf_matrix[1][1]    0.016845 
_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]    0.014796 
_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]    0.014787 
_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 T6C A 1 301 301 T6C T6C . 
D 3 EDO A 1 302 401 EDO EDO . 
E 4 PEG A 1 303 501 PEG PEG . 
F 3 EDO A 1 304 601 EDO EDO . 
G 5 MNR A 1 305 201 MNR MNR . 
H 6 SO4 A 1 306 1 SO4 SO4 . 
I 6 SO4 A 1 307 3 SO4 SO4 . 
J 2 T6C B 1 301 301 T6C T6C . 
K 3 EDO B 1 302 401 EDO EDO . 
L 3 EDO B 1 303 501 EDO EDO . 
M 5 MNR B 1 304 201 MNR MNR . 
N 6 SO4 B 1 305 2 SO4 SO4 . 
O 7 HOH A 1 401 190 HOH HOH . 
O 7 HOH A 2 402 149 HOH HOH . 
O 7 HOH A 3 403 201 HOH HOH . 
O 7 HOH A 4 404 192 HOH HOH . 
O 7 HOH A 5 405 159 HOH HOH . 
O 7 HOH A 6 406 160 HOH HOH . 
O 7 HOH A 7 407 155 HOH HOH . 
O 7 HOH A 8 408 33 HOH HOH . 
O 7 HOH A 9 409 204 HOH HOH . 
O 7 HOH A 10 410 162 HOH HOH . 
O 7 HOH A 11 411 39 HOH HOH . 
O 7 HOH A 12 412 215 HOH HOH . 
O 7 HOH A 13 413 134 HOH HOH . 
O 7 HOH A 14 414 173 HOH HOH . 
O 7 HOH A 15 415 154 HOH HOH . 
O 7 HOH A 16 416 71 HOH HOH . 
O 7 HOH A 17 417 16 HOH HOH . 
O 7 HOH A 18 418 40 HOH HOH . 
O 7 HOH A 19 419 145 HOH HOH . 
O 7 HOH A 20 420 163 HOH HOH . 
O 7 HOH A 21 421 212 HOH HOH . 
O 7 HOH A 22 422 213 HOH HOH . 
O 7 HOH A 23 423 206 HOH HOH . 
O 7 HOH A 24 424 65 HOH HOH . 
O 7 HOH A 25 425 63 HOH HOH . 
O 7 HOH A 26 426 82 HOH HOH . 
O 7 HOH A 27 427 102 HOH HOH . 
O 7 HOH A 28 428 105 HOH HOH . 
O 7 HOH A 29 429 73 HOH HOH . 
O 7 HOH A 30 430 171 HOH HOH . 
O 7 HOH A 31 431 121 HOH HOH . 
O 7 HOH A 32 432 77 HOH HOH . 
O 7 HOH A 33 433 103 HOH HOH . 
O 7 HOH A 34 434 87 HOH HOH . 
O 7 HOH A 35 435 196 HOH HOH . 
O 7 HOH A 36 436 36 HOH HOH . 
O 7 HOH A 37 437 56 HOH HOH . 
O 7 HOH A 38 438 54 HOH HOH . 
O 7 HOH A 39 439 14 HOH HOH . 
O 7 HOH A 40 440 19 HOH HOH . 
O 7 HOH A 41 441 30 HOH HOH . 
O 7 HOH A 42 442 76 HOH HOH . 
O 7 HOH A 43 443 172 HOH HOH . 
O 7 HOH A 44 444 92 HOH HOH . 
O 7 HOH A 45 445 130 HOH HOH . 
O 7 HOH A 46 446 209 HOH HOH . 
O 7 HOH A 47 447 22 HOH HOH . 
O 7 HOH A 48 448 24 HOH HOH . 
O 7 HOH A 49 449 128 HOH HOH . 
O 7 HOH A 50 450 31 HOH HOH . 
O 7 HOH A 51 451 106 HOH HOH . 
O 7 HOH A 52 452 86 HOH HOH . 
O 7 HOH A 53 453 62 HOH HOH . 
O 7 HOH A 54 454 147 HOH HOH . 
O 7 HOH A 55 455 28 HOH HOH . 
O 7 HOH A 56 456 164 HOH HOH . 
O 7 HOH A 57 457 3 HOH HOH . 
O 7 HOH A 58 458 195 HOH HOH . 
O 7 HOH A 59 459 137 HOH HOH . 
O 7 HOH A 60 460 202 HOH HOH . 
O 7 HOH A 61 461 208 HOH HOH . 
O 7 HOH A 62 462 68 HOH HOH . 
O 7 HOH A 63 463 189 HOH HOH . 
O 7 HOH A 64 464 112 HOH HOH . 
O 7 HOH A 65 465 43 HOH HOH . 
O 7 HOH A 66 466 108 HOH HOH . 
O 7 HOH A 67 467 70 HOH HOH . 
O 7 HOH A 68 468 78 HOH HOH . 
O 7 HOH A 69 469 197 HOH HOH . 
O 7 HOH A 70 470 194 HOH HOH . 
O 7 HOH A 71 471 41 HOH HOH . 
O 7 HOH A 72 472 119 HOH HOH . 
O 7 HOH A 73 473 166 HOH HOH . 
O 7 HOH A 74 474 47 HOH HOH . 
O 7 HOH A 75 475 46 HOH HOH . 
O 7 HOH A 76 476 17 HOH HOH . 
O 7 HOH A 77 477 167 HOH HOH . 
O 7 HOH A 78 478 170 HOH HOH . 
O 7 HOH A 79 479 168 HOH HOH . 
O 7 HOH A 80 480 42 HOH HOH . 
O 7 HOH A 81 481 161 HOH HOH . 
O 7 HOH A 82 482 83 HOH HOH . 
O 7 HOH A 83 483 211 HOH HOH . 
O 7 HOH A 84 484 216 HOH HOH . 
O 7 HOH A 85 485 69 HOH HOH . 
O 7 HOH A 86 486 165 HOH HOH . 
O 7 HOH A 87 487 96 HOH HOH . 
O 7 HOH A 88 488 114 HOH HOH . 
O 7 HOH A 89 489 45 HOH HOH . 
O 7 HOH A 90 490 107 HOH HOH . 
P 7 HOH B 1 401 214 HOH HOH . 
P 7 HOH B 2 402 123 HOH HOH . 
P 7 HOH B 3 403 91 HOH HOH . 
P 7 HOH B 4 404 15 HOH HOH . 
P 7 HOH B 5 405 169 HOH HOH . 
P 7 HOH B 6 406 90 HOH HOH . 
P 7 HOH B 7 407 207 HOH HOH . 
P 7 HOH B 8 408 135 HOH HOH . 
P 7 HOH B 9 409 193 HOH HOH . 
P 7 HOH B 10 410 101 HOH HOH . 
P 7 HOH B 11 411 111 HOH HOH . 
P 7 HOH B 12 412 150 HOH HOH . 
P 7 HOH B 13 413 176 HOH HOH . 
P 7 HOH B 14 414 133 HOH HOH . 
P 7 HOH B 15 415 66 HOH HOH . 
P 7 HOH B 16 416 203 HOH HOH . 
P 7 HOH B 17 417 60 HOH HOH . 
P 7 HOH B 18 418 35 HOH HOH . 
P 7 HOH B 19 419 191 HOH HOH . 
P 7 HOH B 20 420 110 HOH HOH . 
P 7 HOH B 21 421 158 HOH HOH . 
P 7 HOH B 22 422 53 HOH HOH . 
P 7 HOH B 23 423 200 HOH HOH . 
P 7 HOH B 24 424 13 HOH HOH . 
P 7 HOH B 25 425 139 HOH HOH . 
P 7 HOH B 26 426 11 HOH HOH . 
P 7 HOH B 27 427 140 HOH HOH . 
P 7 HOH B 28 428 81 HOH HOH . 
P 7 HOH B 29 429 116 HOH HOH . 
P 7 HOH B 30 430 50 HOH HOH . 
P 7 HOH B 31 431 51 HOH HOH . 
P 7 HOH B 32 432 74 HOH HOH . 
P 7 HOH B 33 433 79 HOH HOH . 
P 7 HOH B 34 434 27 HOH HOH . 
P 7 HOH B 35 435 20 HOH HOH . 
P 7 HOH B 36 436 183 HOH HOH . 
P 7 HOH B 37 437 100 HOH HOH . 
P 7 HOH B 38 438 64 HOH HOH . 
P 7 HOH B 39 439 9 HOH HOH . 
P 7 HOH B 40 440 186 HOH HOH . 
P 7 HOH B 41 441 174 HOH HOH . 
P 7 HOH B 42 442 146 HOH HOH . 
P 7 HOH B 43 443 80 HOH HOH . 
P 7 HOH B 44 444 187 HOH HOH . 
P 7 HOH B 45 445 94 HOH HOH . 
P 7 HOH B 46 446 188 HOH HOH . 
P 7 HOH B 47 447 38 HOH HOH . 
P 7 HOH B 48 448 185 HOH HOH . 
P 7 HOH B 49 449 153 HOH HOH . 
P 7 HOH B 50 450 21 HOH HOH . 
P 7 HOH B 51 451 151 HOH HOH . 
P 7 HOH B 52 452 199 HOH HOH . 
P 7 HOH B 53 453 72 HOH HOH . 
P 7 HOH B 54 454 29 HOH HOH . 
P 7 HOH B 55 455 138 HOH HOH . 
P 7 HOH B 56 456 57 HOH HOH . 
P 7 HOH B 57 457 58 HOH HOH . 
P 7 HOH B 58 458 115 HOH HOH . 
P 7 HOH B 59 459 84 HOH HOH . 
P 7 HOH B 60 460 129 HOH HOH . 
P 7 HOH B 61 461 88 HOH HOH . 
P 7 HOH B 62 462 10 HOH HOH . 
P 7 HOH B 63 463 89 HOH HOH . 
P 7 HOH B 64 464 25 HOH HOH . 
P 7 HOH B 65 465 182 HOH HOH . 
P 7 HOH B 66 466 118 HOH HOH . 
P 7 HOH B 67 467 7 HOH HOH . 
P 7 HOH B 68 468 93 HOH HOH . 
P 7 HOH B 69 469 23 HOH HOH . 
P 7 HOH B 70 470 152 HOH HOH . 
P 7 HOH B 71 471 210 HOH HOH . 
P 7 HOH B 72 472 34 HOH HOH . 
P 7 HOH B 73 473 175 HOH HOH . 
P 7 HOH B 74 474 179 HOH HOH . 
P 7 HOH B 75 475 18 HOH HOH . 
P 7 HOH B 76 476 6 HOH HOH . 
P 7 HOH B 77 477 178 HOH HOH . 
P 7 HOH B 78 478 61 HOH HOH . 
P 7 HOH B 79 479 104 HOH HOH . 
P 7 HOH B 80 480 49 HOH HOH . 
P 7 HOH B 81 481 37 HOH HOH . 
P 7 HOH B 82 482 198 HOH HOH . 
P 7 HOH B 83 483 180 HOH HOH . 
P 7 HOH B 84 484 75 HOH HOH . 
P 7 HOH B 85 485 98 HOH HOH . 
P 7 HOH B 86 486 177 HOH HOH . 
P 7 HOH B 87 487 48 HOH HOH . 
P 7 HOH B 88 488 95 HOH HOH . 
P 7 HOH B 89 489 99 HOH HOH . 
P 7 HOH B 90 490 181 HOH HOH . 
P 7 HOH B 91 491 113 HOH HOH . 
P 7 HOH B 92 492 26 HOH HOH . 
P 7 HOH B 93 493 184 HOH HOH . 
P 7 HOH B 94 494 97 HOH HOH . 
P 7 HOH B 95 495 125 HOH HOH . 
P 7 HOH B 96 496 131 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 PEG . . . E 4 22.396 3.264 -22.402 1 36.12 ? C1 PEG 303 A 1 
HETATM 2 O O1 PEG . . . E 4 23.177 3.283 -23.601 1 27.6 ? O1 PEG 303 A 1 
HETATM 3 C C2 PEG . . . E 4 22.177 4.65 -21.888 1 42.04 ? C2 PEG 303 A 1 
HETATM 4 O O2 PEG . . . E 4 22.327 4.712 -20.471 1 45.15 ? O2 PEG 303 A 1 
HETATM 5 C C3 PEG . . . E 4 21.97 5.965 -19.879 1 38.01 ? C3 PEG 303 A 1 
HETATM 6 C C4 PEG . . . E 4 21.682 7.025 -20.936 1 45.96 ? C4 PEG 303 A 1 
HETATM 7 O O4 PEG . . . E 4 21.037 8.174 -20.418 1 58.75 ? O4 PEG 303 A 1 
#
_model_server_stats.io_time_ms              11 
_model_server_stats.parse_time_ms           10 
_model_server_stats.create_model_time_ms    10 
_model_server_stats.query_time_ms           294 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           7 
#