data_6UBP # _model_server_result.job_id K7ICsrrQxZ7mLuEsxYC_EA _model_server_result.datetime_utc '2024-11-05 13:50:50' _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":"F","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 . . . F 2 105.215 29.435 163.758 1 97.85 ? CHA HEM 501 B 1 HETATM 2 C CHB HEM . . . F 2 103.108 32.004 167.266 1 97.64 ? CHB HEM 501 B 1 HETATM 3 C CHC HEM . . . F 2 102.072 35.538 164.104 1 95.14 ? CHC HEM 501 B 1 HETATM 4 C CHD HEM . . . F 2 104.409 33.08 160.685 1 95.68 ? CHD HEM 501 B 1 HETATM 5 C C1A HEM . . . F 2 104.697 29.824 164.973 1 99.09 ? C1A HEM 501 B 1 HETATM 6 C C2A HEM . . . F 2 104.645 29.012 166.132 1 100.94 ? C2A HEM 501 B 1 HETATM 7 C C3A HEM . . . F 2 104.053 29.76 167.109 1 100.13 ? C3A HEM 501 B 1 HETATM 8 C C4A HEM . . . F 2 103.745 31.01 166.567 1 98.72 ? C4A HEM 501 B 1 HETATM 9 C CMA HEM . . . F 2 103.734 29.406 168.536 1 100.78 ? CMA HEM 501 B 1 HETATM 10 C CAA HEM . . . F 2 105.166 27.595 166.257 1 103.55 ? CAA HEM 501 B 1 HETATM 11 C CBA HEM . . . F 2 104.392 26.604 165.371 1 106.54 ? CBA HEM 501 B 1 HETATM 12 C CGA HEM . . . F 2 103.19 26.036 166.082 1 109.13 ? CGA HEM 501 B 1 HETATM 13 O O1A HEM . . . F 2 103.331 25.369 167.132 1 111.72 ? O1A HEM 501 B 1 HETATM 14 O O2A HEM . . . F 2 102.044 26.219 165.613 1 109.96 ? O2A HEM 501 B 1 HETATM 15 C C1B HEM . . . F 2 102.645 33.174 166.675 1 97.11 ? C1B HEM 501 B 1 HETATM 16 C C2B HEM . . . F 2 101.916 34.138 167.421 1 96.65 ? C2B HEM 501 B 1 HETATM 17 C C3B HEM . . . F 2 101.609 35.143 166.553 1 96.15 ? C3B HEM 501 B 1 HETATM 18 C C4B HEM . . . F 2 102.18 34.743 165.244 1 96.02 ? C4B HEM 501 B 1 HETATM 19 C CMB HEM . . . F 2 101.574 34.058 168.889 1 96.54 ? CMB HEM 501 B 1 HETATM 20 C CAB HEM . . . F 2 100.869 36.401 166.776 1 96.42 ? CAB HEM 501 B 1 HETATM 21 C CBB HEM . . . F 2 100.34 36.803 167.929 1 96.92 ? CBB HEM 501 B 1 HETATM 22 C C1C HEM . . . F 2 102.606 35.175 162.88 1 94.9 ? C1C HEM 501 B 1 HETATM 23 C C2C HEM . . . F 2 102.406 35.849 161.663 1 94.77 ? C2C HEM 501 B 1 HETATM 24 C C3C HEM . . . F 2 103.112 35.146 160.69 1 95.33 ? C3C HEM 501 B 1 HETATM 25 C C4C HEM . . . F 2 103.69 34.032 161.339 1 95.21 ? C4C HEM 501 B 1 HETATM 26 C CMC HEM . . . F 2 101.617 37.123 161.48 1 95.05 ? CMC HEM 501 B 1 HETATM 27 C CAC HEM . . . F 2 103.148 35.315 159.225 1 96.94 ? CAC HEM 501 B 1 HETATM 28 C CBC HEM . . . F 2 102.072 35.838 158.599 1 97.9 ? CBC HEM 501 B 1 HETATM 29 C C1D HEM . . . F 2 104.793 31.889 161.275 1 96.2 ? C1D HEM 501 B 1 HETATM 30 C C2D HEM . . . F 2 105.483 30.863 160.493 1 96.31 ? C2D HEM 501 B 1 HETATM 31 C C3D HEM . . . F 2 105.713 29.849 161.344 1 97.1 ? C3D HEM 501 B 1 HETATM 32 C C4D HEM . . . F 2 105.15 30.256 162.639 1 97.14 ? C4D HEM 501 B 1 HETATM 33 C CMD HEM . . . F 2 105.865 30.932 159.031 1 96.42 ? CMD HEM 501 B 1 HETATM 34 C CAD HEM . . . F 2 106.4 28.548 161.017 1 98.55 ? CAD HEM 501 B 1 HETATM 35 C CBD HEM . . . F 2 107.864 28.596 161.467 1 99.68 ? CBD HEM 501 B 1 HETATM 36 C CGD HEM . . . F 2 108.707 29.384 160.495 1 100.75 ? CGD HEM 501 B 1 HETATM 37 O O1D HEM . . . F 2 108.787 29.029 159.296 1 101.66 ? O1D HEM 501 B 1 HETATM 38 O O2D HEM . . . F 2 109.336 30.393 160.889 1 100.5 ? O2D HEM 501 B 1 HETATM 39 N NA HEM . . . F 2 104.126 31.041 165.263 1 98.07 ? NA HEM 501 B 1 HETATM 40 N NB HEM . . . F 2 102.777 33.552 165.399 1 96.51 ? NB HEM 501 B 1 HETATM 41 N NC HEM . . . F 2 103.374 34.069 162.663 1 95.49 ? NC HEM 501 B 1 HETATM 42 N ND HEM . . . F 2 104.61 31.483 162.536 1 97.07 ? ND HEM 501 B 1 HETATM 43 FE FE HEM . . . F 2 103.777 32.445 163.911 1 96.34 ? FE HEM 501 B 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 32 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 286 _model_server_stats.encode_time_ms 9 _model_server_stats.element_count 43 #