data_1KYO # _model_server_result.job_id SRBbf9AK8a1pN-gILQ8-KQ _model_server_result.datetime_utc '2024-12-21 14:39:51' _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 1kyo # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"CA","auth_seq_id":521}' # _entry.id 1KYO # _exptl.entry_id 1KYO _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 618.503 _entity.id 13 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'HEME C' _entity.pdbx_number_of_molecules 7 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 104.19 _cell.angle_gamma 90 _cell.entry_id 1KYO _cell.length_a 147.224 _cell.length_b 165.531 _cell.length_c 195.889 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1KYO _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 1 21 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details 23-meric _pdbx_struct_assembly.oligomeric_count 23 _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,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 _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 ? 13 X N N ? 13 Y N N ? 13 AA N N ? 13 CA N N ? 13 DA N N ? 13 FA N N ? 13 HA 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 E SG CYS 134 E CYS 164 1_555 E SG CYS 150 E CYS 180 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.024 ? disulf ? disulf2 F SG CYS 28 F CYS 101 1_555 F SG CYS 50 F CYS 123 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf3 J SG CYS 22 J CYS 22 1_555 J SG CYS 96 J CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf4 K SG CYS 23 K CYS 23 1_555 K SG CYS 88 K CYS 88 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf5 P SG CYS 134 P CYS 164 1_555 P SG CYS 150 P CYS 180 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf6 Q SG CYS 28 Q CYS 101 1_555 Q SG CYS 50 Q CYS 123 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf7 U SG CYS 22 U CYS 22 1_555 U SG CYS 96 U CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf8 V SG CYS 23 V CYS 23 1_555 V SG CYS 88 V CYS 88 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? covale ? covale1 D SG CYS 40 D CYS 101 1_555 AA CAB HEC . D HEC 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.806 ? covale ? covale2 D SG CYS 43 D CYS 104 1_555 AA CAC HEC . D HEC 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.766 ? covale ? covale3 O SG CYS 40 O CYS 101 1_555 FA CAB HEC . O HEC 523 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.765 ? covale ? covale4 O SG CYS 43 O CYS 104 1_555 FA CAC HEC . O HEC 523 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.832 ? covale ? covale5 W SG CYS 19 W CYS 19 1_555 HA CAB HEC . W HEC 526 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.803 ? covale ? covale6 W SG CYS 22 W CYS 22 1_555 HA CAC HEC . W HEC 526 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.817 ? covale ? covale7 W C PRO 76 W PRO 76 1_555 W N M3L 77 W M3L 77 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.336 ? covale ? covale8 W C M3L 77 W M3L 77 1_555 W N LYS 78 W LYS 78 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? metalc ? metalc1 C NE2 HIS 82 C HIS 82 1_555 X FE HEC . C HEC 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2 ? metalc ? metalc2 C NE2 HIS 96 C HIS 96 1_555 Y FE HEC . C HEC 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.981 ? metalc ? metalc3 C NE2 HIS 183 C HIS 183 1_555 X FE HEC . C HEC 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.964 ? metalc ? metalc4 C NE2 HIS 197 C HIS 197 1_555 Y FE HEC . C HEC 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? metalc ? metalc5 D NE2 HIS 44 D HIS 105 1_555 AA FE HEC . D HEC 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.957 ? metalc ? metalc6 D SD MET 164 D MET 225 1_555 AA FE HEC . D HEC 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.129 ? metalc ? metalc7 E SG CYS 129 E CYS 159 1_555 BA FE1 FES . E FES 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.241 ? metalc ? metalc8 E ND1 HIS 131 E HIS 161 1_555 BA FE2 FES . E FES 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.069 ? metalc ? metalc9 E SG CYS 148 E CYS 178 1_555 BA FE1 FES . E FES 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.179 ? metalc ? metalc10 E ND1 HIS 151 E HIS 181 1_555 BA FE2 FES . E FES 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.131 ? metalc ? metalc11 N NE2 HIS 82 N HIS 82 1_555 CA FE HEC . N HEC 521 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.972 ? metalc ? metalc12 N NE2 HIS 96 N HIS 96 1_555 DA FE HEC . N HEC 522 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.025 ? metalc ? metalc13 N NE2 HIS 183 N HIS 183 1_555 CA FE HEC . N HEC 521 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.973 ? metalc ? metalc14 N NE2 HIS 197 N HIS 197 1_555 DA FE HEC . N HEC 522 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.001 ? metalc ? metalc15 O NE2 HIS 44 O HIS 105 1_555 FA FE HEC . O HEC 523 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.963 ? metalc ? metalc16 O SD MET 164 O MET 225 1_555 FA FE HEC . O HEC 523 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.112 ? metalc ? metalc17 P SG CYS 129 P CYS 159 1_555 GA FE1 FES . P FES 524 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.202 ? metalc ? metalc18 P ND1 HIS 131 P HIS 161 1_555 GA FE2 FES . P FES 524 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.175 ? metalc ? metalc19 P SG CYS 148 P CYS 178 1_555 GA FE1 FES . P FES 524 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.238 ? metalc ? metalc20 P ND1 HIS 151 P HIS 181 1_555 GA FE2 FES . P FES 524 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.109 ? metalc ? metalc21 W NE2 HIS 23 W HIS 23 1_555 HA FE HEC . W HEC 526 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.007 ? metalc ? metalc22 W SD MET 85 W MET 85 1_555 HA FE HEC . W HEC 526 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.435 ? # _chem_comp.formula 'C34 H34 Fe N4 O4' _chem_comp.formula_weight 618.503 _chem_comp.id HEC _chem_comp.mon_nstd_flag . _chem_comp.name 'HEME C' _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 FE NA HEC sing 133 n n FE NB HEC sing 134 n n FE NC HEC sing 135 n n FE ND HEC sing 136 n n CHA C1A HEC doub 137 n n CHA C4D HEC sing 138 n n CHA HHA HEC sing 139 n n CHB C4A HEC doub 140 n n CHB C1B HEC sing 141 n n CHB HHB HEC sing 142 n n CHC C4B HEC doub 143 n n CHC C1C HEC sing 144 n n CHC HHC HEC sing 145 n n CHD C4C HEC doub 146 n n CHD C1D HEC sing 147 n n CHD HHD HEC sing 148 n n NA C1A HEC sing 149 n y NA C4A HEC sing 150 n y C1A C2A HEC sing 151 n y C2A C3A HEC doub 152 n y C2A CAA HEC sing 153 n n C3A C4A HEC sing 154 n y C3A CMA HEC sing 155 n n CMA HMA1 HEC sing 156 n n CMA HMA2 HEC sing 157 n n CMA HMA3 HEC sing 158 n n CAA CBA HEC sing 159 n n CAA HAA1 HEC sing 160 n n CAA HAA2 HEC sing 161 n n CBA CGA HEC sing 162 n n CBA HBA1 HEC sing 163 n n CBA HBA2 HEC sing 164 n n CGA O1A HEC doub 165 n n CGA O2A HEC sing 166 n n O2A H2A HEC sing 167 n n NB C1B HEC sing 168 n y NB C4B HEC sing 169 n y C1B C2B HEC doub 170 n y C2B C3B HEC sing 171 n y C2B CMB HEC sing 172 n n C3B C4B HEC sing 173 n y C3B CAB HEC doub 174 e n CMB HMB1 HEC sing 175 n n CMB HMB2 HEC sing 176 n n CMB HMB3 HEC sing 177 n n CAB CBB HEC sing 178 n n CAB HAB HEC sing 179 n n CBB HBB1 HEC sing 180 n n CBB HBB2 HEC sing 181 n n CBB HBB3 HEC sing 182 n n NC C1C HEC sing 183 n y NC C4C HEC sing 184 n y C1C C2C HEC doub 185 n y C2C C3C HEC sing 186 n y C2C CMC HEC sing 187 n n C3C C4C HEC sing 188 n y C3C CAC HEC doub 189 e n CMC HMC1 HEC sing 190 n n CMC HMC2 HEC sing 191 n n CMC HMC3 HEC sing 192 n n CAC CBC HEC sing 193 n n CAC HAC HEC sing 194 n n CBC HBC1 HEC sing 195 n n CBC HBC2 HEC sing 196 n n CBC HBC3 HEC sing 197 n n ND C1D HEC sing 198 n y ND C4D HEC sing 199 n y C1D C2D HEC doub 200 n y C2D C3D HEC sing 201 n y C2D CMD HEC sing 202 n n C3D C4D HEC doub 203 n y C3D CAD HEC sing 204 n n CMD HMD1 HEC sing 205 n n CMD HMD2 HEC sing 206 n n CMD HMD3 HEC sing 207 n n CAD CBD HEC sing 208 n n CAD HAD1 HEC sing 209 n n CAD HAD2 HEC sing 210 n n CBD CGD HEC sing 211 n n CBD HBD1 HEC sing 212 n n CBD HBD2 HEC sing 213 n n CGD O1D HEC doub 214 n n CGD O2D HEC sing 215 n n O2D H2D HEC sing 216 n n # _atom_sites.entry_id 1KYO _atom_sites.fract_transf_matrix[1][1] 0.006792 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.001718 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.006041 _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] 0.005266 _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 X 13 HEC C 1 501 1 HEC HEM . Y 13 HEC C 1 502 2 HEC HEM . Z 14 SMA C 1 505 5 SMA STG . AA 13 HEC D 1 503 3 HEC HEM . BA 15 FES E 1 504 4 FES FES . CA 13 HEC N 1 521 21 HEC HEM . DA 13 HEC N 1 522 22 HEC HEM . EA 14 SMA N 1 525 25 SMA STG . FA 13 HEC O 1 523 23 HEC HEM . GA 15 FES P 1 524 24 FES FES . HA 13 HEC W 1 526 26 HEC HEM . # 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 FE HEC . . . CA 13 21.633 -22.345 37.935 1 16.94 ? FE HEC 521 N 1 HETATM 2 C CHA HEC . . . CA 13 21.452 -25.454 36.696 1 13.29 ? CHA HEC 521 N 1 HETATM 3 C CHB HEC . . . CA 13 22.121 -21.099 34.72 1 12.33 ? CHB HEC 521 N 1 HETATM 4 C CHC HEC . . . CA 13 21.872 -19.16 39.096 1 16.85 ? CHC HEC 521 N 1 HETATM 5 C CHD HEC . . . CA 13 21.145 -23.496 41.087 1 14.73 ? CHD HEC 521 N 1 HETATM 6 N NA HEC . . . CA 13 21.814 -23.099 36.105 1 10.91 ? NA HEC 521 N 1 HETATM 7 C C1A HEC . . . CA 13 21.703 -24.437 35.794 1 12.63 ? C1A HEC 521 N 1 HETATM 8 C C2A HEC . . . CA 13 21.858 -24.624 34.367 1 13.51 ? C2A HEC 521 N 1 HETATM 9 C C3A HEC . . . CA 13 22.099 -23.408 33.828 1 12.13 ? C3A HEC 521 N 1 HETATM 10 C C4A HEC . . . CA 13 22 -22.452 34.897 1 11.84 ? C4A HEC 521 N 1 HETATM 11 C CMA HEC . . . CA 13 22.459 -23.031 32.402 1 5.91 ? CMA HEC 521 N 1 HETATM 12 C CAA HEC . . . CA 13 21.768 -25.903 33.609 1 14.92 ? CAA HEC 521 N 1 HETATM 13 C CBA HEC . . . CA 13 20.6 -25.977 32.633 1 18.55 ? CBA HEC 521 N 1 HETATM 14 C CGA HEC . . . CA 13 19.823 -27.268 32.809 1 21.63 ? CGA HEC 521 N 1 HETATM 15 O O1A HEC . . . CA 13 18.915 -27.257 33.682 1 23.64 ? O1A HEC 521 N 1 HETATM 16 O O2A HEC . . . CA 13 20.132 -28.28 32.103 1 19.75 ? O2A HEC 521 N 1 HETATM 17 N NB HEC . . . CA 13 21.906 -20.511 37.049 1 13.22 ? NB HEC 521 N 1 HETATM 18 C C1B HEC . . . CA 13 22.081 -20.178 35.727 1 12.22 ? C1B HEC 521 N 1 HETATM 19 C C2B HEC . . . CA 13 22.285 -18.762 35.562 1 13.91 ? C2B HEC 521 N 1 HETATM 20 C C3B HEC . . . CA 13 22.161 -18.218 36.788 1 16.32 ? C3B HEC 521 N 1 HETATM 21 C C4B HEC . . . CA 13 21.978 -19.311 37.721 1 15.63 ? C4B HEC 521 N 1 HETATM 22 C CMB HEC . . . CA 13 22.654 -18.034 34.259 1 12.04 ? CMB HEC 521 N 1 HETATM 23 C CAB HEC . . . CA 13 22.231 -16.906 37.199 1 18.81 ? CAB HEC 521 N 1 HETATM 24 C CBB HEC . . . CA 13 21.966 -15.77 36.352 1 23.85 ? CBB HEC 521 N 1 HETATM 25 N NC HEC . . . CA 13 21.506 -21.491 39.721 1 12.83 ? NC HEC 521 N 1 HETATM 26 C C1C HEC . . . CA 13 21.66 -20.158 40.03 1 15.15 ? C1C HEC 521 N 1 HETATM 27 C C2C HEC . . . CA 13 21.569 -19.946 41.467 1 16.96 ? C2C HEC 521 N 1 HETATM 28 C C3C HEC . . . CA 13 21.351 -21.152 42.016 1 17.23 ? C3C HEC 521 N 1 HETATM 29 C C4C HEC . . . CA 13 21.317 -22.124 40.93 1 15.54 ? C4C HEC 521 N 1 HETATM 30 C CMC HEC . . . CA 13 21.676 -18.689 42.383 1 12.15 ? CMC HEC 521 N 1 HETATM 31 C CAC HEC . . . CA 13 21.204 -21.278 43.369 1 18.67 ? CAC HEC 521 N 1 HETATM 32 C CBC HEC . . . CA 13 21.867 -22.324 44.037 1 22.47 ? CBC HEC 521 N 1 HETATM 33 N ND HEC . . . CA 13 21.33 -24.108 38.731 1 12.73 ? ND HEC 521 N 1 HETATM 34 C C1D HEC . . . CA 13 21.147 -24.417 40.056 1 14.03 ? C1D HEC 521 N 1 HETATM 35 C C2D HEC . . . CA 13 20.9 -25.827 40.203 1 16.04 ? C2D HEC 521 N 1 HETATM 36 C C3D HEC . . . CA 13 21 -26.376 38.976 1 16.1 ? C3D HEC 521 N 1 HETATM 37 C C4D HEC . . . CA 13 21.275 -25.303 38.057 1 14.47 ? C4D HEC 521 N 1 HETATM 38 C CMD HEC . . . CA 13 20.561 -26.569 41.473 1 16.33 ? CMD HEC 521 N 1 HETATM 39 C CAD HEC . . . CA 13 20.798 -27.85 38.692 1 17.67 ? CAD HEC 521 N 1 HETATM 40 C CBD HEC . . . CA 13 19.334 -28.198 38.374 1 20.44 ? CBD HEC 521 N 1 HETATM 41 C CGD HEC . . . CA 13 18.899 -27.725 36.992 1 22.23 ? CGD HEC 521 N 1 HETATM 42 O O1D HEC . . . CA 13 19.459 -28.226 35.997 1 22.96 ? O1D HEC 521 N 1 HETATM 43 O O2D HEC . . . CA 13 18.002 -26.862 36.897 1 22.28 ? O2D HEC 521 N 1 # _model_server_stats.io_time_ms 69 _model_server_stats.parse_time_ms 79 _model_server_stats.create_model_time_ms 211 _model_server_stats.query_time_ms 1453 _model_server_stats.encode_time_ms 17 _model_server_stats.element_count 43 #