data_3CB8 # _model_server_result.job_id CCumrcn-X4cQOrLiYfPX4g _model_server_result.datetime_utc '2025-08-31 01:53:38' _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 3cb8 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":500}' # _entry.id 3CB8 # _exptl.entry_id 3CB8 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 351.64 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'IRON/SULFUR CLUSTER' _entity.pdbx_number_of_molecules 1 _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 120 _cell.entry_id 3CB8 _cell.length_a 74.494 _cell.length_b 74.494 _cell.length_c 187.737 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3CB8 _symmetry.cell_setting ? _symmetry.Int_Tables_number 178 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 61 2 2' # _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,J,K _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 # _struct_asym.details ? _struct_asym.entity_id 5 _struct_asym.id E _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag 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 metalc ? metalc1 A SG CYS 29 A CYS 29 1_555 E FE4 SF4 . A SF4 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.234 ? metalc ? metalc2 A SG CYS 33 A CYS 33 1_555 E FE1 SF4 . A SF4 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.254 ? metalc ? metalc3 A SG CYS 36 A CYS 36 1_555 E FE3 SF4 . A SF4 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.31 ? metalc ? metalc4 A OD1 ASP 104 A ASP 104 1_555 C NA NA . A NA 820 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.274 ? metalc ? metalc5 A O THR 105 A THR 105 1_555 C NA NA . A NA 820 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.589 ? metalc ? metalc6 A OD1 ASP 129 A ASP 129 1_555 C NA NA . A NA 820 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.671 ? metalc ? metalc7 E FE2 SF4 . A SF4 500 1_555 D N SAM . A SAM 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.167 ? metalc ? metalc8 E FE2 SF4 . A SF4 500 1_555 D O SAM . A SAM 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.125 ? metalc ? metalc9 D OXT SAM . A SAM 501 1_555 C NA NA . A NA 820 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.429 ? # _chem_comp.formula 'Fe4 S4' _chem_comp.formula_weight 351.64 _chem_comp.id SF4 _chem_comp.mon_nstd_flag . _chem_comp.name 'IRON/SULFUR CLUSTER' _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 FE1 S2 SF4 sing 345 n n FE1 S3 SF4 sing 346 n n FE1 S4 SF4 sing 347 n n FE2 S1 SF4 sing 348 n n FE2 S3 SF4 sing 349 n n FE2 S4 SF4 sing 350 n n FE3 S1 SF4 sing 351 n n FE3 S2 SF4 sing 352 n n FE3 S4 SF4 sing 353 n n FE4 S1 SF4 sing 354 n n FE4 S2 SF4 sing 355 n n FE4 S3 SF4 sing 356 n n # _atom_sites.entry_id 3CB8 _atom_sites.fract_transf_matrix[1][1] 0.013424 _atom_sites.fract_transf_matrix[1][2] 0.00775 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.015501 _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] 0.005327 _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 NA A 1 820 820 NA NA . D 4 SAM A 1 501 501 SAM SAM . E 5 SF4 A 1 500 500 SF4 FS4 . F 6 FMT A 1 502 502 FMT FMT . G 6 FMT A 1 503 503 FMT FMT . H 6 FMT A 1 504 504 FMT FMT . I 6 FMT A 1 505 505 FMT FMT . J 7 HOH A 1 802 802 HOH TIP . J 7 HOH A 2 803 803 HOH TIP . J 7 HOH A 3 804 804 HOH TIP . J 7 HOH A 4 805 805 HOH TIP . J 7 HOH A 5 806 806 HOH TIP . J 7 HOH A 6 807 807 HOH TIP . J 7 HOH A 7 811 811 HOH TIP . J 7 HOH A 8 812 812 HOH TIP . J 7 HOH A 9 814 814 HOH TIP . J 7 HOH A 10 817 817 HOH TIP . K 7 HOH B 1 816 816 HOH TIP . K 7 HOH B 2 818 818 HOH TIP . # 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 FE FE1 SF4 . . . E 5 -4.388 -34.49 22.301 1 61.52 ? FE1 SF4 500 A 1 HETATM 2 FE FE2 SF4 . . . E 5 -6.53 -33.521 20.894 1 65.92 ? FE2 SF4 500 A 1 HETATM 3 FE FE3 SF4 . . . E 5 -6.833 -35.208 23.208 1 59.11 ? FE3 SF4 500 A 1 HETATM 4 FE FE4 SF4 . . . E 5 -5.849 -36.176 20.82 1 58.14 ? FE4 SF4 500 A 1 HETATM 5 S S1 SF4 . . . E 5 -7.95 -35.319 21.209 1 58.29 ? S1 SF4 500 A 1 HETATM 6 S S2 SF4 . . . E 5 -5.037 -36.601 22.938 1 56.89 ? S2 SF4 500 A 1 HETATM 7 S S3 SF4 . . . E 5 -4.597 -34.436 20.016 1 56.85 ? S3 SF4 500 A 1 HETATM 8 S S4 SF4 . . . E 5 -6.014 -33.07 23.1 1 59.46 ? S4 SF4 500 A 1 # _model_server_stats.io_time_ms 21 _model_server_stats.parse_time_ms 5 _model_server_stats.create_model_time_ms 1 _model_server_stats.query_time_ms 343 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 8 #