data_5C5K # _model_server_result.job_id vfOF5QX5UdOP32eLXgGMrw _model_server_result.datetime_utc '2025-04-15 11:05:49' _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 5c5k # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":601}' # _entry.id 5C5K # _exptl.entry_id 5C5K _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 582.646 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'BILIVERDINE IX ALPHA' _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 5C5K _cell.length_a 89.399 _cell.length_b 192.747 _cell.length_c 225.071 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5C5K _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 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,L,M 1 1 C,D,I,J,K,N,O 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 E N N ? 2 H N N ? 2 I N N ? 2 K 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 covale ? covale1 A SG CYS 39 A CYS 24 1_555 E CBC BLA . A BLA 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.801 ? covale ? covale2 B SG CYS 39 B CYS 24 1_555 H CBC BLA . B BLA 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.801 ? covale ? covale3 C SG CYS 39 C CYS 24 1_555 I CBC BLA . C BLA 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.798 ? covale ? covale4 D SG CYS 39 D CYS 24 1_555 K CBC BLA . D BLA 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.802 ? # _chem_comp.formula 'C33 H34 N4 O6' _chem_comp.formula_weight 582.646 _chem_comp.id BLA _chem_comp.mon_nstd_flag . _chem_comp.name 'BILIVERDINE IX ALPHA' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # 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 BLA sing 100 n n CHA C4D BLA doub 101 z n CHA HHA BLA sing 102 n n NA C1A BLA sing 103 n y NA C4A BLA sing 104 n y NA HA BLA sing 105 n n C1A C2A BLA doub 106 n y C2A C3A BLA sing 107 n y C2A CAA BLA sing 108 n n C3A C4A BLA doub 109 n y C3A CMA BLA sing 110 n n C4A CHB BLA sing 111 n n CMA HMA1 BLA sing 112 n n CMA HMA2 BLA sing 113 n n CMA HMA3 BLA sing 114 n n CAA CBA BLA sing 115 n n CAA HAA1 BLA sing 116 n n CAA HAA2 BLA sing 117 n n CBA CGA BLA sing 118 n n CBA HBA1 BLA sing 119 n n CBA HBA2 BLA sing 120 n n CGA O1A BLA doub 121 n n CGA O2A BLA sing 122 n n O2A H2A BLA sing 123 n n CHB C1B BLA doub 124 z n CHB HHB BLA sing 125 n n NB C1B BLA sing 126 n n NB C4B BLA sing 127 n n NB HB BLA sing 128 n n C1B C2B BLA sing 129 n n C2B C3B BLA doub 130 n n C2B CMB BLA sing 131 n n C3B C4B BLA sing 132 n n C3B CAB BLA sing 133 n n C4B OB BLA doub 134 n n CMB HMB1 BLA sing 135 n n CMB HMB2 BLA sing 136 n n CMB HMB3 BLA sing 137 n n CAB CBB BLA doub 138 n n CAB HAB BLA sing 139 n n CBB HBB1 BLA sing 140 n n CBB HBB2 BLA sing 141 n n NC C1C BLA sing 142 n n NC C4C BLA sing 143 n n NC HC BLA sing 144 n n C1C C2C BLA sing 145 n n C1C OC BLA doub 146 n n C2C C3C BLA doub 147 n n C2C CMC BLA sing 148 n n C3C C4C BLA sing 149 n n C3C CAC BLA sing 150 n n C4C CHD BLA doub 151 z n CMC HMC1 BLA sing 152 n n CMC HMC2 BLA sing 153 n n CMC HMC3 BLA sing 154 n n CAC CBC BLA doub 155 n n CAC HAC BLA sing 156 n n CBC HBC1 BLA sing 157 n n CBC HBC2 BLA sing 158 n n CHD C1D BLA sing 159 n n CHD HHD BLA sing 160 n n ND C1D BLA doub 161 n n ND C4D BLA sing 162 n n C1D C2D BLA sing 163 n n C2D C3D BLA doub 164 n n C2D CMD BLA sing 165 n n C3D C4D BLA sing 166 n n C3D CAD BLA sing 167 n n CMD HMD1 BLA sing 168 n n CMD HMD2 BLA sing 169 n n CMD HMD3 BLA sing 170 n n CAD CBD BLA sing 171 n n CAD HAD1 BLA sing 172 n n CAD HAD2 BLA sing 173 n n CBD CGD BLA sing 174 n n CBD HBD1 BLA sing 175 n n CBD HBD2 BLA sing 176 n n CGD O1D BLA doub 177 n n CGD O2D BLA sing 178 n n O2D H2D BLA sing 179 n n # _atom_sites.entry_id 5C5K _atom_sites.fract_transf_matrix[1][1] 0.011186 _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] 0.005188 _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] 0.004443 _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 BLA A 1 601 601 BLA BLA . F 3 EDO A 1 602 602 EDO EDO . G 4 ACT A 1 603 603 ACT ACT . H 2 BLA B 1 601 602 BLA BLA . I 2 BLA C 1 601 601 BLA BLA . J 5 BGC C 1 602 602 BGC GLC . K 2 BLA D 1 601 601 BLA BLA . L 6 HOH A 1 701 701 HOH HOH . L 6 HOH A 2 702 702 HOH HOH . L 6 HOH A 3 703 707 HOH HOH . L 6 HOH A 4 704 705 HOH HOH . L 6 HOH A 5 705 703 HOH HOH . L 6 HOH A 6 706 706 HOH HOH . L 6 HOH A 7 707 704 HOH HOH . L 6 HOH A 8 708 709 HOH HOH . L 6 HOH A 9 709 710 HOH HOH . L 6 HOH A 10 710 708 HOH HOH . M 6 HOH B 1 701 702 HOH HOH . M 6 HOH B 2 702 701 HOH HOH . M 6 HOH B 3 703 704 HOH HOH . M 6 HOH B 4 704 705 HOH HOH . M 6 HOH B 5 705 706 HOH HOH . M 6 HOH B 6 706 707 HOH HOH . N 6 HOH C 1 701 701 HOH HOH . O 6 HOH D 1 701 701 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 BLA . . . E 2 6.871 -32.459 10.527 1 121.9 ? CHA BLA 601 A 1 HETATM 2 N NA BLA . . . E 2 4.933 -31.688 9.263 1 80.55 1 NA BLA 601 A 1 HETATM 3 C C1A BLA . . . E 2 6.171 -32.21 9.355 1 112.9 ? C1A BLA 601 A 1 HETATM 4 C C2A BLA . . . E 2 6.626 -32.465 8.059 1 96.72 ? C2A BLA 601 A 1 HETATM 5 C C3A BLA . . . E 2 5.619 -32.069 7.184 1 67.09 ? C3A BLA 601 A 1 HETATM 6 C C4A BLA . . . E 2 4.561 -31.589 7.969 1 74.16 ? C4A BLA 601 A 1 HETATM 7 C CMA BLA . . . E 2 5.698 -32.161 5.698 1 60.11 ? CMA BLA 601 A 1 HETATM 8 C CAA BLA . . . E 2 7.977 -33.054 7.667 1 77.16 ? CAA BLA 601 A 1 HETATM 9 C CBA BLA . . . E 2 8.105 -34.533 7.517 1 74.22 ? CBA BLA 601 A 1 HETATM 10 C CGA BLA . . . E 2 7.079 -35.269 6.726 1 90.16 ? CGA BLA 601 A 1 HETATM 11 O O1A BLA . . . E 2 6.424 -36.205 7.256 1 98.25 ? O1A BLA 601 A 1 HETATM 12 O O2A BLA . . . E 2 6.871 -34.96 5.523 1 93.7 1 O2A BLA 601 A 1 HETATM 13 C CHB BLA . . . E 2 3.214 -31.029 7.509 1 100.27 ? CHB BLA 601 A 1 HETATM 14 N NB BLA . . . E 2 1.807 -30.632 5.603 1 114.29 ? NB BLA 601 A 1 HETATM 15 C C1B BLA . . . E 2 2.492 -31.467 6.401 1 105.57 ? C1B BLA 601 A 1 HETATM 16 C C2B BLA . . . E 2 2.328 -32.765 5.905 1 104.45 ? C2B BLA 601 A 1 HETATM 17 C C3B BLA . . . E 2 1.519 -32.667 4.776 1 104.85 ? C3B BLA 601 A 1 HETATM 18 C C4B BLA . . . E 2 1.213 -31.325 4.614 1 93.88 ? C4B BLA 601 A 1 HETATM 19 C CMB BLA . . . E 2 2.883 -34.038 6.439 1 122.64 ? CMB BLA 601 A 1 HETATM 20 O OB BLA . . . E 2 0.521 -30.836 3.735 1 75.97 ? OB BLA 601 A 1 HETATM 21 C CAB BLA . . . E 2 1.084 -33.807 3.919 1 136.96 ? CAB BLA 601 A 1 HETATM 22 C CBB BLA . . . E 2 0.287 -33.634 2.831 1 156.86 ? CBB BLA 601 A 1 HETATM 23 N NC BLA . . . E 2 2.045 -31.122 12.423 1 90.4 ? NC BLA 601 A 1 HETATM 24 C C1C BLA . . . E 2 0.763 -30.756 12.225 1 87.9 ? C1C BLA 601 A 1 HETATM 25 C C2C BLA . . . E 2 0.295 -30.109 13.359 1 76.52 ? C2C BLA 601 A 1 HETATM 26 C C3C BLA . . . E 2 1.348 -30.09 14.267 1 73.63 ? C3C BLA 601 A 1 HETATM 27 C C4C BLA . . . E 2 2.427 -30.735 13.652 1 78.71 ? C4C BLA 601 A 1 HETATM 28 C CMC BLA . . . E 2 -1.087 -29.548 13.538 1 111.13 ? CMC BLA 601 A 1 HETATM 29 O OC BLA . . . E 2 0.119 -30.957 11.216 1 112.78 ? OC BLA 601 A 1 HETATM 30 C CAC BLA . . . E 2 1.339 -29.506 15.655 1 103.67 ? CAC BLA 601 A 1 HETATM 31 C CBC BLA . . . E 2 1.144 -28.032 15.847 1 110.31 ? CBC BLA 601 A 1 HETATM 32 C CHD BLA . . . E 2 3.677 -30.93 14.229 1 90.71 ? CHD BLA 601 A 1 HETATM 33 N ND BLA . . . E 2 5.062 -31.614 12.15 1 79.79 ? ND BLA 601 A 1 HETATM 34 C C1D BLA . . . E 2 4.898 -31.49 13.492 1 84.3 ? C1D BLA 601 A 1 HETATM 35 C C2D BLA . . . E 2 6.057 -31.955 14.118 1 77.39 ? C2D BLA 601 A 1 HETATM 36 C C3D BLA . . . E 2 6.931 -32.374 13.109 1 68.25 ? C3D BLA 601 A 1 HETATM 37 C C4D BLA . . . E 2 6.284 -32.148 11.893 1 86.5 ? C4D BLA 601 A 1 HETATM 38 C CMD BLA . . . E 2 6.319 -31.999 15.593 1 86.04 ? CMD BLA 601 A 1 HETATM 39 C CAD BLA . . . E 2 8.316 -32.953 13.303 1 75.7 ? CAD BLA 601 A 1 HETATM 40 C CBD BLA . . . E 2 8.462 -34.425 13.482 1 54.81 ? CBD BLA 601 A 1 HETATM 41 C CGD BLA . . . E 2 9.822 -34.94 13.787 1 83 ? CGD BLA 601 A 1 HETATM 42 O O1D BLA . . . E 2 10.746 -34.14 14.09 1 97.48 ? O1D BLA 601 A 1 HETATM 43 O O2D BLA . . . E 2 10.054 -36.17 13.744 1 71.17 1 O2D BLA 601 A 1 # _model_server_stats.io_time_ms 33 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 26 _model_server_stats.query_time_ms 343 _model_server_stats.encode_time_ms 16 _model_server_stats.element_count 43 #