data_5COX # _model_server_result.job_id Ti9piq0Dq0qcrOyAyyo4DA _model_server_result.datetime_utc '2024-11-14 08:49:04' _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 5cox # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"L","auth_seq_id":682}' # _entry.id 5COX # _exptl.entry_id 5COX _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 616.487 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'PROTOPORPHYRIN IX CONTAINING FE' _entity.pdbx_number_of_molecules 4 _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 5COX _cell.length_a 180.46 _cell.length_b 134.42 _cell.length_c 119.9 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5COX _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 21 21 2' # 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 dimeric 2 author_and_software_defined_assembly 1 PISA dimeric 2 author_and_software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,E,F,G,H,I,J,K,L 1 1 C,D,M,N,O,P,Q,R,S,T 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 ? 3 H N N ? 3 L N N ? 3 P N N ? 3 T 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 4 A CYS 36 1_555 A SG CYS 15 A CYS 47 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf2 A SG CYS 5 A CYS 37 1_555 A SG CYS 128 A CYS 159 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? disulf ? disulf3 A SG CYS 9 A CYS 41 1_555 A SG CYS 25 A CYS 57 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf4 A SG CYS 27 A CYS 59 1_555 A SG CYS 37 A CYS 69 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf5 A SG CYS 538 A CYS 569 1_555 A SG CYS 544 A CYS 575 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? disulf ? disulf6 B SG CYS 4 B CYS 36 1_555 B SG CYS 15 B CYS 47 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf7 B SG CYS 5 B CYS 37 1_555 B SG CYS 128 B CYS 159 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf8 B SG CYS 9 B CYS 41 1_555 B SG CYS 25 B CYS 57 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.047 ? disulf ? disulf9 B SG CYS 27 B CYS 59 1_555 B SG CYS 37 B CYS 69 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf10 B SG CYS 538 B CYS 569 1_555 B SG CYS 544 B CYS 575 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf11 C SG CYS 4 C CYS 36 1_555 C SG CYS 15 C CYS 47 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.02 ? disulf ? disulf12 C SG CYS 5 C CYS 37 1_555 C SG CYS 128 C CYS 159 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf13 C SG CYS 9 C CYS 41 1_555 C SG CYS 25 C CYS 57 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf14 C SG CYS 27 C CYS 59 1_555 C SG CYS 37 C CYS 69 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf15 C SG CYS 538 C CYS 569 1_555 C SG CYS 544 C CYS 575 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf16 D SG CYS 4 D CYS 36 1_555 D SG CYS 15 D CYS 47 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf17 D SG CYS 5 D CYS 37 1_555 D SG CYS 128 D CYS 159 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.019 ? disulf ? disulf18 D SG CYS 9 D CYS 41 1_555 D SG CYS 25 D CYS 57 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf19 D SG CYS 27 D CYS 59 1_555 D SG CYS 37 D CYS 69 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.046 ? disulf ? disulf20 D SG CYS 538 D CYS 569 1_555 D SG CYS 544 D CYS 575 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.025 ? covale ? covale1 A ND2 ASN 36 A ASN 68 1_555 E C1 NAG . A NAG 661 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.457 ? covale ? covale2 A ND2 ASN 113 A ASN 144 1_555 F C1 NAG . A NAG 671 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale3 A ND2 ASN 379 A ASN 410 1_555 G C1 NAG . A NAG 681 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.471 ? covale ? covale4 B ND2 ASN 36 B ASN 68 1_555 I C1 NAG . B NAG 661 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.452 ? covale ? covale5 B ND2 ASN 113 B ASN 144 1_555 J C1 NAG . B NAG 671 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.472 ? covale ? covale6 B ND2 ASN 379 B ASN 410 1_555 K C1 NAG . B NAG 681 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.429 ? covale ? covale7 C ND2 ASN 36 C ASN 68 1_555 M C1 NAG . C NAG 661 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.453 ? covale ? covale8 C ND2 ASN 113 C ASN 144 1_555 N C1 NAG . C NAG 671 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.448 ? covale ? covale9 C ND2 ASN 379 C ASN 410 1_555 O C1 NAG . C NAG 681 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.467 ? covale ? covale10 D ND2 ASN 36 D ASN 68 1_555 Q C1 NAG . D NAG 661 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.457 ? covale ? covale11 D ND2 ASN 113 D ASN 144 1_555 R C1 NAG . D NAG 671 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.449 ? covale ? covale12 D ND2 ASN 379 D ASN 410 1_555 S C1 NAG . D NAG 681 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.448 ? metalc ? metalc1 A NE2 HIS 357 A HIS 388 1_555 H FE HEM . A HEM 682 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.183 ? metalc ? metalc2 B NE2 HIS 357 B HIS 388 1_555 L FE HEM . B HEM 682 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.249 ? metalc ? metalc3 C NE2 HIS 357 C HIS 388 1_555 P FE HEM . C HEM 682 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.176 ? metalc ? metalc4 D NE2 HIS 357 D HIS 388 1_555 T FE HEM . D HEM 682 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.213 ? # _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 5COX _atom_sites.fract_transf_matrix[1][1] 0.005541 _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] 0.007439 _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] 0.00834 _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 2 NAG A 1 661 661 NAG NAG . F 2 NAG A 1 671 671 NAG NAG . G 2 NAG A 1 681 681 NAG NAG . H 3 HEM A 1 682 601 HEM HEM . I 2 NAG B 1 661 661 NAG NAG . J 2 NAG B 1 671 671 NAG NAG . K 2 NAG B 1 681 681 NAG NAG . L 3 HEM B 1 682 601 HEM HEM . M 2 NAG C 1 661 661 NAG NAG . N 2 NAG C 1 671 671 NAG NAG . O 2 NAG C 1 681 681 NAG NAG . P 3 HEM C 1 682 601 HEM HEM . Q 2 NAG D 1 661 661 NAG NAG . R 2 NAG D 1 671 671 NAG NAG . S 2 NAG D 1 681 681 NAG NAG . T 3 HEM D 1 682 601 HEM HEM . # 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 . . . L 3 71.762 30.967 -2.447 1 5.58 ? CHA HEM 682 B 1 HETATM 2 C CHB HEM . . . L 3 75.094 30.762 -5.881 1 6.31 ? CHB HEM 682 B 1 HETATM 3 C CHC HEM . . . L 3 75.356 25.999 -5.417 1 7.19 ? CHC HEM 682 B 1 HETATM 4 C CHD HEM . . . L 3 72.418 26.276 -1.607 1 8.85 ? CHD HEM 682 B 1 HETATM 5 C C1A HEM . . . L 3 72.678 31.325 -3.396 1 8.9 ? C1A HEM 682 B 1 HETATM 6 C C2A HEM . . . L 3 72.773 32.659 -3.939 1 11.11 ? C2A HEM 682 B 1 HETATM 7 C C3A HEM . . . L 3 73.697 32.592 -4.913 1 10.22 ? C3A HEM 682 B 1 HETATM 8 C C4A HEM . . . L 3 74.207 31.233 -4.936 1 8.74 ? C4A HEM 682 B 1 HETATM 9 C CMA HEM . . . L 3 74.052 33.703 -5.892 1 9.46 ? CMA HEM 682 B 1 HETATM 10 C CAA HEM . . . L 3 72.055 33.924 -3.453 1 17.72 ? CAA HEM 682 B 1 HETATM 11 C CBA HEM . . . L 3 72.545 34.338 -2.039 1 24.65 ? CBA HEM 682 B 1 HETATM 12 C CGA HEM . . . L 3 72.005 35.685 -1.528 1 26.91 ? CGA HEM 682 B 1 HETATM 13 O O1A HEM . . . L 3 71.538 35.699 -0.36 1 28.41 ? O1A HEM 682 B 1 HETATM 14 O O2A HEM . . . L 3 72.078 36.715 -2.264 1 25.7 ? O2A HEM 682 B 1 HETATM 15 C C1B HEM . . . L 3 75.43 29.45 -6.089 1 6.9 ? C1B HEM 682 B 1 HETATM 16 C C2B HEM . . . L 3 76.296 28.976 -7.162 1 8.05 ? C2B HEM 682 B 1 HETATM 17 C C3B HEM . . . L 3 76.325 27.627 -7.088 1 6.53 ? C3B HEM 682 B 1 HETATM 18 C C4B HEM . . . L 3 75.495 27.275 -5.935 1 9.25 ? C4B HEM 682 B 1 HETATM 19 C CMB HEM . . . L 3 77.07 29.806 -8.192 1 6.21 ? CMB HEM 682 B 1 HETATM 20 C CAB HEM . . . L 3 77.025 26.827 -7.987 1 2.45 ? CAB HEM 682 B 1 HETATM 21 C CBB HEM . . . L 3 76.662 25.502 -8.353 1 3.29 ? CBB HEM 682 B 1 HETATM 22 C C1C HEM . . . L 3 74.628 25.682 -4.29 1 7.02 ? C1C HEM 682 B 1 HETATM 23 C C2C HEM . . . L 3 74.532 24.354 -3.76 1 5.61 ? C2C HEM 682 B 1 HETATM 24 C C3C HEM . . . L 3 73.72 24.403 -2.678 1 5.78 ? C3C HEM 682 B 1 HETATM 25 C C4C HEM . . . L 3 73.332 25.803 -2.536 1 7.35 ? C4C HEM 682 B 1 HETATM 26 C CMC HEM . . . L 3 75.226 23.129 -4.322 1 6.69 ? CMC HEM 682 B 1 HETATM 27 C CAC HEM . . . L 3 73.263 23.293 -1.973 1 2.02 ? CAC HEM 682 B 1 HETATM 28 C CBC HEM . . . L 3 72.981 23.288 -0.597 1 2.04 ? CBC HEM 682 B 1 HETATM 29 C C1D HEM . . . L 3 71.946 27.576 -1.541 1 11.76 ? C1D HEM 682 B 1 HETATM 30 C C2D HEM . . . L 3 70.872 28.038 -0.674 1 8.84 ? C2D HEM 682 B 1 HETATM 31 C C3D HEM . . . L 3 70.655 29.333 -0.974 1 8.66 ? C3D HEM 682 B 1 HETATM 32 C C4D HEM . . . L 3 71.611 29.699 -1.979 1 9.85 ? C4D HEM 682 B 1 HETATM 33 C CMD HEM . . . L 3 70.151 27.235 0.375 1 6.58 ? CMD HEM 682 B 1 HETATM 34 C CAD HEM . . . L 3 69.506 30.2 -0.535 1 10.56 ? CAD HEM 682 B 1 HETATM 35 C CBD HEM . . . L 3 68.381 30.184 -1.583 1 11.93 ? CBD HEM 682 B 1 HETATM 36 C CGD HEM . . . L 3 67.426 31.364 -1.475 1 9.31 ? CGD HEM 682 B 1 HETATM 37 O O1D HEM . . . L 3 66.97 31.683 -0.345 1 8.49 ? O1D HEM 682 B 1 HETATM 38 O O2D HEM . . . L 3 67.156 31.971 -2.54 1 6.36 ? O2D HEM 682 B 1 HETATM 39 N NA HEM . . . L 3 73.563 30.453 -4.017 1 9.13 ? NA HEM 682 B 1 HETATM 40 N NB HEM . . . L 3 74.933 28.408 -5.35 1 8.91 ? NB HEM 682 B 1 HETATM 41 N NC HEM . . . L 3 73.903 26.58 -3.53 1 7.77 ? NC HEM 682 B 1 HETATM 42 N ND HEM . . . L 3 72.388 28.607 -2.366 1 12.93 ? ND HEM 682 B 1 HETATM 43 FE FE HEM . . . L 3 73.736 28.51 -3.804 1 2.77 ? FE HEM 682 B 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 22 _model_server_stats.query_time_ms 274 _model_server_stats.encode_time_ms 8 _model_server_stats.element_count 43 #