data_8R96 # _model_server_result.job_id J3Xn6fEomuSQ7yontT-3eg _model_server_result.datetime_utc '2024-12-12 14:44:43' _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 8r96 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"L","auth_seq_id":407}' # _entry.id 8R96 # _exptl.entry_id 8R96 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 284.436 _entity.id 4 _entity.src_method man _entity.type non-polymer _entity.pdbx_description RETINAL _entity.pdbx_number_of_molecules 5 _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 8R96 _cell.length_a 85.565 _cell.length_b 295.665 _cell.length_c 185.5 _cell.Z_PDB 40 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8R96 _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 2 2 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details pentameric _pdbx_struct_assembly.oligomeric_count 5 _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 _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 ? 4 L N N ? 4 P N N ? 4 T N N ? 4 Z N N ? 4 DA 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 NZ LYS 242 A LYS 242 1_555 L C15 RET . A RET 407 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.46 ? covale ? covale2 B NZ LYS 242 B LYS 242 1_555 P C15 RET . B RET 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.461 ? covale ? covale3 C NZ LYS 242 C LYS 242 1_555 T C15 RET . C RET 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.45 ? covale ? covale4 D NZ LYS 242 D LYS 242 1_555 Z C15 RET . D RET 406 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.461 ? covale ? covale5 E NZ LYS 242 E LYS 242 1_555 DA C15 RET . E RET 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.46 ? # _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 395 n n C1 C6 RET sing 396 n n C1 C16 RET sing 397 n n C1 C17 RET sing 398 n n C2 C3 RET sing 399 n n C2 H21 RET sing 400 n n C2 H22 RET sing 401 n n C3 C4 RET sing 402 n n C3 H31 RET sing 403 n n C3 H32 RET sing 404 n n C4 C5 RET sing 405 n n C4 H41 RET sing 406 n n C4 H42 RET sing 407 n n C5 C6 RET doub 408 n n C5 C18 RET sing 409 n n C6 C7 RET sing 410 n n C7 C8 RET doub 411 e n C7 H7 RET sing 412 n n C8 C9 RET sing 413 n n C8 H8 RET sing 414 n n C9 C10 RET doub 415 e n C9 C19 RET sing 416 n n C10 C11 RET sing 417 n n C10 H10 RET sing 418 n n C11 C12 RET doub 419 e n C11 H11 RET sing 420 n n C12 C13 RET sing 421 n n C12 H12 RET sing 422 n n C13 C14 RET doub 423 e n C13 C20 RET sing 424 n n C14 C15 RET sing 425 n n C14 H14 RET sing 426 n n C15 O1 RET doub 427 n n C15 H15 RET sing 428 n n C16 H161 RET sing 429 n n C16 H162 RET sing 430 n n C16 H163 RET sing 431 n n C17 H171 RET sing 432 n n C17 H172 RET sing 433 n n C17 H173 RET sing 434 n n C18 H181 RET sing 435 n n C18 H182 RET sing 436 n n C18 H183 RET sing 437 n n C19 H191 RET sing 438 n n C19 H192 RET sing 439 n n C19 H193 RET sing 440 n n C20 H201 RET sing 441 n n C20 H202 RET sing 442 n n C20 H203 RET sing 443 n n # _atom_sites.entry_id 8R96 _atom_sites.fract_transf_matrix[1][1] 0.011687 _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] 0.003382 _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] 0.005391 _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 F 2 LFA A 1 401 301 LFA LFA . G 2 LFA A 1 402 302 LFA LFA . H 3 PO4 A 1 403 2 PO4 PO4 . I 2 LFA A 1 404 1 LFA LFA . J 2 LFA A 1 405 5 LFA LFA . K 2 LFA A 1 406 6 LFA LFA . L 4 RET A 1 407 242 RET LYR . M 2 LFA B 1 401 301 LFA LFA . N 2 LFA B 1 402 302 LFA LFA . O 3 PO4 B 1 403 3 PO4 PO4 . P 4 RET B 1 404 242 RET LYR . Q 2 LFA C 1 401 301 LFA LFA . R 3 PO4 C 1 402 4 PO4 PO4 . S 2 LFA C 1 403 3 LFA LFA . T 4 RET C 1 404 242 RET LYR . U 5 OLA D 1 401 301 OLA OLA . V 3 PO4 D 1 402 5 PO4 PO4 . W 2 LFA D 1 403 4 LFA LFA . X 2 LFA D 1 404 7 LFA LFA . Y 2 LFA D 1 405 8 LFA LFA . Z 4 RET D 1 406 242 RET LYR . AA 2 LFA E 1 401 301 LFA LFA . BA 3 PO4 E 1 402 1 PO4 PO4 . CA 2 LFA E 1 403 2 LFA LFA . DA 4 RET E 1 404 242 RET LYR . EA 6 HOH A 1 501 26 HOH HOH . EA 6 HOH A 2 502 8 HOH HOH . EA 6 HOH A 3 503 23 HOH HOH . EA 6 HOH A 4 504 6 HOH HOH . FA 6 HOH B 1 501 16 HOH HOH . FA 6 HOH B 2 502 30 HOH HOH . FA 6 HOH B 3 503 13 HOH HOH . FA 6 HOH B 4 504 3 HOH HOH . FA 6 HOH B 5 505 27 HOH HOH . FA 6 HOH B 6 506 12 HOH HOH . FA 6 HOH B 7 507 20 HOH HOH . FA 6 HOH B 8 508 9 HOH HOH . FA 6 HOH B 9 509 17 HOH HOH . GA 6 HOH C 1 501 24 HOH HOH . GA 6 HOH C 2 502 1 HOH HOH . GA 6 HOH C 3 503 21 HOH HOH . GA 6 HOH C 4 504 10 HOH HOH . GA 6 HOH C 5 505 18 HOH HOH . GA 6 HOH C 6 506 2 HOH HOH . HA 6 HOH D 1 501 29 HOH HOH . HA 6 HOH D 2 502 25 HOH HOH . HA 6 HOH D 3 503 19 HOH HOH . HA 6 HOH D 4 504 4 HOH HOH . HA 6 HOH D 5 505 14 HOH HOH . HA 6 HOH D 6 506 7 HOH HOH . HA 6 HOH D 7 507 11 HOH HOH . IA 6 HOH E 1 501 28 HOH HOH . IA 6 HOH E 2 502 22 HOH HOH . IA 6 HOH E 3 503 15 HOH HOH . IA 6 HOH E 4 504 31 HOH HOH . IA 6 HOH E 5 505 5 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 . . . L 4 8.804 50.786 25.644 1 80.8 ? C1 RET 407 A 1 HETATM 2 C C2 RET . . . L 4 8.124 51.979 26.322 1 82.06 ? C2 RET 407 A 1 HETATM 3 C C3 RET . . . L 4 8.434 52.087 27.771 1 86.06 ? C3 RET 407 A 1 HETATM 4 C C4 RET . . . L 4 8.007 50.827 28.514 1 87.6 ? C4 RET 407 A 1 HETATM 5 C C5 RET . . . L 4 8.26 49.555 27.755 1 85.41 ? C5 RET 407 A 1 HETATM 6 C C6 RET . . . L 4 8.802 49.544 26.52 1 81.74 ? C6 RET 407 A 1 HETATM 7 C C7 RET . . . L 4 9.368 48.33 25.984 1 75.61 ? C7 RET 407 A 1 HETATM 8 C C8 RET . . . L 4 10.057 48.2 24.815 1 72.16 ? C8 RET 407 A 1 HETATM 9 C C9 RET . . . L 4 10.768 47.081 24.378 1 69.98 ? C9 RET 407 A 1 HETATM 10 C C10 RET . . . L 4 11.431 47.068 23.138 1 70.36 ? C10 RET 407 A 1 HETATM 11 C C11 RET . . . L 4 12.171 46.054 22.559 1 67.36 ? C11 RET 407 A 1 HETATM 12 C C12 RET . . . L 4 12.737 46.033 21.295 1 68.01 ? C12 RET 407 A 1 HETATM 13 C C13 RET . . . L 4 13.433 44.971 20.665 1 59.5 ? C13 RET 407 A 1 HETATM 14 C C14 RET . . . L 4 13.872 45.084 19.382 1 58.08 ? C14 RET 407 A 1 HETATM 15 C C15 RET . . . L 4 14.687 44.025 18.674 1 62.35 ? C15 RET 407 A 1 HETATM 16 C C16 RET . . . L 4 8.064 50.504 24.327 1 77.19 ? C16 RET 407 A 1 HETATM 17 C C17 RET . . . L 4 10.247 51.198 25.311 1 78.93 ? C17 RET 407 A 1 HETATM 18 C C18 RET . . . L 4 7.873 48.319 28.522 1 86.75 ? C18 RET 407 A 1 HETATM 19 C C19 RET . . . L 4 10.849 45.855 25.21 1 66.17 ? C19 RET 407 A 1 HETATM 20 C C20 RET . . . L 4 13.648 43.768 21.472 1 60.95 ? C20 RET 407 A 1 # _model_server_stats.io_time_ms 19 _model_server_stats.parse_time_ms 22 _model_server_stats.create_model_time_ms 17 _model_server_stats.query_time_ms 335 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 20 #