data_9K3Q # _model_server_result.job_id 7gTK2HeCyw0FxWfIJL1SYA _model_server_result.datetime_utc '2025-03-04 08:52:32' _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 9k3q # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"RA","auth_seq_id":1001}' # _entry.id 9K3Q # _exptl.entry_id 9K3Q _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 901.425 _entity.id 6 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'Trans-Geranyl BACTERIOCHLOROPHYLL A' _entity.pdbx_number_of_molecules 37 _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 90 _cell.entry_id 9K3Q _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 9K3Q _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details 35-meric _pdbx_struct_assembly.oligomeric_count 35 _pdbx_struct_assembly.details author_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,O,P,Q,R,S,T,U,V,W,X,Y,Z,AA,BA,CA,DA,EA,FA,GA,HA,IA,JA,KA,LA,MA,NA,OA,PA,QA,RA,SA,TA,UA,VA,WA,XA,YA,ZA,AB,BB,CB,DB,EB,FB,GB,HB,IB,JB,KB,LB,MB,NB,OB,PB,QB,RB,SB,TB,UB,VB,WB,XB,YB,ZB,AC,BC,CC,DC,EC,FC,GC,HC,IC,JC,KC,LC,MC,NC,OC,PC,QC _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 ? _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 ? 6 JA N N ? 6 LA N N ? 6 NA N N ? 6 OA N N ? 6 QA N N ? 6 RA N N ? 6 TA N N ? 6 UA N N ? 6 WA N N ? 6 XA N N ? 6 YA N N ? 6 ZA N N ? 6 AB N N ? 6 BB N N ? 6 CB N N ? 6 FB N N ? 6 GB N N ? 6 IB N N ? 6 LB N N ? 6 MB N N ? 6 QB N N ? 6 RB N N ? 6 TB N N ? 6 VB N N ? 6 XB N N ? 6 YB N N ? 6 AC N N ? 6 BC N N ? 6 DC N N ? 6 EC N N ? 6 GC N N ? 6 HC N N ? 6 JC N N ? 6 KC N N ? 6 MC N N ? 6 OC N N ? 6 QC N N # _chem_comp.formula 'C55 H64 Mg N4 O6 2' _chem_comp.formula_weight 901.425 _chem_comp.id 07D _chem_comp.mon_nstd_flag . _chem_comp.name 'Trans-Geranyl BACTERIOCHLOROPHYLL A' _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 C4 C3 07D sing 1 n n C5 C6 07D sing 2 n n C5 C3 07D sing 3 n n C6 C7 07D sing 4 n n C7 C8 07D doub 5 e n C8 C10 07D sing 6 n n C8 C9 07D sing 7 n n C10 C11 07D sing 8 n n C13 C15 07D sing 9 n n C13 C12 07D doub 10 e n C13 C14 07D sing 11 n n C15 C16 07D sing 12 n n C17 C16 07D sing 13 n n C17 C18 07D doub 14 n n C20 C18 07D sing 15 n n C1 C2 07D sing 16 n n C1 O2A 07D sing 17 n n C11 C12 07D sing 18 n n C18 C19 07D sing 19 n n C2 C3 07D doub 20 e n NB C1B 07D doub 21 n n NB C4B 07D sing 22 n n NB MG 07D sing 23 n n ND C1D 07D sing 24 n n ND C4D 07D doub 25 n n ND MG 07D sing 26 n n C1A C2A 07D sing 27 n n C1A CHA 07D doub 28 n n C1A NA 07D sing 29 n n C1B C2B 07D sing 30 n n C1B CHB 07D sing 31 n n C1C C2C 07D doub 32 n y C1C CHC 07D sing 33 n n C1C NC 07D sing 34 n y C1D C2D 07D sing 35 n n C1D CHD 07D doub 36 n n C2A C3A 07D doub 37 n n C2A CAA 07D sing 38 n n C2B C3B 07D doub 39 n n C2B CMB 07D sing 40 n n C2C C3C 07D sing 41 n y C2C CMC 07D sing 42 n n C2D C3D 07D doub 43 n n C2D CMD 07D sing 44 n n C3A C4A 07D sing 45 n n C3A CMA 07D sing 46 n n C3B C4B 07D sing 47 n n C3B CAB 07D sing 48 n n C3C C4C 07D doub 49 n y C3C CAC 07D sing 50 n n C3D C4D 07D sing 51 n n C3D CAD 07D sing 52 n n C4A CHB 07D doub 53 n n C4A NA 07D sing 54 n n C4B CHC 07D doub 55 n n C4C CHD 07D sing 56 n n C4C NC 07D sing 57 n y C4D CHA 07D sing 58 n n CAA CBA 07D sing 59 n n CAB CBB 07D sing 60 n n CAB OBB 07D doub 61 n n CAC CBC 07D sing 62 n n CAD CBD 07D sing 63 n n CAD OBD 07D doub 64 n n CBA CGA 07D sing 65 n n CBD CGD 07D sing 66 n n CBD CHA 07D sing 67 n n CED O2D 07D sing 68 n n CGA O1A 07D doub 69 n n CGA O2A 07D sing 70 n n CGD O1D 07D doub 71 n n CGD O2D 07D sing 72 n n NA MG 07D sing 73 n n NC MG 07D sing 74 n n C4 H1 07D sing 75 n n C4 H2 07D sing 76 n n C4 H3 07D sing 77 n n C5 H4 07D sing 78 n n C5 H5 07D sing 79 n n C6 H6 07D sing 80 n n C6 H7 07D sing 81 n n C7 H8 07D sing 82 n n C10 H9 07D sing 83 n n C10 H10 07D sing 84 n n C15 H11 07D sing 85 n n C15 H12 07D sing 86 n n C17 H13 07D sing 87 n n C20 H14 07D sing 88 n n C20 H15 07D sing 89 n n C20 H16 07D sing 90 n n C1 H17 07D sing 91 n n C1 H18 07D sing 92 n n C11 H19 07D sing 93 n n C11 H20 07D sing 94 n n C12 H21 07D sing 95 n n C14 H22 07D sing 96 n n C14 H23 07D sing 97 n n C14 H24 07D sing 98 n n C16 H25 07D sing 99 n n C16 H26 07D sing 100 n n C19 H27 07D sing 101 n n C19 H28 07D sing 102 n n C19 H29 07D sing 103 n n C2 H30 07D sing 104 n n C9 H31 07D sing 105 n n C9 H32 07D sing 106 n n C9 H33 07D sing 107 n n CAA H34 07D sing 108 n n CAA H35 07D sing 109 n n CAC H36 07D sing 110 n n CAC H37 07D sing 111 n n CBA H38 07D sing 112 n n CBA H39 07D sing 113 n n CBB H40 07D sing 114 n n CBB H41 07D sing 115 n n CBB H42 07D sing 116 n n CBC H43 07D sing 117 n n CBC H44 07D sing 118 n n CBC H45 07D sing 119 n n CBD H46 07D sing 120 n n CED H47 07D sing 121 n n CED H48 07D sing 122 n n CED H49 07D sing 123 n n CHB H50 07D sing 124 n n CHC H51 07D sing 125 n n CHD H52 07D sing 126 n n CMA H53 07D sing 127 n n CMA H54 07D sing 128 n n CMA H55 07D sing 129 n n CMB H56 07D sing 130 n n CMB H57 07D sing 131 n n CMB H58 07D sing 132 n n CMC H59 07D sing 133 n n CMC H60 07D sing 134 n n CMC H61 07D sing 135 n n CMD H62 07D sing 136 n n CMD H63 07D sing 137 n n CMD H64 07D sing 138 n n # _atom_sites.entry_id 9K3Q _atom_sites.fract_transf_matrix[1][1] 1 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 1 _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] 1 _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 JA 6 07D 1 1 1001 1001 07D 07D . KA 7 CRT 1 1 1002 1002 CRT CRT . LA 6 07D 2 1 1001 1001 07D 07D . MA 7 CRT 3 1 101 101 CRT CRT . NA 6 07D 3 1 102 102 07D 07D . OA 6 07D 4 1 1001 1001 07D 07D . PA 7 CRT 5 1 101 101 CRT CRT . QA 6 07D 5 1 102 102 07D 07D . RA 6 07D 6 1 1001 1001 07D 07D . SA 7 CRT 7 1 101 101 CRT CRT . TA 6 07D 7 1 102 102 07D 07D . UA 6 07D 8 1 1001 1001 07D 07D . VA 7 CRT 9 1 101 101 CRT CRT . WA 6 07D 9 1 102 102 07D 07D . XA 6 07D A 1 101 101 07D 07D . YA 6 07D D 1 1001 1001 07D 07D . ZA 6 07D E 1 1001 1001 07D 07D . AB 6 07D F 1 1001 1001 07D 07D . BB 6 07D G 1 1001 1001 07D 07D . CB 6 07D H 1 301 301 07D 07D . DB 8 FE H 1 302 407 FE FE . EB 7 CRT I 1 101 101 CRT CRT . FB 6 07D I 1 102 102 07D 07D . GB 6 07D J 1 1001 1001 07D 07D . HB 7 CRT K 1 101 101 CRT CRT . IB 6 07D K 1 102 102 07D 07D . JB 9 BPH L 1 1001 1001 BPH BPH . KB 10 U10 L 1 1002 1003 U10 U10 . LB 6 07D L 1 1003 1004 07D 07D . MB 6 07D L 1 1004 1005 07D 07D . NB 10 U10 L 1 1005 1006 U10 U10 . OB 9 BPH M 1 401 402 BPH BPH . PB 10 U10 M 1 402 403 U10 U10 . QB 6 07D M 1 403 404 07D 07D . RB 6 07D M 1 404 405 07D 07D . SB 7 CRT M 1 405 406 CRT CRT . TB 6 07D N 1 101 1002 07D 07D . UB 7 CRT O 1 101 101 CRT CRT . VB 6 07D O 1 102 102 07D 07D . WB 7 CRT Q 1 101 101 CRT CRT . XB 6 07D Q 1 102 102 07D 07D . YB 6 07D R 1 101 101 07D 07D . ZB 7 CRT S 1 101 101 CRT CRT . AC 6 07D S 1 102 102 07D 07D . BC 6 07D T 1 101 101 07D 07D . CC 7 CRT U 1 101 1002 CRT CRT . DC 6 07D U 1 102 1001 07D 07D . EC 6 07D V 1 1001 1001 07D 07D . FC 7 CRT W 1 1001 1001 CRT CRT . GC 6 07D W 1 1002 1001 07D 07D . HC 6 07D X 1 1001 1001 07D 07D . IC 7 CRT Y 1 101 101 CRT CRT . JC 6 07D Y 1 102 102 07D 07D . KC 6 07D Z 1 1001 1001 07D 07D . LC 7 CRT d 1 1001 1001 CRT CRT . MC 6 07D d 1 1002 1002 07D 07D . NC 7 CRT m 1 101 101 CRT CRT . OC 6 07D m 1 102 102 07D 07D . PC 7 CRT n 1 101 101 CRT CRT . QC 6 07D n 1 102 102 07D 07D . # 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 C4 07D . . . RA 6 128.645 159.699 100.658 1 66.86 ? C4 07D 1001 6 1 HETATM 2 C C5 07D . . . RA 6 127.403 158.972 98.56 1 77.14 ? C5 07D 1001 6 1 HETATM 3 C C6 07D . . . RA 6 126.862 159.63 97.279 1 72.35 ? C6 07D 1001 6 1 HETATM 4 C C7 07D . . . RA 6 125.469 160.155 97.467 1 70.06 ? C7 07D 1001 6 1 HETATM 5 C C8 07D . . . RA 6 124.323 159.509 97.286 1 70.47 ? C8 07D 1001 6 1 HETATM 6 C C10 07D . . . RA 6 122.999 160.198 97.513 1 69.58 ? C10 07D 1001 6 1 HETATM 7 C C13 07D . . . RA 6 121.892 160.267 101.141 1 72.08 ? C13 07D 1001 6 1 HETATM 8 C C15 07D . . . RA 6 122.317 161.108 102.321 1 67.55 ? C15 07D 1001 6 1 HETATM 9 C C17 07D . . . RA 6 124.821 161.008 102.549 1 73.72 ? C17 07D 1001 6 1 HETATM 10 C C20 07D . . . RA 6 126.797 160.368 103.904 1 70.83 ? C20 07D 1001 6 1 HETATM 11 C C1 07D . . . RA 6 130.64 159.687 97.744 1 66.12 ? C1 07D 1001 6 1 HETATM 12 C C11 07D . . . RA 6 122.214 159.624 98.704 1 69.29 ? C11 07D 1001 6 1 HETATM 13 C C12 07D . . . RA 6 122.499 160.383 99.966 1 73.56 ? C12 07D 1001 6 1 HETATM 14 C C14 07D . . . RA 6 120.759 159.316 101.404 1 69.95 ? C14 07D 1001 6 1 HETATM 15 C C16 07D . . . RA 6 123.654 161.831 102.086 1 69.73 ? C16 07D 1001 6 1 HETATM 16 C C18 07D . . . RA 6 125.663 161.277 103.536 1 78.9 ? C18 07D 1001 6 1 HETATM 17 C C19 07D . . . RA 6 125.557 162.515 104.376 1 70 ? C19 07D 1001 6 1 HETATM 18 C C2 07D . . . RA 6 129.461 160.329 98.385 1 68.81 ? C2 07D 1001 6 1 HETATM 19 C C3 07D . . . RA 6 128.574 159.715 99.157 1 71.96 ? C3 07D 1001 6 1 HETATM 20 C C9 07D . . . RA 6 124.233 158.075 96.846 1 70.19 ? C9 07D 1001 6 1 HETATM 21 N NB 07D . . . RA 6 139.248 164.07 100.412 1 68.74 ? NB 07D 1001 6 1 HETATM 22 N ND 07D . . . RA 6 139.24 162.408 96.81 1 70.69 ? ND 07D 1001 6 1 HETATM 23 C C1A 07D . . . RA 6 136.41 162.984 97.645 1 64.2 ? C1A 07D 1001 6 1 HETATM 24 C C1B 07D . . . RA 6 138.242 164.483 101.085 1 69.56 ? C1B 07D 1001 6 1 HETATM 25 C C1C 07D . . . RA 6 141.975 164.323 99.214 1 64.58 ? C1C 07D 1001 6 1 HETATM 26 C C1D 07D . . . RA 6 140.297 162.286 95.848 1 65.98 ? C1D 07D 1001 6 1 HETATM 27 C C2A 07D . . . RA 6 135.119 162.949 98.222 1 60.56 ? C2A 07D 1001 6 1 HETATM 28 C C2B 07D . . . RA 6 138.647 164.733 102.428 1 66.02 ? C2B 07D 1001 6 1 HETATM 29 C C2C 07D . . . RA 6 143.28 164.336 98.689 1 68.16 ? C2C 07D 1001 6 1 HETATM 30 C C2D 07D . . . RA 6 139.723 162.033 94.569 1 63.27 ? C2D 07D 1001 6 1 HETATM 31 C C3A 07D . . . RA 6 135.209 163.99 99.112 1 62.48 ? C3A 07D 1001 6 1 HETATM 32 C C3B 07D . . . RA 6 140.052 164.733 102.414 1 62.83 ? C3B 07D 1001 6 1 HETATM 33 C C3C 07D . . . RA 6 143.339 163.317 97.765 1 64.53 ? C3C 07D 1001 6 1 HETATM 34 C C3D 07D . . . RA 6 138.368 162.135 94.759 1 64.97 ? C3D 07D 1001 6 1 HETATM 35 C C4A 07D . . . RA 6 136.555 164.104 99.446 1 65.62 ? C4A 07D 1001 6 1 HETATM 36 C C4B 07D . . . RA 6 140.346 164.643 101.018 1 62.21 ? C4B 07D 1001 6 1 HETATM 37 C C4C 07D . . . RA 6 142.034 163.007 97.423 1 68.14 ? C4C 07D 1001 6 1 HETATM 38 C C4D 07D . . . RA 6 138.106 162.179 96.153 1 69.97 ? C4D 07D 1001 6 1 HETATM 39 C CAA 07D . . . RA 6 133.963 162.009 98.014 1 65.07 ? CAA 07D 1001 6 1 HETATM 40 C CAB 07D . . . RA 6 141.082 164.77 103.475 1 65.01 ? CAB 07D 1001 6 1 HETATM 41 C CAC 07D . . . RA 6 144.569 162.619 97.26 1 55.27 ? CAC 07D 1001 6 1 HETATM 42 C CAD 07D . . . RA 6 137.093 162.228 94.074 1 64.67 ? CAD 07D 1001 6 1 HETATM 43 C CBA 07D . . . RA 6 133.651 161.196 99.258 1 65.68 ? CBA 07D 1001 6 1 HETATM 44 C CBB 07D . . . RA 6 140.825 165.436 104.793 1 68.12 ? CBB 07D 1001 6 1 HETATM 45 C CBC 07D . . . RA 6 145.202 163.319 96.088 1 67.16 ? CBC 07D 1001 6 1 HETATM 46 C CBD 07D . . . RA 6 136.18 163.04 95.003 1 62.43 ? CBD 07D 1001 6 1 HETATM 47 C CED 07D . . . RA 6 132.549 163.492 94.45 1 74.29 ? CED 07D 1001 6 1 HETATM 48 C CGA 07D . . . RA 6 132.485 160.267 99.091 1 69.89 ? CGA 07D 1001 6 1 HETATM 49 C CGD 07D . . . RA 6 134.716 162.654 94.827 1 70.18 ? CGD 07D 1001 6 1 HETATM 50 C CHA 07D . . . RA 6 136.813 162.754 96.374 1 63.97 ? CHA 07D 1001 6 1 HETATM 51 C CHB 07D . . . RA 6 137.046 164.862 100.47 1 66.59 ? CHB 07D 1001 6 1 HETATM 52 C CHC 07D . . . RA 6 141.451 165.038 100.303 1 58.93 ? CHC 07D 1001 6 1 HETATM 53 C CHD 07D . . . RA 6 141.614 162.394 96.231 1 65.08 ? CHD 07D 1001 6 1 HETATM 54 C CMA 07D . . . RA 6 134.09 164.842 99.628 1 64.13 ? CMA 07D 1001 6 1 HETATM 55 C CMB 07D . . . RA 6 137.716 164.937 103.585 1 64.92 ? CMB 07D 1001 6 1 HETATM 56 C CMC 07D . . . RA 6 144.381 165.288 99.045 1 63.1 ? CMC 07D 1001 6 1 HETATM 57 C CMD 07D . . . RA 6 140.483 161.716 93.318 1 61.78 ? CMD 07D 1001 6 1 HETATM 58 N NA 07D . . . RA 6 137.287 163.326 98.6 1 68.88 ? NA 07D 1001 6 1 HETATM 59 N NC 07D . . . RA 6 141.19 163.418 98.457 1 73.58 ? NC 07D 1001 6 1 HETATM 60 O O1A 07D . . . RA 6 132.199 159.385 99.855 1 74.22 ? O1A 07D 1001 6 1 HETATM 61 O O1D 07D . . . RA 6 134.295 161.532 94.848 1 76.98 ? O1D 07D 1001 6 1 HETATM 62 O O2A 07D . . . RA 6 131.793 160.542 97.986 1 71.75 ? O2A 07D 1001 6 1 HETATM 63 O O2D 07D . . . RA 6 133.963 163.732 94.632 1 78.84 ? O2D 07D 1001 6 1 HETATM 64 O OBB 07D . . . RA 6 142.177 164.256 103.283 1 68.52 ? OBB 07D 1001 6 1 HETATM 65 O OBD 07D . . . RA 6 136.77 161.765 92.994 1 75.21 ? OBD 07D 1001 6 1 HETATM 66 MG MG 07D . . . RA 6 139.263 162.806 98.829 1 76.14 ? MG 07D 1001 6 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 36 _model_server_stats.query_time_ms 279 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 66 #