data_4JR8 # _model_server_result.job_id F6jTdR1ogEUcgeZr7JQAug _model_server_result.datetime_utc '2024-11-24 08:37:39' _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 4jr8 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":302}' # _entry.id 4JR8 # _exptl.entry_id 4JR8 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 741.136 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description BACTERIORUBERIN _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 4JR8 _cell.length_a 106.21 _cell.length_b 106.21 _cell.length_c 60.21 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4JR8 _symmetry.cell_setting ? _symmetry.Int_Tables_number 150 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 3 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 _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 -53.105 91.980558 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 -106.21 0 0 # _struct_asym.details ? _struct_asym.entity_id 3 _struct_asym.id C _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _struct_conn.conn_type_id covale _struct_conn.details ? _struct_conn.id covale1 _struct_conn.ptnr1_label_asym_id A _struct_conn.ptnr1_label_atom_id NZ _struct_conn.ptnr1_label_comp_id LYS _struct_conn.ptnr1_label_seq_id 220 _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id LYS _struct_conn.ptnr1_auth_seq_id 220 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id B _struct_conn.ptnr2_label_atom_id C15 _struct_conn.ptnr2_label_comp_id RET _struct_conn.ptnr2_label_seq_id . _struct_conn.ptnr2_auth_asym_id A _struct_conn.ptnr2_auth_comp_id RET _struct_conn.ptnr2_auth_seq_id 301 _struct_conn.ptnr2_symmetry 1_555 _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 1.35 _struct_conn.pdbx_value_order ? # _chem_comp.formula 'C50 H76 O4' _chem_comp.formula_weight 741.136 _chem_comp.id 22B _chem_comp.mon_nstd_flag . _chem_comp.name BACTERIORUBERIN _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 C1 C2 22B sing 1 n n C1 C16 22B sing 2 n n C1 C17 22B sing 3 n n C1 O26 22B sing 4 n n C2 C3 22B sing 5 n n C2 C21 22B sing 6 n n C2 H2 22B sing 7 n n C3 C4 22B doub 8 n n C3 H3 22B sing 9 n n C4 C5 22B sing 10 n n C4 H4 22B sing 11 n n C5 C6 22B doub 12 n n C5 C18 22B sing 13 n n C6 C7 22B sing 14 n n C6 H6 22B sing 15 n n C7 C8 22B doub 16 n n C7 H7 22B sing 17 n n C8 C9 22B sing 18 n n C8 H8 22B sing 19 n n C9 C10 22B doub 20 n n C9 C19 22B sing 21 n n C10 C11 22B sing 22 n n C10 H10 22B sing 23 n n C11 C12 22B doub 24 n n C11 H11 22B sing 25 n n C12 C13 22B sing 26 n n C12 H12 22B sing 27 n n C13 C14 22B doub 28 n n C13 C20 22B sing 29 n n C14 C15 22B sing 30 n n C14 H14 22B sing 31 n n C15 C45 22B doub 32 n n C15 H15 22B sing 33 n n C16 H161 22B sing 34 n n C16 H162 22B sing 35 n n C16 H163 22B sing 36 n n C17 H171 22B sing 37 n n C17 H172 22B sing 38 n n C17 H173 22B sing 39 n n C18 H181 22B sing 40 n n C18 H182 22B sing 41 n n C18 H183 22B sing 42 n n C19 H191 22B sing 43 n n C19 H192 22B sing 44 n n C19 H193 22B sing 45 n n C20 H201 22B sing 46 n n C20 H202 22B sing 47 n n C20 H203 22B sing 48 n n C21 C22 22B sing 49 n n C21 H211 22B sing 50 n n C21 H212 22B sing 51 n n C22 C23 22B sing 52 n n C22 H221 22B sing 53 n n C22 H222 22B sing 54 n n C23 C24 22B sing 55 n n C23 C25 22B sing 56 n n C23 O27 22B sing 57 n n C24 H241 22B sing 58 n n C24 H242 22B sing 59 n n C24 H243 22B sing 60 n n C25 H251 22B sing 61 n n C25 H252 22B sing 62 n n C25 H253 22B sing 63 n n O26 H26 22B sing 64 n n O27 H27 22B sing 65 n n C38 C39 22B sing 66 n n C38 C27 22B doub 67 n n C38 H38 22B sing 68 n n C39 C40 22B doub 69 n n C39 C26 22B sing 70 n n C40 C41 22B sing 71 n n C40 H40 22B sing 72 n n C41 C42 22B doub 73 n n C41 H41 22B sing 74 n n C42 C43 22B sing 75 n n C42 H42 22B sing 76 n n C43 C50 22B sing 77 n n C43 C44 22B doub 78 n n C44 C45 22B sing 79 n n C44 H44 22B sing 80 n n C45 H45 22B sing 81 n n C50 H501 22B sing 82 n n C50 H502 22B sing 83 n n C50 H503 22B sing 84 n n C26 H261 22B sing 85 n n C26 H262 22B sing 86 n n C26 H263 22B sing 87 n n C27 C28 22B sing 88 n n C27 H1 22B sing 89 n n C28 C29 22B doub 90 n n C28 H28 22B sing 91 n n C29 C30 22B sing 92 n n C29 C31 22B sing 93 n n C30 H301 22B sing 94 n n C30 H302 22B sing 95 n n C30 H303 22B sing 96 n n C31 C32 22B doub 97 n n C31 H31 22B sing 98 n n C32 C33 22B sing 99 n n C32 H32 22B sing 100 n n C33 C34 22B sing 101 n n C33 C47 22B sing 102 n n C33 H33 22B sing 103 n n C34 C35 22B sing 104 n n C34 H341 22B sing 105 n n C34 H342 22B sing 106 n n C35 C36 22B sing 107 n n C35 H351 22B sing 108 n n C35 H352 22B sing 109 n n C36 C37 22B sing 110 n n C36 C46 22B sing 111 n n C36 O1 22B sing 112 n n C37 H371 22B sing 113 n n C37 H372 22B sing 114 n n C37 H373 22B sing 115 n n C46 H461 22B sing 116 n n C46 H462 22B sing 117 n n C46 H463 22B sing 118 n n O1 HO1 22B sing 119 n n C47 C48 22B sing 120 n n C47 C49 22B sing 121 n n C47 O2 22B sing 122 n n C48 H481 22B sing 123 n n C48 H482 22B sing 124 n n C48 H483 22B sing 125 n n C49 H491 22B sing 126 n n C49 H492 22B sing 127 n n C49 H493 22B sing 128 n n O2 HO2 22B sing 129 n n # _atom_sites.entry_id 4JR8 _atom_sites.fract_transf_matrix[1][1] 0.009415 _atom_sites.fract_transf_matrix[1][2] 0.005436 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.010872 _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] 0.016609 _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 RET A 1 301 250 RET RET . C 3 22B A 1 302 270 22B 22B . D 4 HOH A 1 601 601 HOH HOH . D 4 HOH A 2 602 602 HOH HOH . D 4 HOH A 3 603 603 HOH HOH . D 4 HOH A 4 604 604 HOH HOH . D 4 HOH A 5 605 605 HOH HOH . D 4 HOH A 6 606 606 HOH HOH . D 4 HOH A 7 607 607 HOH HOH . D 4 HOH A 8 608 608 HOH HOH . D 4 HOH A 9 609 609 HOH HOH . D 4 HOH A 10 610 610 HOH HOH . D 4 HOH A 11 611 611 HOH HOH . D 4 HOH A 12 612 612 HOH HOH . D 4 HOH A 13 613 613 HOH HOH . D 4 HOH A 14 614 614 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 C1 22B . . . C 3 -46.963 49.993 18.364 1 35.21 ? C1 22B 302 A 1 HETATM 2 C C2 22B . . . C 3 -46.052 48.736 17.707 1 35.3 ? C2 22B 302 A 1 HETATM 3 C C3 22B . . . C 3 -46.57 48.252 16.325 1 34.61 ? C3 22B 302 A 1 HETATM 4 C C4 22B . . . C 3 -46.139 48.668 15.129 1 33.42 ? C4 22B 302 A 1 HETATM 5 C C5 22B . . . C 3 -46.625 48.213 13.816 1 32.2 ? C5 22B 302 A 1 HETATM 6 C C6 22B . . . C 3 -46.003 48.819 12.765 1 30.65 ? C6 22B 302 A 1 HETATM 7 C C7 22B . . . C 3 -46.247 48.616 11.343 1 30.26 ? C7 22B 302 A 1 HETATM 8 C C8 22B . . . C 3 -45.594 49.238 10.357 1 30.54 ? C8 22B 302 A 1 HETATM 9 C C9 22B . . . C 3 -45.878 49.022 8.912 1 31.31 ? C9 22B 302 A 1 HETATM 10 C C10 22B . . . C 3 -45.068 49.762 8.085 1 31.61 ? C10 22B 302 A 1 HETATM 11 C C11 22B . . . C 3 -45.247 49.948 6.652 1 32.21 ? C11 22B 302 A 1 HETATM 12 C C12 22B . . . C 3 -44.397 50.678 5.911 1 33.92 ? C12 22B 302 A 1 HETATM 13 C C13 22B . . . C 3 -44.595 50.861 4.437 1 36.73 ? C13 22B 302 A 1 HETATM 14 C C14 22B . . . C 3 -43.629 51.629 3.842 1 37.2 ? C14 22B 302 A 1 HETATM 15 C C15 22B . . . C 3 -43.372 51.815 2.403 1 39.85 ? C15 22B 302 A 1 HETATM 16 C C16 22B . . . C 3 -48.5 49.639 18.603 1 33.86 ? C16 22B 302 A 1 HETATM 17 C C17 22B . . . C 3 -46.373 50.446 19.774 1 35.11 ? C17 22B 302 A 1 HETATM 18 C C18 22B . . . C 3 -47.75 47.141 13.664 1 31.41 ? C18 22B 302 A 1 HETATM 19 C C19 22B . . . C 3 -46.991 48.033 8.398 1 29.55 ? C19 22B 302 A 1 HETATM 20 C C20 22B . . . C 3 -45.808 50.221 3.64 1 35.87 ? C20 22B 302 A 1 HETATM 21 C C21 22B . . . C 3 -46.045 47.417 18.545 1 36.84 ? C21 22B 302 A 1 HETATM 22 C C22 22B . . . C 3 -44.55 47.059 18.902 1 38.57 ? C22 22B 302 A 1 HETATM 23 C C23 22B . . . C 3 -44.204 45.75 19.751 1 38.76 ? C23 22B 302 A 1 HETATM 24 C C24 22B . . . C 3 -43.176 44.867 18.961 1 39.15 ? C24 22B 302 A 1 HETATM 25 C C25 22B . . . C 3 -45.381 44.831 20.199 1 37.44 ? C25 22B 302 A 1 HETATM 26 O O26 22B . . . C 3 -46.907 51.154 17.506 1 35.29 ? O26 22B 302 A 1 HETATM 27 O O27 22B . . . C 3 -43.515 46.269 21.028 1 40.59 ? O27 22B 302 A 1 HETATM 28 C C38 22B . . . C 3 -39.26 53.403 -6.189 1 47.61 ? C38 22B 302 A 1 HETATM 29 C C39 22B . . . C 3 -38.977 52.927 -4.804 1 47.56 ? C39 22B 302 A 1 HETATM 30 C C40 22B . . . C 3 -40.009 53.061 -3.889 1 47.02 ? C40 22B 302 A 1 HETATM 31 C C41 22B . . . C 3 -39.996 52.698 -2.465 1 46.67 ? C41 22B 302 A 1 HETATM 32 C C42 22B . . . C 3 -41.043 52.873 -1.622 1 45.93 ? C42 22B 302 A 1 HETATM 33 C C43 22B . . . C 3 -40.985 52.521 -0.165 1 45.74 ? C43 22B 302 A 1 HETATM 34 C C44 22B . . . C 3 -42.127 52.78 0.533 1 44.26 ? C44 22B 302 A 1 HETATM 35 C C45 22B . . . C 3 -42.396 52.579 1.977 1 43.33 ? C45 22B 302 A 1 HETATM 36 C C27 22B . . . C 3 -38.387 53.37 -7.221 1 47.93 ? C27 22B 302 A 1 HETATM 37 C C28 22B . . . C 3 -38.746 53.867 -8.549 1 49.01 ? C28 22B 302 A 1 # _model_server_stats.io_time_ms 47 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 499 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 37 #