data_1VF5 # _model_server_result.job_id -jLYCwmz9D3PsWo7_LVl0w _model_server_result.datetime_utc '2024-11-22 04:21:03' _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 1vf5 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"Z","auth_seq_id":200}' # _entry.id 1VF5 # _exptl.entry_id 1VF5 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 175.82 _entity.id 14 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'FE2/S2 (INORGANIC) CLUSTER' _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 120 _cell.entry_id 1VF5 _cell.length_a 157.536 _cell.length_b 157.536 _cell.length_c 360.347 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1VF5 _symmetry.cell_setting ? _symmetry.Int_Tables_number 169 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 61' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details hexadecameric _pdbx_struct_assembly.oligomeric_count 16 _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,L,M,N,O,P,Q,R,S,T,U,V,W,X,Y,Z,AA,BA,CA,DA,EA,FA,GA,HA,IA,JA,KA,LA,MA,NA _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 ? 14 Z N N ? 14 KA 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 D SG CYS 113 D CYS 113 1_555 D SG CYS 128 D CYS 128 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf2 L SG CYS 113 Q CYS 113 1_555 L SG CYS 128 Q CYS 128 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? covale ? covale1 A SG CYS 35 A CYS 35 1_555 S CAB HEM . A HEM 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.787 ? covale ? covale2 C SG CYS 22 C CYS 22 1_555 X CAB HEM . C HEM 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.84 ? covale ? covale3 C SG CYS 25 C CYS 25 1_555 X CAC HEM . C HEM 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.83 ? covale ? covale4 C SG CYS 25 C CYS 25 1_555 X CBC HEM . C HEM 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.278 ? covale ? covale5 I SG CYS 35 N CYS 35 1_555 DA CAB HEM . N HEM 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.827 ? covale ? covale6 K SG CYS 22 P CYS 22 1_555 HA CAB HEM . P HEM 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.806 ? covale ? covale7 K SG CYS 25 P CYS 25 1_555 HA CAC HEM . P HEM 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.819 ? covale ? covale8 K SG CYS 25 P CYS 25 1_555 HA CBC HEM . P HEM 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.323 ? metalc ? metalc1 A NE2 HIS 86 A HIS 86 1_555 Q FE HEM . A HEM 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.084 ? metalc ? metalc2 A NE2 HIS 100 A HIS 100 1_555 R FE HEM . A HEM 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.509 ? metalc ? metalc3 A NE2 HIS 187 A HIS 187 1_555 Q FE HEM . A HEM 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.293 ? metalc ? metalc4 A NE2 HIS 202 A HIS 202 1_555 R FE HEM . A HEM 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.295 ? metalc ? metalc5 S FE HEM . A HEM 303 1_555 MA O HOH . A HOH 306 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.528 ? metalc ? metalc6 C N TYR 1 C TYR 1 1_555 X FE HEM . C HEM 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.343 ? metalc ? metalc7 C NE2 HIS 26 C HIS 26 1_555 X FE HEM . C HEM 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.443 ? metalc ? metalc8 D SG CYS 108 D CYS 108 1_555 Z FE1 FES . D FES 200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.324 ? metalc ? metalc9 D ND1 HIS 110 D HIS 110 1_555 Z FE2 FES . D FES 200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.269 ? metalc ? metalc10 D SG CYS 126 D CYS 126 1_555 Z FE1 FES . D FES 200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.324 ? metalc ? metalc11 D ND1 HIS 129 D HIS 129 1_555 Z FE2 FES . D FES 200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.255 ? metalc ? metalc12 I NE2 HIS 86 N HIS 86 1_555 BA FE HEM . N HEM 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.282 ? metalc ? metalc13 I NE2 HIS 100 N HIS 100 1_555 CA FE HEM . N HEM 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.59 ? metalc ? metalc14 I NE2 HIS 187 N HIS 187 1_555 BA FE HEM . N HEM 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.103 ? metalc ? metalc15 I NE2 HIS 202 N HIS 202 1_555 CA FE HEM . N HEM 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.213 ? metalc ? metalc16 DA FE HEM . N HEM 303 1_555 NA O HOH . N HOH 1307 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.335 ? metalc ? metalc17 K N TYR 1 P TYR 1 1_555 HA FE HEM . P HEM 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.276 ? metalc ? metalc18 K NE2 HIS 26 P HIS 26 1_555 HA FE HEM . P HEM 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.474 ? metalc ? metalc19 L SG CYS 108 Q CYS 108 1_555 KA FE1 FES . Q FES 1200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.322 ? metalc ? metalc20 L ND1 HIS 110 Q HIS 110 1_555 KA FE2 FES . Q FES 1200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.26 ? metalc ? metalc21 L SG CYS 126 Q CYS 126 1_555 KA FE1 FES . Q FES 1200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.323 ? metalc ? metalc22 L ND1 HIS 129 Q HIS 129 1_555 KA FE2 FES . Q FES 1200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.252 ? # _chem_comp.formula 'Fe2 S2' _chem_comp.formula_weight 175.82 _chem_comp.id FES _chem_comp.mon_nstd_flag . _chem_comp.name 'FE2/S2 (INORGANIC) 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 S1 FES sing 325 n n FE1 S2 FES sing 326 n n FE2 S1 FES sing 327 n n FE2 S2 FES sing 328 n n # _atom_sites.entry_id 1VF5 _atom_sites.fract_transf_matrix[1][1] 0.006348 _atom_sites.fract_transf_matrix[1][2] 0.003665 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.00733 _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] 0.002775 _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 Q 9 HEM A 1 301 301 HEM HEM . R 9 HEM A 1 302 302 HEM HEM . S 9 HEM A 1 303 303 HEM HEM . T 10 TDS A 1 304 304 TDS TDS . U 11 PL9 A 1 305 305 PL9 PL9 . V 12 OPC B 1 307 307 OPC OPC . W 13 CLA B 1 201 201 CLA CLA . X 9 HEM C 1 301 301 HEM HEM . Y 12 OPC D 1 306 306 OPC OPC . Z 14 FES D 1 200 200 FES FES . AA 15 BCR E 1 101 101 BCR BCR . BA 9 HEM N 1 301 301 HEM HEM . CA 9 HEM N 1 302 302 HEM HEM . DA 9 HEM N 1 303 303 HEM HEM . EA 10 TDS N 1 1304 1304 TDS TDS . FA 12 OPC N 1 1306 1306 OPC OPC . GA 13 CLA O 1 1201 1201 CLA CLA . HA 9 HEM P 1 301 301 HEM HEM . IA 11 PL9 Q 1 1305 1305 PL9 PL9 . JA 12 OPC Q 1 1307 1307 OPC OPC . KA 14 FES Q 1 1200 1200 FES FES . LA 15 BCR R 1 1101 1101 BCR BCR . MA 16 HOH A 1 306 1 HOH HOH . NA 16 HOH N 1 1307 2 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 FES . . . Z 14 57.823 -22.674 122.609 1 144.32 ? FE1 FES 200 D 1 HETATM 2 FE FE2 FES . . . Z 14 57.519 -20.043 123.275 1 144.32 ? FE2 FES 200 D 1 HETATM 3 S S1 FES . . . Z 14 56.929 -21.823 124.413 1 170.61 ? S1 FES 200 D 1 HETATM 4 S S2 FES . . . Z 14 58.443 -20.876 121.413 1 170.61 ? S2 FES 200 D 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 30 _model_server_stats.query_time_ms 260 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 4 #