data_8W7R # _model_server_result.job_id A9D8Mx_yby5VnZqObefLtA _model_server_result.datetime_utc '2024-11-23 20:23:49' _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 8w7r # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":304}' # _entry.id 8W7R # _exptl.entry_id 8W7R _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 284.436 _entity.id 5 _entity.src_method nat _entity.type non-polymer _entity.pdbx_description RETINAL _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 111.442 _cell.angle_gamma 90 _cell.entry_id 8W7R _cell.length_a 49.499 _cell.length_b 126.747 _cell.length_c 55.037 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8W7R _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression B,G,H,I,J,K,L,M,O 1 1 A,C,D,E,F,N 1 2 # 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' 1_554 x,y,z-1 1 0 0 0 1 0 0 0 1 20.119281 0 -51.227784 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 5 F N N ? 5 M 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 224 A LYS 224 1_555 F C15 RET . A RET 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.265 ? covale ? covale2 B NZ LYS 224 B LYS 224 1_555 M C15 RET . B RET 307 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.273 ? # _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 378 n n C1 C6 RET sing 379 n n C1 C16 RET sing 380 n n C1 C17 RET sing 381 n n C2 C3 RET sing 382 n n C2 H21 RET sing 383 n n C2 H22 RET sing 384 n n C3 C4 RET sing 385 n n C3 H31 RET sing 386 n n C3 H32 RET sing 387 n n C4 C5 RET sing 388 n n C4 H41 RET sing 389 n n C4 H42 RET sing 390 n n C5 C6 RET doub 391 n n C5 C18 RET sing 392 n n C6 C7 RET sing 393 n n C7 C8 RET doub 394 e n C7 H7 RET sing 395 n n C8 C9 RET sing 396 n n C8 H8 RET sing 397 n n C9 C10 RET doub 398 e n C9 C19 RET sing 399 n n C10 C11 RET sing 400 n n C10 H10 RET sing 401 n n C11 C12 RET doub 402 e n C11 H11 RET sing 403 n n C12 C13 RET sing 404 n n C12 H12 RET sing 405 n n C13 C14 RET doub 406 e n C13 C20 RET sing 407 n n C14 C15 RET sing 408 n n C14 H14 RET sing 409 n n C15 O1 RET doub 410 n n C15 H15 RET sing 411 n n C16 H161 RET sing 412 n n C16 H162 RET sing 413 n n C16 H163 RET sing 414 n n C17 H171 RET sing 415 n n C17 H172 RET sing 416 n n C17 H173 RET sing 417 n n C18 H181 RET sing 418 n n C18 H182 RET sing 419 n n C18 H183 RET sing 420 n n C19 H191 RET sing 421 n n C19 H192 RET sing 422 n n C19 H193 RET sing 423 n n C20 H201 RET sing 424 n n C20 H202 RET sing 425 n n C20 H203 RET sing 426 n n # _atom_sites.entry_id 8W7R _atom_sites.fract_transf_matrix[1][1] 0.020202 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.007934 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.00789 _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] 0.019521 _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 C 2 GOL A 1 301 303 GOL GOL . D 3 1PE A 1 302 304 1PE 1PE . E 4 OLC A 1 303 305 OLC A6L . F 5 RET A 1 304 306 RET RET . G 4 OLC B 1 301 302 OLC A6L . H 4 OLC B 1 302 303 OLC A6L . I 3 1PE B 1 303 304 1PE 1PE . J 3 1PE B 1 304 305 1PE 1PE . K 3 1PE B 1 305 306 1PE 1PE . L 2 GOL B 1 306 307 GOL GOL . M 5 RET B 1 307 308 RET RET . N 6 HOH A 1 401 4 HOH HOH . N 6 HOH A 2 402 8 HOH HOH . N 6 HOH A 3 403 17 HOH HOH . N 6 HOH A 4 404 23 HOH HOH . N 6 HOH A 5 405 16 HOH HOH . N 6 HOH A 6 406 15 HOH HOH . N 6 HOH A 7 407 9 HOH HOH . N 6 HOH A 8 408 14 HOH HOH . N 6 HOH A 9 409 13 HOH HOH . N 6 HOH A 10 410 2 HOH HOH . N 6 HOH A 11 411 26 HOH HOH . N 6 HOH A 12 412 1 HOH HOH . O 6 HOH B 1 401 5 HOH HOH . O 6 HOH B 2 402 11 HOH HOH . O 6 HOH B 3 403 18 HOH HOH . O 6 HOH B 4 404 22 HOH HOH . O 6 HOH B 5 405 12 HOH HOH . O 6 HOH B 6 406 3 HOH HOH . O 6 HOH B 7 407 7 HOH HOH . O 6 HOH B 8 408 19 HOH HOH . O 6 HOH B 9 409 20 HOH HOH . O 6 HOH B 10 410 25 HOH HOH . O 6 HOH B 11 411 24 HOH HOH . O 6 HOH B 12 412 6 HOH HOH . O 6 HOH B 13 413 21 HOH HOH . O 6 HOH B 14 414 10 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 . . . F 5 -5.688 30.705 10.047 1 35.24 0 C1 RET 304 A 1 HETATM 2 C C2 RET . . . F 5 -6.641 31.91 10.016 1 35.45 0 C2 RET 304 A 1 HETATM 3 C C3 RET . . . F 5 -8.063 31.567 9.683 1 33.82 0 C3 RET 304 A 1 HETATM 4 C C4 RET . . . F 5 -8.585 30.482 10.617 1 33.67 0 C4 RET 304 A 1 HETATM 5 C C5 RET . . . F 5 -7.66 29.308 10.745 1 34.49 0 C5 RET 304 A 1 HETATM 6 C C6 RET . . . F 5 -6.32 29.4 10.555 1 34.81 0 C6 RET 304 A 1 HETATM 7 C C7 RET . . . F 5 -5.509 28.198 10.789 1 35.03 0 C7 RET 304 A 1 HETATM 8 C C8 RET . . . F 5 -4.158 28.001 10.58 1 34.57 0 C8 RET 304 A 1 HETATM 9 C C9 RET . . . F 5 -3.406 26.86 10.906 1 34.51 0 C9 RET 304 A 1 HETATM 10 C C10 RET . . . F 5 -2.026 26.842 10.68 1 35.86 0 C10 RET 304 A 1 HETATM 11 C C11 RET . . . F 5 -1.071 25.899 11.039 1 37.45 0 C11 RET 304 A 1 HETATM 12 C C12 RET . . . F 5 0.261 26.16 10.755 1 39.66 0 C12 RET 304 A 1 HETATM 13 C C13 RET . . . F 5 1.457 25.473 11.066 1 38.29 0 C13 RET 304 A 1 HETATM 14 C C14 RET . . . F 5 2.649 26.053 10.611 1 38.98 0 C14 RET 304 A 1 HETATM 15 C C15 RET . . . F 5 3.968 25.525 10.737 1 43.23 0 C15 RET 304 A 1 HETATM 16 C C16 RET . . . F 5 -4.494 31.127 10.924 1 31.99 0 C16 RET 304 A 1 HETATM 17 C C17 RET . . . F 5 -5.181 30.542 8.6 1 32.18 0 C17 RET 304 A 1 HETATM 18 C C18 RET . . . F 5 -8.392 28.043 11.107 1 35.58 0 C18 RET 304 A 1 HETATM 19 C C19 RET . . . F 5 -4.014 25.641 11.514 1 33.1 0 C19 RET 304 A 1 HETATM 20 C C20 RET . . . F 5 1.365 24.207 11.847 1 33.6 0 C20 RET 304 A 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 291 _model_server_stats.encode_time_ms 8 _model_server_stats.element_count 20 #