data_4ZD4
#
_model_server_result.job_id            eOtigCqOgD7lFdyr9vCcWQ 
_model_server_result.datetime_utc      '2024-10-12 11:11:58' 
_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          4zd4 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"L","auth_seq_id":502}' 
#
_entry.id    4ZD4 
#
_exptl.entry_id    4ZD4 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              62.068 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            1,2-ETHANEDIOL 
_entity.pdbx_number_of_molecules    11 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90 
_cell.angle_beta          113.15 
_cell.angle_gamma         90 
_cell.entry_id            4ZD4 
_cell.length_a            58.636 
_cell.length_b            73.697 
_cell.length_c            64.633 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 4ZD4 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        4 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 1 21 1' 
#
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,F,G,H,I,J,T 1 1 
B,K,L,M,N,O,P,Q,R,S,U 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
? 2 C N N 
? 2 D N N 
? 2 E N N 
? 2 F N N 
? 2 G N N 
? 2 K N N 
? 2 L N N 
? 2 M N N 
? 2 N N N 
? 2 O N N 
? 2 P 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 50 A CYS 288 1_555 A SG CYS 79 A CYS 317 1_555 ? A ? ? ? ? ? ? ? ? ? ? 2.04 ? 
disulf ? disulf2 B SG CYS 50 B CYS 288 1_555 B SG CYS 79 B CYS 317 1_555 ? A ? ? ? ? ? ? ? ? ? ? 2.055 ? 
metalc ? metalc1 A NE2 HIS 103 A HIS 341 1_555 I ZN ZN . A ZN 507 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.047 ? 
metalc ? metalc2 A NE2 HIS 105 A HIS 343 1_555 I ZN ZN . A ZN 507 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.997 ? 
metalc ? metalc3 A OD2 ASP 116 A ASP 354 1_555 I ZN ZN . A ZN 507 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.988 ? 
metalc ? metalc4 A NE2 HIS 118 A HIS 356 1_555 J ZN ZN . A ZN 508 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.049 ? 
metalc ? metalc5 A SG CYS 159 A CYS 397 1_555 J ZN ZN . A ZN 508 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.301 ? 
metalc ? metalc6 A NE2 HIS 166 A HIS 404 1_555 J ZN ZN . A ZN 508 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? 
metalc ? metalc7 A NE2 HIS 168 A HIS 406 1_555 J ZN ZN . A ZN 508 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.905 ? 
metalc ? metalc8 I ZN ZN . A ZN 507 1_555 T O HOH . A HOH 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.955 ? 
metalc ? metalc9 B NE2 HIS 103 B HIS 341 1_555 R ZN ZN . B ZN 508 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.067 ? 
metalc ? metalc10 B NE2 HIS 105 B HIS 343 1_555 R ZN ZN . B ZN 508 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.987 ? 
metalc ? metalc11 B OD2 ASP 116 B ASP 354 1_555 R ZN ZN . B ZN 508 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.975 ? 
metalc ? metalc12 B NE2 HIS 118 B HIS 356 1_555 S ZN ZN . B ZN 509 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? 
metalc ? metalc13 B SG CYS 159 B CYS 397 1_555 S ZN ZN . B ZN 509 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.296 ? 
metalc ? metalc14 B NE2 HIS 166 B HIS 404 1_555 S ZN ZN . B ZN 509 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.054 ? 
metalc ? metalc15 B NE2 HIS 168 B HIS 406 1_555 S ZN ZN . B ZN 509 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.884 ? 
metalc ? metalc16 R ZN ZN . B ZN 508 1_555 U O HOH . B HOH 608 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.934 ? 
#
_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 100 n n 
C1 C2 EDO sing 101 n n 
C1 H11 EDO sing 102 n n 
C1 H12 EDO sing 103 n n 
O1 HO1 EDO sing 104 n n 
C2 O2 EDO sing 105 n n 
C2 H21 EDO sing 106 n n 
C2 H22 EDO sing 107 n n 
O2 HO2 EDO sing 108 n n 
#
_atom_sites.entry_id                     4ZD4 
_atom_sites.fract_transf_matrix[1][1]    0.017054 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.00729 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.013569 
_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]    0.016826 
_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 EDO A 1 501 1 EDO EDO . 
D 2 EDO A 1 502 2 EDO EDO . 
E 2 EDO A 1 503 6 EDO EDO . 
F 2 EDO A 1 504 9 EDO EDO . 
G 2 EDO A 1 505 10 EDO EDO . 
H 3 TRS A 1 506 1 TRS TRS . 
I 4 ZN A 1 507 1 ZN ZN . 
J 4 ZN A 1 508 3 ZN ZN . 
K 2 EDO B 1 501 3 EDO EDO . 
L 2 EDO B 1 502 4 EDO EDO . 
M 2 EDO B 1 503 5 EDO EDO . 
N 2 EDO B 1 504 7 EDO EDO . 
O 2 EDO B 1 505 8 EDO EDO . 
P 2 EDO B 1 506 11 EDO EDO . 
Q 5 DTT B 1 507 1 DTT DTT . 
R 4 ZN B 1 508 2 ZN ZN . 
S 4 ZN B 1 509 4 ZN ZN . 
T 6 HOH A 1 601 138 HOH HOH . 
T 6 HOH A 2 602 95 HOH HOH . 
T 6 HOH A 3 603 141 HOH HOH . 
T 6 HOH A 4 604 45 HOH HOH . 
T 6 HOH A 5 605 51 HOH HOH . 
T 6 HOH A 6 606 136 HOH HOH . 
T 6 HOH A 7 607 48 HOH HOH . 
T 6 HOH A 8 608 69 HOH HOH . 
T 6 HOH A 9 609 100 HOH HOH . 
T 6 HOH A 10 610 140 HOH HOH . 
T 6 HOH A 11 611 54 HOH HOH . 
T 6 HOH A 12 612 67 HOH HOH . 
T 6 HOH A 13 613 98 HOH HOH . 
T 6 HOH A 14 614 63 HOH HOH . 
T 6 HOH A 15 615 68 HOH HOH . 
T 6 HOH A 16 616 9 HOH HOH . 
T 6 HOH A 17 617 86 HOH HOH . 
T 6 HOH A 18 618 33 HOH HOH . 
T 6 HOH A 19 619 22 HOH HOH . 
T 6 HOH A 20 620 23 HOH HOH . 
T 6 HOH A 21 621 145 HOH HOH . 
T 6 HOH A 22 622 57 HOH HOH . 
T 6 HOH A 23 623 91 HOH HOH . 
T 6 HOH A 24 624 46 HOH HOH . 
T 6 HOH A 25 625 62 HOH HOH . 
T 6 HOH A 26 626 58 HOH HOH . 
T 6 HOH A 27 627 27 HOH HOH . 
T 6 HOH A 28 628 30 HOH HOH . 
T 6 HOH A 29 629 71 HOH HOH . 
T 6 HOH A 30 630 147 HOH HOH . 
T 6 HOH A 31 631 32 HOH HOH . 
T 6 HOH A 32 632 105 HOH HOH . 
T 6 HOH A 33 633 42 HOH HOH . 
T 6 HOH A 34 634 137 HOH HOH . 
T 6 HOH A 35 635 79 HOH HOH . 
T 6 HOH A 36 636 93 HOH HOH . 
T 6 HOH A 37 637 19 HOH HOH . 
T 6 HOH A 38 638 3 HOH HOH . 
T 6 HOH A 39 639 26 HOH HOH . 
T 6 HOH A 40 640 2 HOH HOH . 
T 6 HOH A 41 641 38 HOH HOH . 
T 6 HOH A 42 642 34 HOH HOH . 
T 6 HOH A 43 643 74 HOH HOH . 
T 6 HOH A 44 644 151 HOH HOH . 
T 6 HOH A 45 645 150 HOH HOH . 
T 6 HOH A 46 646 146 HOH HOH . 
T 6 HOH A 47 647 17 HOH HOH . 
T 6 HOH A 48 648 90 HOH HOH . 
T 6 HOH A 49 649 24 HOH HOH . 
T 6 HOH A 50 650 108 HOH HOH . 
T 6 HOH A 51 651 117 HOH HOH . 
T 6 HOH A 52 652 21 HOH HOH . 
T 6 HOH A 53 653 104 HOH HOH . 
T 6 HOH A 54 654 35 HOH HOH . 
T 6 HOH A 55 655 31 HOH HOH . 
T 6 HOH A 56 656 61 HOH HOH . 
T 6 HOH A 57 657 15 HOH HOH . 
T 6 HOH A 58 658 6 HOH HOH . 
T 6 HOH A 59 659 7 HOH HOH . 
T 6 HOH A 60 660 106 HOH HOH . 
T 6 HOH A 61 661 41 HOH HOH . 
T 6 HOH A 62 662 12 HOH HOH . 
T 6 HOH A 63 663 131 HOH HOH . 
T 6 HOH A 64 664 126 HOH HOH . 
T 6 HOH A 65 665 128 HOH HOH . 
T 6 HOH A 66 666 39 HOH HOH . 
T 6 HOH A 67 667 92 HOH HOH . 
T 6 HOH A 68 668 25 HOH HOH . 
T 6 HOH A 69 669 148 HOH HOH . 
T 6 HOH A 70 670 115 HOH HOH . 
T 6 HOH A 71 671 66 HOH HOH . 
T 6 HOH A 72 672 64 HOH HOH . 
T 6 HOH A 73 673 103 HOH HOH . 
T 6 HOH A 74 674 127 HOH HOH . 
T 6 HOH A 75 675 149 HOH HOH . 
T 6 HOH A 76 676 75 HOH HOH . 
T 6 HOH A 77 677 144 HOH HOH . 
T 6 HOH A 78 678 116 HOH HOH . 
U 6 HOH B 1 601 107 HOH HOH . 
U 6 HOH B 2 602 87 HOH HOH . 
U 6 HOH B 3 603 89 HOH HOH . 
U 6 HOH B 4 604 97 HOH HOH . 
U 6 HOH B 5 605 37 HOH HOH . 
U 6 HOH B 6 606 60 HOH HOH . 
U 6 HOH B 7 607 44 HOH HOH . 
U 6 HOH B 8 608 142 HOH HOH . 
U 6 HOH B 9 609 111 HOH HOH . 
U 6 HOH B 10 610 77 HOH HOH . 
U 6 HOH B 11 611 123 HOH HOH . 
U 6 HOH B 12 612 52 HOH HOH . 
U 6 HOH B 13 613 8 HOH HOH . 
U 6 HOH B 14 614 132 HOH HOH . 
U 6 HOH B 15 615 73 HOH HOH . 
U 6 HOH B 16 616 84 HOH HOH . 
U 6 HOH B 17 617 85 HOH HOH . 
U 6 HOH B 18 618 20 HOH HOH . 
U 6 HOH B 19 619 134 HOH HOH . 
U 6 HOH B 20 620 96 HOH HOH . 
U 6 HOH B 21 621 80 HOH HOH . 
U 6 HOH B 22 622 78 HOH HOH . 
U 6 HOH B 23 623 70 HOH HOH . 
U 6 HOH B 24 624 16 HOH HOH . 
U 6 HOH B 25 625 125 HOH HOH . 
U 6 HOH B 26 626 143 HOH HOH . 
U 6 HOH B 27 627 94 HOH HOH . 
U 6 HOH B 28 628 55 HOH HOH . 
U 6 HOH B 29 629 135 HOH HOH . 
U 6 HOH B 30 630 118 HOH HOH . 
U 6 HOH B 31 631 99 HOH HOH . 
U 6 HOH B 32 632 50 HOH HOH . 
U 6 HOH B 33 633 4 HOH HOH . 
U 6 HOH B 34 634 130 HOH HOH . 
U 6 HOH B 35 635 36 HOH HOH . 
U 6 HOH B 36 636 40 HOH HOH . 
U 6 HOH B 37 637 110 HOH HOH . 
U 6 HOH B 38 638 29 HOH HOH . 
U 6 HOH B 39 639 109 HOH HOH . 
U 6 HOH B 40 640 49 HOH HOH . 
U 6 HOH B 41 641 1 HOH HOH . 
U 6 HOH B 42 642 5 HOH HOH . 
U 6 HOH B 43 643 121 HOH HOH . 
U 6 HOH B 44 644 101 HOH HOH . 
U 6 HOH B 45 645 124 HOH HOH . 
U 6 HOH B 46 646 59 HOH HOH . 
U 6 HOH B 47 647 83 HOH HOH . 
U 6 HOH B 48 648 11 HOH HOH . 
U 6 HOH B 49 649 56 HOH HOH . 
U 6 HOH B 50 650 113 HOH HOH . 
U 6 HOH B 51 651 28 HOH HOH . 
U 6 HOH B 52 652 120 HOH HOH . 
U 6 HOH B 53 653 88 HOH HOH . 
U 6 HOH B 54 654 119 HOH HOH . 
U 6 HOH B 55 655 53 HOH HOH . 
U 6 HOH B 56 656 133 HOH HOH . 
U 6 HOH B 57 657 72 HOH HOH . 
U 6 HOH B 58 658 47 HOH HOH . 
U 6 HOH B 59 659 18 HOH HOH . 
U 6 HOH B 60 660 13 HOH HOH . 
U 6 HOH B 61 661 82 HOH HOH . 
U 6 HOH B 62 662 76 HOH HOH . 
U 6 HOH B 63 663 10 HOH HOH . 
U 6 HOH B 64 664 43 HOH HOH . 
U 6 HOH B 65 665 81 HOH HOH . 
U 6 HOH B 66 666 14 HOH HOH . 
U 6 HOH B 67 667 122 HOH HOH . 
U 6 HOH B 68 668 102 HOH HOH . 
U 6 HOH B 69 669 65 HOH HOH . 
U 6 HOH B 70 670 114 HOH HOH . 
U 6 HOH B 71 671 129 HOH HOH . 
U 6 HOH B 72 672 112 HOH HOH . 
U 6 HOH B 73 673 139 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 2 25.952 -19.001 1.995 1 26.31 ? C1 EDO 502 B 1 
HETATM 2 O O1 EDO . . . L 2 27.171 -18.655 2.664 1 27.75 ? O1 EDO 502 B 1 
HETATM 3 C C2 EDO . . . L 2 24.764 -18.491 2.805 1 35.67 ? C2 EDO 502 B 1 
HETATM 4 O O2 EDO . . . L 2 25.013 -17.148 3.243 1 45.62 ? O2 EDO 502 B 1 
#
_model_server_stats.io_time_ms              8 
_model_server_stats.parse_time_ms           27 
_model_server_stats.create_model_time_ms    5 
_model_server_stats.query_time_ms           315 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           4 
#