data_4CDY # _model_server_result.job_id Kq341wwNDmPkDnD6Ct2xEw _model_server_result.datetime_utc '2024-11-07 16:45:58' _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 4cdy # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":1127}' # _entry.id 4CDY # _exptl.entry_id 4CDY _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 618.503 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'HEME C' _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 4CDY _cell.length_a 53.623 _cell.length_b 53.623 _cell.length_c 181.724 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4CDY _symmetry.cell_setting ? _symmetry.Int_Tables_number 179 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 65 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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 10_665 -y+1,-x+1,-z+1/6 0.5 -0.866025 0 -0.866025 -0.5 0 0 0 -1 26.8115 46.43888 30.287333 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id B _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 covale ? covale1 A C PCA 1 A PCA 1 1_555 A N PHE 2 A PHE 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.325 ? metalc ? metalc1 A NE2 HIS 120 A HIS 120 1_555 B FE HEC . A HEC 1127 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.153 ? # _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 129 n n FE NB HEC sing 130 n n FE NC HEC sing 131 n n FE ND HEC sing 132 n n CHA C1A HEC doub 133 n n CHA C4D HEC sing 134 n n CHA HHA HEC sing 135 n n CHB C4A HEC doub 136 n n CHB C1B HEC sing 137 n n CHB HHB HEC sing 138 n n CHC C4B HEC doub 139 n n CHC C1C HEC sing 140 n n CHC HHC HEC sing 141 n n CHD C4C HEC doub 142 n n CHD C1D HEC sing 143 n n CHD HHD HEC sing 144 n n NA C1A HEC sing 145 n y NA C4A HEC sing 146 n y C1A C2A HEC sing 147 n y C2A C3A HEC doub 148 n y C2A CAA HEC sing 149 n n C3A C4A HEC sing 150 n y C3A CMA HEC sing 151 n n CMA HMA1 HEC sing 152 n n CMA HMA2 HEC sing 153 n n CMA HMA3 HEC sing 154 n n CAA CBA HEC sing 155 n n CAA HAA1 HEC sing 156 n n CAA HAA2 HEC sing 157 n n CBA CGA HEC sing 158 n n CBA HBA1 HEC sing 159 n n CBA HBA2 HEC sing 160 n n CGA O1A HEC doub 161 n n CGA O2A HEC sing 162 n n O2A H2A HEC sing 163 n n NB C1B HEC sing 164 n y NB C4B HEC sing 165 n y C1B C2B HEC doub 166 n y C2B C3B HEC sing 167 n y C2B CMB HEC sing 168 n n C3B C4B HEC sing 169 n y C3B CAB HEC doub 170 e n CMB HMB1 HEC sing 171 n n CMB HMB2 HEC sing 172 n n CMB HMB3 HEC sing 173 n n CAB CBB HEC sing 174 n n CAB HAB HEC sing 175 n n CBB HBB1 HEC sing 176 n n CBB HBB2 HEC sing 177 n n CBB HBB3 HEC sing 178 n n NC C1C HEC sing 179 n y NC C4C HEC sing 180 n y C1C C2C HEC doub 181 n y C2C C3C HEC sing 182 n y C2C CMC HEC sing 183 n n C3C C4C HEC sing 184 n y C3C CAC HEC doub 185 e n CMC HMC1 HEC sing 186 n n CMC HMC2 HEC sing 187 n n CMC HMC3 HEC sing 188 n n CAC CBC HEC sing 189 n n CAC HAC HEC sing 190 n n CBC HBC1 HEC sing 191 n n CBC HBC2 HEC sing 192 n n CBC HBC3 HEC sing 193 n n ND C1D HEC sing 194 n y ND C4D HEC sing 195 n y C1D C2D HEC doub 196 n y C2D C3D HEC sing 197 n y C2D CMD HEC sing 198 n n C3D C4D HEC doub 199 n y C3D CAD HEC sing 200 n n CMD HMD1 HEC sing 201 n n CMD HMD2 HEC sing 202 n n CMD HMD3 HEC sing 203 n n CAD CBD HEC sing 204 n n CAD HAD1 HEC sing 205 n n CAD HAD2 HEC sing 206 n n CBD CGD HEC sing 207 n n CBD HBD1 HEC sing 208 n n CBD HBD2 HEC sing 209 n n CGD O1D HEC doub 210 n n CGD O2D HEC sing 211 n n O2D H2D HEC sing 212 n n # _atom_sites.entry_id 4CDY _atom_sites.fract_transf_matrix[1][1] 0.018649 _atom_sites.fract_transf_matrix[1][2] 0.010767 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.021534 _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] 0.005503 _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 B 2 HEC A 1 1127 1127 HEC HEC . C 3 HOH A 1 2001 2001 HOH HOH . C 3 HOH A 2 2002 2002 HOH HOH . C 3 HOH A 3 2003 2003 HOH HOH . C 3 HOH A 4 2004 2004 HOH HOH . C 3 HOH A 5 2005 2005 HOH HOH . C 3 HOH A 6 2006 2006 HOH HOH . C 3 HOH A 7 2007 2007 HOH HOH . C 3 HOH A 8 2008 2008 HOH HOH . C 3 HOH A 9 2009 2009 HOH HOH . C 3 HOH A 10 2010 2010 HOH HOH . C 3 HOH A 11 2011 2011 HOH HOH . C 3 HOH A 12 2012 2012 HOH HOH . C 3 HOH A 13 2013 2013 HOH HOH . C 3 HOH A 14 2014 2014 HOH HOH . C 3 HOH A 15 2015 2015 HOH HOH . C 3 HOH A 16 2016 2016 HOH HOH . C 3 HOH A 17 2017 2017 HOH HOH . C 3 HOH A 18 2018 2018 HOH HOH . C 3 HOH A 19 2019 2019 HOH HOH . C 3 HOH A 20 2020 2020 HOH HOH . C 3 HOH A 21 2021 2021 HOH HOH . C 3 HOH A 22 2022 2022 HOH HOH . C 3 HOH A 23 2023 2023 HOH HOH . C 3 HOH A 24 2024 2024 HOH HOH . C 3 HOH A 25 2025 2025 HOH HOH . C 3 HOH A 26 2026 2026 HOH HOH . C 3 HOH A 27 2027 2027 HOH HOH . C 3 HOH A 28 2028 2028 HOH HOH . C 3 HOH A 29 2029 2029 HOH HOH . C 3 HOH A 30 2030 2030 HOH HOH . C 3 HOH A 31 2031 2031 HOH HOH . C 3 HOH A 32 2032 2032 HOH HOH . C 3 HOH A 33 2033 2033 HOH HOH . C 3 HOH A 34 2034 2034 HOH HOH . C 3 HOH A 35 2035 2035 HOH HOH . C 3 HOH A 36 2036 2036 HOH HOH . C 3 HOH A 37 2037 2037 HOH HOH . C 3 HOH A 38 2038 2038 HOH HOH . C 3 HOH A 39 2039 2039 HOH HOH . C 3 HOH A 40 2040 2040 HOH HOH . C 3 HOH A 41 2041 2041 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 FE HEC . . . B 2 7.005 39.332 21.732 1 25.74 ? FE HEC 1127 A 1 HETATM 2 C CHA HEC . . . B 2 8.526 36.341 21.69 1 25.37 ? CHA HEC 1127 A 1 HETATM 3 C CHB HEC . . . B 2 7.001 39.357 18.334 1 28.43 ? CHB HEC 1127 A 1 HETATM 4 C CHC HEC . . . B 2 4.68 41.807 21.743 1 31.44 ? CHC HEC 1127 A 1 HETATM 5 C CHD HEC . . . B 2 6.667 39.079 25.095 1 24.89 ? CHD HEC 1127 A 1 HETATM 6 N NA HEC . . . B 2 7.619 38.064 20.264 1 26.74 ? NA HEC 1127 A 1 HETATM 7 C C1A HEC . . . B 2 8.263 36.855 20.421 1 25.97 ? C1A HEC 1127 A 1 HETATM 8 C C2A HEC . . . B 2 8.644 36.27 19.204 1 26.92 ? C2A HEC 1127 A 1 HETATM 9 C C3A HEC . . . B 2 8.166 37.15 18.227 1 29.68 ? C3A HEC 1127 A 1 HETATM 10 C C4A HEC . . . B 2 7.607 38.231 18.919 1 28.8 ? C4A HEC 1127 A 1 HETATM 11 C CMA HEC . . . B 2 8.092 36.912 16.751 1 32.54 ? CMA HEC 1127 A 1 HETATM 12 C CAA HEC . . . B 2 9.4 34.98 18.944 1 30.34 ? CAA HEC 1127 A 1 HETATM 13 C CBA HEC . . . B 2 8.388 33.851 18.908 1 29.04 ? CBA HEC 1127 A 1 HETATM 14 C CGA HEC . . . B 2 9.064 32.573 18.427 1 37.66 ? CGA HEC 1127 A 1 HETATM 15 O O1A HEC . . . B 2 9.637 31.831 19.251 1 34.79 ? O1A HEC 1127 A 1 HETATM 16 O O2A HEC . . . B 2 8.996 32.286 17.226 1 41.03 ? O2A HEC 1127 A 1 HETATM 17 N NB HEC . . . B 2 6.069 40.45 20.275 1 29.11 ? NB HEC 1127 A 1 HETATM 18 C C1B HEC . . . B 2 6.283 40.381 18.976 1 28.25 ? C1B HEC 1127 A 1 HETATM 19 C C2B HEC . . . B 2 5.616 41.426 18.309 1 35.43 ? C2B HEC 1127 A 1 HETATM 20 C C3B HEC . . . B 2 4.862 42.102 19.287 1 34.85 ? C3B HEC 1127 A 1 HETATM 21 C C4B HEC . . . B 2 5.218 41.475 20.486 1 32.32 ? C4B HEC 1127 A 1 HETATM 22 C CMB HEC . . . B 2 5.791 41.739 16.836 1 42.65 ? CMB HEC 1127 A 1 HETATM 23 C CAB HEC . . . B 2 3.754 43.126 19.186 1 37.77 ? CAB HEC 1127 A 1 HETATM 24 C CBB HEC . . . B 2 3.24 43.413 17.801 1 40.18 ? CBB HEC 1127 A 1 HETATM 25 N NC HEC . . . B 2 5.947 40.281 23.146 1 26.79 ? NC HEC 1127 A 1 HETATM 26 C C1C HEC . . . B 2 5.07 41.294 23.015 1 28.5 ? C1C HEC 1127 A 1 HETATM 27 C C2C HEC . . . B 2 4.548 41.78 24.199 1 30.14 ? C2C HEC 1127 A 1 HETATM 28 C C3C HEC . . . B 2 5.105 40.998 25.192 1 29.36 ? C3C HEC 1127 A 1 HETATM 29 C C4C HEC . . . B 2 5.97 40.119 24.483 1 27.17 ? C4C HEC 1127 A 1 HETATM 30 C CMC HEC . . . B 2 3.611 42.942 24.346 1 31.26 ? CMC HEC 1127 A 1 HETATM 31 C CAC HEC . . . B 2 4.765 40.887 26.644 1 30.95 ? CAC HEC 1127 A 1 HETATM 32 C CBC HEC . . . B 2 3.589 41.699 27.187 1 31.2 ? CBC HEC 1127 A 1 HETATM 33 N ND HEC . . . B 2 7.516 37.927 23.184 1 24.9 ? ND HEC 1127 A 1 HETATM 34 C C1D HEC . . . B 2 7.361 38.02 24.507 1 24.55 ? C1D HEC 1127 A 1 HETATM 35 C C2D HEC . . . B 2 7.958 36.909 25.185 1 24.4 ? C2D HEC 1127 A 1 HETATM 36 C C3D HEC . . . B 2 8.464 36.106 24.192 1 24.17 ? C3D HEC 1127 A 1 HETATM 37 C C4D HEC . . . B 2 8.171 36.782 22.976 1 22.6 ? C4D HEC 1127 A 1 HETATM 38 C CMD HEC . . . B 2 8.02 36.653 26.665 1 25.26 ? CMD HEC 1127 A 1 HETATM 39 C CAD HEC . . . B 2 9.131 34.739 24.399 1 22.82 ? CAD HEC 1127 A 1 HETATM 40 C CBD HEC . . . B 2 8.104 33.622 24.316 1 25.23 ? CBD HEC 1127 A 1 HETATM 41 C CGD HEC . . . B 2 8.709 32.241 24.409 1 28.05 ? CGD HEC 1127 A 1 HETATM 42 O O1D HEC . . . B 2 9.726 31.968 23.724 1 26.83 ? O1D HEC 1127 A 1 HETATM 43 O O2D HEC . . . B 2 8.163 31.446 25.166 1 27.64 ? O2D HEC 1127 A 1 # _model_server_stats.io_time_ms 6 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 336 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 43 #