data_9D20
#
_model_server_result.job_id            ItRp647Mod6I9t0nyCcY7w 
_model_server_result.datetime_utc      '2025-07-09 15:47:26' 
_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          9d20 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"M","auth_seq_id":1004}' 
#
_entry.id    9D20 
#
_exptl.entry_id    9D20 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              62.068 
_entity.id                          4 
_entity.src_method                  man 
_entity.type                        non-polymer 
_entity.pdbx_description            1,2-ETHANEDIOL 
_entity.pdbx_number_of_molecules    4 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90 
_cell.angle_beta          118.99 
_cell.angle_gamma         90 
_cell.entry_id            9D20 
_cell.length_a            120.98 
_cell.length_b            52.97 
_cell.length_c            97.99 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 9D20 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        5 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'C 1 2 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 dimeric 2 author_and_software_defined_assembly 1 
PISA dimeric 2 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,B,E,F,G,H,I,J,K,L,M,N,V,W 1 1 
C,D,O,P,Q,R,S,T,U,X,Y 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
? 4 G N N 
? 4 L N N 
? 4 M N N 
? 4 Q 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 5 E CYS 29 1_555 A SG CYS 35 E CYS 59 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? 
disulf ? disulf2 A SG CYS 25 E CYS 49 1_555 A SG CYS 53 E CYS 77 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? 
disulf ? disulf3 A SG CYS 60 E CYS 84 1_555 A SG CYS 79 E CYS 103 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.019 ? 
disulf ? disulf4 A SG CYS 66 E CYS 90 1_555 A SG CYS 78 E CYS 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? 
disulf ? disulf5 A SG CYS 80 E CYS 104 1_555 A SG CYS 85 E CYS 109 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.019 ? 
disulf ? disulf6 B SG CYS 4 D CYS 174 1_555 B SG CYS 15 D CYS 185 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? 
disulf ? disulf7 B SG CYS 9 D CYS 179 1_555 B SG CYS 24 D CYS 194 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? 
disulf ? disulf8 B SG CYS 26 D CYS 196 1_555 B SG CYS 35 D CYS 205 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? 
disulf ? disulf9 B SG CYS 42 D CYS 212 1_555 B SG CYS 53 D CYS 223 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? 
disulf ? disulf10 B SG CYS 47 D CYS 217 1_555 B SG CYS 63 D CYS 233 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? 
disulf ? disulf11 B SG CYS 65 D CYS 235 1_555 B SG CYS 74 D CYS 244 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? 
disulf ? disulf12 C SG CYS 5 A CYS 29 1_555 C SG CYS 35 A CYS 59 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? 
disulf ? disulf13 C SG CYS 25 A CYS 49 1_555 C SG CYS 53 A CYS 77 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? 
disulf ? disulf14 C SG CYS 60 A CYS 84 1_555 C SG CYS 79 A CYS 103 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? 
disulf ? disulf15 C SG CYS 66 A CYS 90 1_555 C SG CYS 78 A CYS 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? 
disulf ? disulf16 C SG CYS 80 A CYS 104 1_555 C SG CYS 85 A CYS 109 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? 
disulf ? disulf17 D SG CYS 4 B CYS 174 1_555 D SG CYS 15 B CYS 185 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? 
disulf ? disulf18 D SG CYS 9 B CYS 179 1_555 D SG CYS 24 B CYS 194 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? 
disulf ? disulf19 D SG CYS 26 B CYS 196 1_555 D SG CYS 35 B CYS 205 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? 
disulf ? disulf20 D SG CYS 42 B CYS 212 1_555 D SG CYS 53 B CYS 223 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? 
disulf ? disulf21 D SG CYS 47 B CYS 217 1_555 D SG CYS 63 B CYS 233 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? 
disulf ? disulf22 D SG CYS 65 B CYS 235 1_555 D SG CYS 74 B CYS 244 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? 
covale ? covale1 A ND2 ASN 18 E ASN 42 1_555 F C1 NAG . E NAG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.451 ? 
covale ? covale2 A ND2 ASN 41 E ASN 65 1_555 E C1 NAG . E NAG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? 
covale ? covale3 B OG SER 44 D SER 214 1_555 K C1 BGC . D BGC 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.213 ? 
covale ? covale4 B OG1 THR 52 D THR 222 1_555 J C1 FUC . D FUC 1001 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.373 ? 
covale ? covale5 C ND2 ASN 18 A ASN 42 1_555 P C1 NAG . A NAG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.453 ? 
covale ? covale6 C ND2 ASN 41 A ASN 65 1_555 O C1 NAG . A NAG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.43 ? 
covale ? covale7 D OG SER 44 B SER 214 1_555 T C1 BGC . B BGC 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.374 ? 
covale ? covale8 D OG1 THR 52 B THR 222 1_555 S C1 FUC . B FUC 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.373 ? 
#
_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 107 n n 
C1 C2 EDO sing 108 n n 
C1 H11 EDO sing 109 n n 
C1 H12 EDO sing 110 n n 
O1 HO1 EDO sing 111 n n 
C2 O2 EDO sing 112 n n 
C2 H21 EDO sing 113 n n 
C2 H22 EDO sing 114 n n 
O2 HO2 EDO sing 115 n n 
#
_atom_sites.entry_id                     9D20 
_atom_sites.fract_transf_matrix[1][1]    0.008266 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.004581 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.018879 
_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]    0.011667 
_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
E 3 NAG E 1 201 220 NAG NAG . 
F 3 NAG E 1 202 319 NAG NAG . 
G 4 EDO E 1 203 8 EDO EDO . 
H 5 SO4 E 1 204 3 SO4 SO4 . 
I 5 SO4 E 1 205 5 SO4 SO4 . 
J 6 FUC D 1 1001 1001 FUC FUC . 
K 7 BGC D 1 1002 1101 BGC BGC . 
L 4 EDO D 1 1003 7 EDO EDO . 
M 4 EDO D 1 1004 12 EDO EDO . 
N 5 SO4 D 1 1005 1 SO4 SO4 . 
O 3 NAG A 1 201 220 NAG NAG . 
P 3 NAG A 1 202 221 NAG NAG . 
Q 4 EDO A 1 203 6 EDO EDO . 
R 5 SO4 A 1 204 6 SO4 SO4 . 
S 6 FUC B 1 801 801 FUC FUC . 
T 7 BGC B 1 802 901 BGC BGC . 
U 5 SO4 B 1 803 2 SO4 SO4 . 
V 8 HOH E 1 301 80 HOH HOH . 
V 8 HOH E 2 302 43 HOH HOH . 
V 8 HOH E 3 303 88 HOH HOH . 
W 8 HOH D 1 1101 60 HOH HOH . 
W 8 HOH D 2 1102 67 HOH HOH . 
X 8 HOH A 1 301 24 HOH HOH . 
X 8 HOH A 2 302 90 HOH HOH . 
X 8 HOH A 3 303 82 HOH HOH . 
X 8 HOH A 4 304 36 HOH HOH . 
Y 8 HOH B 1 901 4 HOH HOH . 
Y 8 HOH B 2 902 45 HOH HOH . 
Y 8 HOH B 3 903 89 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 . . . M 4 46.1 5.287 3.673 1 96.58 ? C1 EDO 1004 D 1 
HETATM 2 O O1 EDO . . . M 4 47.032 4.576 4.497 1 94.8 ? O1 EDO 1004 D 1 
HETATM 3 C C2 EDO . . . M 4 46.798 5.735 2.395 1 102.18 ? C2 EDO 1004 D 1 
HETATM 4 O O2 EDO . . . M 4 47.77 4.754 2.015 1 108.83 ? O2 EDO 1004 D 1 
#
_model_server_stats.io_time_ms              66 
_model_server_stats.parse_time_ms           28 
_model_server_stats.create_model_time_ms    4 
_model_server_stats.query_time_ms           233 
_model_server_stats.encode_time_ms          9 
_model_server_stats.element_count           4 
#