data_4WI4 # _model_server_result.job_id GamaIglNFRbbAvo32BahHg _model_server_result.datetime_utc '2025-01-18 07:45:17' _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 4wi4 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":509}' # _entry.id 4WI4 # _exptl.entry_id 4WI4 _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 3 _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 4WI4 _cell.length_a 49.155 _cell.length_b 79.114 _cell.length_c 141.207 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4WI4 _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 dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 _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 F N N ? 3 G N N # _pdbx_entity_branch.entity_id 2 _pdbx_entity_branch.type oligosaccharide # loop_ _pdbx_entity_branch_link.link_id _pdbx_entity_branch_link.details _pdbx_entity_branch_link.entity_id _pdbx_entity_branch_link.entity_branch_list_num_1 _pdbx_entity_branch_link.entity_branch_list_num_2 _pdbx_entity_branch_link.comp_id_1 _pdbx_entity_branch_link.comp_id_2 _pdbx_entity_branch_link.atom_id_1 _pdbx_entity_branch_link.leaving_atom_id_1 _pdbx_entity_branch_link.atom_stereo_config_1 _pdbx_entity_branch_link.atom_id_2 _pdbx_entity_branch_link.leaving_atom_id_2 _pdbx_entity_branch_link.atom_stereo_config_2 _pdbx_entity_branch_link.value_order 1 ? 2 2 1 NAG NAG C1 O1 . O4 HO4 . sing 2 ? 2 3 2 BMA NAG C1 O1 . O4 HO4 . sing 3 ? 2 4 3 MAN BMA C1 O1 . O3 HO3 . sing 4 ? 2 5 4 NAG MAN C1 O1 . O2 HO2 . sing 5 ? 2 6 3 MAN BMA C1 O1 . O6 HO6 . sing 6 ? 2 7 6 NAG MAN C1 O1 . O2 HO2 . sing 7 ? 2 8 1 FUC NAG C1 O1 . O6 HO6 . sing # loop_ _pdbx_branch_scheme.entity_id _pdbx_branch_scheme.hetero _pdbx_branch_scheme.asym_id _pdbx_branch_scheme.mon_id _pdbx_branch_scheme.num _pdbx_branch_scheme.pdb_asym_id _pdbx_branch_scheme.pdb_seq_num _pdbx_branch_scheme.pdb_mon_id _pdbx_branch_scheme.auth_asym_id _pdbx_branch_scheme.auth_seq_num _pdbx_branch_scheme.auth_mon_id 2 n C NAG 1 C 1 NAG A 1 NAG 2 n C NAG 2 C 2 NAG A 2 NAG 2 n C BMA 3 C 3 BMA A 3 MAN 2 n C MAN 4 C 4 MAN A 4 MAN 2 n C NAG 5 C 5 NAG A 5 NAG 2 n C MAN 6 C 6 MAN A 7 MAN 2 n C NAG 7 C 7 NAG A 8 NAG 2 n C FUC 8 C 8 FUC A 11 FUC 2 n D NAG 1 D 1 NAG B 1 NAG 2 n D NAG 2 D 2 NAG B 2 NAG 2 n D BMA 3 D 3 BMA B 3 MAN 2 n D MAN 4 D 4 MAN B 4 MAN 2 n D NAG 5 D 5 NAG B 5 NAG 2 n D MAN 6 D 6 MAN B 7 MAN 2 n D NAG 7 D 7 NAG B 8 NAG 2 n D FUC 8 D 8 FUC B 11 FUC # 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 24 A CYS 261 1_555 A SG CYS 84 A CYS 321 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf2 A SG CYS 130 A CYS 367 1_555 A SG CYS 188 A CYS 425 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.046 ? disulf ? disulf3 B SG CYS 24 B CYS 261 1_555 B SG CYS 84 B CYS 321 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf4 B SG CYS 130 B CYS 367 1_555 B SG CYS 188 B CYS 425 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.016 ? covale ? covale1 A ND2 ASN 60 A ASN 297 1_555 C C1 NAG . C NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? covale ? covale2 B ND2 ASN 60 B ASN 297 1_555 D C1 NAG . D NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.457 ? covale ? covale3 C O4 NAG . C NAG 1 1_555 C C1 NAG . C NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.465 ? covale ? covale4 C O6 NAG . C NAG 1 1_555 C C1 FUC . C FUC 8 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.452 ? covale ? covale5 C O4 NAG . C NAG 2 1_555 C C1 BMA . C BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.453 ? covale ? covale6 C O3 BMA . C BMA 3 1_555 C C1 MAN . C MAN 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.45 ? covale ? covale7 C O6 BMA . C BMA 3 1_555 C C1 MAN . C MAN 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? covale ? covale8 C O2 MAN . C MAN 4 1_555 C C1 NAG . C NAG 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.436 ? covale ? covale9 C O2 MAN . C MAN 6 1_555 C C1 NAG . C NAG 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.453 ? covale ? covale10 D O4 NAG . D NAG 1 1_555 D C1 NAG . D NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.456 ? covale ? covale11 D O6 NAG . D NAG 1 1_555 D C1 FUC . D FUC 8 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? covale ? covale12 D O4 NAG . D NAG 2 1_555 D C1 BMA . D BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.448 ? covale ? covale13 D O3 BMA . D BMA 3 1_555 D C1 MAN . D MAN 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale14 D O6 BMA . D BMA 3 1_555 D C1 MAN . D MAN 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.453 ? covale ? covale15 D O2 MAN . D MAN 4 1_555 D C1 NAG . D NAG 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.433 ? covale ? covale16 D O2 MAN . D MAN 6 1_555 D C1 NAG . D NAG 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.449 ? # _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 4WI4 _atom_sites.fract_transf_matrix[1][1] 0.020344 _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] 0.01264 _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] 0.007082 _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 EDO A 1 509 2 EDO EDO . F 3 EDO B 1 509 1 EDO EDO . G 3 EDO B 1 510 3 EDO EDO . H 4 HOH A 1 601 1 HOH HOH . H 4 HOH A 2 602 14 HOH HOH . H 4 HOH A 3 603 2 HOH HOH . H 4 HOH A 4 604 3 HOH HOH . H 4 HOH A 5 605 4 HOH HOH . H 4 HOH A 6 606 6 HOH HOH . H 4 HOH A 7 607 8 HOH HOH . H 4 HOH A 8 608 15 HOH HOH . H 4 HOH A 9 609 16 HOH HOH . H 4 HOH A 10 610 21 HOH HOH . H 4 HOH A 11 611 22 HOH HOH . H 4 HOH A 12 612 23 HOH HOH . H 4 HOH A 13 613 26 HOH HOH . H 4 HOH A 14 614 27 HOH HOH . H 4 HOH A 15 615 31 HOH HOH . H 4 HOH A 16 616 32 HOH HOH . I 4 HOH B 1 601 11 HOH HOH . I 4 HOH B 2 602 5 HOH HOH . I 4 HOH B 3 603 7 HOH HOH . I 4 HOH B 4 604 9 HOH HOH . I 4 HOH B 5 605 10 HOH HOH . I 4 HOH B 6 606 12 HOH HOH . I 4 HOH B 7 607 13 HOH HOH . I 4 HOH B 8 608 17 HOH HOH . I 4 HOH B 9 609 18 HOH HOH . I 4 HOH B 10 610 19 HOH HOH . I 4 HOH B 11 611 20 HOH HOH . I 4 HOH B 12 612 24 HOH HOH . I 4 HOH B 13 613 25 HOH HOH . I 4 HOH B 14 614 28 HOH HOH . I 4 HOH B 15 615 29 HOH HOH . I 4 HOH B 16 616 30 HOH HOH . I 4 HOH B 17 617 33 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 . . . F 3 -29.499 6.274 29.601 1 52.89 ? C1 EDO 509 B 1 HETATM 2 O O1 EDO . . . F 3 -28.215 5.772 29.961 1 67.37 ? O1 EDO 509 B 1 HETATM 3 C C2 EDO . . . F 3 -29.84 5.724 28.22 1 72.3 ? C2 EDO 509 B 1 HETATM 4 O O2 EDO . . . F 3 -31.252 5.456 28.16 1 96.85 ? O2 EDO 509 B 1 # _model_server_stats.io_time_ms 55 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 241 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 4 #