data_5VD8
#
_model_server_result.job_id            hIqJA0Uu5azXP_1mft7hhw 
_model_server_result.datetime_utc      '2025-01-11 09:01:02' 
_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          5vd8 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":603}' 
#
_entry.id    5VD8 
#
_exptl.entry_id    5VD8 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              62.068 
_entity.id                          4 
_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          101.94 
_cell.angle_gamma         90 
_cell.entry_id            5VD8 
_cell.length_a            50.29 
_cell.length_b            44.56 
_cell.length_c            64.98 
_cell.Z_PDB               2 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5VD8 
_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    monomeric 
_pdbx_struct_assembly.oligomeric_count      1 
_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 
_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
? 4 D N N 
? 4 E N N 
#
_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 156 n n 
C1 C2 EDO sing 157 n n 
C1 H11 EDO sing 158 n n 
C1 H12 EDO sing 159 n n 
O1 HO1 EDO sing 160 n n 
C2 O2 EDO sing 161 n n 
C2 H21 EDO sing 162 n n 
C2 H22 EDO sing 163 n n 
O2 HO2 EDO sing 164 n n 
#
_atom_sites.entry_id                     5VD8 
_atom_sites.fract_transf_matrix[1][1]    0.019885 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.004205 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.022442 
_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]    0.01573 
_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
B 2 98M A 1 601 1 98M LIG . 
C 3 CL A 1 602 1 CL CL . 
D 4 EDO A 1 603 1 EDO EDO . 
E 4 EDO A 1 604 2 EDO EDO . 
F 5 HOH A 1 701 60 HOH HOH . 
F 5 HOH A 2 702 39 HOH HOH . 
F 5 HOH A 3 703 28 HOH HOH . 
F 5 HOH A 4 704 64 HOH HOH . 
F 5 HOH A 5 705 57 HOH HOH . 
F 5 HOH A 6 706 30 HOH HOH . 
F 5 HOH A 7 707 46 HOH HOH . 
F 5 HOH A 8 708 17 HOH HOH . 
F 5 HOH A 9 709 29 HOH HOH . 
F 5 HOH A 10 710 63 HOH HOH . 
F 5 HOH A 11 711 49 HOH HOH . 
F 5 HOH A 12 712 48 HOH HOH . 
F 5 HOH A 13 713 14 HOH HOH . 
F 5 HOH A 14 714 24 HOH HOH . 
F 5 HOH A 15 715 27 HOH HOH . 
F 5 HOH A 16 716 10 HOH HOH . 
F 5 HOH A 17 717 66 HOH HOH . 
F 5 HOH A 18 718 35 HOH HOH . 
F 5 HOH A 19 719 19 HOH HOH . 
F 5 HOH A 20 720 56 HOH HOH . 
F 5 HOH A 21 721 6 HOH HOH . 
F 5 HOH A 22 722 11 HOH HOH . 
F 5 HOH A 23 723 32 HOH HOH . 
F 5 HOH A 24 724 9 HOH HOH . 
F 5 HOH A 25 725 33 HOH HOH . 
F 5 HOH A 26 726 40 HOH HOH . 
F 5 HOH A 27 727 51 HOH HOH . 
F 5 HOH A 28 728 20 HOH HOH . 
F 5 HOH A 29 729 5 HOH HOH . 
F 5 HOH A 30 730 18 HOH HOH . 
F 5 HOH A 31 731 31 HOH HOH . 
F 5 HOH A 32 732 22 HOH HOH . 
F 5 HOH A 33 733 62 HOH HOH . 
F 5 HOH A 34 734 21 HOH HOH . 
F 5 HOH A 35 735 15 HOH HOH . 
F 5 HOH A 36 736 47 HOH HOH . 
F 5 HOH A 37 737 37 HOH HOH . 
F 5 HOH A 38 738 4 HOH HOH . 
F 5 HOH A 39 739 8 HOH HOH . 
F 5 HOH A 40 740 65 HOH HOH . 
F 5 HOH A 41 741 36 HOH HOH . 
F 5 HOH A 42 742 16 HOH HOH . 
F 5 HOH A 43 743 3 HOH HOH . 
F 5 HOH A 44 744 1 HOH HOH . 
F 5 HOH A 45 745 13 HOH HOH . 
F 5 HOH A 46 746 42 HOH HOH . 
F 5 HOH A 47 747 26 HOH HOH . 
F 5 HOH A 48 748 52 HOH HOH . 
F 5 HOH A 49 749 68 HOH HOH . 
F 5 HOH A 50 750 23 HOH HOH . 
F 5 HOH A 51 751 58 HOH HOH . 
F 5 HOH A 52 752 61 HOH HOH . 
F 5 HOH A 53 753 12 HOH HOH . 
F 5 HOH A 54 754 41 HOH HOH . 
F 5 HOH A 55 755 55 HOH HOH . 
F 5 HOH A 56 756 59 HOH HOH . 
F 5 HOH A 57 757 54 HOH HOH . 
F 5 HOH A 58 758 38 HOH HOH . 
F 5 HOH A 59 759 7 HOH HOH . 
F 5 HOH A 60 760 2 HOH HOH . 
F 5 HOH A 61 761 67 HOH HOH . 
F 5 HOH A 62 762 43 HOH HOH . 
F 5 HOH A 63 763 45 HOH HOH . 
F 5 HOH A 64 764 34 HOH HOH . 
F 5 HOH A 65 765 25 HOH HOH . 
F 5 HOH A 66 766 53 HOH HOH . 
F 5 HOH A 67 767 50 HOH HOH . 
F 5 HOH A 68 768 44 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 . . . D 4 0.641 -3.392 21.714 1 45.26 ? C1 EDO 603 A 1 
HETATM 2 O O1 EDO . . . D 4 0.627 -4.808 21.459 1 45.35 ? O1 EDO 603 A 1 
HETATM 3 C C2 EDO . . . D 4 -0.214 -3.101 22.947 1 45.22 ? C2 EDO 603 A 1 
HETATM 4 O O2 EDO . . . D 4 -1.391 -3.915 22.848 1 45.14 ? O2 EDO 603 A 1 
HETATM 5 H H11 EDO . . . D 4 1.666 -3.056 21.885 1 54.31 ? H11 EDO 603 A 1 
HETATM 6 H H12 EDO . . . D 4 0.243 -2.854 20.851 1 54.31 ? H12 EDO 603 A 1 
HETATM 7 H HO1 EDO . . . D 4 1.166 -5 20.679 1 54.43 ? HO1 EDO 603 A 1 
HETATM 8 H H21 EDO . . . D 4 -0.487 -2.044 22.976 1 54.26 ? H21 EDO 603 A 1 
HETATM 9 H H22 EDO . . . D 4 0.339 -3.345 23.857 1 54.26 ? H22 EDO 603 A 1 
HETATM 10 H HO2 EDO . . . D 4 -1.958 -3.757 23.614 1 54.17 ? HO2 EDO 603 A 1 
#
_model_server_stats.io_time_ms              13 
_model_server_stats.parse_time_ms           12 
_model_server_stats.create_model_time_ms    4 
_model_server_stats.query_time_ms           333 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           10 
#