data_5M85 # _model_server_result.job_id Vdi5WnrhaEdrxR32V74YfA _model_server_result.datetime_utc '2024-11-07 10:41:17' _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 5m85 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":701}' # _entry.id 5M85 # _exptl.entry_id 5M85 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 588.694 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description PHYCOCYANOBILIN _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 120 _cell.entry_id 5M85 _cell.length_a 75.101 _cell.length_b 75.101 _cell.length_c 71.21 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5M85 _symmetry.cell_setting ? _symmetry.Int_Tables_number 170 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 65' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I _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 # 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 138 A CYS 528 1_555 B CAC CYC . A CYC 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.736 ? metalc ? metalc1 A OD1 ASP 69 A ASP 459 1_555 E NA NA . A NA 704 4_8105 ? ? ? ? ? ? ? ? ? ? ? ? 35.065 ? metalc ? metalc2 A OD2 ASP 69 A ASP 459 1_555 E NA NA . A NA 704 4_8105 ? ? ? ? ? ? ? ? ? ? ? ? 34.516 ? metalc ? metalc3 A OD1 ASP 108 A ASP 498 1_555 G NA NA . A NA 706 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.665 ? metalc ? metalc4 A OH TYR 119 A TYR 509 1_555 D NA NA . A NA 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.594 ? metalc ? metalc5 A OG1 THR 136 A THR 526 1_555 F NA NA . A NA 705 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.971 ? metalc ? metalc6 A O ASN 171 A ASN 561 1_555 E NA NA . A NA 704 4_8105 ? ? ? ? ? ? ? ? ? ? ? ? 37.607 ? metalc ? metalc7 B O2A CYC . A CYC 701 1_555 D NA NA . A NA 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.759 ? metalc ? metalc8 B O2D CYC . A CYC 701 1_555 D NA NA . A NA 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.604 ? metalc ? metalc9 F NA NA . A NA 705 1_555 I O HOH . A HOH 862 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.776 ? metalc ? metalc10 G NA NA . A NA 706 1_555 I O HOH . A HOH 860 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.934 ? metalc ? metalc11 G NA NA . A NA 706 1_555 I O HOH . A HOH 861 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.766 ? # _chem_comp.formula 'C33 H40 N4 O6' _chem_comp.formula_weight 588.694 _chem_comp.id CYC _chem_comp.mon_nstd_flag . _chem_comp.name PHYCOCYANOBILIN _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 CYC doub 104 z n CHA C4D CYC sing 105 n n CHA HHA CYC sing 106 n n NA C1A CYC sing 107 n n NA C4A CYC doub 108 n n C1A C2A CYC sing 109 n n C2A C3A CYC doub 110 n n C2A CAA CYC sing 111 n n C3A C4A CYC sing 112 n n C3A CMA CYC sing 113 n n C4A CHB CYC sing 114 n n CMA HMA1 CYC sing 115 n n CMA HMA2 CYC sing 116 n n CMA HMA3 CYC sing 117 n n CAA CBA CYC sing 118 n n CAA HAA1 CYC sing 119 n n CAA HAA2 CYC sing 120 n n CBA CGA CYC sing 121 n n CBA HBA1 CYC sing 122 n n CBA HBA2 CYC sing 123 n n CGA O1A CYC doub 124 n n CGA O2A CYC sing 125 n n O2A H2A CYC sing 126 n n CHB C1B CYC doub 127 z n CHB HHB CYC sing 128 n n NB C1B CYC sing 129 n n NB C4B CYC sing 130 n n NB HB CYC sing 131 n n C1B C2B CYC sing 132 n n C2B C3B CYC doub 133 n n C2B CMB CYC sing 134 n n C3B C4B CYC sing 135 n n C3B CAB CYC sing 136 n n C4B OB CYC doub 137 n n CMB HMB1 CYC sing 138 n n CMB HMB2 CYC sing 139 n n CMB HMB3 CYC sing 140 n n CAB CBB CYC sing 141 n n CAB HAB1 CYC sing 142 n n CAB HAB2 CYC sing 143 n n CBB HBB1 CYC sing 144 n n CBB HBB2 CYC sing 145 n n CBB HBB3 CYC sing 146 n n NC C1C CYC sing 147 n n NC C4C CYC sing 148 n n NC HC CYC sing 149 n n C1C C2C CYC sing 150 n n C1C OC CYC doub 151 n n C2C C3C CYC sing 152 n n C2C CMC CYC sing 153 n n C2C H2C CYC sing 154 n n C3C C4C CYC sing 155 n n C3C CAC CYC sing 156 n n C3C H3C CYC sing 157 n n C4C CHD CYC doub 158 z n CMC HMC1 CYC sing 159 n n CMC HMC2 CYC sing 160 n n CMC HMC3 CYC sing 161 n n CAC CBC CYC sing 162 n n CAC HAC1 CYC sing 163 n n CAC HAC2 CYC sing 164 n n CBC HBC1 CYC sing 165 n n CBC HBC2 CYC sing 166 n n CBC HBC3 CYC sing 167 n n CHD C1D CYC sing 168 n n CHD HHD CYC sing 169 n n ND C1D CYC sing 170 n y ND C4D CYC sing 171 n y ND HD CYC sing 172 n n C1D C2D CYC doub 173 n y C2D C3D CYC sing 174 n y C2D CMD CYC sing 175 n n C3D C4D CYC doub 176 n y C3D CAD CYC sing 177 n n CMD HMD1 CYC sing 178 n n CMD HMD2 CYC sing 179 n n CMD HMD3 CYC sing 180 n n CAD CBD CYC sing 181 n n CAD HAD1 CYC sing 182 n n CAD HAD2 CYC sing 183 n n CBD CGD CYC sing 184 n n CBD HBD1 CYC sing 185 n n CBD HBD2 CYC sing 186 n n CGD O1D CYC doub 187 n n CGD O2D CYC sing 188 n n O2D H2D CYC sing 189 n n # _atom_sites.entry_id 5M85 _atom_sites.fract_transf_matrix[1][1] 0.013315 _atom_sites.fract_transf_matrix[1][2] 0.007688 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.015375 _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] 0.014043 _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 CYC A 1 701 2 CYC CYC . C 3 3CX A 1 702 1 3CX 3CX . D 4 NA A 1 703 2 NA NA . E 4 NA A 1 704 3 NA NA . F 4 NA A 1 705 4 NA NA . G 4 NA A 1 706 5 NA NA . H 5 TRS A 1 707 1 TRS TRS . I 6 HOH A 1 801 59 HOH HOH . I 6 HOH A 2 802 21 HOH HOH . I 6 HOH A 3 803 64 HOH HOH . I 6 HOH A 4 804 77 HOH HOH . I 6 HOH A 5 805 47 HOH HOH . I 6 HOH A 6 806 50 HOH HOH . I 6 HOH A 7 807 7 HOH HOH . I 6 HOH A 8 808 4 HOH HOH . I 6 HOH A 9 809 9 HOH HOH . I 6 HOH A 10 810 71 HOH HOH . I 6 HOH A 11 811 11 HOH HOH . I 6 HOH A 12 812 34 HOH HOH . I 6 HOH A 13 813 15 HOH HOH . I 6 HOH A 14 814 30 HOH HOH . I 6 HOH A 15 815 61 HOH HOH . I 6 HOH A 16 816 42 HOH HOH . I 6 HOH A 17 817 3 HOH HOH . I 6 HOH A 18 818 63 HOH HOH . I 6 HOH A 19 819 41 HOH HOH . I 6 HOH A 20 820 5 HOH HOH . I 6 HOH A 21 821 58 HOH HOH . I 6 HOH A 22 822 35 HOH HOH . I 6 HOH A 23 823 44 HOH HOH . I 6 HOH A 24 824 12 HOH HOH . I 6 HOH A 25 825 31 HOH HOH . I 6 HOH A 26 826 51 HOH HOH . I 6 HOH A 27 827 55 HOH HOH . I 6 HOH A 28 828 38 HOH HOH . I 6 HOH A 29 829 10 HOH HOH . I 6 HOH A 30 830 60 HOH HOH . I 6 HOH A 31 831 45 HOH HOH . I 6 HOH A 32 832 39 HOH HOH . I 6 HOH A 33 833 49 HOH HOH . I 6 HOH A 34 834 33 HOH HOH . I 6 HOH A 35 835 56 HOH HOH . I 6 HOH A 36 836 8 HOH HOH . I 6 HOH A 37 837 52 HOH HOH . I 6 HOH A 38 838 62 HOH HOH . I 6 HOH A 39 839 14 HOH HOH . I 6 HOH A 40 840 18 HOH HOH . I 6 HOH A 41 841 6 HOH HOH . I 6 HOH A 42 842 40 HOH HOH . I 6 HOH A 43 843 13 HOH HOH . I 6 HOH A 44 844 26 HOH HOH . I 6 HOH A 45 845 36 HOH HOH . I 6 HOH A 46 846 67 HOH HOH . I 6 HOH A 47 847 74 HOH HOH . I 6 HOH A 48 848 46 HOH HOH . I 6 HOH A 49 849 43 HOH HOH . I 6 HOH A 50 850 16 HOH HOH . I 6 HOH A 51 851 29 HOH HOH . I 6 HOH A 52 852 73 HOH HOH . I 6 HOH A 53 853 65 HOH HOH . I 6 HOH A 54 854 25 HOH HOH . I 6 HOH A 55 855 19 HOH HOH . I 6 HOH A 56 856 75 HOH HOH . I 6 HOH A 57 857 48 HOH HOH . I 6 HOH A 58 858 27 HOH HOH . I 6 HOH A 59 859 54 HOH HOH . I 6 HOH A 60 860 20 HOH HOH . I 6 HOH A 61 861 28 HOH HOH . I 6 HOH A 62 862 22 HOH HOH . I 6 HOH A 63 863 24 HOH HOH . I 6 HOH A 64 864 32 HOH HOH . I 6 HOH A 65 865 17 HOH HOH . I 6 HOH A 66 866 57 HOH HOH . I 6 HOH A 67 867 76 HOH HOH . I 6 HOH A 68 868 23 HOH HOH . I 6 HOH A 69 869 72 HOH HOH . I 6 HOH A 70 870 53 HOH HOH . I 6 HOH A 71 871 68 HOH HOH . I 6 HOH A 72 872 37 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 CYC . . . B 2 11.237 146.461 -1.515 1 28.63 ? CHA CYC 701 A 1 HETATM 2 N NA CYC . . . B 2 13.119 146.073 0.07 1 28.16 ? NA CYC 701 A 1 HETATM 3 C C1A CYC . . . B 2 12.483 146.839 -0.868 1 30.95 ? C1A CYC 701 A 1 HETATM 4 C C2A CYC . . . B 2 13.176 148.053 -1.248 1 28.72 ? C2A CYC 701 A 1 HETATM 5 C C3A CYC . . . B 2 14.35 148.062 -0.405 1 26.01 ? C3A CYC 701 A 1 HETATM 6 C C4A CYC . . . B 2 14.253 146.766 0.291 1 31.29 ? C4A CYC 701 A 1 HETATM 7 C CMA CYC . . . B 2 15.396 149.132 -0.499 1 27.67 ? CMA CYC 701 A 1 HETATM 8 C CAA CYC . . . B 2 12.808 149.2 -2.15 1 28.57 ? CAA CYC 701 A 1 HETATM 9 C CBA CYC . . . B 2 12.025 150.134 -1.121 1 27.92 ? CBA CYC 701 A 1 HETATM 10 C CGA CYC . . . B 2 10.968 149.565 -0.147 1 30.17 ? CGA CYC 701 A 1 HETATM 11 O O1A CYC . . . B 2 11.205 149.448 1.059 1 28.73 ? O1A CYC 701 A 1 HETATM 12 O O2A CYC . . . B 2 9.83 149.142 -0.5 1 25.88 ? O2A CYC 701 A 1 HETATM 13 C CHB CYC . . . B 2 15.243 146.358 1.303 1 30.53 ? CHB CYC 701 A 1 HETATM 14 N NB CYC . . . B 2 17.543 146.971 0.449 1 41.18 ? NB CYC 701 A 1 HETATM 15 C C1B CYC . . . B 2 16.703 146.381 1.336 1 38.26 ? C1B CYC 701 A 1 HETATM 16 C C2B CYC . . . B 2 17.398 145.884 2.592 1 39.13 ? C2B CYC 701 A 1 HETATM 17 C C3B CYC . . . B 2 18.833 146.175 2.372 1 42.48 ? C3B CYC 701 A 1 HETATM 18 C C4B CYC . . . B 2 18.797 146.854 1.02 1 42.13 ? C4B CYC 701 A 1 HETATM 19 C CMB CYC . . . B 2 16.769 145.189 3.739 1 39.83 ? CMB CYC 701 A 1 HETATM 20 C CAB CYC . . . B 2 20.038 145.855 3.262 1 40.57 ? CAB CYC 701 A 1 HETATM 21 C CBB CYC . . . B 2 20.064 146.862 4.426 1 39.18 ? CBB CYC 701 A 1 HETATM 22 O OB CYC . . . B 2 19.889 147.232 0.421 1 42.09 ? OB CYC 701 A 1 HETATM 23 N NC CYC . . . B 2 11.383 140.943 -0.061 1 25.84 ? NC CYC 701 A 1 HETATM 24 C C1C CYC . . . B 2 11.684 139.627 -0.01 1 27.82 ? C1C CYC 701 A 1 HETATM 25 C C2C CYC . . . B 2 10.75 138.909 0.893 1 29.21 ? C2C CYC 701 A 1 HETATM 26 C C3C CYC . . . B 2 9.85 140.041 1.401 1 28.89 ? C3C CYC 701 A 1 HETATM 27 C C4C CYC . . . B 2 10.253 141.201 0.544 1 25.61 ? C4C CYC 701 A 1 HETATM 28 C CMC CYC . . . B 2 9.795 137.859 0.222 1 28.97 ? CMC CYC 701 A 1 HETATM 29 C CAC CYC . . . B 2 10.071 140.322 2.913 1 30.37 ? CAC CYC 701 A 1 HETATM 30 C CBC CYC . . . B 2 11.475 140.907 3.147 1 29.25 ? CBC CYC 701 A 1 HETATM 31 O OC CYC . . . B 2 12.594 139.133 -0.628 1 28.76 ? OC CYC 701 A 1 HETATM 32 C CHD CYC . . . B 2 9.427 142.281 0.493 1 26.7 ? CHD CYC 701 A 1 HETATM 33 N ND CYC . . . B 2 10.622 144.327 -0.283 1 31.29 ? ND CYC 701 A 1 HETATM 34 C C1D CYC . . . B 2 9.526 143.51 -0.34 1 31.01 ? C1D CYC 701 A 1 HETATM 35 C C2D CYC . . . B 2 8.569 143.997 -1.36 1 25.59 ? C2D CYC 701 A 1 HETATM 36 C C3D CYC . . . B 2 9.135 145.17 -1.906 1 29.08 ? C3D CYC 701 A 1 HETATM 37 C C4D CYC . . . B 2 10.401 145.302 -1.225 1 31.58 ? C4D CYC 701 A 1 HETATM 38 C CMD CYC . . . B 2 7.337 143.331 -1.746 1 28.14 ? CMD CYC 701 A 1 HETATM 39 C CAD CYC . . . B 2 8.54 146.054 -2.969 1 29.65 ? CAD CYC 701 A 1 HETATM 40 C CBD CYC . . . B 2 7.479 146.877 -2.182 1 29.56 ? CBD CYC 701 A 1 HETATM 41 C CGD CYC . . . B 2 6.683 147.727 -3.211 1 31.45 ? CGD CYC 701 A 1 HETATM 42 O O1D CYC . . . B 2 5.469 147.667 -3.176 1 30.75 ? O1D CYC 701 A 1 HETATM 43 O O2D CYC . . . B 2 7.295 148.417 -4.061 1 31.2 ? O2D CYC 701 A 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 19 _model_server_stats.create_model_time_ms 18 _model_server_stats.query_time_ms 356 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 43 #