data_2V8A # _model_server_result.job_id Xzb7fZ-4ozPCRmOPYWKcxg _model_server_result.datetime_utc '2024-10-14 07:25:57' _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 2v8a # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":1081}' # _entry.id 2V8A # _exptl.entry_id 2V8A _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 588.694 _entity.id 3 _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 90 _cell.angle_gamma 120 _cell.entry_id 2V8A _cell.length_a 102.177 _cell.length_b 102.177 _cell.length_c 193.984 _cell.Z_PDB 18 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2V8A _symmetry.cell_setting ? _symmetry.Int_Tables_number 155 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'H 3 2' # _pdbx_struct_assembly.method_details PQS _pdbx_struct_assembly.oligomeric_details hexameric _pdbx_struct_assembly.oligomeric_count 6 _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 2_565 -y,x-y+1,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 -51.0885 88.487878 0 3 'crystal symmetry operation' 3_455 -x+y-1,-x,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 -102.177 0 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 3 C N N ? 3 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 81 A CYS 81 1_555 C CAC CYC . A CYC 1081 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.827 ? covale ? covale2 B C GLY 70 B GLY 70 1_555 B N MEN 71 B MEN 71 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale3 B C MEN 71 B MEN 71 1_555 B N MET 72 B MET 72 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? covale ? covale4 B SG CYS 81 B CYS 81 1_555 D CAC CYC . B CYC 1081 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.826 ? # _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 2V8A _atom_sites.fract_transf_matrix[1][1] 0.009787 _atom_sites.fract_transf_matrix[1][2] 0.00565 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.011301 _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] 0.005155 _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 3 CYC A 1 1081 1081 CYC CYC . D 3 CYC B 1 1081 1081 CYC CYC . # 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 3 -51.91 10.332 18.732 1 45.92 ? CHA CYC 1081 B 1 HETATM 2 N NA CYC . . . D 3 -49.459 10.692 18.617 1 45.92 ? NA CYC 1081 B 1 HETATM 3 C C1A CYC . . . D 3 -50.711 11.119 18.343 1 45.92 ? C1A CYC 1081 B 1 HETATM 4 C C2A CYC . . . D 3 -50.75 12.432 17.651 1 45.93 ? C2A CYC 1081 B 1 HETATM 5 C C3A CYC . . . D 3 -49.323 12.798 17.513 1 45.92 ? C3A CYC 1081 B 1 HETATM 6 C C4A CYC . . . D 3 -48.609 11.652 18.165 1 45.93 ? C4A CYC 1081 B 1 HETATM 7 C CMA CYC . . . D 3 -48.82 14.064 16.873 1 45.92 ? CMA CYC 1081 B 1 HETATM 8 C CAA CYC . . . D 3 -51.952 13.225 17.192 1 45.94 ? CAA CYC 1081 B 1 HETATM 9 C CBA CYC . . . D 3 -52.288 12.904 15.735 1 45.97 ? CBA CYC 1081 B 1 HETATM 10 C CGA CYC . . . D 3 -53.631 12.222 15.562 1 45.99 ? CGA CYC 1081 B 1 HETATM 11 O O1A CYC . . . D 3 -54.332 11.936 16.557 1 46 ? O1A CYC 1081 B 1 HETATM 12 O O2A CYC . . . D 3 -54.001 11.962 14.396 1 46.02 ? O2A CYC 1081 B 1 HETATM 13 C CHB CYC . . . D 3 -47.167 11.305 18.33 1 45.93 ? CHB CYC 1081 B 1 HETATM 14 N NB CYC . . . D 3 -46.127 12.999 16.829 1 45.94 ? NB CYC 1081 B 1 HETATM 15 C C1B CYC . . . D 3 -46.004 11.928 17.634 1 45.94 ? C1B CYC 1081 B 1 HETATM 16 C C2B CYC . . . D 3 -44.586 11.482 17.799 1 45.93 ? C2B CYC 1081 B 1 HETATM 17 C C3B CYC . . . D 3 -43.813 12.436 16.964 1 45.93 ? C3B CYC 1081 B 1 HETATM 18 C C4B CYC . . . D 3 -44.888 13.307 16.43 1 45.93 ? C4B CYC 1081 B 1 HETATM 19 C CMB CYC . . . D 3 -44.063 10.332 18.617 1 45.94 ? CMB CYC 1081 B 1 HETATM 20 C CAB CYC . . . D 3 -42.325 12.499 16.718 1 45.93 ? CAB CYC 1081 B 1 HETATM 21 C CBB CYC . . . D 3 -41.863 13.938 16.722 1 45.93 ? CBB CYC 1081 B 1 HETATM 22 O OB CYC . . . D 3 -44.656 14.294 15.639 1 45.93 ? OB CYC 1081 B 1 HETATM 23 N NC CYC . . . D 3 -51.285 4.647 22.127 1 45.88 ? NC CYC 1081 B 1 HETATM 24 C C1C CYC . . . D 3 -51.067 3.711 23.041 1 45.88 ? C1C CYC 1081 B 1 HETATM 25 C C2C CYC . . . D 3 -49.604 3.574 23.311 1 45.87 ? C2C CYC 1081 B 1 HETATM 26 C C3C CYC . . . D 3 -48.989 4.59 22.351 1 45.87 ? C3C CYC 1081 B 1 HETATM 27 C C4C CYC . . . D 3 -50.182 5.281 21.748 1 45.88 ? C4C CYC 1081 B 1 HETATM 28 C CMC CYC . . . D 3 -49.296 3.868 24.771 1 45.88 ? CMC CYC 1081 B 1 HETATM 29 C CAC CYC . . . D 3 -48.115 3.915 21.3 1 45.84 ? CAC CYC 1081 B 1 HETATM 30 C CBC CYC . . . D 3 -46.843 3.393 21.93 1 45.85 ? CBC CYC 1081 B 1 HETATM 31 O OC CYC . . . D 3 -51.919 3.059 23.617 1 45.88 ? OC CYC 1081 B 1 HETATM 32 C CHD CYC . . . D 3 -50.068 6.388 20.977 1 45.9 ? CHD CYC 1081 B 1 HETATM 33 N ND CYC . . . D 3 -50.798 8.391 19.857 1 45.91 ? ND CYC 1081 B 1 HETATM 34 C C1D CYC . . . D 3 -51.176 7.197 20.373 1 45.9 ? C1D CYC 1081 B 1 HETATM 35 C C2D CYC . . . D 3 -52.657 6.981 20.285 1 45.91 ? C2D CYC 1081 B 1 HETATM 36 C C3D CYC . . . D 3 -53.143 8.208 19.617 1 45.91 ? C3D CYC 1081 B 1 HETATM 37 C C4D CYC . . . D 3 -51.912 9.004 19.405 1 45.92 ? C4D CYC 1081 B 1 HETATM 38 C CMD CYC . . . D 3 -53.529 5.836 20.716 1 45.91 ? CMD CYC 1081 B 1 HETATM 39 C CAD CYC . . . D 3 -54.559 8.567 19.236 1 45.91 ? CAD CYC 1081 B 1 HETATM 40 C CBD CYC . . . D 3 -55.136 9.566 20.231 1 45.91 ? CBD CYC 1081 B 1 HETATM 41 C CGD CYC . . . D 3 -56.443 10.113 19.707 1 45.91 ? CGD CYC 1081 B 1 HETATM 42 O O1D CYC . . . D 3 -56.427 10.824 18.679 1 45.91 ? O1D CYC 1081 B 1 HETATM 43 O O2D CYC . . . D 3 -57.494 9.835 20.324 1 45.91 ? O2D CYC 1081 B 1 # _model_server_stats.io_time_ms 69 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 303 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 43 #