data_2YCC # _model_server_result.job_id L4l4yIFA9r47NLfkh58r-g _model_server_result.datetime_utc '2024-12-04 06:25:52' _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 2ycc # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":104}' # _entry.id 2YCC # _exptl.entry_id 2YCC _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 618.503 _entity.id 3 _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 90 _cell.entry_id 2YCC _cell.length_a 36.47 _cell.length_b 36.47 _cell.length_c 137.24 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2YCC _symmetry.cell_setting ? _symmetry.Int_Tables_number 96 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 43 21 2' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D _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 3 _struct_asym.id C _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 SG CYS 19 A CYS 14 1_555 C CAB HEC . A HEC 104 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.812 ? covale ? covale2 A SG CYS 22 A CYS 17 1_555 C CAC HEC . A HEC 104 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.843 ? covale ? covale3 A C PRO 76 A PRO 71 1_555 A N M3L 77 A M3L 72 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale4 A C M3L 77 A M3L 72 1_555 A N LYS 78 A LYS 73 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.323 ? metalc ? metalc1 A NE2 HIS 23 A HIS 18 1_555 C FE HEC . A HEC 104 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.011 ? metalc ? metalc2 A SD MET 85 A MET 80 1_555 C FE HEC . A HEC 104 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.426 ? # _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 ? # _atom_sites.entry_id 2YCC _atom_sites.fract_transf_matrix[1][1] 0.02742 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.02742 _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] 0.007287 _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 SO4 A 1 117 117 SO4 SO4 . C 3 HEC A 1 104 104 HEC HEM . D 4 HOH A 1 106 106 HOH HOH . D 4 HOH A 2 107 107 HOH HOH . D 4 HOH A 3 110 110 HOH HOH . D 4 HOH A 4 112 112 HOH HOH . D 4 HOH A 5 113 113 HOH HOH . D 4 HOH A 6 121 121 HOH HOH . D 4 HOH A 7 122 122 HOH HOH . D 4 HOH A 8 123 123 HOH HOH . D 4 HOH A 9 124 124 HOH HOH . D 4 HOH A 10 125 125 HOH HOH . D 4 HOH A 11 126 126 HOH HOH . D 4 HOH A 12 127 127 HOH HOH . D 4 HOH A 13 128 128 HOH HOH . D 4 HOH A 14 129 129 HOH HOH . D 4 HOH A 15 130 130 HOH HOH . D 4 HOH A 16 133 133 HOH HOH . D 4 HOH A 17 135 135 HOH HOH . D 4 HOH A 18 136 136 HOH HOH . D 4 HOH A 19 138 138 HOH HOH . D 4 HOH A 20 142 142 HOH HOH . D 4 HOH A 21 150 150 HOH HOH . D 4 HOH A 22 151 151 HOH HOH . D 4 HOH A 23 152 152 HOH HOH . D 4 HOH A 24 153 153 HOH HOH . D 4 HOH A 25 154 154 HOH HOH . D 4 HOH A 26 155 155 HOH HOH . D 4 HOH A 27 157 157 HOH HOH . D 4 HOH A 28 158 158 HOH HOH . D 4 HOH A 29 160 160 HOH HOH . D 4 HOH A 30 161 161 HOH HOH . D 4 HOH A 31 163 163 HOH HOH . D 4 HOH A 32 166 166 HOH HOH . D 4 HOH A 33 167 167 HOH HOH . D 4 HOH A 34 168 168 HOH HOH . D 4 HOH A 35 171 171 HOH HOH . D 4 HOH A 36 172 172 HOH HOH . D 4 HOH A 37 175 175 HOH HOH . D 4 HOH A 38 177 177 HOH HOH . D 4 HOH A 39 182 182 HOH HOH . D 4 HOH A 40 183 183 HOH HOH . D 4 HOH A 41 185 185 HOH HOH . D 4 HOH A 42 189 189 HOH HOH . D 4 HOH A 43 192 192 HOH HOH . D 4 HOH A 44 195 195 HOH HOH . D 4 HOH A 45 196 196 HOH HOH . D 4 HOH A 46 197 197 HOH HOH . D 4 HOH A 47 198 198 HOH HOH . D 4 HOH A 48 200 200 HOH HOH . D 4 HOH A 49 213 213 HOH HOH . D 4 HOH A 50 218 218 HOH HOH . D 4 HOH A 51 300 300 HOH HOH . D 4 HOH A 52 301 301 HOH HOH . D 4 HOH A 53 302 302 HOH HOH . D 4 HOH A 54 303 303 HOH HOH . D 4 HOH A 55 304 304 HOH HOH . D 4 HOH A 56 305 305 HOH HOH . D 4 HOH A 57 306 306 HOH HOH . D 4 HOH A 58 307 307 HOH HOH . D 4 HOH A 59 308 308 HOH HOH . D 4 HOH A 60 309 309 HOH HOH . D 4 HOH A 61 310 310 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 . . . C 3 2.859 20.878 13.068 1 8.58 ? FE HEC 104 A 1 HETATM 2 C CHA HEC . . . C 3 5.033 18.463 14.164 1 8.1 ? CHA HEC 104 A 1 HETATM 3 C CHB HEC . . . C 3 3.97 20.64 9.964 1 6.8 ? CHB HEC 104 A 1 HETATM 4 C CHC HEC . . . C 3 0.188 22.667 12.154 1 4.7 ? CHC HEC 104 A 1 HETATM 5 C CHD HEC . . . C 3 2.353 21.815 16.332 1 4.66 ? CHD HEC 104 A 1 HETATM 6 N NA HEC . . . C 3 4.272 19.78 12.241 1 7.82 ? NA HEC 104 A 1 HETATM 7 C C1A HEC . . . C 3 5.031 18.786 12.831 1 8.03 ? C1A HEC 104 A 1 HETATM 8 C C2A HEC . . . C 3 5.811 18.131 11.813 1 8.27 ? C2A HEC 104 A 1 HETATM 9 C C3A HEC . . . C 3 5.573 18.72 10.635 1 7.49 ? C3A HEC 104 A 1 HETATM 10 C C4A HEC . . . C 3 4.593 19.756 10.856 1 8.65 ? C4A HEC 104 A 1 HETATM 11 C CMA HEC . . . C 3 6.089 18.32 9.245 1 7.85 ? CMA HEC 104 A 1 HETATM 12 C CAA HEC . . . C 3 6.775 16.949 12.134 1 7.6 ? CAA HEC 104 A 1 HETATM 13 C CBA HEC . . . C 3 8.046 17.365 12.817 1 7.16 ? CBA HEC 104 A 1 HETATM 14 C CGA HEC . . . C 3 9.401 16.826 12.588 1 5.53 ? CGA HEC 104 A 1 HETATM 15 O O1A HEC . . . C 3 10.363 17.601 12.447 1 4.79 ? O1A HEC 104 A 1 HETATM 16 O O2A HEC . . . C 3 9.663 15.6 12.727 1 6.79 ? O2A HEC 104 A 1 HETATM 17 N NB HEC . . . C 3 2.096 21.441 11.331 1 4.53 ? NB HEC 104 A 1 HETATM 18 C C1B HEC . . . C 3 2.826 21.425 10.142 1 4.56 ? C1B HEC 104 A 1 HETATM 19 C C2B HEC . . . C 3 2.058 22.193 9.152 1 3.9 ? C2B HEC 104 A 1 HETATM 20 C C3B HEC . . . C 3 1.024 22.754 9.774 1 3.2 ? C3B HEC 104 A 1 HETATM 21 C C4B HEC . . . C 3 1.069 22.315 11.155 1 3.81 ? C4B HEC 104 A 1 HETATM 22 C CMB HEC . . . C 3 2.471 22.315 7.671 1 2.43 ? CMB HEC 104 A 1 HETATM 23 C CAB HEC . . . C 3 -0.101 23.691 9.226 1 3.34 ? CAB HEC 104 A 1 HETATM 24 C CBB HEC . . . C 3 -1.329 23.209 8.531 1 4.19 ? CBB HEC 104 A 1 HETATM 25 N NC HEC . . . C 3 1.535 22.042 14.054 1 4.64 ? NC HEC 104 A 1 HETATM 26 C C1C HEC . . . C 3 0.493 22.67 13.508 1 4.4 ? C1C HEC 104 A 1 HETATM 27 C C2C HEC . . . C 3 -0.278 23.372 14.54 1 5.95 ? C2C HEC 104 A 1 HETATM 28 C C3C HEC . . . C 3 0.357 23.194 15.699 1 4.68 ? C3C HEC 104 A 1 HETATM 29 C C4C HEC . . . C 3 1.486 22.301 15.418 1 6.2 ? C4C HEC 104 A 1 HETATM 30 C CMC HEC . . . C 3 -1.587 24.194 14.241 1 2.64 ? CMC HEC 104 A 1 HETATM 31 C CAC HEC . . . C 3 -0.067 23.771 17.08 1 6.83 ? CAC HEC 104 A 1 HETATM 32 C CBC HEC . . . C 3 -1.583 23.793 17.449 1 3.2 ? CBC HEC 104 A 1 HETATM 33 N ND HEC . . . C 3 3.544 20.242 14.887 1 6.79 ? ND HEC 104 A 1 HETATM 34 C C1D HEC . . . C 3 3.159 20.742 16.114 1 6.5 ? C1D HEC 104 A 1 HETATM 35 C C2D HEC . . . C 3 3.788 19.942 17.154 1 6.32 ? C2D HEC 104 A 1 HETATM 36 C C3D HEC . . . C 3 4.519 19.025 16.56 1 5.9 ? C3D HEC 104 A 1 HETATM 37 C C4D HEC . . . C 3 4.359 19.148 15.127 1 7.71 ? C4D HEC 104 A 1 HETATM 38 C CMD HEC . . . C 3 3.522 20.093 18.683 1 7.1 ? CMD HEC 104 A 1 HETATM 39 C CAD HEC . . . C 3 5.33 17.88 17.254 1 5.93 ? CAD HEC 104 A 1 HETATM 40 C CBD HEC . . . C 3 4.429 16.665 17.4 1 3.07 ? CBD HEC 104 A 1 HETATM 41 C CGD HEC . . . C 3 4.897 15.616 18.376 1 3.35 ? CGD HEC 104 A 1 HETATM 42 O O1D HEC . . . C 3 5.891 15.925 19.084 1 2.15 ? O1D HEC 104 A 1 HETATM 43 O O2D HEC . . . C 3 4.206 14.536 18.405 1 2.63 ? O2D HEC 104 A 1 # _model_server_stats.io_time_ms 44 _model_server_stats.parse_time_ms 16 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 276 _model_server_stats.encode_time_ms 11 _model_server_stats.element_count 43 #