data_5MEN
#
_model_server_result.job_id            phXk3nfz42tNXExTTZkoCA 
_model_server_result.datetime_utc      '2024-11-01 15:35:47' 
_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          5men 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"L","auth_seq_id":301}' 
#
_entry.id    5MEN 
#
_exptl.entry_id    5MEN 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              62.068 
_entity.id                          6 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            1,2-ETHANEDIOL 
_entity.pdbx_number_of_molecules    5 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90 
_cell.angle_beta          108.15 
_cell.angle_gamma         90 
_cell.entry_id            5MEN 
_cell.length_a            93.16 
_cell.length_b            48.69 
_cell.length_c            118.1 
_cell.Z_PDB               2 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5MEN 
_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        PISA 
_pdbx_struct_assembly.oligomeric_details    pentameric 
_pdbx_struct_assembly.oligomeric_count      5 
_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
? 6 F N N 
? 6 G N N 
? 6 L N N 
? 6 M N N 
? 6 N 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 101 A CYS 101 1_555 A SG CYS 164 A CYS 164 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.076 ? 
disulf ? disulf2 A SG CYS 203 A CYS 203 1_555 A SG CYS 259 A CYS 259 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.069 ? 
disulf ? disulf3 B SG CYS 26 B CYS 25 1_555 B SG CYS 81 B CYS 80 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.068 ? 
disulf ? disulf4 D SG CYS 22 D CYS 23 1_555 D SG CYS 86 D CYS 87 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.106 ? 
disulf ? disulf5 D SG CYS 133 D CYS 134 1_555 D SG CYS 183 D CYS 184 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.069 ? 
disulf ? disulf6 D SG CYS 158 D CYS 159 1_555 E SG CYS 167 E CYS 168 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.074 ? 
disulf ? disulf7 E SG CYS 22 E CYS 23 1_555 E SG CYS 90 E CYS 91 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? 
disulf ? disulf8 E SG CYS 141 E CYS 142 1_555 E SG CYS 206 E CYS 207 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.063 ? 
#
_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 83 n n 
C1 C2 EDO sing 84 n n 
C1 H11 EDO sing 85 n n 
C1 H12 EDO sing 86 n n 
O1 HO1 EDO sing 87 n n 
C2 O2 EDO sing 88 n n 
C2 H21 EDO sing 89 n n 
C2 H22 EDO sing 90 n n 
O2 HO2 EDO sing 91 n n 
#
_atom_sites.entry_id                     5MEN 
_atom_sites.fract_transf_matrix[1][1]    0.010734 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.003519 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.020538 
_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]    0.008911 
_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
F 6 EDO A 1 301 303 EDO EDO . 
G 6 EDO A 1 302 305 EDO EDO . 
H 7 GOL A 1 303 311 GOL GOL . 
I 8 SO4 A 1 304 321 SO4 SO4 . 
J 8 SO4 A 1 305 324 SO4 SO4 . 
K 8 SO4 A 1 306 325 SO4 SO4 . 
L 6 EDO B 1 301 301 EDO EDO . 
M 6 EDO B 1 302 302 EDO EDO . 
N 6 EDO B 1 303 304 EDO EDO . 
O 8 SO4 B 1 304 323 SO4 SO4 . 
P 8 SO4 E 1 301 322 SO4 SO4 . 
Q 9 HOH A 1 401 455 HOH HOH . 
Q 9 HOH A 2 402 428 HOH HOH . 
Q 9 HOH A 3 403 435 HOH HOH . 
Q 9 HOH A 4 404 434 HOH HOH . 
Q 9 HOH A 5 405 457 HOH HOH . 
Q 9 HOH A 6 406 456 HOH HOH . 
Q 9 HOH A 7 407 448 HOH HOH . 
Q 9 HOH A 8 408 439 HOH HOH . 
Q 9 HOH A 9 409 442 HOH HOH . 
Q 9 HOH A 10 410 422 HOH HOH . 
Q 9 HOH A 11 411 418 HOH HOH . 
Q 9 HOH A 12 412 446 HOH HOH . 
Q 9 HOH A 13 413 436 HOH HOH . 
Q 9 HOH A 14 414 415 HOH HOH . 
Q 9 HOH A 15 415 425 HOH HOH . 
Q 9 HOH A 16 416 408 HOH HOH . 
Q 9 HOH A 17 417 404 HOH HOH . 
Q 9 HOH A 18 418 450 HOH HOH . 
Q 9 HOH A 19 419 401 HOH HOH . 
Q 9 HOH A 20 420 416 HOH HOH . 
Q 9 HOH A 21 421 431 HOH HOH . 
Q 9 HOH A 22 422 432 HOH HOH . 
Q 9 HOH A 23 423 429 HOH HOH . 
R 9 HOH B 1 401 458 HOH HOH . 
R 9 HOH B 2 402 433 HOH HOH . 
R 9 HOH B 3 403 414 HOH HOH . 
R 9 HOH B 4 404 430 HOH HOH . 
R 9 HOH B 5 405 406 HOH HOH . 
R 9 HOH B 6 406 421 HOH HOH . 
R 9 HOH B 7 407 402 HOH HOH . 
R 9 HOH B 8 408 409 HOH HOH . 
R 9 HOH B 9 409 437 HOH HOH . 
R 9 HOH B 10 410 410 HOH HOH . 
R 9 HOH B 11 411 423 HOH HOH . 
R 9 HOH B 12 412 426 HOH HOH . 
R 9 HOH B 13 413 403 HOH HOH . 
S 9 HOH C 1 101 438 HOH HOH . 
T 9 HOH D 1 301 449 HOH HOH . 
T 9 HOH D 2 302 419 HOH HOH . 
T 9 HOH D 3 303 451 HOH HOH . 
T 9 HOH D 4 304 411 HOH HOH . 
T 9 HOH D 5 305 447 HOH HOH . 
T 9 HOH D 6 306 453 HOH HOH . 
T 9 HOH D 7 307 441 HOH HOH . 
T 9 HOH D 8 308 443 HOH HOH . 
T 9 HOH D 9 309 412 HOH HOH . 
T 9 HOH D 10 310 445 HOH HOH . 
T 9 HOH D 11 311 407 HOH HOH . 
U 9 HOH E 1 401 459 HOH HOH . 
U 9 HOH E 2 402 444 HOH HOH . 
U 9 HOH E 3 403 424 HOH HOH . 
U 9 HOH E 4 404 420 HOH HOH . 
U 9 HOH E 5 405 454 HOH HOH . 
U 9 HOH E 6 406 417 HOH HOH . 
U 9 HOH E 7 407 452 HOH HOH . 
U 9 HOH E 8 408 405 HOH HOH . 
U 9 HOH E 9 409 440 HOH HOH . 
U 9 HOH E 10 410 427 HOH HOH . 
U 9 HOH E 11 411 413 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 . . . L 6 20.56 2.846 18.349 1 51.9 ? C1 EDO 301 B 1 
HETATM 2 O O1 EDO . . . L 6 21.828 2.268 18.645 1 47 ? O1 EDO 301 B 1 
HETATM 3 C C2 EDO . . . L 6 19.496 2.148 19.185 1 56.16 ? C2 EDO 301 B 1 
HETATM 4 O O2 EDO . . . L 6 18.724 1.25 18.365 1 61.97 ? O2 EDO 301 B 1 
#
_model_server_stats.io_time_ms              26 
_model_server_stats.parse_time_ms           12 
_model_server_stats.create_model_time_ms    22 
_model_server_stats.query_time_ms           299 
_model_server_stats.encode_time_ms          8 
_model_server_stats.element_count           4 
#