data_5VFN
#
_model_server_result.job_id            Ed_pEtUeLBemjXdMD_na_A 
_model_server_result.datetime_utc      '2024-11-08 13:46:27' 
_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          5vfn 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":202}' 
#
_entry.id    5VFN 
#
_exptl.entry_id    5VFN 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              148.2 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            1-ETHOXY-2-(2-METHOXYETHOXY)ETHANE 
_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          95.86 
_cell.angle_gamma         90 
_cell.entry_id            5VFN 
_cell.length_a            45.775 
_cell.length_b            58.655 
_cell.length_c            58.128 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5VFN 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        4 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 1 21 1' 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    dimeric 
_pdbx_struct_assembly.oligomeric_count      2 
_pdbx_struct_assembly.details               author_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 
_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 D N N 
? 3 H 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 26 A CYS 27 1_555 A SG CYS 115 A CYS 126 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.018 ? 
disulf ? disulf2 A SG CYS 28 A CYS 29 1_555 A SG CYS 44 A CYS 45 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? 
disulf ? disulf3 A SG CYS 50 A CYS 51 1_555 A SG CYS 88 A CYS 98 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? 
disulf ? disulf4 A SG CYS 75 A CYS 84 1_555 A SG CYS 86 A CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.935 ? 
disulf ? disulf5 B SG CYS 43 B CYS 44 1_555 B SG CYS 95 B CYS 105 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? 
disulf ? disulf6 B SG CYS 50 B CYS 51 1_555 B SG CYS 88 B CYS 98 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? 
disulf ? disulf7 B SG CYS 57 B CYS 61 1_555 B SG CYS 81 B CYS 91 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? 
disulf ? disulf8 B SG CYS 75 B CYS 84 1_555 B SG CYS 86 B CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? 
covale ? covale1 A SG CYS 57 A CYS 61 1_555 A CB CYS 81 A CYS 91 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.836 ? 
covale ? covale2 B SG CYS 26 B CYS 27 1_555 B CB CYS 115 B CYS 126 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.932 ? 
#
_chem_comp.formula           'C7 H16 O3' 
_chem_comp.formula_weight    148.2 
_chem_comp.id                ME2 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              1-ETHOXY-2-(2-METHOXYETHOXY)ETHANE 
_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
C7 C6 ME2 sing 239 n n 
C7 H71 ME2 sing 240 n n 
C7 H72 ME2 sing 241 n n 
C7 H73 ME2 sing 242 n n 
C6 O3 ME2 sing 243 n n 
C6 H61 ME2 sing 244 n n 
C6 H62 ME2 sing 245 n n 
O3 C5 ME2 sing 246 n n 
C5 C4 ME2 sing 247 n n 
C5 H51 ME2 sing 248 n n 
C5 H52 ME2 sing 249 n n 
C4 O2 ME2 sing 250 n n 
C4 H41 ME2 sing 251 n n 
C4 H42 ME2 sing 252 n n 
O2 C3 ME2 sing 253 n n 
C3 C2 ME2 sing 254 n n 
C3 H31 ME2 sing 255 n n 
C3 H32 ME2 sing 256 n n 
C2 O1 ME2 sing 257 n n 
C2 H21 ME2 sing 258 n n 
C2 H22 ME2 sing 259 n n 
O1 C1 ME2 sing 260 n n 
C1 H11 ME2 sing 261 n n 
C1 H12 ME2 sing 262 n n 
C1 H13 ME2 sing 263 n n 
#
_atom_sites.entry_id                     5VFN 
_atom_sites.fract_transf_matrix[1][1]    0.021846 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.002241 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.017049 
_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]    0.017294 
_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 HCI A 1 201 2 HCI CAF . 
D 3 ME2 A 1 202 7 ME2 PE4 . 
E 4 SO4 A 1 203 1 SO4 SO4 . 
F 4 SO4 A 1 204 1 SO4 SO4 . 
G 4 SO4 A 1 205 1 SO4 SO4 . 
H 3 ME2 B 1 201 6 ME2 PE4 . 
I 4 SO4 B 1 202 1 SO4 SO4 . 
J 4 SO4 B 1 203 1 SO4 SO4 . 
K 4 SO4 B 1 204 1 SO4 SO4 . 
L 5 HOH A 1 301 87 HOH HOH . 
L 5 HOH A 2 302 63 HOH HOH . 
L 5 HOH A 3 303 78 HOH HOH . 
L 5 HOH A 4 304 39 HOH HOH . 
L 5 HOH A 5 305 37 HOH HOH . 
L 5 HOH A 6 306 35 HOH HOH . 
L 5 HOH A 7 307 48 HOH HOH . 
L 5 HOH A 8 308 26 HOH HOH . 
L 5 HOH A 9 309 86 HOH HOH . 
L 5 HOH A 10 310 41 HOH HOH . 
L 5 HOH A 11 311 16 HOH HOH . 
L 5 HOH A 12 312 70 HOH HOH . 
L 5 HOH A 13 313 8 HOH HOH . 
L 5 HOH A 14 314 5 HOH HOH . 
L 5 HOH A 15 315 6 HOH HOH . 
L 5 HOH A 16 316 45 HOH HOH . 
L 5 HOH A 17 317 56 HOH HOH . 
L 5 HOH A 18 318 24 HOH HOH . 
L 5 HOH A 19 319 25 HOH HOH . 
L 5 HOH A 20 320 76 HOH HOH . 
L 5 HOH A 21 321 42 HOH HOH . 
L 5 HOH A 22 322 36 HOH HOH . 
L 5 HOH A 23 323 12 HOH HOH . 
L 5 HOH A 24 324 28 HOH HOH . 
L 5 HOH A 25 325 43 HOH HOH . 
L 5 HOH A 26 326 90 HOH HOH . 
L 5 HOH A 27 327 58 HOH HOH . 
L 5 HOH A 28 328 92 HOH HOH . 
L 5 HOH A 29 329 17 HOH HOH . 
L 5 HOH A 30 330 69 HOH HOH . 
L 5 HOH A 31 331 20 HOH HOH . 
L 5 HOH A 32 332 74 HOH HOH . 
L 5 HOH A 33 333 100 HOH HOH . 
L 5 HOH A 34 334 88 HOH HOH . 
L 5 HOH A 35 335 23 HOH HOH . 
L 5 HOH A 36 336 68 HOH HOH . 
L 5 HOH A 37 337 64 HOH HOH . 
L 5 HOH A 38 338 30 HOH HOH . 
L 5 HOH A 39 339 31 HOH HOH . 
L 5 HOH A 40 340 57 HOH HOH . 
L 5 HOH A 41 341 3 HOH HOH . 
L 5 HOH A 42 342 102 HOH HOH . 
L 5 HOH A 43 343 97 HOH HOH . 
L 5 HOH A 44 344 50 HOH HOH . 
L 5 HOH A 45 345 79 HOH HOH . 
L 5 HOH A 46 346 73 HOH HOH . 
L 5 HOH A 47 347 98 HOH HOH . 
L 5 HOH A 48 348 19 HOH HOH . 
L 5 HOH A 49 349 71 HOH HOH . 
L 5 HOH A 50 350 101 HOH HOH . 
L 5 HOH A 51 351 96 HOH HOH . 
M 5 HOH B 1 301 44 HOH HOH . 
M 5 HOH B 2 302 1 HOH HOH . 
M 5 HOH B 3 303 32 HOH HOH . 
M 5 HOH B 4 304 75 HOH HOH . 
M 5 HOH B 5 305 22 HOH HOH . 
M 5 HOH B 6 306 10 HOH HOH . 
M 5 HOH B 7 307 38 HOH HOH . 
M 5 HOH B 8 308 60 HOH HOH . 
M 5 HOH B 9 309 18 HOH HOH . 
M 5 HOH B 10 310 29 HOH HOH . 
M 5 HOH B 11 311 33 HOH HOH . 
M 5 HOH B 12 312 46 HOH HOH . 
M 5 HOH B 13 313 7 HOH HOH . 
M 5 HOH B 14 314 93 HOH HOH . 
M 5 HOH B 15 315 4 HOH HOH . 
M 5 HOH B 16 316 51 HOH HOH . 
M 5 HOH B 17 317 49 HOH HOH . 
M 5 HOH B 18 318 67 HOH HOH . 
M 5 HOH B 19 319 2 HOH HOH . 
M 5 HOH B 20 320 34 HOH HOH . 
M 5 HOH B 21 321 11 HOH HOH . 
M 5 HOH B 22 322 13 HOH HOH . 
M 5 HOH B 23 323 53 HOH HOH . 
M 5 HOH B 24 324 47 HOH HOH . 
M 5 HOH B 25 325 85 HOH HOH . 
M 5 HOH B 26 326 9 HOH HOH . 
M 5 HOH B 27 327 14 HOH HOH . 
M 5 HOH B 28 328 62 HOH HOH . 
M 5 HOH B 29 329 82 HOH HOH . 
M 5 HOH B 30 330 103 HOH HOH . 
M 5 HOH B 31 331 52 HOH HOH . 
M 5 HOH B 32 332 77 HOH HOH . 
M 5 HOH B 33 333 91 HOH HOH . 
M 5 HOH B 34 334 72 HOH HOH . 
M 5 HOH B 35 335 81 HOH HOH . 
M 5 HOH B 36 336 55 HOH HOH . 
M 5 HOH B 37 337 94 HOH HOH . 
M 5 HOH B 38 338 99 HOH HOH . 
M 5 HOH B 39 339 21 HOH HOH . 
M 5 HOH B 40 340 66 HOH HOH . 
M 5 HOH B 41 341 15 HOH HOH . 
M 5 HOH B 42 342 84 HOH HOH . 
M 5 HOH B 43 343 59 HOH HOH . 
M 5 HOH B 44 344 61 HOH HOH . 
M 5 HOH B 45 345 40 HOH HOH . 
M 5 HOH B 46 346 95 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 C7 ME2 . . . D 3 40.126 10.032 125.771 1 44.49 ? C7 ME2 202 A 1 
HETATM 2 C C6 ME2 . . . D 3 40.35 11.372 126.447 1 45.07 ? C6 ME2 202 A 1 
HETATM 3 O O3 ME2 . . . D 3 39.161 12.096 126.516 1 46.13 ? O3 ME2 202 A 1 
HETATM 4 C C5 ME2 . . . D 3 38.5 12.326 125.284 1 47.28 ? C5 ME2 202 A 1 
HETATM 5 C C4 ME2 . . . D 3 37.983 13.756 125.242 1 48.36 ? C4 ME2 202 A 1 
HETATM 6 O O2 ME2 . . . D 3 37.031 13.95 124.209 1 48.98 ? O2 ME2 202 A 1 
HETATM 7 C C3 ME2 . . . D 3 36.865 15.268 123.783 1 48.98 ? C3 ME2 202 A 1 
HETATM 8 C C2 ME2 . . . D 3 38.212 16.114 123.653 1 23.09 ? C2 ME2 202 A 1 
#
_model_server_stats.io_time_ms              12 
_model_server_stats.parse_time_ms           13 
_model_server_stats.create_model_time_ms    9 
_model_server_stats.query_time_ms           334 
_model_server_stats.encode_time_ms          8 
_model_server_stats.element_count           8 
#