data_5DQO # _model_server_result.job_id ibermH0s3WUAyfzukOc85A _model_server_result.datetime_utc '2024-12-23 04:00:33' _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 5dqo # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":501}' # _entry.id 5DQO # _exptl.entry_id 5DQO _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 351.64 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'IRON/SULFUR CLUSTER' _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 90 _cell.angle_gamma 120 _cell.entry_id 5DQO _cell.length_a 60.398 _cell.length_b 60.398 _cell.length_c 246.729 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5DQO _symmetry.cell_setting ? _symmetry.Int_Tables_number 144 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 31' # 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,I,J 1 1 C,D,G,H,K,L 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 E N N ? 2 F N N ? 2 G N N ? 2 H 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 metalc ? metalc1 A SG CYS 20 A CYS 287 1_555 E FE1 SF4 . A SF4 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.28 ? metalc ? metalc2 A SG CYS 100 A CYS 367 1_555 E FE2 SF4 . A SF4 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.348 ? metalc ? metalc3 A SG CYS 117 A CYS 384 1_555 E FE4 SF4 . A SF4 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.316 ? metalc ? metalc4 A SG CYS 157 A CYS 424 1_555 E FE3 SF4 . A SF4 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.287 ? metalc ? metalc5 B SG CYS 20 B CYS 287 1_555 F FE1 SF4 . B SF4 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.256 ? metalc ? metalc6 B SG CYS 100 B CYS 367 1_555 F FE3 SF4 . B SF4 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.363 ? metalc ? metalc7 B SG CYS 117 B CYS 384 1_555 F FE2 SF4 . B SF4 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.338 ? metalc ? metalc8 B SG CYS 157 B CYS 424 1_555 F FE4 SF4 . B SF4 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.194 ? metalc ? metalc9 C SG CYS 20 C CYS 287 1_555 G FE4 SF4 . C SF4 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.257 ? metalc ? metalc10 C SG CYS 100 C CYS 367 1_555 G FE1 SF4 . C SF4 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.231 ? metalc ? metalc11 C SG CYS 117 C CYS 384 1_555 G FE2 SF4 . C SF4 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.276 ? metalc ? metalc12 C SG CYS 157 C CYS 424 1_555 G FE3 SF4 . C SF4 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.358 ? metalc ? metalc13 D SG CYS 20 D CYS 287 1_555 H FE3 SF4 . D SF4 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.337 ? metalc ? metalc14 D SG CYS 100 D CYS 367 1_555 H FE1 SF4 . D SF4 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.245 ? metalc ? metalc15 D SG CYS 117 D CYS 384 1_555 H FE4 SF4 . D SF4 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.325 ? metalc ? metalc16 D SG CYS 157 D CYS 424 1_555 H FE2 SF4 . D SF4 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.209 ? # _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 290 n n FE1 S3 SF4 sing 291 n n FE1 S4 SF4 sing 292 n n FE2 S1 SF4 sing 293 n n FE2 S3 SF4 sing 294 n n FE2 S4 SF4 sing 295 n n FE3 S1 SF4 sing 296 n n FE3 S2 SF4 sing 297 n n FE3 S4 SF4 sing 298 n n FE4 S1 SF4 sing 299 n n FE4 S2 SF4 sing 300 n n FE4 S3 SF4 sing 301 n n # _atom_sites.entry_id 5DQO _atom_sites.fract_transf_matrix[1][1] 0.016557 _atom_sites.fract_transf_matrix[1][2] 0.009559 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.019118 _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] 0.004053 _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 2 SF4 A 1 501 501 SF4 SF4 . F 2 SF4 B 1 501 501 SF4 SF4 . G 2 SF4 C 1 501 501 SF4 SF4 . H 2 SF4 D 1 501 501 SF4 SF4 . I 3 HOH A 1 601 601 HOH HOH . I 3 HOH A 2 602 602 HOH HOH . I 3 HOH A 3 603 604 HOH HOH . I 3 HOH A 4 604 606 HOH HOH . J 3 HOH B 1 601 601 HOH HOH . J 3 HOH B 2 602 602 HOH HOH . J 3 HOH B 3 603 604 HOH HOH . K 3 HOH C 1 601 602 HOH HOH . K 3 HOH C 2 602 603 HOH HOH . K 3 HOH C 3 603 604 HOH HOH . K 3 HOH C 4 604 605 HOH HOH . K 3 HOH C 5 605 607 HOH HOH . L 3 HOH D 1 601 601 HOH HOH . L 3 HOH D 2 602 603 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 FE FE1 SF4 . . . F 2 -2.289 -26.717 19.694 1 63.7 ? FE1 SF4 501 B 1 HETATM 2 FE FE2 SF4 . . . F 2 -1.542 -28.387 17.292 1 59.61 ? FE2 SF4 501 B 1 HETATM 3 FE FE3 SF4 . . . F 2 -1.681 -25.379 17.056 1 62.37 ? FE3 SF4 501 B 1 HETATM 4 FE FE4 SF4 . . . F 2 -4.215 -26.986 17.384 1 63.47 ? FE4 SF4 501 B 1 HETATM 5 S S1 SF4 . . . F 2 -2.574 -27.018 16.018 1 59.83 ? S1 SF4 501 B 1 HETATM 6 S S2 SF4 . . . F 2 -3.322 -25.348 18.421 1 52.18 ? S2 SF4 501 B 1 HETATM 7 S S3 SF4 . . . F 2 -3.185 -28.355 18.656 1 51.51 ? S3 SF4 501 B 1 HETATM 8 S S4 SF4 . . . F 2 -0.649 -26.748 18.328 1 55.44 ? S4 SF4 501 B 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 21 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 302 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 8 #