data_1PGE # _model_server_result.job_id ErN3Zvc0v8CyOhL5ESGqDQ _model_server_result.datetime_utc '2024-11-23 23:45:37' _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 1pge # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":601}' # _entry.id 1PGE # _exptl.entry_id 1PGE _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 616.487 _entity.id 5 _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 90 _cell.angle_gamma 90 _cell.entry_id 1PGE _cell.length_a 99.69 _cell.length_b 209.94 _cell.length_c 234.28 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1PGE _symmetry.cell_setting ? _symmetry.Int_Tables_number 23 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'I 2 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,D,E,F,G,H,I,J,K,L,M,N _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 ? 5 H N N ? 5 M N N # _pdbx_entity_branch.entity_id 2 _pdbx_entity_branch.type oligosaccharide # _pdbx_entity_branch_link.link_id 1 _pdbx_entity_branch_link.details ? _pdbx_entity_branch_link.entity_id 2 _pdbx_entity_branch_link.entity_branch_list_num_1 2 _pdbx_entity_branch_link.entity_branch_list_num_2 1 _pdbx_entity_branch_link.comp_id_1 NAG _pdbx_entity_branch_link.comp_id_2 NAG _pdbx_entity_branch_link.atom_id_1 C1 _pdbx_entity_branch_link.leaving_atom_id_1 O1 _pdbx_entity_branch_link.atom_stereo_config_1 . _pdbx_entity_branch_link.atom_id_2 O4 _pdbx_entity_branch_link.leaving_atom_id_2 HO4 _pdbx_entity_branch_link.atom_stereo_config_2 . _pdbx_entity_branch_link.value_order sing # loop_ _pdbx_branch_scheme.entity_id _pdbx_branch_scheme.hetero _pdbx_branch_scheme.asym_id _pdbx_branch_scheme.mon_id _pdbx_branch_scheme.num _pdbx_branch_scheme.pdb_asym_id _pdbx_branch_scheme.pdb_seq_num _pdbx_branch_scheme.pdb_mon_id _pdbx_branch_scheme.auth_asym_id _pdbx_branch_scheme.auth_seq_num _pdbx_branch_scheme.auth_mon_id 2 n C NAG 1 C 1 NAG A 671 NAG 2 n C NAG 2 C 2 NAG A 672 NAG 2 n D NAG 1 D 1 NAG B 671 NAG 2 n D NAG 2 D 2 NAG B 672 NAG # 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 A SG CYS 12 A CYS 36 1_555 A SG CYS 23 A CYS 47 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf2 A SG CYS 13 A CYS 37 1_555 A SG CYS 135 A CYS 159 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf3 A SG CYS 17 A CYS 41 1_555 A SG CYS 33 A CYS 57 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.019 ? disulf ? disulf4 A SG CYS 35 A CYS 59 1_555 A SG CYS 45 A CYS 69 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.016 ? disulf ? disulf5 A SG CYS 545 A CYS 569 1_555 A SG CYS 551 A CYS 575 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.021 ? disulf ? disulf6 B SG CYS 12 B CYS 36 1_555 B SG CYS 23 B CYS 47 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf7 B SG CYS 13 B CYS 37 1_555 B SG CYS 135 B CYS 159 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf8 B SG CYS 17 B CYS 41 1_555 B SG CYS 33 B CYS 57 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.019 ? disulf ? disulf9 B SG CYS 35 B CYS 59 1_555 B SG CYS 45 B CYS 69 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.017 ? disulf ? disulf10 B SG CYS 545 B CYS 569 1_555 B SG CYS 551 B CYS 575 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.021 ? covale ? covale1 A ND2 ASN 44 A ASN 68 1_555 E C1 NAG . A NAG 661 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.451 ? covale ? covale2 A ND2 ASN 120 A ASN 144 1_555 C C1 NAG . C NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale3 A ND2 ASN 386 A ASN 410 1_555 F C1 NAG . A NAG 681 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.448 ? covale ? covale4 B ND2 ASN 44 B ASN 68 1_555 J C1 NAG . B NAG 661 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.451 ? covale ? covale5 B ND2 ASN 120 B ASN 144 1_555 D C1 NAG . D NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale6 B ND2 ASN 386 B ASN 410 1_555 K C1 NAG . B NAG 681 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.448 ? covale ? covale7 C O4 NAG . C NAG 1 1_555 C C1 NAG . C NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.383 ? covale ? covale8 D O4 NAG . D NAG 1 1_555 D C1 NAG . D NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.383 ? metalc ? metalc1 A NE2 HIS 364 A HIS 388 1_555 H FE HEM . A HEM 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.016 ? metalc ? metalc2 B NE2 HIS 364 B HIS 388 1_555 M FE HEM . B HEM 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.016 ? # _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 177 n n CHA C4D HEM doub 178 n n CHA HHA HEM sing 179 n n CHB C4A HEM sing 180 n n CHB C1B HEM doub 181 n n CHB HHB HEM sing 182 n n CHC C4B HEM sing 183 n n CHC C1C HEM doub 184 n n CHC HHC HEM sing 185 n n CHD C4C HEM doub 186 n n CHD C1D HEM sing 187 n n CHD HHD HEM sing 188 n n C1A C2A HEM doub 189 n y C1A NA HEM sing 190 n y C2A C3A HEM sing 191 n y C2A CAA HEM sing 192 n n C3A C4A HEM doub 193 n y C3A CMA HEM sing 194 n n C4A NA HEM sing 195 n y CMA HMA HEM sing 196 n n CMA HMAA HEM sing 197 n n CMA HMAB HEM sing 198 n n CAA CBA HEM sing 199 n n CAA HAA HEM sing 200 n n CAA HAAA HEM sing 201 n n CBA CGA HEM sing 202 n n CBA HBA HEM sing 203 n n CBA HBAA HEM sing 204 n n CGA O1A HEM doub 205 n n CGA O2A HEM sing 206 n n C1B C2B HEM sing 207 n n C1B NB HEM sing 208 n n C2B C3B HEM doub 209 n n C2B CMB HEM sing 210 n n C3B C4B HEM sing 211 n n C3B CAB HEM sing 212 n n C4B NB HEM doub 213 n n CMB HMB HEM sing 214 n n CMB HMBA HEM sing 215 n n CMB HMBB HEM sing 216 n n CAB CBB HEM doub 217 n n CAB HAB HEM sing 218 n n CBB HBB HEM sing 219 n n CBB HBBA HEM sing 220 n n C1C C2C HEM sing 221 n y C1C NC HEM sing 222 n y C2C C3C HEM doub 223 n y C2C CMC HEM sing 224 n n C3C C4C HEM sing 225 n y C3C CAC HEM sing 226 n n C4C NC HEM sing 227 n y CMC HMC HEM sing 228 n n CMC HMCA HEM sing 229 n n CMC HMCB HEM sing 230 n n CAC CBC HEM doub 231 n n CAC HAC HEM sing 232 n n CBC HBC HEM sing 233 n n CBC HBCA HEM sing 234 n n C1D C2D HEM sing 235 n n C1D ND HEM doub 236 n n C2D C3D HEM doub 237 n n C2D CMD HEM sing 238 n n C3D C4D HEM sing 239 n n C3D CAD HEM sing 240 n n C4D ND HEM sing 241 n n CMD HMD HEM sing 242 n n CMD HMDA HEM sing 243 n n CMD HMDB HEM sing 244 n n CAD CBD HEM sing 245 n n CAD HAD HEM sing 246 n n CAD HADA HEM sing 247 n n CBD CGD HEM sing 248 n n CBD HBD HEM sing 249 n n CBD HBDA HEM sing 250 n n CGD O1D HEM doub 251 n n CGD O2D HEM sing 252 n n O2A H2A HEM sing 253 n n O2D H2D HEM sing 254 n n FE NA HEM sing 255 n n FE NB HEM sing 256 n n FE NC HEM sing 257 n n FE ND HEM sing 258 n n # _atom_sites.entry_id 1PGE _atom_sites.fract_transf_matrix[1][1] 0.010031 _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] 0.004763 _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] 0.004268 _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 E 3 NAG A 1 661 661 NAG NAG . F 3 NAG A 1 681 681 NAG NAG . G 4 BOG A 1 702 702 BOG BOG . H 5 HEM A 1 601 601 HEM HEM . I 6 ISF A 1 800 800 ISF ISF . J 3 NAG B 1 661 661 NAG NAG . K 3 NAG B 1 681 681 NAG NAG . L 4 BOG B 1 702 702 BOG BOG . M 5 HEM B 1 601 601 HEM HEM . N 6 ISF B 1 800 800 ISF ISF . # 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 . . . H 5 23.424 44.69 192.838 1 17.1 ? CHA HEM 601 A 1 HETATM 2 C CHB HEM . . . H 5 20.183 48.132 193.488 1 12.18 ? CHB HEM 601 A 1 HETATM 3 C CHC HEM . . . H 5 20.849 47.904 198.18 1 18.35 ? CHC HEM 601 A 1 HETATM 4 C CHD HEM . . . H 5 23.603 44.024 197.495 1 18.9 ? CHD HEM 601 A 1 HETATM 5 C C1A HEM . . . H 5 22.549 45.738 192.613 1 13.01 ? C1A HEM 601 A 1 HETATM 6 C C2A HEM . . . H 5 22.215 46.264 191.281 1 12.48 ? C2A HEM 601 A 1 HETATM 7 C C3A HEM . . . H 5 21.282 47.161 191.502 1 17.44 ? C3A HEM 601 A 1 HETATM 8 C C4A HEM . . . H 5 21.046 47.228 192.912 1 18.33 ? C4A HEM 601 A 1 HETATM 9 C CMA HEM . . . H 5 20.613 47.946 190.417 1 7.45 ? CMA HEM 601 A 1 HETATM 10 C CAA HEM . . . H 5 22.802 45.907 189.901 1 12 ? CAA HEM 601 A 1 HETATM 11 C CBA HEM . . . H 5 22.382 44.567 189.267 1 43.63 ? CBA HEM 601 A 1 HETATM 12 C CGA HEM . . . H 5 21.083 44.648 188.466 1 57.3 ? CGA HEM 601 A 1 HETATM 13 O O1A HEM . . . H 5 21.089 44.211 187.293 1 67.81 ? O1A HEM 601 A 1 HETATM 14 O O2A HEM . . . H 5 20.061 45.138 189.001 1 66.12 ? O2A HEM 601 A 1 HETATM 15 C C1B HEM . . . H 5 20.144 48.473 194.816 1 9.73 ? C1B HEM 601 A 1 HETATM 16 C C2B HEM . . . H 5 19.363 49.598 195.361 1 10.3 ? C2B HEM 601 A 1 HETATM 17 C C3B HEM . . . H 5 19.608 49.608 196.692 1 8.92 ? C3B HEM 601 A 1 HETATM 18 C C4B HEM . . . H 5 20.551 48.45 196.948 1 16.28 ? C4B HEM 601 A 1 HETATM 19 C CMB HEM . . . H 5 18.656 50.694 194.581 1 14.68 ? CMB HEM 601 A 1 HETATM 20 C CAB HEM . . . H 5 19.198 50.604 197.588 1 12.62 ? CAB HEM 601 A 1 HETATM 21 C CBB HEM . . . H 5 17.934 51.317 197.579 1 12.76 ? CBB HEM 601 A 1 HETATM 22 C C1C HEM . . . H 5 21.638 46.811 198.392 1 19.43 ? C1C HEM 601 A 1 HETATM 23 C C2C HEM . . . H 5 21.836 46.165 199.654 1 17.32 ? C2C HEM 601 A 1 HETATM 24 C C3C HEM . . . H 5 22.61 45.098 199.48 1 23.14 ? C3C HEM 601 A 1 HETATM 25 C C4C HEM . . . H 5 22.898 45.07 198.086 1 22.31 ? C4C HEM 601 A 1 HETATM 26 C CMC HEM . . . H 5 21.226 46.532 200.992 1 16.76 ? CMC HEM 601 A 1 HETATM 27 C CAC HEM . . . H 5 22.893 44.113 200.404 1 22.34 ? CAC HEM 601 A 1 HETATM 28 C CBC HEM . . . H 5 24.19 43.967 200.999 1 24.78 ? CBC HEM 601 A 1 HETATM 29 C C1D HEM . . . H 5 23.853 43.93 196.165 1 18.2 ? C1D HEM 601 A 1 HETATM 30 C C2D HEM . . . H 5 24.819 43.054 195.602 1 18.81 ? C2D HEM 601 A 1 HETATM 31 C C3D HEM . . . H 5 24.81 43.199 194.288 1 16.5 ? C3D HEM 601 A 1 HETATM 32 C C4D HEM . . . H 5 23.823 44.241 194.055 1 18.04 ? C4D HEM 601 A 1 HETATM 33 C CMD HEM . . . H 5 25.86 42.297 196.382 1 14.04 ? CMD HEM 601 A 1 HETATM 34 C CAD HEM . . . H 5 25.778 42.528 193.326 1 20.83 ? CAD HEM 601 A 1 HETATM 35 C CBD HEM . . . H 5 26.682 43.56 192.65 1 21.57 ? CBD HEM 601 A 1 HETATM 36 C CGD HEM . . . H 5 27.644 42.972 191.604 1 17.57 ? CGD HEM 601 A 1 HETATM 37 O O1D HEM . . . H 5 27.292 41.976 190.93 1 21.95 ? O1D HEM 601 A 1 HETATM 38 O O2D HEM . . . H 5 28.753 43.528 191.439 1 30.25 ? O2D HEM 601 A 1 HETATM 39 N NA HEM . . . H 5 21.876 46.403 193.596 1 12.42 ? NA HEM 601 A 1 HETATM 40 N NB HEM . . . H 5 20.918 47.831 195.767 1 14.29 ? NB HEM 601 A 1 HETATM 41 N NC HEM . . . H 5 22.275 46.125 197.408 1 17.66 ? NC HEM 601 A 1 HETATM 42 N ND HEM . . . H 5 23.305 44.753 195.213 1 18.56 ? ND HEM 601 A 1 HETATM 43 FE FE HEM . . . H 5 22.168 46.384 195.464 1 16.44 ? FE HEM 601 A 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 25 _model_server_stats.query_time_ms 489 _model_server_stats.encode_time_ms 20 _model_server_stats.element_count 43 #