data_5B35 # _model_server_result.job_id rHJ9N6BR3l2MB8e3Hu74Wg _model_server_result.datetime_utc '2024-11-13 04:22:57' _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 5b35 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":301}' # _entry.id 5B35 # _exptl.entry_id 5B35 _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 5B35 _cell.length_a 46.2 _cell.length_b 103 _cell.length_c 128.7 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5B35 _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 ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_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 _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 216 _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id LYS _struct_conn.ptnr1_auth_seq_id 216 _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 1.294 _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 507 n n C1 C6 RET sing 508 n n C1 C16 RET sing 509 n n C1 C17 RET sing 510 n n C2 C3 RET sing 511 n n C2 H21 RET sing 512 n n C2 H22 RET sing 513 n n C3 C4 RET sing 514 n n C3 H31 RET sing 515 n n C3 H32 RET sing 516 n n C4 C5 RET sing 517 n n C4 H41 RET sing 518 n n C4 H42 RET sing 519 n n C5 C6 RET doub 520 n n C5 C18 RET sing 521 n n C6 C7 RET sing 522 n n C7 C8 RET doub 523 e n C7 H7 RET sing 524 n n C8 C9 RET sing 525 n n C8 H8 RET sing 526 n n C9 C10 RET doub 527 e n C9 C19 RET sing 528 n n C10 C11 RET sing 529 n n C10 H10 RET sing 530 n n C11 C12 RET doub 531 e n C11 H11 RET sing 532 n n C12 C13 RET sing 533 n n C12 H12 RET sing 534 n n C13 C14 RET doub 535 e n C13 C20 RET sing 536 n n C14 C15 RET sing 537 n n C14 H14 RET sing 538 n n C15 O1 RET doub 539 n n C15 H15 RET sing 540 n n C16 H161 RET sing 541 n n C16 H162 RET sing 542 n n C16 H163 RET sing 543 n n C17 H171 RET sing 544 n n C17 H172 RET sing 545 n n C17 H173 RET sing 546 n n C18 H181 RET sing 547 n n C18 H182 RET sing 548 n n C18 H183 RET sing 549 n n C19 H191 RET sing 550 n n C19 H192 RET sing 551 n n C19 H193 RET sing 552 n n C20 H201 RET sing 553 n n C20 H202 RET sing 554 n n C20 H203 RET sing 555 n n # _atom_sites.entry_id 5B35 _atom_sites.fract_transf_matrix[1][1] 0.021645 _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] 0.009709 _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] 0.00777 _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 1 301 300 RET RET . C 3 4QM A 1 302 10 4QM CPS . D 4 OCT A 1 303 100 OCT OCT . E 5 D10 A 1 304 200 D10 D10 . F 6 D12 A 1 305 402 D12 D12 . G 5 D10 A 1 306 406 D10 D10 . H 5 D10 A 1 307 407 D10 D10 . I 5 D10 A 1 308 408 D10 D10 . J 7 R16 A 1 309 411 R16 R16 . K 5 D10 A 1 310 250 D10 D10 . L 8 HP6 A 1 311 401 HP6 HP6 . M 8 HP6 A 1 312 252 HP6 HP6 . N 9 DD9 A 1 313 253 DD9 DD9 . O 6 D12 A 1 314 255 D12 D12 . P 6 D12 A 1 315 256 D12 D12 . Q 9 DD9 A 1 316 258 DD9 DD9 . R 7 R16 A 1 317 259 R16 R16 . S 10 HOH A 1 401 556 HOH HOH . S 10 HOH A 2 402 401 HOH HOH . S 10 HOH A 3 403 400 HOH HOH . S 10 HOH A 4 404 402 HOH HOH . S 10 HOH A 5 405 403 HOH HOH . S 10 HOH A 6 406 423 HOH HOH . S 10 HOH A 7 407 535 HOH HOH . S 10 HOH A 8 408 537 HOH HOH . S 10 HOH A 9 409 418 HOH HOH . S 10 HOH A 10 410 554 HOH HOH . S 10 HOH A 11 411 529 HOH HOH . S 10 HOH A 12 412 404 HOH HOH . S 10 HOH A 13 413 501 HOH HOH . S 10 HOH A 14 414 527 HOH HOH . S 10 HOH A 15 415 526 HOH HOH . S 10 HOH A 16 416 550 HOH HOH . S 10 HOH A 17 417 419 HOH HOH . S 10 HOH A 18 418 531 HOH HOH . S 10 HOH A 19 419 542 HOH HOH . S 10 HOH A 20 420 559 HOH HOH . S 10 HOH A 21 421 523 HOH HOH . S 10 HOH A 22 422 543 HOH HOH . S 10 HOH A 23 423 522 HOH HOH . S 10 HOH A 24 424 547 HOH HOH . S 10 HOH A 25 425 558 HOH HOH . S 10 HOH A 26 426 551 HOH HOH . S 10 HOH A 27 427 555 HOH HOH . S 10 HOH A 28 428 429 HOH HOH . S 10 HOH A 29 429 546 HOH HOH . S 10 HOH A 30 430 557 HOH HOH . S 10 HOH A 31 431 528 HOH HOH . S 10 HOH A 32 432 524 HOH HOH . S 10 HOH A 33 433 549 HOH HOH . S 10 HOH A 34 434 540 HOH HOH . S 10 HOH A 35 435 552 HOH HOH . S 10 HOH A 36 436 548 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 26.934 61.934 -3.067 1 59.42 ? C1 RET 301 A 1 HETATM 2 C C2 RET . . . B 2 27.928 61.528 -4.162 1 60 ? C2 RET 301 A 1 HETATM 3 C C3 RET . . . B 2 28.347 60.075 -4.184 1 55.07 ? C3 RET 301 A 1 HETATM 4 C C4 RET . . . B 2 28.768 59.512 -2.838 1 52.12 ? C4 RET 301 A 1 HETATM 5 C C5 RET . . . B 2 28.046 60.15 -1.666 1 54.76 ? C5 RET 301 A 1 HETATM 6 C C6 RET . . . B 2 27.219 61.227 -1.735 1 56.14 ? C6 RET 301 A 1 HETATM 7 C C7 RET . . . B 2 26.618 61.635 -0.435 1 55.89 ? C7 RET 301 A 1 HETATM 8 C C8 RET . . . B 2 25.683 62.537 -0.266 1 51.57 ? C8 RET 301 A 1 HETATM 9 C C9 RET . . . B 2 25.114 62.846 1.063 1 50.07 ? C9 RET 301 A 1 HETATM 10 C C10 RET . . . B 2 24.214 63.814 1.06 1 53.49 ? C10 RET 301 A 1 HETATM 11 C C11 RET . . . B 2 23.496 64.289 2.213 1 54.68 ? C11 RET 301 A 1 HETATM 12 C C12 RET . . . B 2 22.562 65.136 1.895 1 56.38 ? C12 RET 301 A 1 HETATM 13 C C13 RET . . . B 2 21.735 65.82 2.888 1 54.15 ? C13 RET 301 A 1 HETATM 14 C C14 RET . . . B 2 21.097 66.84 2.292 1 57.27 ? C14 RET 301 A 1 HETATM 15 C C15 RET . . . B 2 20.229 67.785 2.881 1 57.84 ? C15 RET 301 A 1 HETATM 16 C C16 RET . . . B 2 27.258 63.435 -2.94 1 58.06 ? C16 RET 301 A 1 HETATM 17 C C17 RET . . . B 2 25.494 61.652 -3.525 1 59.67 ? C17 RET 301 A 1 HETATM 18 C C18 RET . . . B 2 28.405 59.53 -0.364 1 53.22 ? C18 RET 301 A 1 HETATM 19 C C19 RET . . . B 2 25.457 62.112 2.306 1 53.21 ? C19 RET 301 A 1 HETATM 20 C C20 RET . . . B 2 21.723 65.472 4.35 1 53.85 ? C20 RET 301 A 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 10 _model_server_stats.query_time_ms 329 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 20 #