data_4GXE # _model_server_result.job_id tgpyfvM6Hvdn0lkstXvR4g _model_server_result.datetime_utc '2025-02-05 13:58:56' _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 4gxe # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":202}' # _entry.id 4GXE # _exptl.entry_id 4GXE _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 3 _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 4GXE _cell.length_a 153.75 _cell.length_b 153.75 _cell.length_c 39.72 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4GXE _symmetry.cell_setting ? _symmetry.Int_Tables_number 173 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 63' # _pdbx_struct_assembly.method_details PISA _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,E,F,G,H,I,J,K,L,M,N _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_545 -y,x-y-1,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 76.875 -133.151406 0 3 'crystal symmetry operation' 3_655 -x+y+1,-x,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 153.75 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 G N N ? 3 H 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 84 A CYS 84 1_555 C CAC CYC . A CYC 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.816 ? covale ? covale2 B C GLY 71 B GLY 71 1_555 B N MEN 72 B MEN 72 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.266 ? covale ? covale3 B C MEN 72 B MEN 72 1_555 B N ALA 73 B ALA 75 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.361 ? covale ? covale4 B SG CYS 82 B CYS 84 1_555 G CAC CYC . B CYC 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.818 ? covale ? covale5 B SG CYS 153 B CYS 155 1_555 H CAC CYC . B CYC 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.825 ? # _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 4GXE _atom_sites.fract_transf_matrix[1][1] 0.006504 _atom_sites.fract_transf_matrix[1][2] 0.003755 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.00751 _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] 0.025176 _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 1 201 484 CYC CYC . D 4 URE A 1 202 2 URE URE . E 4 URE A 1 203 4 URE URE . F 4 URE A 1 204 6 URE URE . G 3 CYC B 1 201 584 CYC CYC . H 3 CYC B 1 202 555 CYC CYC . I 4 URE B 1 203 1 URE URE . J 4 URE B 1 204 3 URE URE . K 4 URE B 1 205 5 URE URE . L 4 URE B 1 206 7 URE URE . M 5 HOH A 1 301 1 HOH HOH . M 5 HOH A 2 302 6 HOH HOH . M 5 HOH A 3 303 8 HOH HOH . M 5 HOH A 4 304 9 HOH HOH . M 5 HOH A 5 305 13 HOH HOH . M 5 HOH A 6 306 15 HOH HOH . M 5 HOH A 7 307 17 HOH HOH . M 5 HOH A 8 308 19 HOH HOH . M 5 HOH A 9 309 27 HOH HOH . M 5 HOH A 10 310 32 HOH HOH . M 5 HOH A 11 311 33 HOH HOH . M 5 HOH A 12 312 38 HOH HOH . M 5 HOH A 13 313 40 HOH HOH . M 5 HOH A 14 314 41 HOH HOH . M 5 HOH A 15 315 43 HOH HOH . M 5 HOH A 16 316 46 HOH HOH . N 5 HOH B 1 301 2 HOH HOH . N 5 HOH B 2 302 3 HOH HOH . N 5 HOH B 3 303 4 HOH HOH . N 5 HOH B 4 304 5 HOH HOH . N 5 HOH B 5 305 7 HOH HOH . N 5 HOH B 6 306 10 HOH HOH . N 5 HOH B 7 307 11 HOH HOH . N 5 HOH B 8 308 12 HOH HOH . N 5 HOH B 9 309 14 HOH HOH . N 5 HOH B 10 310 16 HOH HOH . N 5 HOH B 11 311 18 HOH HOH . N 5 HOH B 12 312 20 HOH HOH . N 5 HOH B 13 313 21 HOH HOH . N 5 HOH B 14 314 22 HOH HOH . N 5 HOH B 15 315 23 HOH HOH . N 5 HOH B 16 316 24 HOH HOH . N 5 HOH B 17 317 25 HOH HOH . N 5 HOH B 18 318 26 HOH HOH . N 5 HOH B 19 319 28 HOH HOH . N 5 HOH B 20 320 29 HOH HOH . N 5 HOH B 21 321 30 HOH HOH . N 5 HOH B 22 322 31 HOH HOH . N 5 HOH B 23 323 34 HOH HOH . N 5 HOH B 24 324 35 HOH HOH . N 5 HOH B 25 325 36 HOH HOH . N 5 HOH B 26 326 37 HOH HOH . N 5 HOH B 27 327 39 HOH HOH . N 5 HOH B 28 328 42 HOH HOH . N 5 HOH B 29 329 44 HOH HOH . N 5 HOH B 30 330 45 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 . . . H 3 73.058 2.785 -1.541 1 4.54 ? CHA CYC 202 B 1 HETATM 2 N NA CYC . . . H 3 74.121 0.83 -2.715 1 3.28 ? NA CYC 202 B 1 HETATM 3 C C1A CYC . . . H 3 73.27 1.916 -2.574 1 3.61 ? C1A CYC 202 B 1 HETATM 4 C C2A CYC . . . H 3 72.474 2.082 -3.795 1 3.22 ? C2A CYC 202 B 1 HETATM 5 C C3A CYC . . . H 3 72.914 1.013 -4.643 1 3.05 ? C3A CYC 202 B 1 HETATM 6 C C4A CYC . . . H 3 73.945 0.231 -3.961 1 2.96 ? C4A CYC 202 B 1 HETATM 7 C CMA CYC . . . H 3 72.355 0.781 -6.014 1 2.99 ? CMA CYC 202 B 1 HETATM 8 C CAA CYC . . . H 3 71.432 3.126 -4.059 1 2.98 ? CAA CYC 202 B 1 HETATM 9 C CBA CYC . . . H 3 71.819 4.191 -4.97 1 2.72 ? CBA CYC 202 B 1 HETATM 10 C CGA CYC . . . H 3 72.807 5.07 -4.248 1 2.6 ? CGA CYC 202 B 1 HETATM 11 O O1A CYC . . . H 3 72.309 5.829 -3.409 1 2.52 ? O1A CYC 202 B 1 HETATM 12 O O2A CYC . . . H 3 74.037 5.008 -4.51 1 2.52 ? O2A CYC 202 B 1 HETATM 13 C CHB CYC . . . H 3 74.69 -0.981 -4.426 1 2.62 ? CHB CYC 202 B 1 HETATM 14 N NB CYC . . . H 3 72.799 -2.256 -5.194 1 2.18 ? NB CYC 202 B 1 HETATM 15 C C1B CYC . . . H 3 74.116 -2.137 -5.005 1 2.29 ? C1B CYC 202 B 1 HETATM 16 C C2B CYC . . . H 3 74.786 -3.326 -5.47 1 2.16 ? C2B CYC 202 B 1 HETATM 17 C C3B CYC . . . H 3 73.808 -4.212 -5.975 1 2.08 ? C3B CYC 202 B 1 HETATM 18 C C4B CYC . . . H 3 72.642 -3.445 -5.755 1 2.09 ? C4B CYC 202 B 1 HETATM 19 C CMB CYC . . . H 3 76.219 -3.554 -5.421 1 2.11 ? CMB CYC 202 B 1 HETATM 20 C CAB CYC . . . H 3 73.921 -5.586 -6.583 1 2.02 ? CAB CYC 202 B 1 HETATM 21 C CBB CYC . . . H 3 73.991 -5.535 -8.13 1 1.95 ? CBB CYC 202 B 1 HETATM 22 O OB CYC . . . H 3 71.431 -3.96 -6.116 1 2.05 ? OB CYC 202 B 1 HETATM 23 N NC CYC . . . H 3 77.539 4.1 3.524 1 10.26 ? NC CYC 202 B 1 HETATM 24 C C1C CYC . . . H 3 78.576 3.959 4.404 1 10.52 ? C1C CYC 202 B 1 HETATM 25 C C2C CYC . . . H 3 78.511 2.727 4.943 1 11.45 ? C2C CYC 202 B 1 HETATM 26 C C3C CYC . . . H 3 77.395 2.016 4.442 1 12.31 ? C3C CYC 202 B 1 HETATM 27 C C4C CYC . . . H 3 76.837 2.904 3.506 1 10.77 ? C4C CYC 202 B 1 HETATM 28 C CMC CYC . . . H 3 79.532 2.081 5.468 1 10.77 ? CMC CYC 202 B 1 HETATM 29 C CAC CYC . . . H 3 77.315 0.647 4.505 1 15.34 ? CAC CYC 202 B 1 HETATM 30 C CBC CYC . . . H 3 77.395 -0.122 3.367 1 16.14 ? CBC CYC 202 B 1 HETATM 31 O OC CYC . . . H 3 79.524 4.74 4.767 1 10 ? OC CYC 202 B 1 HETATM 32 C CHD CYC . . . H 3 75.809 2.62 2.524 1 8.59 ? CHD CYC 202 B 1 HETATM 33 N ND CYC . . . H 3 74.704 2.514 0.509 1 6.15 ? ND CYC 202 B 1 HETATM 34 C C1D CYC . . . H 3 74.702 3.197 1.759 1 6.9 ? C1D CYC 202 B 1 HETATM 35 C C2D CYC . . . H 3 73.638 4.148 1.816 1 6.3 ? C2D CYC 202 B 1 HETATM 36 C C3D CYC . . . H 3 72.906 4.097 0.576 1 5.85 ? C3D CYC 202 B 1 HETATM 37 C C4D CYC . . . H 3 73.592 3.064 -0.214 1 5.52 ? C4D CYC 202 B 1 HETATM 38 C CMD CYC . . . H 3 73.276 5.063 2.989 1 6.15 ? CMD CYC 202 B 1 HETATM 39 C CAD CYC . . . H 3 71.706 4.508 0.538 1 5.86 ? CAD CYC 202 B 1 HETATM 40 C CBD CYC . . . H 3 70.429 4.134 0.491 1 5.91 ? CBD CYC 202 B 1 HETATM 41 C CGD CYC . . . H 3 69.878 2.95 0.548 1 5.95 ? CGD CYC 202 B 1 HETATM 42 O O1D CYC . . . H 3 69.479 2.733 -0.46 1 5.99 ? O1D CYC 202 B 1 HETATM 43 O O2D CYC . . . H 3 70.004 2.296 1.431 1 5.99 ? O2D CYC 202 B 1 # _model_server_stats.io_time_ms 6 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 271 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 43 #