data_9F4I # _model_server_result.job_id bfKJAH6nYrdpCWKOi1kt7Q _model_server_result.datetime_utc '2025-02-05 07:47:15' _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 9f4i # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":500}' # _entry.id 9F4I # _exptl.entry_id 9F4I _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 2 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 92.68 _cell.angle_gamma 90 _cell.entry_id 9F4I _cell.length_a 56.45 _cell.length_b 115.05 _cell.length_c 69.8 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 9F4I _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall 'P 2yb' _symmetry.space_group_name_H-M 'P 1 21 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F _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 # 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 D 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 274 A CYS 323 1_555 C CAC CYC . A CYC 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.766 ? covale ? covale2 B SG CYS 274 B CYS 323 1_555 D CAC CYC . B CYC 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.767 ? # _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 70 z n CHA C4D CYC sing 71 n n CHA HHA CYC sing 72 n n NA C1A CYC sing 73 n n NA C4A CYC doub 74 n n C1A C2A CYC sing 75 n n C2A C3A CYC doub 76 n n C2A CAA CYC sing 77 n n C3A C4A CYC sing 78 n n C3A CMA CYC sing 79 n n C4A CHB CYC sing 80 n n CMA HMA1 CYC sing 81 n n CMA HMA2 CYC sing 82 n n CMA HMA3 CYC sing 83 n n CAA CBA CYC sing 84 n n CAA HAA1 CYC sing 85 n n CAA HAA2 CYC sing 86 n n CBA CGA CYC sing 87 n n CBA HBA1 CYC sing 88 n n CBA HBA2 CYC sing 89 n n CGA O1A CYC doub 90 n n CGA O2A CYC sing 91 n n O2A H2A CYC sing 92 n n CHB C1B CYC doub 93 z n CHB HHB CYC sing 94 n n NB C1B CYC sing 95 n n NB C4B CYC sing 96 n n NB HB CYC sing 97 n n C1B C2B CYC sing 98 n n C2B C3B CYC doub 99 n n C2B CMB CYC sing 100 n n C3B C4B CYC sing 101 n n C3B CAB CYC sing 102 n n C4B OB CYC doub 103 n n CMB HMB1 CYC sing 104 n n CMB HMB2 CYC sing 105 n n CMB HMB3 CYC sing 106 n n CAB CBB CYC sing 107 n n CAB HAB1 CYC sing 108 n n CAB HAB2 CYC sing 109 n n CBB HBB1 CYC sing 110 n n CBB HBB2 CYC sing 111 n n CBB HBB3 CYC sing 112 n n NC C1C CYC sing 113 n n NC C4C CYC sing 114 n n NC HC CYC sing 115 n n C1C C2C CYC sing 116 n n C1C OC CYC doub 117 n n C2C C3C CYC sing 118 n n C2C CMC CYC sing 119 n n C2C H2C CYC sing 120 n n C3C C4C CYC sing 121 n n C3C CAC CYC sing 122 n n C3C H3C CYC sing 123 n n C4C CHD CYC doub 124 z n CMC HMC1 CYC sing 125 n n CMC HMC2 CYC sing 126 n n CMC HMC3 CYC sing 127 n n CAC CBC CYC sing 128 n n CAC HAC1 CYC sing 129 n n CAC HAC2 CYC sing 130 n n CBC HBC1 CYC sing 131 n n CBC HBC2 CYC sing 132 n n CBC HBC3 CYC sing 133 n n CHD C1D CYC sing 134 n n CHD HHD CYC sing 135 n n ND C1D CYC sing 136 n y ND C4D CYC sing 137 n y ND HD CYC sing 138 n n C1D C2D CYC doub 139 n y C2D C3D CYC sing 140 n y C2D CMD CYC sing 141 n n C3D C4D CYC doub 142 n y C3D CAD CYC sing 143 n n CMD HMD1 CYC sing 144 n n CMD HMD2 CYC sing 145 n n CMD HMD3 CYC sing 146 n n CAD CBD CYC sing 147 n n CAD HAD1 CYC sing 148 n n CAD HAD2 CYC sing 149 n n CBD CGD CYC sing 150 n n CBD HBD1 CYC sing 151 n n CBD HBD2 CYC sing 152 n n CGD O1D CYC doub 153 n n CGD O2D CYC sing 154 n n O2D H2D CYC sing 155 n n # _atom_sites.entry_id 9F4I _atom_sites.fract_transf_matrix[1][1] 0.017715 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.000829 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.008692 _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] 0.014342 _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 CYC A 1 500 500 CYC CYC . D 2 CYC B 1 500 500 CYC CYC . E 3 HOH A 1 601 112 HOH HOH . E 3 HOH A 2 602 32 HOH HOH . E 3 HOH A 3 603 100 HOH HOH . E 3 HOH A 4 604 75 HOH HOH . E 3 HOH A 5 605 125 HOH HOH . E 3 HOH A 6 606 14 HOH HOH . E 3 HOH A 7 607 61 HOH HOH . E 3 HOH A 8 608 6 HOH HOH . E 3 HOH A 9 609 69 HOH HOH . E 3 HOH A 10 610 59 HOH HOH . E 3 HOH A 11 611 71 HOH HOH . E 3 HOH A 12 612 51 HOH HOH . E 3 HOH A 13 613 1 HOH HOH . E 3 HOH A 14 614 68 HOH HOH . E 3 HOH A 15 615 52 HOH HOH . E 3 HOH A 16 616 40 HOH HOH . E 3 HOH A 17 617 122 HOH HOH . E 3 HOH A 18 618 115 HOH HOH . E 3 HOH A 19 619 130 HOH HOH . E 3 HOH A 20 620 72 HOH HOH . E 3 HOH A 21 621 26 HOH HOH . E 3 HOH A 22 622 38 HOH HOH . E 3 HOH A 23 623 36 HOH HOH . E 3 HOH A 24 624 123 HOH HOH . E 3 HOH A 25 625 128 HOH HOH . E 3 HOH A 26 626 4 HOH HOH . E 3 HOH A 27 627 124 HOH HOH . E 3 HOH A 28 628 33 HOH HOH . E 3 HOH A 29 629 70 HOH HOH . E 3 HOH A 30 630 55 HOH HOH . E 3 HOH A 31 631 78 HOH HOH . E 3 HOH A 32 632 19 HOH HOH . E 3 HOH A 33 633 97 HOH HOH . E 3 HOH A 34 634 35 HOH HOH . E 3 HOH A 35 635 83 HOH HOH . E 3 HOH A 36 636 127 HOH HOH . E 3 HOH A 37 637 73 HOH HOH . E 3 HOH A 38 638 58 HOH HOH . E 3 HOH A 39 639 27 HOH HOH . E 3 HOH A 40 640 2 HOH HOH . E 3 HOH A 41 641 76 HOH HOH . E 3 HOH A 42 642 103 HOH HOH . E 3 HOH A 43 643 119 HOH HOH . E 3 HOH A 44 644 110 HOH HOH . E 3 HOH A 45 645 129 HOH HOH . E 3 HOH A 46 646 101 HOH HOH . E 3 HOH A 47 647 90 HOH HOH . E 3 HOH A 48 648 41 HOH HOH . E 3 HOH A 49 649 17 HOH HOH . E 3 HOH A 50 650 57 HOH HOH . E 3 HOH A 51 651 107 HOH HOH . E 3 HOH A 52 652 29 HOH HOH . E 3 HOH A 53 653 8 HOH HOH . E 3 HOH A 54 654 67 HOH HOH . E 3 HOH A 55 655 15 HOH HOH . E 3 HOH A 56 656 117 HOH HOH . E 3 HOH A 57 657 116 HOH HOH . E 3 HOH A 58 658 46 HOH HOH . E 3 HOH A 59 659 109 HOH HOH . E 3 HOH A 60 660 86 HOH HOH . F 3 HOH B 1 601 48 HOH HOH . F 3 HOH B 2 602 121 HOH HOH . F 3 HOH B 3 603 16 HOH HOH . F 3 HOH B 4 604 56 HOH HOH . F 3 HOH B 5 605 24 HOH HOH . F 3 HOH B 6 606 6 HOH HOH . F 3 HOH B 7 607 65 HOH HOH . F 3 HOH B 8 608 20 HOH HOH . F 3 HOH B 9 609 13 HOH HOH . F 3 HOH B 10 610 89 HOH HOH . F 3 HOH B 11 611 1 HOH HOH . F 3 HOH B 12 612 25 HOH HOH . F 3 HOH B 13 613 9 HOH HOH . F 3 HOH B 14 614 77 HOH HOH . F 3 HOH B 15 615 47 HOH HOH . F 3 HOH B 16 616 12 HOH HOH . F 3 HOH B 17 617 88 HOH HOH . F 3 HOH B 18 618 44 HOH HOH . F 3 HOH B 19 619 31 HOH HOH . F 3 HOH B 20 620 22 HOH HOH . F 3 HOH B 21 621 10 HOH HOH . F 3 HOH B 22 622 18 HOH HOH . F 3 HOH B 23 623 53 HOH HOH . F 3 HOH B 24 624 106 HOH HOH . F 3 HOH B 25 625 113 HOH HOH . F 3 HOH B 26 626 120 HOH HOH . F 3 HOH B 27 627 96 HOH HOH . F 3 HOH B 28 628 30 HOH HOH . F 3 HOH B 29 629 34 HOH HOH . F 3 HOH B 30 630 102 HOH HOH . F 3 HOH B 31 631 108 HOH HOH . F 3 HOH B 32 632 63 HOH HOH . F 3 HOH B 33 633 82 HOH HOH . F 3 HOH B 34 634 45 HOH HOH . F 3 HOH B 35 635 81 HOH HOH . F 3 HOH B 36 636 21 HOH HOH . F 3 HOH B 37 637 95 HOH HOH . F 3 HOH B 38 638 114 HOH HOH . F 3 HOH B 39 639 66 HOH HOH . F 3 HOH B 40 640 104 HOH HOH . F 3 HOH B 41 641 37 HOH HOH . F 3 HOH B 42 642 111 HOH HOH . F 3 HOH B 43 643 39 HOH HOH . F 3 HOH B 44 644 11 HOH HOH . F 3 HOH B 45 645 54 HOH HOH . F 3 HOH B 46 646 2 HOH HOH . F 3 HOH B 47 647 87 HOH HOH . F 3 HOH B 48 648 118 HOH HOH . F 3 HOH B 49 649 8 HOH HOH . F 3 HOH B 50 650 60 HOH HOH . F 3 HOH B 51 651 84 HOH HOH . F 3 HOH B 52 652 126 HOH HOH . F 3 HOH B 53 653 85 HOH HOH . F 3 HOH B 54 654 5 HOH HOH . F 3 HOH B 55 655 74 HOH HOH . F 3 HOH B 56 656 43 HOH HOH . F 3 HOH B 57 657 42 HOH HOH . F 3 HOH B 58 658 79 HOH HOH . F 3 HOH B 59 659 23 HOH HOH . F 3 HOH B 60 660 80 HOH HOH . F 3 HOH B 61 661 28 HOH HOH . F 3 HOH B 62 662 91 HOH HOH . F 3 HOH B 63 663 50 HOH HOH . F 3 HOH B 64 664 49 HOH HOH . F 3 HOH B 65 665 62 HOH HOH . F 3 HOH B 66 666 94 HOH HOH . F 3 HOH B 67 667 99 HOH HOH . F 3 HOH B 68 668 64 HOH HOH . F 3 HOH B 69 669 92 HOH HOH . F 3 HOH B 70 670 105 HOH HOH . F 3 HOH B 71 671 98 HOH HOH . F 3 HOH B 72 672 93 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 . . . D 2 -1.816 -9.035 -15.007 1 60.3 0 CHA CYC 500 B 1 HETATM 2 N NA CYC . . . D 2 -2.182 -11.444 -15.191 1 60.45 0 NA CYC 500 B 1 HETATM 3 C C1A CYC . . . D 2 -1.623 -10.349 -14.598 1 59.96 0 C1A CYC 500 B 1 HETATM 4 C C2A CYC . . . D 2 -0.705 -10.748 -13.543 1 64.18 0 C2A CYC 500 B 1 HETATM 5 C C3A CYC . . . D 2 -0.697 -12.103 -13.547 1 63.59 0 C3A CYC 500 B 1 HETATM 6 C C4A CYC . . . D 2 -1.712 -12.528 -14.508 1 64.74 0 C4A CYC 500 B 1 HETATM 7 C CMA CYC . . . D 2 0.247 -12.962 -12.755 1 59.43 0 CMA CYC 500 B 1 HETATM 8 C CAA CYC . . . D 2 0.158 -9.822 -12.736 1 58.26 0 CAA CYC 500 B 1 HETATM 9 C CBA CYC . . . D 2 -0.577 -9.057 -11.64 1 52.28 0 CBA CYC 500 B 1 HETATM 10 C CGA CYC . . . D 2 -0.889 -9.882 -10.409 1 48.97 0 CGA CYC 500 B 1 HETATM 11 O O1A CYC . . . D 2 -1.811 -9.499 -9.68 1 41.21 0 O1A CYC 500 B 1 HETATM 12 O O2A CYC . . . D 2 -0.183 -10.878 -10.169 1 48.78 0 O2A CYC 500 B 1 HETATM 13 C CHB CYC . . . D 2 -1.998 -13.815 -14.839 1 64.28 0 CHB CYC 500 B 1 HETATM 14 N NB CYC . . . D 2 -1.738 -16.201 -14.63 1 60.63 0 NB CYC 500 B 1 HETATM 15 C C1B CYC . . . D 2 -1.965 -14.944 -14.11 1 62.86 0 C1B CYC 500 B 1 HETATM 16 C C2B CYC . . . D 2 -2.381 -15.074 -12.755 1 66.81 0 C2B CYC 500 B 1 HETATM 17 C C3B CYC . . . D 2 -2.216 -16.368 -12.387 1 64.41 0 C3B CYC 500 B 1 HETATM 18 C C4B CYC . . . D 2 -1.746 -17.114 -13.6 1 60.45 0 C4B CYC 500 B 1 HETATM 19 C CMB CYC . . . D 2 -2.975 -14.031 -11.855 1 61.77 0 CMB CYC 500 B 1 HETATM 20 C CAB CYC . . . D 2 -2.511 -17.036 -11.085 1 65.09 0 CAB CYC 500 B 1 HETATM 21 C CBB CYC . . . D 2 -3.961 -17.504 -11.024 1 67.26 0 CBB CYC 500 B 1 HETATM 22 O OB CYC . . . D 2 -1.495 -18.287 -13.711 1 56.18 0 OB CYC 500 B 1 HETATM 23 N NC CYC . . . D 2 -4.516 -11.298 -18.818 1 79.2 0 NC CYC 500 B 1 HETATM 24 C C1C CYC . . . D 2 -5.022 -12.428 -19.402 1 83.45 0 C1C CYC 500 B 1 HETATM 25 C C2C CYC . . . D 2 -5.447 -12.104 -20.815 1 86.77 0 C2C CYC 500 B 1 HETATM 26 C C3C CYC . . . D 2 -5.287 -10.578 -20.921 1 79.17 0 C3C CYC 500 B 1 HETATM 27 C C4C CYC . . . D 2 -4.679 -10.165 -19.604 1 74.53 0 C4C CYC 500 B 1 HETATM 28 C CMC CYC . . . D 2 -4.718 -12.913 -21.881 1 95.57 0 CMC CYC 500 B 1 HETATM 29 C CAC CYC . . . D 2 -6.602 -9.869 -21.244 1 76.39 0 CAC CYC 500 B 1 HETATM 30 C CBC CYC . . . D 2 -6.45 -8.764 -22.269 1 80.39 0 CBC CYC 500 B 1 HETATM 31 O OC CYC . . . D 2 -5.099 -13.525 -18.873 1 80.43 0 OC CYC 500 B 1 HETATM 32 C CHD CYC . . . D 2 -4.309 -8.87 -19.237 1 72.15 0 CHD CYC 500 B 1 HETATM 33 N ND CYC . . . D 2 -3.08 -9.265 -17.106 1 62.69 0 ND CYC 500 B 1 HETATM 34 C C1D CYC . . . D 2 -3.599 -8.435 -18.067 1 68.25 0 C1D CYC 500 B 1 HETATM 35 C C2D CYC . . . D 2 -3.297 -7.09 -17.673 1 65.96 0 C2D CYC 500 B 1 HETATM 36 C C3D CYC . . . D 2 -2.611 -7.144 -16.481 1 66.1 0 C3D CYC 500 B 1 HETATM 37 C C4D CYC . . . D 2 -2.467 -8.527 -16.124 1 63.52 0 C4D CYC 500 B 1 HETATM 38 C CMD CYC . . . D 2 -3.683 -5.862 -18.435 1 64.47 0 CMD CYC 500 B 1 HETATM 39 C CAD CYC . . . D 2 -2.081 -5.977 -15.687 1 60.53 0 CAD CYC 500 B 1 HETATM 40 C CBD CYC . . . D 2 -3.071 -5.398 -14.681 1 53.77 0 CBD CYC 500 B 1 HETATM 41 C CGD CYC . . . D 2 -2.795 -3.957 -14.267 1 53.34 0 CGD CYC 500 B 1 HETATM 42 O O1D CYC . . . D 2 -2.035 -3.737 -13.298 1 43.85 0 O1D CYC 500 B 1 HETATM 43 O O2D CYC . . . D 2 -3.343 -3.047 -14.912 1 40.56 0 O2D CYC 500 B 1 # _model_server_stats.io_time_ms 19 _model_server_stats.parse_time_ms 19 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 291 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 43 #