data_8EDK # _model_server_result.job_id u3vfS5SlFwuZpPSb5X7ltg _model_server_result.datetime_utc '2024-12-01 12:57:30' _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 8edk # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":802}' # _entry.id 8EDK # _exptl.entry_id 8EDK _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 96.063 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'SULFATE ION' _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 8EDK _cell.length_a 70.243 _cell.length_b 70.243 _cell.length_c 287.353 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8EDK _symmetry.cell_setting ? _symmetry.Int_Tables_number 92 _symmetry.space_group_name_Hall 'P 4abw 2nw' _symmetry.space_group_name_H-M 'P 41 21 2' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G _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 C N N ? 3 D 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 . O6 HO6 . sing 4 ? 2 5 1 FUC NAG C1 O1 . O3 HO3 . sing 5 ? 2 6 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 B NAG 1 B 1 NAG A 901 NAG 2 n B NAG 2 B 2 NAG A 902 NAG 2 n B BMA 3 B 3 BMA A 903 BMA 2 n B MAN 4 B 4 MAN A 904 MAN 2 n B FUC 5 B 5 FUC A 905 FUC 2 n B FUC 6 B 6 FUC A 906 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 19 A CYS 37 1_555 A SG CYS 29 A CYS 47 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? disulf ? disulf2 A SG CYS 48 A CYS 66 1_555 A SG CYS 74 A CYS 92 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.047 ? disulf ? disulf3 A SG CYS 57 A CYS 75 1_555 A SG CYS 71 A CYS 89 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf4 A SG CYS 99 A CYS 117 1_555 A SG CYS 131 A CYS 149 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf5 A SG CYS 160 A CYS 178 1_555 A SG CYS 182 A CYS 200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf6 A SG CYS 273 A CYS 291 1_555 A SG CYS 282 A CYS 300 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf7 A SG CYS 275 A CYS 293 1_555 A SG CYS 292 A CYS 310 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.025 ? disulf ? disulf8 A SG CYS 294 A CYS 312 1_555 A SG CYS 303 A CYS 321 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.022 ? disulf ? disulf9 A SG CYS 306 A CYS 324 1_555 A SG CYS 326 A CYS 344 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.063 ? disulf ? disulf10 A SG CYS 329 A CYS 347 1_555 A SG CYS 338 A CYS 356 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? disulf ? disulf11 A SG CYS 331 A CYS 349 1_555 A SG CYS 356 A CYS 374 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.022 ? disulf ? disulf12 A SG CYS 359 A CYS 377 1_555 A SG CYS 368 A CYS 386 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf13 A SG CYS 371 A CYS 389 1_555 A SG CYS 389 A CYS 407 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.046 ? disulf ? disulf14 A SG CYS 392 A CYS 410 1_555 A SG CYS 404 A CYS 422 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf15 A SG CYS 394 A CYS 412 1_555 A SG CYS 411 A CYS 429 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.022 ? disulf ? disulf16 A SG CYS 413 A CYS 431 1_555 A SG CYS 422 A CYS 440 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.059 ? disulf ? disulf17 A SG CYS 425 A CYS 443 1_555 A SG CYS 439 A CYS 457 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? covale ? covale1 A ND2 ASN 96 A ASN 114 1_555 B C1 NAG . B NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale2 A ND2 ASN 110 A ASN 128 1_555 F C1 NAG . A NAG 804 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.469 ? covale ? covale3 B O4 NAG . B NAG 1 1_555 B C1 NAG . B NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.457 ? covale ? covale4 B O3 NAG . B NAG 1 1_555 B C1 FUC . B FUC 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.463 ? covale ? covale5 B O6 NAG . B NAG 1 1_555 B C1 FUC . B FUC 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.45 ? covale ? covale6 B O4 NAG . B NAG 2 1_555 B C1 BMA . B BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.453 ? covale ? covale7 B O6 BMA . B BMA 3 1_555 B C1 MAN . B MAN 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.449 ? metalc ? metalc1 A O LEU 87 A LEU 105 1_555 E CA CA . A CA 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.352 ? metalc ? metalc2 A OD1 ASP 90 A ASP 108 1_555 E CA CA . A CA 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.707 ? metalc ? metalc3 A OD1 ASN 92 A ASN 110 1_555 E CA CA . A CA 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.718 ? metalc ? metalc4 A O THR 98 A THR 116 1_555 E CA CA . A CA 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.717 ? metalc ? metalc5 A OG1 THR 98 A THR 116 1_555 E CA CA . A CA 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.464 ? metalc ? metalc6 A O GLY 265 A GLY 283 1_555 E CA CA . A CA 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.555 ? metalc ? metalc7 E CA CA . A CA 803 1_555 G O HOH . A HOH 910 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.355 ? # _chem_comp.formula 'O4 S -2' _chem_comp.formula_weight 96.063 _chem_comp.id SO4 _chem_comp.mon_nstd_flag . _chem_comp.name 'SULFATE ION' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # 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 S O1 SO4 doub 391 n n S O2 SO4 doub 392 n n S O3 SO4 sing 393 n n S O4 SO4 sing 394 n n # _atom_sites.entry_id 8EDK _atom_sites.fract_transf_matrix[1][1] 0.014236 _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] 0.014236 _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] 0.00348 _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 3 SO4 A 1 801 801 SO4 SO4 . D 3 SO4 A 1 802 802 SO4 SO4 . E 4 CA A 1 803 811 CA CA . F 5 NAG A 1 804 911 NAG NAG . G 6 HOH A 1 901 29 HOH HOH . G 6 HOH A 2 902 31 HOH HOH . G 6 HOH A 3 903 7 HOH HOH . G 6 HOH A 4 904 4 HOH HOH . G 6 HOH A 5 905 11 HOH HOH . G 6 HOH A 6 906 3 HOH HOH . G 6 HOH A 7 907 8 HOH HOH . G 6 HOH A 8 908 1 HOH HOH . G 6 HOH A 9 909 16 HOH HOH . G 6 HOH A 10 910 13 HOH HOH . G 6 HOH A 11 911 12 HOH HOH . G 6 HOH A 12 912 2 HOH HOH . G 6 HOH A 13 913 20 HOH HOH . G 6 HOH A 14 914 30 HOH HOH . G 6 HOH A 15 915 18 HOH HOH . G 6 HOH A 16 916 25 HOH HOH . G 6 HOH A 17 917 9 HOH HOH . G 6 HOH A 18 918 17 HOH HOH . G 6 HOH A 19 919 15 HOH HOH . G 6 HOH A 20 920 26 HOH HOH . G 6 HOH A 21 921 24 HOH HOH . G 6 HOH A 22 922 23 HOH HOH . G 6 HOH A 23 923 10 HOH HOH . G 6 HOH A 24 924 27 HOH HOH . G 6 HOH A 25 925 6 HOH HOH . G 6 HOH A 26 926 28 HOH HOH . G 6 HOH A 27 927 21 HOH HOH . G 6 HOH A 28 928 5 HOH HOH . G 6 HOH A 29 929 14 HOH HOH . G 6 HOH A 30 930 19 HOH HOH . G 6 HOH A 31 931 22 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 S S SO4 . . . D 3 41.384 26.99 35.754 1 192.79 ? S SO4 802 A 1 HETATM 2 O O1 SO4 . . . D 3 42.388 27.225 34.714 1 117.67 ? O1 SO4 802 A 1 HETATM 3 O O2 SO4 . . . D 3 40.744 25.695 35.487 1 102.9 ? O2 SO4 802 A 1 HETATM 4 O O3 SO4 . . . D 3 40.404 28.07 35.675 1 112.73 ? O3 SO4 802 A 1 HETATM 5 O O4 SO4 . . . D 3 41.983 27.022 37.099 1 123.01 ? O4 SO4 802 A 1 # _model_server_stats.io_time_ms 25 _model_server_stats.parse_time_ms 14 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 305 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 5 #