data_3W8V
#
_model_server_result.job_id            cS_vtAtUazHLemCEuEnwmg 
_model_server_result.datetime_utc      '2024-11-17 02:54:34' 
_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          3w8v 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"J","auth_seq_id":103}' 
#
_entry.id    3W8V 
#
_exptl.entry_id    3W8V 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              62.068 
_entity.id                          3 
_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            3W8V 
_cell.length_a            31.168 
_cell.length_b            34.162 
_cell.length_c            95.067 
_cell.Z_PDB               12 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3W8V 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        19 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 21 21 21' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    trimeric 
_pdbx_struct_assembly.oligomeric_count      3 
_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 
_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 E N N 
? 3 J 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
covale ? covale1 A N ARG 1 A ARG 1 1_555 D C7 TYZ . A TYZ 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.36 ? 
covale ? covale2 B N ARG 1 B ARG 1 1_555 F C7 TYZ . B TYZ 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? 
covale ? covale3 B NZ LYS 21 B LYS 21 1_555 G C7 TYZ . B TYZ 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.352 ? 
covale ? covale4 C N ARG 1 C ARG 1 1_555 H C7 TYZ . C TYZ 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.35 ? 
covale ? covale5 C NZ LYS 21 C LYS 21 1_555 I C7 TYZ . C TYZ 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.341 ? 
#
_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 39 n n 
C1 C2 EDO sing 40 n n 
C1 H11 EDO sing 41 n n 
C1 H12 EDO sing 42 n n 
O1 HO1 EDO sing 43 n n 
C2 O2 EDO sing 44 n n 
C2 H21 EDO sing 45 n n 
C2 H22 EDO sing 46 n n 
O2 HO2 EDO sing 47 n n 
#
_atom_sites.entry_id                     3W8V 
_atom_sites.fract_transf_matrix[1][1]    0.032084 
_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]    0.029272 
_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]    0.010519 
_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
D 2 TYZ A 1 101 400 TYZ ARR . 
E 3 EDO A 1 102 402 EDO ETG . 
F 2 TYZ B 1 101 400 TYZ ARR . 
G 2 TYZ B 1 102 401 TYZ LAR . 
H 2 TYZ C 1 101 400 TYZ ARR . 
I 2 TYZ C 1 102 401 TYZ LAR . 
J 3 EDO C 1 103 402 EDO ETG . 
K 4 HOH A 1 201 2 HOH HOH . 
K 4 HOH A 2 202 3 HOH HOH . 
K 4 HOH A 3 203 22 HOH HOH . 
K 4 HOH A 4 204 24 HOH HOH . 
K 4 HOH A 5 205 29 HOH HOH . 
K 4 HOH A 6 206 37 HOH HOH . 
K 4 HOH A 7 207 38 HOH HOH . 
K 4 HOH A 8 208 40 HOH HOH . 
K 4 HOH A 9 209 46 HOH HOH . 
K 4 HOH A 10 210 47 HOH HOH . 
K 4 HOH A 11 211 48 HOH HOH . 
K 4 HOH A 12 212 51 HOH HOH . 
K 4 HOH A 13 213 58 HOH HOH . 
K 4 HOH A 14 214 61 HOH HOH . 
K 4 HOH A 15 215 78 HOH HOH . 
K 4 HOH A 16 216 82 HOH HOH . 
K 4 HOH A 17 217 83 HOH HOH . 
K 4 HOH A 18 218 99 HOH HOH . 
K 4 HOH A 19 219 103 HOH HOH . 
K 4 HOH A 20 220 109 HOH HOH . 
L 4 HOH B 1 201 9 HOH HOH . 
L 4 HOH B 2 202 10 HOH HOH . 
L 4 HOH B 3 203 13 HOH HOH . 
L 4 HOH B 4 204 25 HOH HOH . 
L 4 HOH B 5 205 27 HOH HOH . 
L 4 HOH B 6 206 32 HOH HOH . 
L 4 HOH B 7 207 34 HOH HOH . 
L 4 HOH B 8 208 41 HOH HOH . 
L 4 HOH B 9 209 42 HOH HOH . 
L 4 HOH B 10 210 43 HOH HOH . 
L 4 HOH B 11 211 49 HOH HOH . 
L 4 HOH B 12 212 55 HOH HOH . 
L 4 HOH B 13 213 56 HOH HOH . 
L 4 HOH B 14 214 57 HOH HOH . 
L 4 HOH B 15 215 64 HOH HOH . 
L 4 HOH B 16 216 70 HOH HOH . 
L 4 HOH B 17 217 73 HOH HOH . 
L 4 HOH B 18 218 75 HOH HOH . 
L 4 HOH B 19 219 80 HOH HOH . 
L 4 HOH B 20 220 86 HOH HOH . 
L 4 HOH B 21 221 112 HOH HOH . 
L 4 HOH B 22 222 127 HOH HOH . 
L 4 HOH B 23 223 136 HOH HOH . 
L 4 HOH B 24 224 142 HOH HOH . 
L 4 HOH B 25 225 145 HOH HOH . 
L 4 HOH B 26 226 148 HOH HOH . 
L 4 HOH B 27 227 149 HOH HOH . 
M 4 HOH C 1 201 5 HOH HOH . 
M 4 HOH C 2 202 11 HOH HOH . 
M 4 HOH C 3 203 14 HOH HOH . 
M 4 HOH C 4 204 15 HOH HOH . 
M 4 HOH C 5 205 18 HOH HOH . 
M 4 HOH C 6 206 20 HOH HOH . 
M 4 HOH C 7 207 28 HOH HOH . 
M 4 HOH C 8 208 35 HOH HOH . 
M 4 HOH C 9 209 50 HOH HOH . 
M 4 HOH C 10 210 53 HOH HOH . 
M 4 HOH C 11 211 66 HOH HOH . 
M 4 HOH C 12 212 74 HOH HOH . 
M 4 HOH C 13 213 79 HOH HOH . 
M 4 HOH C 14 214 96 HOH HOH . 
M 4 HOH C 15 215 122 HOH HOH . 
M 4 HOH C 16 216 124 HOH HOH . 
M 4 HOH C 17 217 125 HOH HOH . 
M 4 HOH C 18 218 129 HOH HOH . 
M 4 HOH C 19 219 130 HOH HOH . 
M 4 HOH C 20 220 133 HOH HOH . 
M 4 HOH C 21 221 139 HOH HOH . 
M 4 HOH C 22 222 140 HOH HOH . 
M 4 HOH C 23 223 150 HOH HOH . 
M 4 HOH C 24 224 151 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 . . . J 3 -11.689 -11.534 -4.23 1 29.21 ? C1 EDO 103 C 1 
HETATM 2 O O1 EDO . . . J 3 -11.372 -12.828 -3.685 1 29.07 ? O1 EDO 103 C 1 
HETATM 3 C C2 EDO . . . J 3 -13.228 -11.391 -4.329 1 28.3 ? C2 EDO 103 C 1 
HETATM 4 O O2 EDO . . . J 3 -13.765 -11.328 -2.987 1 26.56 ? O2 EDO 103 C 1 
#
_model_server_stats.io_time_ms              9 
_model_server_stats.parse_time_ms           11 
_model_server_stats.create_model_time_ms    2 
_model_server_stats.query_time_ms           319 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           4 
#