data_5ITE # _model_server_result.job_id kuBZ940sc5enhjmtcSznVg _model_server_result.datetime_utc '2024-11-01 21:25:49' _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 5ite # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"L","auth_seq_id":301}' # _entry.id 5ITE # _exptl.entry_id 5ITE _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 3 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 116.8 _cell.angle_gamma 90 _cell.entry_id 5ITE _cell.length_a 106.442 _cell.length_b 61.565 _cell.length_c 119.689 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5ITE _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'C 1 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 D N N ? 2 G N N ? 2 L 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 D C15 RET . A RET 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale2 B NZ LYS 224 B LYS 224 1_555 G C15 RET . B RET 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale3 C NZ LYS 224 C LYS 224 1_555 L C15 RET . C RET 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? # _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 392 n n C1 C6 RET sing 393 n n C1 C16 RET sing 394 n n C1 C17 RET sing 395 n n C2 C3 RET sing 396 n n C2 H21 RET sing 397 n n C2 H22 RET sing 398 n n C3 C4 RET sing 399 n n C3 H31 RET sing 400 n n C3 H32 RET sing 401 n n C4 C5 RET sing 402 n n C4 H41 RET sing 403 n n C4 H42 RET sing 404 n n C5 C6 RET doub 405 n n C5 C18 RET sing 406 n n C6 C7 RET sing 407 n n C7 C8 RET doub 408 e n C7 H7 RET sing 409 n n C8 C9 RET sing 410 n n C8 H8 RET sing 411 n n C9 C10 RET doub 412 e n C9 C19 RET sing 413 n n C10 C11 RET sing 414 n n C10 H10 RET sing 415 n n C11 C12 RET doub 416 e n C11 H11 RET sing 417 n n C12 C13 RET sing 418 n n C12 H12 RET sing 419 n n C13 C14 RET doub 420 e n C13 C20 RET sing 421 n n C14 C15 RET sing 422 n n C14 H14 RET sing 423 n n C15 O1 RET doub 424 n n C15 H15 RET sing 425 n n C16 H161 RET sing 426 n n C16 H162 RET sing 427 n n C16 H163 RET sing 428 n n C17 H171 RET sing 429 n n C17 H172 RET sing 430 n n C17 H173 RET sing 431 n n C18 H181 RET sing 432 n n C18 H182 RET sing 433 n n C18 H183 RET sing 434 n n C19 H191 RET sing 435 n n C19 H192 RET sing 436 n n C19 H193 RET sing 437 n n C20 H201 RET sing 438 n n C20 H202 RET sing 439 n n C20 H203 RET sing 440 n n # _atom_sites.entry_id 5ITE _atom_sites.fract_transf_matrix[1][1] 0.009395 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.004745 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.016243 _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] 0.00936 _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 D 2 RET A 1 301 301 RET RET . E 3 OLB A 1 302 6 OLB OLB . F 4 OLC A 1 303 8 OLC OLC . G 2 RET B 1 301 303 RET RET . H 4 OLC B 1 302 3 OLC OLC . I 4 OLC B 1 303 4 OLC OLC . J 4 OLC B 1 304 7 OLC OLC . K 3 OLB B 1 305 10 OLB OLB . L 2 RET C 1 301 302 RET RET . M 4 OLC C 1 302 1 OLC OLC . N 4 OLC C 1 303 2 OLC OLC . O 3 OLB C 1 304 9 OLB OLB . P 5 HOH A 1 401 23 HOH HOH . P 5 HOH A 2 402 1 HOH HOH . P 5 HOH A 3 403 55 HOH HOH . P 5 HOH A 4 404 77 HOH HOH . P 5 HOH A 5 405 5 HOH HOH . P 5 HOH A 6 406 3 HOH HOH . P 5 HOH A 7 407 79 HOH HOH . P 5 HOH A 8 408 60 HOH HOH . P 5 HOH A 9 409 68 HOH HOH . P 5 HOH A 10 410 59 HOH HOH . P 5 HOH A 11 411 83 HOH HOH . P 5 HOH A 12 412 53 HOH HOH . P 5 HOH A 13 413 43 HOH HOH . P 5 HOH A 14 414 97 HOH HOH . P 5 HOH A 15 415 25 HOH HOH . P 5 HOH A 16 416 27 HOH HOH . P 5 HOH A 17 417 22 HOH HOH . P 5 HOH A 18 418 44 HOH HOH . P 5 HOH A 19 419 42 HOH HOH . P 5 HOH A 20 420 51 HOH HOH . P 5 HOH A 21 421 4 HOH HOH . P 5 HOH A 22 422 57 HOH HOH . P 5 HOH A 23 423 67 HOH HOH . P 5 HOH A 24 424 2 HOH HOH . P 5 HOH A 25 425 41 HOH HOH . Q 5 HOH B 1 401 13 HOH HOH . Q 5 HOH B 2 402 46 HOH HOH . Q 5 HOH B 3 403 19 HOH HOH . Q 5 HOH B 4 404 71 HOH HOH . Q 5 HOH B 5 405 33 HOH HOH . Q 5 HOH B 6 406 70 HOH HOH . Q 5 HOH B 7 407 12 HOH HOH . Q 5 HOH B 8 408 20 HOH HOH . Q 5 HOH B 9 409 7 HOH HOH . Q 5 HOH B 10 410 29 HOH HOH . Q 5 HOH B 11 411 91 HOH HOH . Q 5 HOH B 12 412 81 HOH HOH . Q 5 HOH B 13 413 14 HOH HOH . Q 5 HOH B 14 414 26 HOH HOH . Q 5 HOH B 15 415 9 HOH HOH . Q 5 HOH B 16 416 16 HOH HOH . Q 5 HOH B 17 417 95 HOH HOH . Q 5 HOH B 18 418 11 HOH HOH . Q 5 HOH B 19 419 15 HOH HOH . Q 5 HOH B 20 420 69 HOH HOH . Q 5 HOH B 21 421 47 HOH HOH . R 5 HOH C 1 401 72 HOH HOH . R 5 HOH C 2 402 74 HOH HOH . R 5 HOH C 3 403 36 HOH HOH . R 5 HOH C 4 404 28 HOH HOH . R 5 HOH C 5 405 73 HOH HOH . R 5 HOH C 6 406 49 HOH HOH . R 5 HOH C 7 407 40 HOH HOH . R 5 HOH C 8 408 56 HOH HOH . R 5 HOH C 9 409 17 HOH HOH . R 5 HOH C 10 410 30 HOH HOH . R 5 HOH C 11 411 96 HOH HOH . R 5 HOH C 12 412 37 HOH HOH . R 5 HOH C 13 413 52 HOH HOH . R 5 HOH C 14 414 80 HOH HOH . R 5 HOH C 15 415 50 HOH HOH . R 5 HOH C 16 416 21 HOH HOH . R 5 HOH C 17 417 39 HOH HOH . R 5 HOH C 18 418 31 HOH HOH . R 5 HOH C 19 419 85 HOH HOH . R 5 HOH C 20 420 90 HOH HOH . R 5 HOH C 21 421 48 HOH HOH . R 5 HOH C 22 422 38 HOH HOH . R 5 HOH C 23 423 58 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 2 -35.856 -20.883 34.422 1 4.92 ? C1 RET 301 C 1 HETATM 2 C C2 RET . . . L 2 -36.286 -19.994 35.585 1 4.92 ? C2 RET 301 C 1 HETATM 3 C C3 RET . . . L 2 -36.165 -18.535 35.153 1 5.51 ? C3 RET 301 C 1 HETATM 4 C C4 RET . . . L 2 -37.297 -18.302 34.155 1 4.8 ? C4 RET 301 C 1 HETATM 5 C C5 RET . . . L 2 -37.09 -19.226 32.979 1 5.98 ? C5 RET 301 C 1 HETATM 6 C C6 RET . . . L 2 -36.474 -20.425 33.092 1 5.75 ? C6 RET 301 C 1 HETATM 7 C C7 RET . . . L 2 -36.434 -21.217 31.874 1 8.77 ? C7 RET 301 C 1 HETATM 8 C C8 RET . . . L 2 -35.668 -22.316 31.69 1 11.56 ? C8 RET 301 C 1 HETATM 9 C C9 RET . . . L 2 -35.645 -23.107 30.474 1 12.57 ? C9 RET 301 C 1 HETATM 10 C C10 RET . . . L 2 -35.021 -24.302 30.557 1 12.92 ? C10 RET 301 C 1 HETATM 11 C C11 RET . . . L 2 -34.89 -25.169 29.529 1 12.98 ? C11 RET 301 C 1 HETATM 12 C C12 RET . . . L 2 -34.335 -26.345 29.892 1 12.73 ? C12 RET 301 C 1 HETATM 13 C C13 RET . . . L 2 -34.058 -27.449 28.996 1 12.32 ? C13 RET 301 C 1 HETATM 14 C C14 RET . . . L 2 -33.173 -28.382 29.409 1 13.63 ? C14 RET 301 C 1 HETATM 15 C C15 RET . . . L 2 -32.805 -29.517 28.587 1 12.35 ? C15 RET 301 C 1 HETATM 16 C C16 RET . . . L 2 -34.329 -20.81 34.364 1 3.52 ? C16 RET 301 C 1 HETATM 17 C C17 RET . . . L 2 -36.326 -22.282 34.826 1 6.21 ? C17 RET 301 C 1 HETATM 18 C C18 RET . . . L 2 -37.561 -18.742 31.625 1 6 ? C18 RET 301 C 1 HETATM 19 C C19 RET . . . L 2 -36.279 -22.632 29.185 1 13.68 ? C19 RET 301 C 1 HETATM 20 C C20 RET . . . L 2 -34.71 -27.546 27.644 1 12.8 ? C20 RET 301 C 1 # _model_server_stats.io_time_ms 82 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 13 _model_server_stats.query_time_ms 318 _model_server_stats.encode_time_ms 12 _model_server_stats.element_count 20 #