data_4L54 # _model_server_result.job_id cJN5K8Hjm648qhK5eKNEdA _model_server_result.datetime_utc '2024-11-23 20:51:50' _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 4l54 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":501}' # _entry.id 4L54 # _exptl.entry_id 4L54 _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 1 _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 4L54 _cell.length_a 59.71 _cell.length_b 59.71 _cell.length_c 245.52 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4L54 _symmetry.cell_setting ? _symmetry.Int_Tables_number 96 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 43 21 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C _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 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _struct_conn.conn_type_id metalc _struct_conn.details ? _struct_conn.id metalc1 _struct_conn.ptnr1_label_asym_id A _struct_conn.ptnr1_label_atom_id SG _struct_conn.ptnr1_label_comp_id CYS _struct_conn.ptnr1_label_seq_id 365 _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id CYS _struct_conn.ptnr1_auth_seq_id 365 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id B _struct_conn.ptnr2_label_atom_id FE _struct_conn.ptnr2_label_comp_id HEM _struct_conn.ptnr2_label_seq_id . _struct_conn.ptnr2_auth_asym_id A _struct_conn.ptnr2_auth_comp_id HEM _struct_conn.ptnr2_auth_seq_id 501 _struct_conn.ptnr2_symmetry 1_555 _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 2.206 _struct_conn.pdbx_value_order ? # _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 4L54 _atom_sites.fract_transf_matrix[1][1] 0.016748 _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] 0.016748 _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] 0.004073 _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 B 2 HEM A 1 501 501 HEM HEM . C 3 HOH A 1 601 1 HOH HOH . C 3 HOH A 2 602 2 HOH HOH . C 3 HOH A 3 603 3 HOH HOH . C 3 HOH A 4 604 4 HOH HOH . C 3 HOH A 5 605 5 HOH HOH . C 3 HOH A 6 606 6 HOH HOH . C 3 HOH A 7 607 7 HOH HOH . C 3 HOH A 8 608 8 HOH HOH . C 3 HOH A 9 609 10 HOH HOH . C 3 HOH A 10 610 11 HOH HOH . C 3 HOH A 11 611 12 HOH HOH . C 3 HOH A 12 612 14 HOH HOH . C 3 HOH A 13 613 15 HOH HOH . C 3 HOH A 14 614 16 HOH HOH . C 3 HOH A 15 615 17 HOH HOH . C 3 HOH A 16 616 18 HOH HOH . C 3 HOH A 17 617 19 HOH HOH . C 3 HOH A 18 618 20 HOH HOH . C 3 HOH A 19 619 21 HOH HOH . C 3 HOH A 20 620 22 HOH HOH . C 3 HOH A 21 621 23 HOH HOH . C 3 HOH A 22 622 24 HOH HOH . C 3 HOH A 23 623 25 HOH HOH . C 3 HOH A 24 624 26 HOH HOH . C 3 HOH A 25 625 27 HOH HOH . C 3 HOH A 26 626 28 HOH HOH . C 3 HOH A 27 627 29 HOH HOH . C 3 HOH A 28 628 30 HOH HOH . C 3 HOH A 29 629 31 HOH HOH . C 3 HOH A 30 630 32 HOH HOH . C 3 HOH A 31 631 33 HOH HOH . C 3 HOH A 32 632 34 HOH HOH . C 3 HOH A 33 633 35 HOH HOH . C 3 HOH A 34 634 36 HOH HOH . C 3 HOH A 35 635 37 HOH HOH . C 3 HOH A 36 636 38 HOH HOH . C 3 HOH A 37 637 39 HOH HOH . C 3 HOH A 38 638 40 HOH HOH . C 3 HOH A 39 639 41 HOH HOH . C 3 HOH A 40 640 43 HOH HOH . C 3 HOH A 41 641 44 HOH HOH . C 3 HOH A 42 642 47 HOH HOH . C 3 HOH A 43 643 48 HOH HOH . C 3 HOH A 44 644 49 HOH HOH . C 3 HOH A 45 645 50 HOH HOH . C 3 HOH A 46 646 51 HOH HOH . C 3 HOH A 47 647 52 HOH HOH . C 3 HOH A 48 648 53 HOH HOH . C 3 HOH A 49 649 54 HOH HOH . C 3 HOH A 50 650 55 HOH HOH . C 3 HOH A 51 651 56 HOH HOH . C 3 HOH A 52 652 58 HOH HOH . C 3 HOH A 53 653 59 HOH HOH . C 3 HOH A 54 654 61 HOH HOH . C 3 HOH A 55 655 62 HOH HOH . C 3 HOH A 56 656 64 HOH HOH . C 3 HOH A 57 657 65 HOH HOH . C 3 HOH A 58 658 66 HOH HOH . C 3 HOH A 59 659 68 HOH HOH . C 3 HOH A 60 660 70 HOH HOH . C 3 HOH A 61 661 71 HOH HOH . C 3 HOH A 62 662 72 HOH HOH . C 3 HOH A 63 663 73 HOH HOH . C 3 HOH A 64 664 75 HOH HOH . C 3 HOH A 65 665 76 HOH HOH . C 3 HOH A 66 666 79 HOH HOH . C 3 HOH A 67 667 81 HOH HOH . C 3 HOH A 68 668 82 HOH HOH . C 3 HOH A 69 669 84 HOH HOH . C 3 HOH A 70 670 87 HOH HOH . C 3 HOH A 71 671 89 HOH HOH . C 3 HOH A 72 672 91 HOH HOH . C 3 HOH A 73 673 92 HOH HOH . C 3 HOH A 74 674 93 HOH HOH . C 3 HOH A 75 675 99 HOH HOH . C 3 HOH A 76 676 104 HOH HOH . C 3 HOH A 77 677 106 HOH HOH . C 3 HOH A 78 678 107 HOH HOH . C 3 HOH A 79 679 108 HOH HOH . C 3 HOH A 80 680 110 HOH HOH . C 3 HOH A 81 681 111 HOH HOH . C 3 HOH A 82 682 112 HOH HOH . C 3 HOH A 83 683 114 HOH HOH . C 3 HOH A 84 684 117 HOH HOH . C 3 HOH A 85 685 121 HOH HOH . C 3 HOH A 86 686 122 HOH HOH . C 3 HOH A 87 687 123 HOH HOH . C 3 HOH A 88 688 124 HOH HOH . C 3 HOH A 89 689 126 HOH HOH . C 3 HOH A 90 690 127 HOH HOH . C 3 HOH A 91 691 128 HOH HOH . C 3 HOH A 92 692 129 HOH HOH . C 3 HOH A 93 693 130 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 . . . B 2 4 -27.394 19.685 1 13.02 ? CHA HEM 501 A 1 HETATM 2 C CHB HEM . . . B 2 5.019 -28.428 15.141 1 15.15 ? CHB HEM 501 A 1 HETATM 3 C CHC HEM . . . B 2 2.001 -25.015 13.684 1 13.01 ? CHC HEM 501 A 1 HETATM 4 C CHD HEM . . . B 2 1.039 -23.93 18.239 1 9.6 ? CHD HEM 501 A 1 HETATM 5 C C1A HEM . . . B 2 4.508 -27.967 18.586 1 14.26 ? C1A HEM 501 A 1 HETATM 6 C C2A HEM . . . B 2 5.407 -29.101 18.613 1 16.41 ? C2A HEM 501 A 1 HETATM 7 C C3A HEM . . . B 2 5.689 -29.396 17.357 1 16.23 ? C3A HEM 501 A 1 HETATM 8 C C4A HEM . . . B 2 4.942 -28.48 16.511 1 14.8 ? C4A HEM 501 A 1 HETATM 9 C CMA HEM . . . B 2 6.641 -30.539 16.945 1 13.36 ? CMA HEM 501 A 1 HETATM 10 C CAA HEM . . . B 2 5.995 -29.827 19.872 1 15.65 ? CAA HEM 501 A 1 HETATM 11 C CBA HEM . . . B 2 5.293 -31.149 20.236 1 13.23 ? CBA HEM 501 A 1 HETATM 12 C CGA HEM . . . B 2 5.962 -31.68 21.479 1 11.95 ? CGA HEM 501 A 1 HETATM 13 O O1A HEM . . . B 2 5.71 -32.819 21.911 1 11.77 ? O1A HEM 501 A 1 HETATM 14 O O2A HEM . . . B 2 6.803 -30.994 22.084 1 12.19 ? O2A HEM 501 A 1 HETATM 15 C C1B HEM . . . B 2 4.399 -27.495 14.346 1 16.57 ? C1B HEM 501 A 1 HETATM 16 C C2B HEM . . . B 2 4.582 -27.327 12.91 1 17.16 ? C2B HEM 501 A 1 HETATM 17 C C3B HEM . . . B 2 3.751 -26.369 12.527 1 14.21 ? C3B HEM 501 A 1 HETATM 18 C C4B HEM . . . B 2 3.006 -25.941 13.681 1 13.02 ? C4B HEM 501 A 1 HETATM 19 C CMB HEM . . . B 2 5.565 -28.119 12 1 14.44 ? CMB HEM 501 A 1 HETATM 20 C CAB HEM . . . B 2 3.549 -25.874 11.088 1 14.68 ? CAB HEM 501 A 1 HETATM 21 C CBB HEM . . . B 2 4.409 -25.021 10.567 1 17.64 ? CBB HEM 501 A 1 HETATM 22 C C1C HEM . . . B 2 1.393 -24.479 14.789 1 13.49 ? C1C HEM 501 A 1 HETATM 23 C C2C HEM . . . B 2 0.28 -23.535 14.809 1 15.76 ? C2C HEM 501 A 1 HETATM 24 C C3C HEM . . . B 2 0.046 -23.233 16.067 1 14.75 ? C3C HEM 501 A 1 HETATM 25 C C4C HEM . . . B 2 0.957 -23.988 16.886 1 11.62 ? C4C HEM 501 A 1 HETATM 26 C CMC HEM . . . B 2 -0.454 -22.949 13.605 1 12.89 ? CMC HEM 501 A 1 HETATM 27 C CAC HEM . . . B 2 -0.991 -22.276 16.643 1 17.18 ? CAC HEM 501 A 1 HETATM 28 C CBC HEM . . . B 2 -1.773 -21.546 15.88 1 20.79 ? CBC HEM 501 A 1 HETATM 29 C C1D HEM . . . B 2 1.856 -24.695 19.004 1 10.72 ? C1D HEM 501 A 1 HETATM 30 C C2D HEM . . . B 2 2.002 -24.507 20.421 1 12.87 ? C2D HEM 501 A 1 HETATM 31 C C3D HEM . . . B 2 2.883 -25.598 20.889 1 13.9 ? C3D HEM 501 A 1 HETATM 32 C C4D HEM . . . B 2 3.2 -26.327 19.687 1 13.59 ? C4D HEM 501 A 1 HETATM 33 C CMD HEM . . . B 2 1.36 -23.446 21.309 1 16.17 ? CMD HEM 501 A 1 HETATM 34 C CAD HEM . . . B 2 3.377 -25.838 22.33 1 16.61 ? CAD HEM 501 A 1 HETATM 35 C CBD HEM . . . B 2 2.432 -26.854 22.957 1 17.05 ? CBD HEM 501 A 1 HETATM 36 C CGD HEM . . . B 2 2.809 -27.234 24.358 1 18.12 ? CGD HEM 501 A 1 HETATM 37 O O1D HEM . . . B 2 1.889 -27.805 25.047 1 17.8 ? O1D HEM 501 A 1 HETATM 38 O O2D HEM . . . B 2 4.002 -27.008 24.74 1 13.16 ? O2D HEM 501 A 1 HETATM 39 N NA HEM . . . B 2 4.204 -27.641 17.307 1 12.98 ? NA HEM 501 A 1 HETATM 40 N NB HEM . . . B 2 3.414 -26.646 14.774 1 11.85 ? NB HEM 501 A 1 HETATM 41 N NC HEM . . . B 2 1.748 -24.732 16.087 1 11.71 ? NC HEM 501 A 1 HETATM 42 N ND HEM . . . B 2 2.561 -25.809 18.589 1 13.35 ? ND HEM 501 A 1 HETATM 43 FE FE HEM . . . B 2 2.945 -26.264 16.719 1 12.9 ? FE HEM 501 A 1 # _model_server_stats.io_time_ms 24 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 292 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 43 #