data_6VD3
#
_model_server_result.job_id            XTiGIU8Uy62NptK4ywHNGw 
_model_server_result.datetime_utc      '2024-10-10 07:21:59' 
_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          6vd3 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"I","auth_seq_id":204}' 
#
_entry.id    6VD3 
#
_exptl.entry_id    6VD3 
_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    2 
_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            6VD3 
_cell.length_a            60.656 
_cell.length_b            67.432 
_cell.length_c            67.547 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6VD3 
_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,K 1 1 
B,F,G,H,I,J,L 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 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 5 H N N 
? 5 I 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 NE2 HIS 89 A HIS 89 1_555 C FE MH0 . A MH0 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.239 ? 
metalc ? metalc2 B NE2 HIS 89 B HIS 89 1_555 F FE MH0 . B MH0 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.21 ? 
#
_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 96 n n 
C1 C2 EDO sing 97 n n 
C1 H11 EDO sing 98 n n 
C1 H12 EDO sing 99 n n 
O1 HO1 EDO sing 100 n n 
C2 O2 EDO sing 101 n n 
C2 H21 EDO sing 102 n n 
C2 H22 EDO sing 103 n n 
O2 HO2 EDO sing 104 n n 
#
_atom_sites.entry_id                     6VD3 
_atom_sites.fract_transf_matrix[1][1]    0.016486 
_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]    0.01483 
_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]    0.014805 
_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 MH0 A 1 201 201 MH0 MH0 . 
D 3 BML A 1 202 301 BML BML . 
E 4 SO4 A 1 203 1 SO4 SO4 . 
F 2 MH0 B 1 201 201 MH0 MH0 . 
G 3 BML B 1 202 301 BML BML . 
H 5 EDO B 1 203 401 EDO EDO . 
I 5 EDO B 1 204 501 EDO EDO . 
J 4 SO4 B 1 205 2 SO4 SO4 . 
K 6 HOH A 1 301 138 HOH HOH . 
K 6 HOH A 2 302 109 HOH HOH . 
K 6 HOH A 3 303 112 HOH HOH . 
K 6 HOH A 4 304 141 HOH HOH . 
K 6 HOH A 5 305 103 HOH HOH . 
K 6 HOH A 6 306 58 HOH HOH . 
K 6 HOH A 7 307 142 HOH HOH . 
K 6 HOH A 8 308 144 HOH HOH . 
K 6 HOH A 9 309 115 HOH HOH . 
K 6 HOH A 10 310 63 HOH HOH . 
K 6 HOH A 11 311 6 HOH HOH . 
K 6 HOH A 12 312 78 HOH HOH . 
K 6 HOH A 13 313 139 HOH HOH . 
K 6 HOH A 14 314 120 HOH HOH . 
K 6 HOH A 15 315 94 HOH HOH . 
K 6 HOH A 16 316 70 HOH HOH . 
K 6 HOH A 17 317 136 HOH HOH . 
K 6 HOH A 18 318 39 HOH HOH . 
K 6 HOH A 19 319 117 HOH HOH . 
K 6 HOH A 20 320 51 HOH HOH . 
K 6 HOH A 21 321 140 HOH HOH . 
K 6 HOH A 22 322 64 HOH HOH . 
K 6 HOH A 23 323 69 HOH HOH . 
K 6 HOH A 24 324 21 HOH HOH . 
K 6 HOH A 25 325 118 HOH HOH . 
K 6 HOH A 26 326 75 HOH HOH . 
K 6 HOH A 27 327 143 HOH HOH . 
K 6 HOH A 28 328 113 HOH HOH . 
K 6 HOH A 29 329 84 HOH HOH . 
K 6 HOH A 30 330 105 HOH HOH . 
K 6 HOH A 31 331 32 HOH HOH . 
K 6 HOH A 32 332 11 HOH HOH . 
K 6 HOH A 33 333 135 HOH HOH . 
K 6 HOH A 34 334 99 HOH HOH . 
K 6 HOH A 35 335 2 HOH HOH . 
K 6 HOH A 36 336 47 HOH HOH . 
K 6 HOH A 37 337 25 HOH HOH . 
K 6 HOH A 38 338 67 HOH HOH . 
K 6 HOH A 39 339 76 HOH HOH . 
K 6 HOH A 40 340 92 HOH HOH . 
K 6 HOH A 41 341 104 HOH HOH . 
K 6 HOH A 42 342 28 HOH HOH . 
K 6 HOH A 43 343 10 HOH HOH . 
K 6 HOH A 44 344 13 HOH HOH . 
K 6 HOH A 45 345 44 HOH HOH . 
K 6 HOH A 46 346 15 HOH HOH . 
K 6 HOH A 47 347 22 HOH HOH . 
K 6 HOH A 48 348 54 HOH HOH . 
K 6 HOH A 49 349 12 HOH HOH . 
K 6 HOH A 50 350 14 HOH HOH . 
K 6 HOH A 51 351 127 HOH HOH . 
K 6 HOH A 52 352 130 HOH HOH . 
K 6 HOH A 53 353 85 HOH HOH . 
K 6 HOH A 54 354 124 HOH HOH . 
K 6 HOH A 55 355 41 HOH HOH . 
K 6 HOH A 56 356 49 HOH HOH . 
K 6 HOH A 57 357 134 HOH HOH . 
K 6 HOH A 58 358 65 HOH HOH . 
K 6 HOH A 59 359 131 HOH HOH . 
K 6 HOH A 60 360 122 HOH HOH . 
K 6 HOH A 61 361 128 HOH HOH . 
K 6 HOH A 62 362 50 HOH HOH . 
K 6 HOH A 63 363 121 HOH HOH . 
K 6 HOH A 64 364 133 HOH HOH . 
K 6 HOH A 65 365 60 HOH HOH . 
K 6 HOH A 66 366 93 HOH HOH . 
K 6 HOH A 67 367 116 HOH HOH . 
K 6 HOH A 68 368 132 HOH HOH . 
K 6 HOH A 69 369 107 HOH HOH . 
K 6 HOH A 70 370 37 HOH HOH . 
K 6 HOH A 71 371 106 HOH HOH . 
K 6 HOH A 72 372 100 HOH HOH . 
K 6 HOH A 73 373 119 HOH HOH . 
K 6 HOH A 74 374 87 HOH HOH . 
K 6 HOH A 75 375 108 HOH HOH . 
K 6 HOH A 76 376 57 HOH HOH . 
K 6 HOH A 77 377 129 HOH HOH . 
K 6 HOH A 78 378 73 HOH HOH . 
K 6 HOH A 79 379 9 HOH HOH . 
K 6 HOH A 80 380 24 HOH HOH . 
K 6 HOH A 81 381 96 HOH HOH . 
K 6 HOH A 82 382 77 HOH HOH . 
K 6 HOH A 83 383 158 HOH HOH . 
K 6 HOH A 84 384 43 HOH HOH . 
K 6 HOH A 85 385 137 HOH HOH . 
K 6 HOH A 86 386 102 HOH HOH . 
L 6 HOH B 1 301 91 HOH HOH . 
L 6 HOH B 2 302 156 HOH HOH . 
L 6 HOH B 3 303 148 HOH HOH . 
L 6 HOH B 4 304 110 HOH HOH . 
L 6 HOH B 5 305 123 HOH HOH . 
L 6 HOH B 6 306 36 HOH HOH . 
L 6 HOH B 7 307 114 HOH HOH . 
L 6 HOH B 8 308 29 HOH HOH . 
L 6 HOH B 9 309 165 HOH HOH . 
L 6 HOH B 10 310 59 HOH HOH . 
L 6 HOH B 11 311 3 HOH HOH . 
L 6 HOH B 12 312 154 HOH HOH . 
L 6 HOH B 13 313 66 HOH HOH . 
L 6 HOH B 14 314 38 HOH HOH . 
L 6 HOH B 15 315 52 HOH HOH . 
L 6 HOH B 16 316 147 HOH HOH . 
L 6 HOH B 17 317 34 HOH HOH . 
L 6 HOH B 18 318 81 HOH HOH . 
L 6 HOH B 19 319 23 HOH HOH . 
L 6 HOH B 20 320 20 HOH HOH . 
L 6 HOH B 21 321 125 HOH HOH . 
L 6 HOH B 22 322 27 HOH HOH . 
L 6 HOH B 23 323 150 HOH HOH . 
L 6 HOH B 24 324 19 HOH HOH . 
L 6 HOH B 25 325 53 HOH HOH . 
L 6 HOH B 26 326 160 HOH HOH . 
L 6 HOH B 27 327 4 HOH HOH . 
L 6 HOH B 28 328 46 HOH HOH . 
L 6 HOH B 29 329 72 HOH HOH . 
L 6 HOH B 30 330 18 HOH HOH . 
L 6 HOH B 31 331 149 HOH HOH . 
L 6 HOH B 32 332 31 HOH HOH . 
L 6 HOH B 33 333 35 HOH HOH . 
L 6 HOH B 34 334 153 HOH HOH . 
L 6 HOH B 35 335 95 HOH HOH . 
L 6 HOH B 36 336 56 HOH HOH . 
L 6 HOH B 37 337 82 HOH HOH . 
L 6 HOH B 38 338 26 HOH HOH . 
L 6 HOH B 39 339 42 HOH HOH . 
L 6 HOH B 40 340 48 HOH HOH . 
L 6 HOH B 41 341 30 HOH HOH . 
L 6 HOH B 42 342 86 HOH HOH . 
L 6 HOH B 43 343 162 HOH HOH . 
L 6 HOH B 44 344 163 HOH HOH . 
L 6 HOH B 45 345 16 HOH HOH . 
L 6 HOH B 46 346 8 HOH HOH . 
L 6 HOH B 47 347 111 HOH HOH . 
L 6 HOH B 48 348 145 HOH HOH . 
L 6 HOH B 49 349 45 HOH HOH . 
L 6 HOH B 50 350 17 HOH HOH . 
L 6 HOH B 51 351 33 HOH HOH . 
L 6 HOH B 52 352 159 HOH HOH . 
L 6 HOH B 53 353 5 HOH HOH . 
L 6 HOH B 54 354 146 HOH HOH . 
L 6 HOH B 55 355 155 HOH HOH . 
L 6 HOH B 56 356 74 HOH HOH . 
L 6 HOH B 57 357 161 HOH HOH . 
L 6 HOH B 58 358 164 HOH HOH . 
L 6 HOH B 59 359 83 HOH HOH . 
L 6 HOH B 60 360 7 HOH HOH . 
L 6 HOH B 61 361 151 HOH HOH . 
L 6 HOH B 62 362 152 HOH HOH . 
L 6 HOH B 63 363 40 HOH HOH . 
L 6 HOH B 64 364 126 HOH HOH . 
L 6 HOH B 65 365 68 HOH HOH . 
L 6 HOH B 66 366 157 HOH HOH . 
L 6 HOH B 67 367 101 HOH HOH . 
L 6 HOH B 68 368 79 HOH HOH . 
L 6 HOH B 69 369 62 HOH HOH . 
L 6 HOH B 70 370 61 HOH HOH . 
L 6 HOH B 71 371 71 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 . . . I 5 -17.58 20.441 -26.861 0.5 18.44 ? C1 EDO 204 B 1 
HETATM 2 O O1 EDO . . . I 5 -16.324 20.12 -26.316 0.5 18.54 ? O1 EDO 204 B 1 
HETATM 3 C C2 EDO . . . I 5 -18.2 21.627 -26.23 0.5 18.48 ? C2 EDO 204 B 1 
HETATM 4 O O2 EDO . . . I 5 -18.288 21.518 -24.821 0.5 17.74 ? O2 EDO 204 B 1 
#
_model_server_stats.io_time_ms              10 
_model_server_stats.parse_time_ms           12 
_model_server_stats.create_model_time_ms    4 
_model_server_stats.query_time_ms           273 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           4 
#