data_3T3S # _model_server_result.job_id RgSQSQ0zRfb115OMQUG42Q _model_server_result.datetime_utc '2024-10-17 12:23:48' _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 3t3s # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"V","auth_seq_id":500}' # _entry.id 3T3S # _exptl.entry_id 3T3S _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 8 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 101.01 _cell.angle_beta 101.72 _cell.angle_gamma 93.59 _cell.entry_id 3T3S _cell.length_a 71.501 _cell.length_b 119.862 _cell.length_c 154.871 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3T3S _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA monomeric 1 author_and_software_defined_assembly 1 PISA monomeric 1 author_and_software_defined_assembly 2 PISA monomeric 1 author_and_software_defined_assembly 3 PISA monomeric 1 author_and_software_defined_assembly 4 PISA monomeric 1 author_and_software_defined_assembly 5 PISA monomeric 1 author_and_software_defined_assembly 6 PISA monomeric 1 author_and_software_defined_assembly 7 PISA monomeric 1 author_and_software_defined_assembly 8 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,I,J,W 1 1 B,K,L,X 2 1 C,M,N,Y 3 1 D,O,P,Z 4 1 E,Q,R,AA 5 1 F,S,T 6 1 G,U,BA 7 1 H,V,CA 8 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 I N N ? 2 K N N ? 2 M N N ? 2 O N N ? 2 Q N N ? 2 S N N ? 2 U N N ? 2 V 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 J N3 9PL . A 9PL 1 1_555 I FE HEM . A HEM 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.546 ? metalc ? metalc2 A SG CYS 417 A CYS 439 1_555 I FE HEM . A HEM 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.289 ? metalc ? metalc3 L N3 9PL . B 9PL 1 1_555 K FE HEM . B HEM 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.055 ? metalc ? metalc4 B SG CYS 417 B CYS 439 1_555 K FE HEM . B HEM 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.353 ? metalc ? metalc5 N N3 9PL . C 9PL 1 1_555 M FE HEM . C HEM 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.608 ? metalc ? metalc6 C SG CYS 417 C CYS 439 1_555 M FE HEM . C HEM 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.424 ? metalc ? metalc7 P N3 9PL . D 9PL 1 1_555 O FE HEM . D HEM 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.077 ? metalc ? metalc8 D SG CYS 417 D CYS 439 1_555 O FE HEM . D HEM 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.305 ? metalc ? metalc9 R N3 9PL . E 9PL 1 1_555 Q FE HEM . E HEM 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.519 ? metalc ? metalc10 E SG CYS 417 E CYS 439 1_555 Q FE HEM . E HEM 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.462 ? metalc ? metalc11 T N3 9PL . F 9PL 1 1_555 S FE HEM . F HEM 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.23 ? metalc ? metalc12 F SG CYS 417 F CYS 439 1_555 S FE HEM . F HEM 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.375 ? metalc ? metalc13 G SG CYS 417 G CYS 439 1_555 U FE HEM . G HEM 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.183 ? metalc ? metalc14 H SG CYS 417 H CYS 439 1_555 V FE HEM . H HEM 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.688 ? # _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 161 n n CHA C4D HEM doub 162 n n CHA HHA HEM sing 163 n n CHB C4A HEM sing 164 n n CHB C1B HEM doub 165 n n CHB HHB HEM sing 166 n n CHC C4B HEM sing 167 n n CHC C1C HEM doub 168 n n CHC HHC HEM sing 169 n n CHD C4C HEM doub 170 n n CHD C1D HEM sing 171 n n CHD HHD HEM sing 172 n n C1A C2A HEM doub 173 n y C1A NA HEM sing 174 n y C2A C3A HEM sing 175 n y C2A CAA HEM sing 176 n n C3A C4A HEM doub 177 n y C3A CMA HEM sing 178 n n C4A NA HEM sing 179 n y CMA HMA HEM sing 180 n n CMA HMAA HEM sing 181 n n CMA HMAB HEM sing 182 n n CAA CBA HEM sing 183 n n CAA HAA HEM sing 184 n n CAA HAAA HEM sing 185 n n CBA CGA HEM sing 186 n n CBA HBA HEM sing 187 n n CBA HBAA HEM sing 188 n n CGA O1A HEM doub 189 n n CGA O2A HEM sing 190 n n C1B C2B HEM sing 191 n n C1B NB HEM sing 192 n n C2B C3B HEM doub 193 n n C2B CMB HEM sing 194 n n C3B C4B HEM sing 195 n n C3B CAB HEM sing 196 n n C4B NB HEM doub 197 n n CMB HMB HEM sing 198 n n CMB HMBA HEM sing 199 n n CMB HMBB HEM sing 200 n n CAB CBB HEM doub 201 n n CAB HAB HEM sing 202 n n CBB HBB HEM sing 203 n n CBB HBBA HEM sing 204 n n C1C C2C HEM sing 205 n y C1C NC HEM sing 206 n y C2C C3C HEM doub 207 n y C2C CMC HEM sing 208 n n C3C C4C HEM sing 209 n y C3C CAC HEM sing 210 n n C4C NC HEM sing 211 n y CMC HMC HEM sing 212 n n CMC HMCA HEM sing 213 n n CMC HMCB HEM sing 214 n n CAC CBC HEM doub 215 n n CAC HAC HEM sing 216 n n CBC HBC HEM sing 217 n n CBC HBCA HEM sing 218 n n C1D C2D HEM sing 219 n n C1D ND HEM doub 220 n n C2D C3D HEM doub 221 n n C2D CMD HEM sing 222 n n C3D C4D HEM sing 223 n n C3D CAD HEM sing 224 n n C4D ND HEM sing 225 n n CMD HMD HEM sing 226 n n CMD HMDA HEM sing 227 n n CMD HMDB HEM sing 228 n n CAD CBD HEM sing 229 n n CAD HAD HEM sing 230 n n CAD HADA HEM sing 231 n n CBD CGD HEM sing 232 n n CBD HBD HEM sing 233 n n CBD HBDA HEM sing 234 n n CGD O1D HEM doub 235 n n CGD O2D HEM sing 236 n n O2A H2A HEM sing 237 n n O2D H2D HEM sing 238 n n FE NA HEM sing 239 n n FE NB HEM sing 240 n n FE NC HEM sing 241 n n FE ND HEM sing 242 n n # _atom_sites.entry_id 3T3S _atom_sites.fract_transf_matrix[1][1] 0.013986 _atom_sites.fract_transf_matrix[1][2] 0.000877 _atom_sites.fract_transf_matrix[1][3] 0.003154 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.008359 _atom_sites.fract_transf_matrix[2][3] 0.001782 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.006743 _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 I 2 HEM A 1 500 500 HEM HEM . J 3 9PL A 1 1 1 9PL 9PL . K 2 HEM B 1 500 500 HEM HEM . L 3 9PL B 1 1 1 9PL 9PL . M 2 HEM C 1 500 500 HEM HEM . N 3 9PL C 1 1 1 9PL 9PL . O 2 HEM D 1 500 500 HEM HEM . P 3 9PL D 1 1 1 9PL 9PL . Q 2 HEM E 1 500 500 HEM HEM . R 3 9PL E 1 1 1 9PL 9PL . S 2 HEM F 1 500 500 HEM HEM . T 3 9PL F 1 1 1 9PL 9PL . U 2 HEM G 1 500 500 HEM HEM . V 2 HEM H 1 500 500 HEM HEM . W 4 HOH A 1 2 2 HOH HOH . W 4 HOH A 2 3 3 HOH HOH . W 4 HOH A 3 7 7 HOH HOH . W 4 HOH A 4 10 10 HOH HOH . W 4 HOH A 5 20 20 HOH HOH . X 4 HOH B 1 4 4 HOH HOH . X 4 HOH B 2 11 11 HOH HOH . X 4 HOH B 3 19 19 HOH HOH . X 4 HOH B 4 499 26 HOH HOH . X 4 HOH B 5 501 29 HOH HOH . Y 4 HOH C 1 12 12 HOH HOH . Y 4 HOH C 2 15 15 HOH HOH . Y 4 HOH C 3 22 22 HOH HOH . Y 4 HOH C 4 499 31 HOH HOH . Z 4 HOH D 1 8 8 HOH HOH . Z 4 HOH D 2 13 13 HOH HOH . Z 4 HOH D 3 499 27 HOH HOH . Z 4 HOH D 4 501 28 HOH HOH . Z 4 HOH D 5 502 33 HOH HOH . AA 4 HOH E 1 5 5 HOH HOH . AA 4 HOH E 2 9 9 HOH HOH . AA 4 HOH E 3 17 17 HOH HOH . AA 4 HOH E 4 18 18 HOH HOH . AA 4 HOH E 5 21 21 HOH HOH . AA 4 HOH E 6 499 23 HOH HOH . AA 4 HOH E 7 501 24 HOH HOH . AA 4 HOH E 8 502 30 HOH HOH . BA 4 HOH G 1 1 1 HOH HOH . CA 4 HOH H 1 14 14 HOH HOH . CA 4 HOH H 2 16 16 HOH HOH . CA 4 HOH H 3 499 25 HOH HOH . CA 4 HOH H 4 501 32 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 . . . V 2 -10.287 21.221 -7.145 1 82.21 ? CHA HEM 500 H 1 HETATM 2 C CHB HEM . . . V 2 -13.735 22.862 -10.092 1 82.14 ? CHB HEM 500 H 1 HETATM 3 C CHC HEM . . . V 2 -10.395 25.777 -12.04 1 84.19 ? CHC HEM 500 H 1 HETATM 4 C CHD HEM . . . V 2 -6.911 24.086 -9.096 1 83.6 ? CHD HEM 500 H 1 HETATM 5 C C1A HEM . . . V 2 -11.48 21.337 -7.833 1 82.08 ? C1A HEM 500 H 1 HETATM 6 C C2A HEM . . . V 2 -12.625 20.399 -7.725 1 81.8 ? C2A HEM 500 H 1 HETATM 7 C C3A HEM . . . V 2 -13.598 20.845 -8.562 1 81.76 ? C3A HEM 500 H 1 HETATM 8 C C4A HEM . . . V 2 -13.083 22.073 -9.189 1 81.87 ? C4A HEM 500 H 1 HETATM 9 C CMA HEM . . . V 2 -15.024 20.197 -8.773 1 81.41 ? CMA HEM 500 H 1 HETATM 10 C CAA HEM . . . V 2 -12.636 19.119 -6.8 1 82.21 ? CAA HEM 500 H 1 HETATM 11 C CBA HEM . . . V 2 -13.368 19.283 -5.461 1 82.31 ? CBA HEM 500 H 1 HETATM 12 C CGA HEM . . . V 2 -14.015 17.999 -4.93 1 82.06 ? CGA HEM 500 H 1 HETATM 13 O O1A HEM . . . V 2 -15.28 17.932 -4.853 1 82.74 ? O1A HEM 500 H 1 HETATM 14 O O2A HEM . . . V 2 -13.301 17.026 -4.524 1 80.92 ? O2A HEM 500 H 1 HETATM 15 C C1B HEM . . . V 2 -13.114 23.742 -10.954 1 83.48 ? C1B HEM 500 H 1 HETATM 16 C C2B HEM . . . V 2 -13.705 24.323 -12.166 1 85.02 ? C2B HEM 500 H 1 HETATM 17 C C3B HEM . . . V 2 -12.775 25.164 -12.702 1 84.9 ? C3B HEM 500 H 1 HETATM 18 C C4B HEM . . . V 2 -11.573 25.092 -11.863 1 84.42 ? C4B HEM 500 H 1 HETATM 19 C CMB HEM . . . V 2 -15.152 24.075 -12.73 1 85.64 ? CMB HEM 500 H 1 HETATM 20 C CAB HEM . . . V 2 -12.965 25.995 -14.048 1 84.09 ? CAB HEM 500 H 1 HETATM 21 C CBB HEM . . . V 2 -14.007 26.884 -14.216 1 81.77 ? CBB HEM 500 H 1 HETATM 22 C C1C HEM . . . V 2 -9.206 25.651 -11.338 1 85.01 ? C1C HEM 500 H 1 HETATM 23 C C2C HEM . . . V 2 -8.08 26.568 -11.368 1 84.83 ? C2C HEM 500 H 1 HETATM 24 C C3C HEM . . . V 2 -7.134 26.091 -10.578 1 84.44 ? C3C HEM 500 H 1 HETATM 25 C C4C HEM . . . V 2 -7.611 24.84 -9.983 1 84.49 ? C4C HEM 500 H 1 HETATM 26 C CMC HEM . . . V 2 -7.961 27.866 -12.211 1 84.76 ? CMC HEM 500 H 1 HETATM 27 C CAC HEM . . . V 2 -5.777 26.734 -10.315 1 84.43 ? CAC HEM 500 H 1 HETATM 28 C CBC HEM . . . V 2 -5.768 27.825 -9.562 1 85.23 ? CBC HEM 500 H 1 HETATM 29 C C1D HEM . . . V 2 -7.459 23.132 -8.306 1 82.75 ? C1D HEM 500 H 1 HETATM 30 C C2D HEM . . . V 2 -6.753 22.303 -7.365 1 81.96 ? C2D HEM 500 H 1 HETATM 31 C C3D HEM . . . V 2 -7.818 21.415 -6.753 1 81.57 ? C3D HEM 500 H 1 HETATM 32 C C4D HEM . . . V 2 -9.052 21.796 -7.402 1 82.31 ? C4D HEM 500 H 1 HETATM 33 C CMD HEM . . . V 2 -5.259 22.355 -6.98 1 81.59 ? CMD HEM 500 H 1 HETATM 34 C CAD HEM . . . V 2 -7.59 20.332 -5.644 1 80.86 ? CAD HEM 500 H 1 HETATM 35 C CBD HEM . . . V 2 -7.888 20.845 -4.229 1 81.47 ? CBD HEM 500 H 1 HETATM 36 C CGD HEM . . . V 2 -7.572 19.714 -3.314 1 82.16 ? CGD HEM 500 H 1 HETATM 37 O O1D HEM . . . V 2 -6.634 19.79 -2.464 1 81.69 ? O1D HEM 500 H 1 HETATM 38 O O2D HEM . . . V 2 -8.307 18.694 -3.401 1 83.41 ? O2D HEM 500 H 1 HETATM 39 N NA HEM . . . V 2 -11.792 22.329 -8.732 1 82.52 ? NA HEM 500 H 1 HETATM 40 N NB HEM . . . V 2 -11.809 24.22 -10.831 1 83.72 ? NB HEM 500 H 1 HETATM 41 N NC HEM . . . V 2 -8.882 24.591 -10.472 1 84.85 ? NC HEM 500 H 1 HETATM 42 N ND HEM . . . V 2 -8.795 22.799 -8.332 1 83.23 ? ND HEM 500 H 1 HETATM 43 FE FE HEM . . . V 2 -10.305 23.336 -9.677 1 84.21 ? FE HEM 500 H 1 # _model_server_stats.io_time_ms 15 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 73 _model_server_stats.query_time_ms 262 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 43 #