data_9H20 # _model_server_result.job_id CWUNWwn4viva7A4VE0xZrA _model_server_result.datetime_utc '2025-07-06 22:39:10' _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 9h20 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":301}' # _entry.id 9H20 # _exptl.entry_id 9H20 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 284.436 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description RETINAL _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 90 _cell.entry_id 9H20 _cell.length_a 89.75 _cell.length_b 131.7 _cell.length_c 51 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 9H20 _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall 'C 2c 2' _symmetry.space_group_name_H-M 'C 2 2 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 _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 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id B _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 205 _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id LYS _struct_conn.ptnr1_auth_seq_id 205 _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 1.421 _struct_conn.pdbx_value_order ? # _chem_comp.formula 'C20 H28 O' _chem_comp.formula_weight 284.436 _chem_comp.id RET _chem_comp.mon_nstd_flag . _chem_comp.name RETINAL _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 RET sing 376 n n C1 C6 RET sing 377 n n C1 C16 RET sing 378 n n C1 C17 RET sing 379 n n C2 C3 RET sing 380 n n C2 H21 RET sing 381 n n C2 H22 RET sing 382 n n C3 C4 RET sing 383 n n C3 H31 RET sing 384 n n C3 H32 RET sing 385 n n C4 C5 RET sing 386 n n C4 H41 RET sing 387 n n C4 H42 RET sing 388 n n C5 C6 RET doub 389 n n C5 C18 RET sing 390 n n C6 C7 RET sing 391 n n C7 C8 RET doub 392 e n C7 H7 RET sing 393 n n C8 C9 RET sing 394 n n C8 H8 RET sing 395 n n C9 C10 RET doub 396 e n C9 C19 RET sing 397 n n C10 C11 RET sing 398 n n C10 H10 RET sing 399 n n C11 C12 RET doub 400 e n C11 H11 RET sing 401 n n C12 C13 RET sing 402 n n C12 H12 RET sing 403 n n C13 C14 RET doub 404 e n C13 C20 RET sing 405 n n C14 C15 RET sing 406 n n C14 H14 RET sing 407 n n C15 O1 RET doub 408 n n C15 H15 RET sing 409 n n C16 H161 RET sing 410 n n C16 H162 RET sing 411 n n C16 H163 RET sing 412 n n C17 H171 RET sing 413 n n C17 H172 RET sing 414 n n C17 H173 RET sing 415 n n C18 H181 RET sing 416 n n C18 H182 RET sing 417 n n C18 H183 RET sing 418 n n C19 H191 RET sing 419 n n C19 H192 RET sing 420 n n C19 H193 RET sing 421 n n C20 H201 RET sing 422 n n C20 H202 RET sing 423 n n C20 H203 RET sing 424 n n # _atom_sites.entry_id 9H20 _atom_sites.fract_transf_matrix[1][1] 0.011142 _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] 0.007593 _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] 0.019608 _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 1 301 301 RET RET . C 3 CL A 1 302 302 CL CL . D 4 BOG A 1 303 303 BOG BOG . E 4 BOG A 1 304 304 BOG BOG . F 4 BOG A 1 305 305 BOG BOG . G 5 MPG A 1 306 306 MPG MPG . H 4 BOG A 1 307 307 BOG BOG . I 4 BOG A 1 308 308 BOG BOG . J 5 MPG A 1 309 309 MPG MPG . K 5 MPG A 1 310 310 MPG MPG . L 5 MPG A 1 311 311 MPG MPG . M 5 MPG A 1 312 312 MPG MPG . N 4 BOG A 1 313 313 BOG BOG . O 5 MPG A 1 314 314 MPG MPG . P 4 BOG A 1 315 315 BOG BOG . Q 4 BOG A 1 316 316 BOG BOG . R 6 HOH A 1 401 401 HOH HOH . R 6 HOH A 2 402 432 HOH HOH . R 6 HOH A 3 403 402 HOH HOH . R 6 HOH A 4 404 404 HOH HOH . R 6 HOH A 5 405 5 HOH HOH . R 6 HOH A 6 406 407 HOH HOH . R 6 HOH A 7 407 408 HOH HOH . R 6 HOH A 8 408 409 HOH HOH . R 6 HOH A 9 409 2 HOH HOH . R 6 HOH A 10 410 411 HOH HOH . R 6 HOH A 11 411 412 HOH HOH . R 6 HOH A 12 412 413 HOH HOH . R 6 HOH A 13 413 19 HOH HOH . R 6 HOH A 14 414 415 HOH HOH . R 6 HOH A 15 415 416 HOH HOH . R 6 HOH A 16 416 418 HOH HOH . R 6 HOH A 17 417 419 HOH HOH . R 6 HOH A 18 418 420 HOH HOH . R 6 HOH A 19 419 421 HOH HOH . R 6 HOH A 20 420 424 HOH HOH . R 6 HOH A 21 421 423 HOH HOH . R 6 HOH A 22 422 422 HOH HOH . R 6 HOH A 23 423 425 HOH HOH . R 6 HOH A 24 424 426 HOH HOH . R 6 HOH A 25 425 427 HOH HOH . R 6 HOH A 26 426 428 HOH HOH . R 6 HOH A 27 427 431 HOH HOH . R 6 HOH A 28 428 430 HOH HOH . R 6 HOH A 29 429 405 HOH HOH . R 6 HOH A 30 430 20 HOH HOH . R 6 HOH A 31 431 435 HOH HOH . R 6 HOH A 32 432 437 HOH HOH . R 6 HOH A 33 433 438 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 RET . . . B 2 25.061 31.738 5.616 1 23.16 ? C1 RET 301 A 1 HETATM 2 C C2 RET . . . B 2 24.207 30.706 6.369 1 20.96 ? C2 RET 301 A 1 HETATM 3 C C3 RET . . . B 2 23.322 31.287 7.459 1 23.22 ? C3 RET 301 A 1 HETATM 4 C C4 RET . . . B 2 22.413 32.368 6.911 1 22.84 ? C4 RET 301 A 1 HETATM 5 C C5 RET . . . B 2 23.068 33.267 5.895 1 22.6 ? C5 RET 301 A 1 HETATM 6 C C6 RET . . . B 2 24.328 33.078 5.464 1 18.98 ? C6 RET 301 A 1 HETATM 7 C C7 RET . . . B 2 25.022 34.132 4.739 1 19.26 ? C7 RET 301 A 1 HETATM 8 C C8 RET . . . B 2 26.226 34.097 4.112 1 18.73 ? C8 RET 301 A 1 HETATM 9 C C9 RET . . . B 2 26.866 35.204 3.415 1 21.47 ? C9 RET 301 A 1 HETATM 10 C C10 RET . . . B 2 28.142 35.055 2.98 1 21.64 ? C10 RET 301 A 1 HETATM 11 C C11 RET . . . B 2 28.963 36.032 2.321 1 22.62 ? C11 RET 301 A 1 HETATM 12 C C12 RET . . . B 2 30.251 35.804 2.029 1 21.57 ? C12 RET 301 A 1 HETATM 13 C C13 RET . . . B 2 31.185 36.739 1.424 1 20.47 ? C13 RET 301 A 1 HETATM 14 C C14 RET . . . B 2 32.491 36.391 1.324 1 20.5 ? C14 RET 301 A 1 HETATM 15 C C15 RET . . . B 2 33.569 37.183 0.794 1 20.26 ? C15 RET 301 A 1 HETATM 16 C C16 RET . . . B 2 26.365 31.927 6.402 1 19.88 ? C16 RET 301 A 1 HETATM 17 C C17 RET . . . B 2 25.392 31.142 4.242 1 25.75 ? C17 RET 301 A 1 HETATM 18 C C18 RET . . . B 2 22.292 34.539 5.686 1 22.81 ? C18 RET 301 A 1 HETATM 19 C C19 RET . . . B 2 26.072 36.465 3.208 1 18.55 ? C19 RET 301 A 1 HETATM 20 C C20 RET . . . B 2 30.662 38.081 0.993 1 22.32 ? C20 RET 301 A 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 332 _model_server_stats.encode_time_ms 11 _model_server_stats.element_count 20 #