data_1VF5 # _model_server_result.job_id y_UjajPxEXOAzFhd9b60Kg _model_server_result.datetime_utc '2024-11-22 04:15:17' _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 1vf5 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"LA","auth_seq_id":1101}' # _entry.id 1VF5 # _exptl.entry_id 1VF5 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 536.873 _entity.id 15 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description BETA-CAROTENE _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 1VF5 _cell.length_a 157.536 _cell.length_b 157.536 _cell.length_c 360.347 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1VF5 _symmetry.cell_setting ? _symmetry.Int_Tables_number 169 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 61' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details hexadecameric _pdbx_struct_assembly.oligomeric_count 16 _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,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 _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 ? 15 AA N N ? 15 LA 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 disulf ? disulf1 D SG CYS 113 D CYS 113 1_555 D SG CYS 128 D CYS 128 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf2 L SG CYS 113 Q CYS 113 1_555 L SG CYS 128 Q CYS 128 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? covale ? covale1 A SG CYS 35 A CYS 35 1_555 S CAB HEM . A HEM 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.787 ? covale ? covale2 C SG CYS 22 C CYS 22 1_555 X CAB HEM . C HEM 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.84 ? covale ? covale3 C SG CYS 25 C CYS 25 1_555 X CAC HEM . C HEM 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.83 ? covale ? covale4 C SG CYS 25 C CYS 25 1_555 X CBC HEM . C HEM 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.278 ? covale ? covale5 I SG CYS 35 N CYS 35 1_555 DA CAB HEM . N HEM 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.827 ? covale ? covale6 K SG CYS 22 P CYS 22 1_555 HA CAB HEM . P HEM 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.806 ? covale ? covale7 K SG CYS 25 P CYS 25 1_555 HA CAC HEM . P HEM 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.819 ? covale ? covale8 K SG CYS 25 P CYS 25 1_555 HA CBC HEM . P HEM 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.323 ? metalc ? metalc1 A NE2 HIS 86 A HIS 86 1_555 Q FE HEM . A HEM 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.084 ? metalc ? metalc2 A NE2 HIS 100 A HIS 100 1_555 R FE HEM . A HEM 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.509 ? metalc ? metalc3 A NE2 HIS 187 A HIS 187 1_555 Q FE HEM . A HEM 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.293 ? metalc ? metalc4 A NE2 HIS 202 A HIS 202 1_555 R FE HEM . A HEM 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.295 ? metalc ? metalc5 S FE HEM . A HEM 303 1_555 MA O HOH . A HOH 306 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.528 ? metalc ? metalc6 C N TYR 1 C TYR 1 1_555 X FE HEM . C HEM 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.343 ? metalc ? metalc7 C NE2 HIS 26 C HIS 26 1_555 X FE HEM . C HEM 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.443 ? metalc ? metalc8 D SG CYS 108 D CYS 108 1_555 Z FE1 FES . D FES 200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.324 ? metalc ? metalc9 D ND1 HIS 110 D HIS 110 1_555 Z FE2 FES . D FES 200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.269 ? metalc ? metalc10 D SG CYS 126 D CYS 126 1_555 Z FE1 FES . D FES 200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.324 ? metalc ? metalc11 D ND1 HIS 129 D HIS 129 1_555 Z FE2 FES . D FES 200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.255 ? metalc ? metalc12 I NE2 HIS 86 N HIS 86 1_555 BA FE HEM . N HEM 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.282 ? metalc ? metalc13 I NE2 HIS 100 N HIS 100 1_555 CA FE HEM . N HEM 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.59 ? metalc ? metalc14 I NE2 HIS 187 N HIS 187 1_555 BA FE HEM . N HEM 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.103 ? metalc ? metalc15 I NE2 HIS 202 N HIS 202 1_555 CA FE HEM . N HEM 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.213 ? metalc ? metalc16 DA FE HEM . N HEM 303 1_555 NA O HOH . N HOH 1307 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.335 ? metalc ? metalc17 K N TYR 1 P TYR 1 1_555 HA FE HEM . P HEM 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.276 ? metalc ? metalc18 K NE2 HIS 26 P HIS 26 1_555 HA FE HEM . P HEM 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.474 ? metalc ? metalc19 L SG CYS 108 Q CYS 108 1_555 KA FE1 FES . Q FES 1200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.322 ? metalc ? metalc20 L ND1 HIS 110 Q HIS 110 1_555 KA FE2 FES . Q FES 1200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.26 ? metalc ? metalc21 L SG CYS 126 Q CYS 126 1_555 KA FE1 FES . Q FES 1200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.323 ? metalc ? metalc22 L ND1 HIS 129 Q HIS 129 1_555 KA FE2 FES . Q FES 1200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.252 ? # _chem_comp.formula 'C40 H56' _chem_comp.formula_weight 536.873 _chem_comp.id BCR _chem_comp.mon_nstd_flag . _chem_comp.name BETA-CAROTENE _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 BCR sing 70 n n C1 C6 BCR sing 71 n n C1 C31 BCR sing 72 n n C1 C32 BCR sing 73 n n C2 C3 BCR sing 74 n n C2 HC21 BCR sing 75 n n C2 HC22 BCR sing 76 n n C3 C4 BCR sing 77 n n C3 HC31 BCR sing 78 n n C3 HC32 BCR sing 79 n n C4 C5 BCR sing 80 n n C4 HC41 BCR sing 81 n n C4 HC42 BCR sing 82 n n C5 C6 BCR doub 83 n n C5 C33 BCR sing 84 n n C6 C7 BCR sing 85 n n C7 C8 BCR doub 86 e n C7 HC7 BCR sing 87 n n C8 C9 BCR sing 88 n n C8 HC8 BCR sing 89 n n C9 C10 BCR doub 90 e n C9 C34 BCR sing 91 n n C10 C11 BCR sing 92 n n C10 H10C BCR sing 93 n n C11 C12 BCR doub 94 e n C11 H11C BCR sing 95 n n C33 H331 BCR sing 96 n n C33 H332 BCR sing 97 n n C33 H333 BCR sing 98 n n C31 H311 BCR sing 99 n n C31 H312 BCR sing 100 n n C31 H313 BCR sing 101 n n C32 H321 BCR sing 102 n n C32 H322 BCR sing 103 n n C32 H323 BCR sing 104 n n C34 H341 BCR sing 105 n n C34 H342 BCR sing 106 n n C34 H343 BCR sing 107 n n C12 C13 BCR sing 108 n n C12 H12C BCR sing 109 n n C13 C14 BCR doub 110 e n C13 C35 BCR sing 111 n n C14 C15 BCR sing 112 n n C14 H14C BCR sing 113 n n C15 C16 BCR doub 114 e n C15 H15C BCR sing 115 n n C16 C17 BCR sing 116 n n C16 H16C BCR sing 117 n n C17 C18 BCR doub 118 e n C17 H17C BCR sing 119 n n C18 C19 BCR sing 120 n n C18 C36 BCR sing 121 n n C19 C20 BCR doub 122 e n C19 H19C BCR sing 123 n n C20 C21 BCR sing 124 n n C20 H20C BCR sing 125 n n C21 C22 BCR doub 126 e n C21 H21C BCR sing 127 n n C22 C23 BCR sing 128 n n C22 C37 BCR sing 129 n n C23 C24 BCR doub 130 e n C23 H23C BCR sing 131 n n C24 C25 BCR sing 132 n n C24 H24C BCR sing 133 n n C25 C26 BCR doub 134 n n C25 C30 BCR sing 135 n n C26 C27 BCR sing 136 n n C26 C38 BCR sing 137 n n C27 C28 BCR sing 138 n n C27 H271 BCR sing 139 n n C27 H272 BCR sing 140 n n C28 C29 BCR sing 141 n n C28 H281 BCR sing 142 n n C28 H282 BCR sing 143 n n C29 C30 BCR sing 144 n n C29 H291 BCR sing 145 n n C29 H292 BCR sing 146 n n C30 C39 BCR sing 147 n n C30 C40 BCR sing 148 n n C35 H351 BCR sing 149 n n C35 H352 BCR sing 150 n n C35 H353 BCR sing 151 n n C36 H361 BCR sing 152 n n C36 H362 BCR sing 153 n n C36 H363 BCR sing 154 n n C37 H371 BCR sing 155 n n C37 H372 BCR sing 156 n n C37 H373 BCR sing 157 n n C38 H381 BCR sing 158 n n C38 H382 BCR sing 159 n n C38 H383 BCR sing 160 n n C39 H391 BCR sing 161 n n C39 H392 BCR sing 162 n n C39 H393 BCR sing 163 n n C40 H401 BCR sing 164 n n C40 H402 BCR sing 165 n n C40 H403 BCR sing 166 n n # _atom_sites.entry_id 1VF5 _atom_sites.fract_transf_matrix[1][1] 0.006348 _atom_sites.fract_transf_matrix[1][2] 0.003665 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.00733 _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] 0.002775 _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 Q 9 HEM A 1 301 301 HEM HEM . R 9 HEM A 1 302 302 HEM HEM . S 9 HEM A 1 303 303 HEM HEM . T 10 TDS A 1 304 304 TDS TDS . U 11 PL9 A 1 305 305 PL9 PL9 . V 12 OPC B 1 307 307 OPC OPC . W 13 CLA B 1 201 201 CLA CLA . X 9 HEM C 1 301 301 HEM HEM . Y 12 OPC D 1 306 306 OPC OPC . Z 14 FES D 1 200 200 FES FES . AA 15 BCR E 1 101 101 BCR BCR . BA 9 HEM N 1 301 301 HEM HEM . CA 9 HEM N 1 302 302 HEM HEM . DA 9 HEM N 1 303 303 HEM HEM . EA 10 TDS N 1 1304 1304 TDS TDS . FA 12 OPC N 1 1306 1306 OPC OPC . GA 13 CLA O 1 1201 1201 CLA CLA . HA 9 HEM P 1 301 301 HEM HEM . IA 11 PL9 Q 1 1305 1305 PL9 PL9 . JA 12 OPC Q 1 1307 1307 OPC OPC . KA 14 FES Q 1 1200 1200 FES FES . LA 15 BCR R 1 1101 1101 BCR BCR . MA 16 HOH A 1 306 1 HOH HOH . NA 16 HOH N 1 1307 2 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 BCR . . . LA 15 87.113 9.749 125.198 1 91.82 ? C1 BCR 1101 R 1 HETATM 2 C C2 BCR . . . LA 15 88.577 9.986 124.554 1 91.82 ? C2 BCR 1101 R 1 HETATM 3 C C3 BCR . . . LA 15 89.599 8.942 124.869 1 91.82 ? C3 BCR 1101 R 1 HETATM 4 C C4 BCR . . . LA 15 89.029 7.538 124.618 1 91.82 ? C4 BCR 1101 R 1 HETATM 5 C C5 BCR . . . LA 15 87.672 7.246 125.215 1 91.82 ? C5 BCR 1101 R 1 HETATM 6 C C6 BCR . . . LA 15 86.734 8.227 125.511 1 91.82 ? C6 BCR 1101 R 1 HETATM 7 C C7 BCR . . . LA 15 85.404 7.807 126.108 1 91.82 ? C7 BCR 1101 R 1 HETATM 8 C C8 BCR . . . LA 15 84.724 8.126 127.254 1 91.82 ? C8 BCR 1101 R 1 HETATM 9 C C9 BCR . . . LA 15 83.405 7.672 127.791 1 91.82 ? C9 BCR 1101 R 1 HETATM 10 C C10 BCR . . . LA 15 82.979 8.177 128.999 1 91.82 ? C10 BCR 1101 R 1 HETATM 11 C C11 BCR . . . LA 15 83.189 9.445 129.629 1 91.82 ? C11 BCR 1101 R 1 HETATM 12 C C33 BCR . . . LA 15 87.597 5.734 125.392 1 91.82 ? C33 BCR 1101 R 1 HETATM 13 C C31 BCR . . . LA 15 86.118 10.37 124.198 1 91.82 ? C31 BCR 1101 R 1 HETATM 14 C C32 BCR . . . LA 15 87.152 10.65 126.433 1 91.82 ? C32 BCR 1101 R 1 HETATM 15 C C34 BCR . . . LA 15 82.558 6.683 127.049 1 91.82 ? C34 BCR 1101 R 1 HETATM 16 C C12 BCR . . . LA 15 82.702 9.808 130.844 1 91.82 ? C12 BCR 1101 R 1 HETATM 17 C C13 BCR . . . LA 15 82.847 11.041 131.584 1 91.82 ? C13 BCR 1101 R 1 HETATM 18 C C14 BCR . . . LA 15 82.216 11.066 132.811 1 91.82 ? C14 BCR 1101 R 1 HETATM 19 C C15 BCR . . . LA 15 82.201 12.062 133.84 1 91.82 ? C15 BCR 1101 R 1 HETATM 20 C C16 BCR . . . LA 15 81.534 11.92 135.002 1 91.82 ? C16 BCR 1101 R 1 HETATM 21 C C17 BCR . . . LA 15 81.486 12.886 136.06 1 91.82 ? C17 BCR 1101 R 1 HETATM 22 C C18 BCR . . . LA 15 80.838 12.801 137.266 1 91.82 ? C18 BCR 1101 R 1 HETATM 23 C C19 BCR . . . LA 15 80.958 13.906 138.16 1 91.82 ? C19 BCR 1101 R 1 HETATM 24 C C20 BCR . . . LA 15 80.432 14.074 139.417 1 91.82 ? C20 BCR 1101 R 1 HETATM 25 C C21 BCR . . . LA 15 80.638 15.217 140.23 1 91.82 ? C21 BCR 1101 R 1 HETATM 26 C C22 BCR . . . LA 15 80.223 15.586 141.488 1 91.82 ? C22 BCR 1101 R 1 HETATM 27 C C23 BCR . . . LA 15 80.705 16.855 141.876 1 91.82 ? C23 BCR 1101 R 1 HETATM 28 C C24 BCR . . . LA 15 80.573 17.631 142.996 1 91.82 ? C24 BCR 1101 R 1 HETATM 29 C C25 BCR . . . LA 15 80.432 19.068 143.274 1 91.82 ? C25 BCR 1101 R 1 HETATM 30 C C26 BCR . . . LA 15 81.309 20.055 142.703 1 91.82 ? C26 BCR 1101 R 1 HETATM 31 C C27 BCR . . . LA 15 81.15 21.544 143.002 1 91.82 ? C27 BCR 1101 R 1 HETATM 32 C C28 BCR . . . LA 15 79.718 22.015 143.361 1 91.82 ? C28 BCR 1101 R 1 HETATM 33 C C29 BCR . . . LA 15 79.203 21.196 144.489 1 91.82 ? C29 BCR 1101 R 1 HETATM 34 C C30 BCR . . . LA 15 79.268 19.596 144.248 1 91.82 ? C30 BCR 1101 R 1 HETATM 35 C C35 BCR . . . LA 15 83.652 12.217 131.051 1 91.82 ? C35 BCR 1101 R 1 HETATM 36 C C36 BCR . . . LA 15 80.043 11.579 137.644 1 91.82 ? C36 BCR 1101 R 1 HETATM 37 C C37 BCR . . . LA 15 79.345 14.746 142.391 1 91.82 ? C37 BCR 1101 R 1 HETATM 38 C C38 BCR . . . LA 15 82.535 19.944 141.732 1 91.82 ? C38 BCR 1101 R 1 HETATM 39 C C39 BCR . . . LA 15 77.872 19.219 143.719 1 91.82 ? C39 BCR 1101 R 1 HETATM 40 C C40 BCR . . . LA 15 79.433 19.062 145.692 1 91.82 ? C40 BCR 1101 R 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 31 _model_server_stats.query_time_ms 308 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 40 #