data_6UBP # _model_server_result.job_id 1K7VbKDWnWTwEXQ1dQI9dw _model_server_result.datetime_utc '2024-11-05 13:54:56' _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 6ubp # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":501}' # _entry.id 6UBP # _exptl.entry_id 6UBP _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 90 _cell.angle_gamma 90 _cell.entry_id 6UBP _cell.length_a 86.944 _cell.length_b 97.727 _cell.length_c 130.628 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6UBP _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? monomeric 1 author_defined_assembly 1 ? monomeric 1 author_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,D,E,I 1 1 B,F,G,H,J 2 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 F 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 disulf ? disulf1 A SG CYS 298 A CYS 308 1_555 B SG CYS 298 B CYS 308 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.022 ? metalc ? metalc1 A NE2 HIS 336 A HIS 346 1_555 C FE HEM . A HEM 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.217 ? metalc ? metalc2 B NE2 HIS 336 B HIS 346 1_555 F FE HEM . B HEM 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.254 ? # _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 130 n n CHA C4D HEM doub 131 n n CHA HHA HEM sing 132 n n CHB C4A HEM sing 133 n n CHB C1B HEM doub 134 n n CHB HHB HEM sing 135 n n CHC C4B HEM sing 136 n n CHC C1C HEM doub 137 n n CHC HHC HEM sing 138 n n CHD C4C HEM doub 139 n n CHD C1D HEM sing 140 n n CHD HHD HEM sing 141 n n C1A C2A HEM doub 142 n y C1A NA HEM sing 143 n y C2A C3A HEM sing 144 n y C2A CAA HEM sing 145 n n C3A C4A HEM doub 146 n y C3A CMA HEM sing 147 n n C4A NA HEM sing 148 n y CMA HMA HEM sing 149 n n CMA HMAA HEM sing 150 n n CMA HMAB HEM sing 151 n n CAA CBA HEM sing 152 n n CAA HAA HEM sing 153 n n CAA HAAA HEM sing 154 n n CBA CGA HEM sing 155 n n CBA HBA HEM sing 156 n n CBA HBAA HEM sing 157 n n CGA O1A HEM doub 158 n n CGA O2A HEM sing 159 n n C1B C2B HEM sing 160 n n C1B NB HEM sing 161 n n C2B C3B HEM doub 162 n n C2B CMB HEM sing 163 n n C3B C4B HEM sing 164 n n C3B CAB HEM sing 165 n n C4B NB HEM doub 166 n n CMB HMB HEM sing 167 n n CMB HMBA HEM sing 168 n n CMB HMBB HEM sing 169 n n CAB CBB HEM doub 170 n n CAB HAB HEM sing 171 n n CBB HBB HEM sing 172 n n CBB HBBA HEM sing 173 n n C1C C2C HEM sing 174 n y C1C NC HEM sing 175 n y C2C C3C HEM doub 176 n y C2C CMC HEM sing 177 n n C3C C4C HEM sing 178 n y C3C CAC HEM sing 179 n n C4C NC HEM sing 180 n y CMC HMC HEM sing 181 n n CMC HMCA HEM sing 182 n n CMC HMCB HEM sing 183 n n CAC CBC HEM doub 184 n n CAC HAC HEM sing 185 n n CBC HBC HEM sing 186 n n CBC HBCA HEM sing 187 n n C1D C2D HEM sing 188 n n C1D ND HEM doub 189 n n C2D C3D HEM doub 190 n n C2D CMD HEM sing 191 n n C3D C4D HEM sing 192 n n C3D CAD HEM sing 193 n n C4D ND HEM sing 194 n n CMD HMD HEM sing 195 n n CMD HMDA HEM sing 196 n n CMD HMDB HEM sing 197 n n CAD CBD HEM sing 198 n n CAD HAD HEM sing 199 n n CAD HADA HEM sing 200 n n CBD CGD HEM sing 201 n n CBD HBD HEM sing 202 n n CBD HBDA HEM sing 203 n n CGD O1D HEM doub 204 n n CGD O2D HEM sing 205 n n O2A H2A HEM sing 206 n n O2D H2D HEM sing 207 n n FE NA HEM sing 208 n n FE NB HEM sing 209 n n FE NC HEM sing 210 n n FE ND HEM sing 211 n n # _atom_sites.entry_id 6UBP _atom_sites.fract_transf_matrix[1][1] 0.011502 _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] 0.010233 _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] 0.007655 _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 1 501 1 HEM HEM . D 3 TRP A 1 502 2 TRP TRP . E 4 CMO A 1 503 1 CMO CMO . F 2 HEM B 1 501 2 HEM HEM . G 3 TRP B 1 502 3 TRP TRP . H 4 CMO B 1 503 2 CMO CMO . I 5 HOH A 1 601 58 HOH HOH . I 5 HOH A 2 602 48 HOH HOH . I 5 HOH A 3 603 59 HOH HOH . I 5 HOH A 4 604 57 HOH HOH . I 5 HOH A 5 605 10 HOH HOH . I 5 HOH A 6 606 66 HOH HOH . I 5 HOH A 7 607 3 HOH HOH . I 5 HOH A 8 608 80 HOH HOH . I 5 HOH A 9 609 53 HOH HOH . I 5 HOH A 10 610 8 HOH HOH . I 5 HOH A 11 611 34 HOH HOH . I 5 HOH A 12 612 60 HOH HOH . I 5 HOH A 13 613 12 HOH HOH . I 5 HOH A 14 614 67 HOH HOH . I 5 HOH A 15 615 52 HOH HOH . I 5 HOH A 16 616 76 HOH HOH . I 5 HOH A 17 617 13 HOH HOH . I 5 HOH A 18 618 2 HOH HOH . I 5 HOH A 19 619 45 HOH HOH . I 5 HOH A 20 620 46 HOH HOH . I 5 HOH A 21 621 64 HOH HOH . I 5 HOH A 22 622 6 HOH HOH . I 5 HOH A 23 623 1 HOH HOH . I 5 HOH A 24 624 47 HOH HOH . I 5 HOH A 25 625 63 HOH HOH . I 5 HOH A 26 626 28 HOH HOH . I 5 HOH A 27 627 24 HOH HOH . I 5 HOH A 28 628 56 HOH HOH . I 5 HOH A 29 629 44 HOH HOH . I 5 HOH A 30 630 79 HOH HOH . I 5 HOH A 31 631 11 HOH HOH . I 5 HOH A 32 632 7 HOH HOH . I 5 HOH A 33 633 5 HOH HOH . I 5 HOH A 34 634 33 HOH HOH . I 5 HOH A 35 635 50 HOH HOH . I 5 HOH A 36 636 49 HOH HOH . J 5 HOH B 1 601 20 HOH HOH . J 5 HOH B 2 602 38 HOH HOH . J 5 HOH B 3 603 39 HOH HOH . J 5 HOH B 4 604 82 HOH HOH . J 5 HOH B 5 605 40 HOH HOH . J 5 HOH B 6 606 17 HOH HOH . J 5 HOH B 7 607 86 HOH HOH . J 5 HOH B 8 608 75 HOH HOH . J 5 HOH B 9 609 83 HOH HOH . J 5 HOH B 10 610 61 HOH HOH . J 5 HOH B 11 611 19 HOH HOH . J 5 HOH B 12 612 41 HOH HOH . J 5 HOH B 13 613 25 HOH HOH . J 5 HOH B 14 614 18 HOH HOH . J 5 HOH B 15 615 30 HOH HOH . J 5 HOH B 16 616 15 HOH HOH . J 5 HOH B 17 617 31 HOH HOH . J 5 HOH B 18 618 35 HOH HOH . J 5 HOH B 19 619 62 HOH HOH . J 5 HOH B 20 620 71 HOH HOH . J 5 HOH B 21 621 84 HOH HOH . J 5 HOH B 22 622 21 HOH HOH . J 5 HOH B 23 623 37 HOH HOH . J 5 HOH B 24 624 65 HOH HOH . J 5 HOH B 25 625 70 HOH HOH . J 5 HOH B 26 626 32 HOH HOH . J 5 HOH B 27 627 23 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 2 106.94 -2.614 151.54 1 99.14 ? CHA HEM 501 A 1 HETATM 2 C CHB HEM . . . C 2 108.846 -6.92 152.563 1 99.17 ? CHB HEM 501 A 1 HETATM 3 C CHC HEM . . . C 2 109.712 -7.68 147.849 1 98.96 ? CHC HEM 501 A 1 HETATM 4 C CHD HEM . . . C 2 107.895 -3.299 146.855 1 98.86 ? CHD HEM 501 A 1 HETATM 5 C C1A HEM . . . C 2 107.391 -3.729 152.204 1 99.09 ? C1A HEM 501 A 1 HETATM 6 C C2A HEM . . . C 2 107.297 -3.919 153.597 1 99.21 ? C2A HEM 501 A 1 HETATM 7 C C3A HEM . . . C 2 107.832 -5.135 153.887 1 98.48 ? C3A HEM 501 A 1 HETATM 8 C C4A HEM . . . C 2 108.258 -5.691 152.673 1 98.81 ? C4A HEM 501 A 1 HETATM 9 C CMA HEM . . . C 2 107.965 -5.8 155.236 1 98.45 ? CMA HEM 501 A 1 HETATM 10 C CAA HEM . . . C 2 106.697 -2.938 154.57 1 99.97 ? CAA HEM 501 A 1 HETATM 11 C CBA HEM . . . C 2 107.477 -1.613 154.579 1 100.95 ? CBA HEM 501 A 1 HETATM 12 C CGA HEM . . . C 2 108.745 -1.702 155.391 1 102.13 ? CGA HEM 501 A 1 HETATM 13 O O1A HEM . . . C 2 108.892 -2.566 156.282 1 103.82 ? O1A HEM 501 A 1 HETATM 14 O O2A HEM . . . C 2 109.672 -0.891 155.167 1 103 ? O2A HEM 501 A 1 HETATM 15 C C1B HEM . . . C 2 109.229 -7.47 151.345 1 99.03 ? C1B HEM 501 A 1 HETATM 16 C C2B HEM . . . C 2 109.803 -8.765 151.29 1 98.66 ? C2B HEM 501 A 1 HETATM 17 C C3B HEM . . . C 2 110.062 -9.017 149.974 1 98.22 ? C3B HEM 501 A 1 HETATM 18 C C4B HEM . . . C 2 109.614 -7.805 149.234 1 98.59 ? C4B HEM 501 A 1 HETATM 19 C CMB HEM . . . C 2 110.052 -9.67 152.475 1 99.09 ? CMB HEM 501 A 1 HETATM 20 C CAB HEM . . . C 2 110.672 -10.209 149.348 1 97.78 ? CAB HEM 501 A 1 HETATM 21 C CBB HEM . . . C 2 111.144 -11.273 149.999 1 97.57 ? CBB HEM 501 A 1 HETATM 22 C C1C HEM . . . C 2 109.312 -6.548 147.153 1 99.17 ? C1C HEM 501 A 1 HETATM 23 C C2C HEM . . . C 2 109.518 -6.321 145.785 1 98.9 ? C2C HEM 501 A 1 HETATM 24 C C3C HEM . . . C 2 108.993 -5.079 145.477 1 98.76 ? C3C HEM 501 A 1 HETATM 25 C C4C HEM . . . C 2 108.485 -4.53 146.699 1 98.56 ? C4C HEM 501 A 1 HETATM 26 C CMC HEM . . . C 2 110.167 -7.256 144.794 1 98.75 ? CMC HEM 501 A 1 HETATM 27 C CAC HEM . . . C 2 109.114 -4.484 144.127 1 98.7 ? CAC HEM 501 A 1 HETATM 28 C CBC HEM . . . C 2 109.086 -3.16 143.92 1 98.52 ? CBC HEM 501 A 1 HETATM 29 C C1D HEM . . . C 2 107.485 -2.78 148.08 1 99.16 ? C1D HEM 501 A 1 HETATM 30 C C2D HEM . . . C 2 106.838 -1.459 148.185 1 98.97 ? C2D HEM 501 A 1 HETATM 31 C C3D HEM . . . C 2 106.552 -1.275 149.487 1 98.5 ? C3D HEM 501 A 1 HETATM 32 C C4D HEM . . . C 2 107.055 -2.475 150.171 1 99.1 ? C4D HEM 501 A 1 HETATM 33 C CMD HEM . . . C 2 106.518 -0.486 147.073 1 98.62 ? CMD HEM 501 A 1 HETATM 34 C CAD HEM . . . C 2 105.907 -0.048 150.109 1 97.88 ? CAD HEM 501 A 1 HETATM 35 C CBD HEM . . . C 2 104.456 -0.233 150.572 1 97.37 ? CBD HEM 501 A 1 HETATM 36 C CGD HEM . . . C 2 103.483 -0.162 149.421 1 97.23 ? CGD HEM 501 A 1 HETATM 37 O O1D HEM . . . C 2 102.656 -1.084 149.247 1 96.19 ? O1D HEM 501 A 1 HETATM 38 O O2D HEM . . . C 2 103.486 0.82 148.644 1 97.95 ? O2D HEM 501 A 1 HETATM 39 N NA HEM . . . C 2 107.993 -4.827 151.651 1 98.61 ? NA HEM 501 A 1 HETATM 40 N NB HEM . . . C 2 109.131 -6.925 150.125 1 98.88 ? NB HEM 501 A 1 HETATM 41 N NC HEM . . . C 2 108.696 -5.452 147.694 1 98.94 ? NC HEM 501 A 1 HETATM 42 N ND HEM . . . C 2 107.593 -3.34 149.292 1 99.31 ? ND HEM 501 A 1 HETATM 43 FE FE HEM . . . C 2 108.33 -5.015 149.707 1 98.17 ? FE HEM 501 A 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 18 _model_server_stats.create_model_time_ms 9 _model_server_stats.query_time_ms 343 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 43 #