data_7KVN # _model_server_result.job_id kx-Lltgr8pDo-FWBaXEjJQ _model_server_result.datetime_utc '2024-11-21 18:10:07' _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 7kvn # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":601}' # _entry.id 7KVN # _exptl.entry_id 7KVN _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 616.487 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'PROTOPORPHYRIN IX CONTAINING FE' _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 124.21 _cell.angle_gamma 90 _cell.entry_id 7KVN _cell.length_a 153.761 _cell.length_b 95.61 _cell.length_c 93.02 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7KVN _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 1 2 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 _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 ? 2 C N N ? 2 E 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 422 A CYS 442 1_555 C FE HEM . A HEM 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.402 ? metalc ? metalc2 C FE HEM . A HEM 601 1_555 D N30 X6V . A X6V 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.08 ? metalc ? metalc3 B SG CYS 422 B CYS 442 1_555 E FE HEM . B HEM 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.404 ? metalc ? metalc4 E FE HEM . B HEM 601 1_555 F N30 X6V . B X6V 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.154 ? # _chem_comp.formula 'C34 H32 Fe N4 O4' _chem_comp.formula_weight 616.487 _chem_comp.id HEM _chem_comp.mon_nstd_flag . _chem_comp.name 'PROTOPORPHYRIN IX CONTAINING FE' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms HEME # 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 CHA C1A HEM sing 129 n n CHA C4D HEM doub 130 n n CHA HHA HEM sing 131 n n CHB C4A HEM sing 132 n n CHB C1B HEM doub 133 n n CHB HHB HEM sing 134 n n CHC C4B HEM sing 135 n n CHC C1C HEM doub 136 n n CHC HHC HEM sing 137 n n CHD C4C HEM doub 138 n n CHD C1D HEM sing 139 n n CHD HHD HEM sing 140 n n C1A C2A HEM doub 141 n y C1A NA HEM sing 142 n y C2A C3A HEM sing 143 n y C2A CAA HEM sing 144 n n C3A C4A HEM doub 145 n y C3A CMA HEM sing 146 n n C4A NA HEM sing 147 n y CMA HMA HEM sing 148 n n CMA HMAA HEM sing 149 n n CMA HMAB HEM sing 150 n n CAA CBA HEM sing 151 n n CAA HAA HEM sing 152 n n CAA HAAA HEM sing 153 n n CBA CGA HEM sing 154 n n CBA HBA HEM sing 155 n n CBA HBAA HEM sing 156 n n CGA O1A HEM doub 157 n n CGA O2A HEM sing 158 n n C1B C2B HEM sing 159 n n C1B NB HEM sing 160 n n C2B C3B HEM doub 161 n n C2B CMB HEM sing 162 n n C3B C4B HEM sing 163 n n C3B CAB HEM sing 164 n n C4B NB HEM doub 165 n n CMB HMB HEM sing 166 n n CMB HMBA HEM sing 167 n n CMB HMBB HEM sing 168 n n CAB CBB HEM doub 169 n n CAB HAB HEM sing 170 n n CBB HBB HEM sing 171 n n CBB HBBA HEM sing 172 n n C1C C2C HEM sing 173 n y C1C NC HEM sing 174 n y C2C C3C HEM doub 175 n y C2C CMC HEM sing 176 n n C3C C4C HEM sing 177 n y C3C CAC HEM sing 178 n n C4C NC HEM sing 179 n y CMC HMC HEM sing 180 n n CMC HMCA HEM sing 181 n n CMC HMCB HEM sing 182 n n CAC CBC HEM doub 183 n n CAC HAC HEM sing 184 n n CBC HBC HEM sing 185 n n CBC HBCA HEM sing 186 n n C1D C2D HEM sing 187 n n C1D ND HEM doub 188 n n C2D C3D HEM doub 189 n n C2D CMD HEM sing 190 n n C3D C4D HEM sing 191 n n C3D CAD HEM sing 192 n n C4D ND HEM sing 193 n n CMD HMD HEM sing 194 n n CMD HMDA HEM sing 195 n n CMD HMDB HEM sing 196 n n CAD CBD HEM sing 197 n n CAD HAD HEM sing 198 n n CAD HADA HEM sing 199 n n CBD CGD HEM sing 200 n n CBD HBD HEM sing 201 n n CBD HBDA HEM sing 202 n n CGD O1D HEM doub 203 n n CGD O2D HEM sing 204 n n O2A H2A HEM sing 205 n n O2D H2D HEM sing 206 n n FE NA HEM sing 207 n n FE NB HEM sing 208 n n FE NC HEM sing 209 n n FE ND HEM sing 210 n n # _atom_sites.entry_id 7KVN _atom_sites.fract_transf_matrix[1][1] 0.006504 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.004422 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.010459 _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] 0.013 _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 C 2 HEM A 1 601 500 HEM HEM . D 3 X6V A 1 602 700 X6V 397 . E 2 HEM B 1 601 500 HEM HEM . F 3 X6V B 1 602 700 X6V 397 . G 4 HOH A 1 701 32 HOH HOH . G 4 HOH A 2 702 12 HOH HOH . G 4 HOH A 3 703 26 HOH HOH . G 4 HOH A 4 704 41 HOH HOH . G 4 HOH A 5 705 9 HOH HOH . G 4 HOH A 6 706 35 HOH HOH . G 4 HOH A 7 707 23 HOH HOH . G 4 HOH A 8 708 54 HOH HOH . G 4 HOH A 9 709 43 HOH HOH . G 4 HOH A 10 710 37 HOH HOH . G 4 HOH A 11 711 46 HOH HOH . G 4 HOH A 12 712 29 HOH HOH . G 4 HOH A 13 713 51 HOH HOH . G 4 HOH A 14 714 20 HOH HOH . G 4 HOH A 15 715 27 HOH HOH . G 4 HOH A 16 716 15 HOH HOH . G 4 HOH A 17 717 53 HOH HOH . G 4 HOH A 18 718 16 HOH HOH . G 4 HOH A 19 719 30 HOH HOH . G 4 HOH A 20 720 14 HOH HOH . G 4 HOH A 21 721 5 HOH HOH . G 4 HOH A 22 722 31 HOH HOH . G 4 HOH A 23 723 25 HOH HOH . G 4 HOH A 24 724 8 HOH HOH . G 4 HOH A 25 725 38 HOH HOH . G 4 HOH A 26 726 52 HOH HOH . G 4 HOH A 27 727 36 HOH HOH . G 4 HOH A 28 728 24 HOH HOH . G 4 HOH A 29 729 48 HOH HOH . G 4 HOH A 30 730 21 HOH HOH . G 4 HOH A 31 731 3 HOH HOH . G 4 HOH A 32 732 19 HOH HOH . G 4 HOH A 33 733 44 HOH HOH . G 4 HOH A 34 734 2 HOH HOH . G 4 HOH A 35 735 4 HOH HOH . G 4 HOH A 36 736 50 HOH HOH . G 4 HOH A 37 737 47 HOH HOH . G 4 HOH A 38 738 45 HOH HOH . G 4 HOH A 39 739 49 HOH HOH . H 4 HOH B 1 701 57 HOH HOH . H 4 HOH B 2 702 33 HOH HOH . H 4 HOH B 3 703 61 HOH HOH . H 4 HOH B 4 704 58 HOH HOH . H 4 HOH B 5 705 59 HOH HOH . H 4 HOH B 6 706 6 HOH HOH . H 4 HOH B 7 707 10 HOH HOH . H 4 HOH B 8 708 17 HOH HOH . H 4 HOH B 9 709 60 HOH HOH . H 4 HOH B 10 710 62 HOH HOH . H 4 HOH B 11 711 40 HOH HOH . H 4 HOH B 12 712 39 HOH HOH . H 4 HOH B 13 713 42 HOH HOH . H 4 HOH B 14 714 18 HOH HOH . H 4 HOH B 15 715 11 HOH HOH . H 4 HOH B 16 716 13 HOH HOH . H 4 HOH B 17 717 55 HOH HOH . H 4 HOH B 18 718 28 HOH HOH . H 4 HOH B 19 719 22 HOH HOH . H 4 HOH B 20 720 56 HOH HOH . H 4 HOH B 21 721 1 HOH HOH . H 4 HOH B 22 722 34 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 C CHA HEM . . . C 2 20.996 -20.585 15.531 1 33.85 ? CHA HEM 601 A 1 HETATM 2 C CHB HEM . . . C 2 24.288 -23.061 12.959 1 34.86 ? CHB HEM 601 A 1 HETATM 3 C CHC HEM . . . C 2 22.001 -27.202 14.039 1 35.75 ? CHC HEM 601 A 1 HETATM 4 C CHD HEM . . . C 2 18.701 -24.735 16.612 1 34.6 ? CHD HEM 601 A 1 HETATM 5 C C1A HEM . . . C 2 22.106 -20.891 14.775 1 33.96 ? C1A HEM 601 A 1 HETATM 6 C C2A HEM . . . C 2 23.131 -19.962 14.343 1 34.13 ? C2A HEM 601 A 1 HETATM 7 C C3A HEM . . . C 2 24.035 -20.644 13.634 1 34.4 ? C3A HEM 601 A 1 HETATM 8 C C4A HEM . . . C 2 23.623 -22.033 13.592 1 34.42 ? C4A HEM 601 A 1 HETATM 9 C CMA HEM . . . C 2 25.305 -20.067 12.972 1 34.85 ? CMA HEM 601 A 1 HETATM 10 C CAA HEM . . . C 2 23.156 -18.446 14.647 1 34.25 ? CAA HEM 601 A 1 HETATM 11 C CBA HEM . . . C 2 24.202 -18.132 15.71 1 58.35 ? CBA HEM 601 A 1 HETATM 12 C CGA HEM . . . C 2 24.341 -16.641 15.866 1 37.28 ? CGA HEM 601 A 1 HETATM 13 O O1A HEM . . . C 2 25.288 -16.198 16.565 1 39.79 ? O1A HEM 601 A 1 HETATM 14 O O2A HEM . . . C 2 23.508 -15.894 15.289 1 34.93 ? O2A HEM 601 A 1 HETATM 15 C C1B HEM . . . C 2 23.958 -24.399 13.02 1 43.92 ? C1B HEM 601 A 1 HETATM 16 C C2B HEM . . . C 2 24.677 -25.483 12.38 1 35.83 ? C2B HEM 601 A 1 HETATM 17 C C3B HEM . . . C 2 24.043 -26.634 12.678 1 53.48 ? C3B HEM 601 A 1 HETATM 18 C C4B HEM . . . C 2 22.907 -26.303 13.517 1 60.93 ? C4B HEM 601 A 1 HETATM 19 C CMB HEM . . . C 2 25.944 -25.265 11.521 1 36.4 ? CMB HEM 601 A 1 HETATM 20 C CAB HEM . . . C 2 24.373 -28.094 12.265 1 44.56 ? CAB HEM 601 A 1 HETATM 21 C CBB HEM . . . C 2 25.43 -28.466 11.533 1 48.16 ? CBB HEM 601 A 1 HETATM 22 C C1C HEM . . . C 2 20.933 -26.909 14.861 1 35.41 ? C1C HEM 601 A 1 HETATM 23 C C2C HEM . . . C 2 20.065 -27.872 15.504 1 49.87 ? C2C HEM 601 A 1 HETATM 24 C C3C HEM . . . C 2 19.15 -27.212 16.219 1 42.15 ? C3C HEM 601 A 1 HETATM 25 C C4C HEM . . . C 2 19.403 -25.786 16.055 1 34.88 ? C4C HEM 601 A 1 HETATM 26 C CMC HEM . . . C 2 20.176 -29.407 15.384 1 36.73 ? CMC HEM 601 A 1 HETATM 27 C CAC HEM . . . C 2 18.041 -27.909 17.047 1 35.97 ? CAC HEM 601 A 1 HETATM 28 C CBC HEM . . . C 2 17.104 -27.239 17.726 1 45.05 ? CBC HEM 601 A 1 HETATM 29 C C1D HEM . . . C 2 19.02 -23.396 16.525 1 34.22 ? C1D HEM 601 A 1 HETATM 30 C C2D HEM . . . C 2 18.259 -22.297 17.084 1 34.18 ? C2D HEM 601 A 1 HETATM 31 C C3D HEM . . . C 2 18.889 -21.159 16.784 1 33.99 ? C3D HEM 601 A 1 HETATM 32 C C4D HEM . . . C 2 20.078 -21.486 16.025 1 33.89 ? C4D HEM 601 A 1 HETATM 33 C CMD HEM . . . C 2 16.946 -22.42 17.885 1 34.55 ? CMD HEM 601 A 1 HETATM 34 C CAD HEM . . . C 2 18.441 -19.738 17.185 1 34.12 ? CAD HEM 601 A 1 HETATM 35 C CBD HEM . . . C 2 19.047 -19.417 18.547 1 64.38 ? CBD HEM 601 A 1 HETATM 36 C CGD HEM . . . C 2 18.578 -18.069 19.024 1 59.79 ? CGD HEM 601 A 1 HETATM 37 O O1D HEM . . . C 2 18.741 -17.78 20.237 1 48.99 ? O1D HEM 601 A 1 HETATM 38 O O2D HEM . . . C 2 18.036 -17.29 18.198 1 66.51 ? O2D HEM 601 A 1 HETATM 39 N NA HEM . . . C 2 22.441 -22.146 14.3 1 34.15 ? NA HEM 601 A 1 HETATM 40 N NB HEM . . . C 2 22.885 -24.935 13.704 1 34.95 ? NB HEM 601 A 1 HETATM 41 N NC HEM . . . C 2 20.499 -25.647 15.221 1 37.73 ? NC HEM 601 A 1 HETATM 42 N ND HEM . . . C 2 20.123 -22.861 15.885 1 34.04 ? ND HEM 601 A 1 HETATM 43 FE FE HEM . . . C 2 21.482 -23.898 14.771 1 50.27 ? FE HEM 601 A 1 # _model_server_stats.io_time_ms 22 _model_server_stats.parse_time_ms 14 _model_server_stats.create_model_time_ms 24 _model_server_stats.query_time_ms 277 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 43 #