data_7E6X # _model_server_result.job_id 3cMOOgO_4LNaSTrKv4GDdA _model_server_result.datetime_utc '2024-11-05 04:00:10' _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 7e6x # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":401}' # _entry.id 7E6X # _exptl.entry_id 7E6X _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 284.436 _entity.id 3 _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 7E6X _cell.length_a 61.8 _cell.length_b 142.2 _cell.length_c 94.7 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7E6X _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 dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 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' 3_555 -x,y,-z+1/2 -1 0 0 0 1 0 0 0 -1 0 0 47.35 # _struct_asym.details ? _struct_asym.entity_id 3 _struct_asym.id C _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _pdbx_entity_branch.entity_id 2 _pdbx_entity_branch.type oligosaccharide # _pdbx_entity_branch_link.link_id 1 _pdbx_entity_branch_link.details ? _pdbx_entity_branch_link.entity_id 2 _pdbx_entity_branch_link.entity_branch_list_num_1 2 _pdbx_entity_branch_link.entity_branch_list_num_2 1 _pdbx_entity_branch_link.comp_id_1 NAG _pdbx_entity_branch_link.comp_id_2 NAG _pdbx_entity_branch_link.atom_id_1 C1 _pdbx_entity_branch_link.leaving_atom_id_1 O1 _pdbx_entity_branch_link.atom_stereo_config_1 . _pdbx_entity_branch_link.atom_id_2 O4 _pdbx_entity_branch_link.leaving_atom_id_2 HO4 _pdbx_entity_branch_link.atom_stereo_config_2 . _pdbx_entity_branch_link.value_order sing # loop_ _pdbx_branch_scheme.entity_id _pdbx_branch_scheme.hetero _pdbx_branch_scheme.asym_id _pdbx_branch_scheme.mon_id _pdbx_branch_scheme.num _pdbx_branch_scheme.pdb_asym_id _pdbx_branch_scheme.pdb_seq_num _pdbx_branch_scheme.pdb_mon_id _pdbx_branch_scheme.auth_asym_id _pdbx_branch_scheme.auth_seq_num _pdbx_branch_scheme.auth_mon_id 2 n B NAG 1 E 1 NAG E 701 NAG 2 n B NAG 2 E 2 NAG E 702 NAG # 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 disulf ? disulf1 A SG CYS 66 A CYS 66 1_555 A SG CYS 66 A CYS 66 3_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.063 ? disulf ? disulf2 A SG CYS 73 A CYS 73 1_555 A SG CYS 75 A CYS 75 3_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.266 ? covale ? covale1 A ND2 ASN 61 A ASN 61 1_555 B C1 NAG . E NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.416 ? covale ? covale2 A NZ LYS 296 A LYS 296 1_555 C C15 RET . A RET 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale3 B O4 NAG . E NAG 1 1_555 B C1 NAG . E NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.339 ? # _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 371 n n C1 C6 RET sing 372 n n C1 C16 RET sing 373 n n C1 C17 RET sing 374 n n C2 C3 RET sing 375 n n C2 H21 RET sing 376 n n C2 H22 RET sing 377 n n C3 C4 RET sing 378 n n C3 H31 RET sing 379 n n C3 H32 RET sing 380 n n C4 C5 RET sing 381 n n C4 H41 RET sing 382 n n C4 H42 RET sing 383 n n C5 C6 RET doub 384 n n C5 C18 RET sing 385 n n C6 C7 RET sing 386 n n C7 C8 RET doub 387 e n C7 H7 RET sing 388 n n C8 C9 RET sing 389 n n C8 H8 RET sing 390 n n C9 C10 RET doub 391 e n C9 C19 RET sing 392 n n C10 C11 RET sing 393 n n C10 H10 RET sing 394 n n C11 C12 RET doub 395 e n C11 H11 RET sing 396 n n C12 C13 RET sing 397 n n C12 H12 RET sing 398 n n C13 C14 RET doub 399 e n C13 C20 RET sing 400 n n C14 C15 RET sing 401 n n C14 H14 RET sing 402 n n C15 O1 RET doub 403 n n C15 H15 RET sing 404 n n C16 H161 RET sing 405 n n C16 H162 RET sing 406 n n C16 H163 RET sing 407 n n C17 H171 RET sing 408 n n C17 H172 RET sing 409 n n C17 H173 RET sing 410 n n C18 H181 RET sing 411 n n C18 H182 RET sing 412 n n C18 H183 RET sing 413 n n C19 H191 RET sing 414 n n C19 H192 RET sing 415 n n C19 H193 RET sing 416 n n C20 H201 RET sing 417 n n C20 H202 RET sing 418 n n C20 H203 RET sing 419 n n # _atom_sites.entry_id 7E6X _atom_sites.fract_transf_matrix[1][1] 0.016181 _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] 0.007032 _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] 0.01056 _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 3 RET A 1 401 401 RET RET . D 4 OLC A 1 402 1 OLC OLC . E 4 OLC A 1 403 2 OLC OLC . F 4 OLC A 1 404 3 OLC OLC . G 4 OLC A 1 405 4 OLC OLC . H 4 OLC A 1 406 5 OLC OLC . I 4 OLC A 1 407 1 OLC OLC . J 4 OLC A 1 408 2 OLC OLC . K 4 OLC A 1 409 3 OLC OLC . L 4 OLC A 1 410 4 OLC OLC . M 5 HOH A 1 501 14 HOH HOH . M 5 HOH A 2 502 31 HOH HOH . M 5 HOH A 3 503 37 HOH HOH . M 5 HOH A 4 504 32 HOH HOH . M 5 HOH A 5 505 12 HOH HOH . M 5 HOH A 6 506 16 HOH HOH . M 5 HOH A 7 507 8 HOH HOH . M 5 HOH A 8 508 6 HOH HOH . M 5 HOH A 9 509 2 HOH HOH . M 5 HOH A 10 510 18 HOH HOH . M 5 HOH A 11 511 34 HOH HOH . M 5 HOH A 12 512 41 HOH HOH . M 5 HOH A 13 513 11 HOH HOH . M 5 HOH A 14 514 17 HOH HOH . M 5 HOH A 15 515 15 HOH HOH . M 5 HOH A 16 516 28 HOH HOH . M 5 HOH A 17 517 23 HOH HOH . M 5 HOH A 18 518 5 HOH HOH . M 5 HOH A 19 519 25 HOH HOH . M 5 HOH A 20 520 29 HOH HOH . M 5 HOH A 21 521 24 HOH HOH . M 5 HOH A 22 522 1 HOH HOH . M 5 HOH A 23 523 38 HOH HOH . M 5 HOH A 24 524 33 HOH HOH . M 5 HOH A 25 525 21 HOH HOH . M 5 HOH A 26 526 3 HOH HOH . M 5 HOH A 27 527 7 HOH HOH . M 5 HOH A 28 528 30 HOH HOH . M 5 HOH A 29 529 19 HOH HOH . M 5 HOH A 30 530 36 HOH HOH . M 5 HOH A 31 531 40 HOH HOH . M 5 HOH A 32 532 4 HOH HOH . M 5 HOH A 33 533 35 HOH HOH . M 5 HOH A 34 534 27 HOH HOH . M 5 HOH A 35 535 20 HOH HOH . M 5 HOH A 36 536 22 HOH HOH . M 5 HOH A 37 537 39 HOH HOH . M 5 HOH A 38 538 26 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 . . . C 3 -0.453 33.692 12.198 1 41.21 ? C1 RET 401 A 1 HETATM 2 C C2 RET . . . C 3 -1.806 32.985 12.076 1 44.42 ? C2 RET 401 A 1 HETATM 3 C C3 RET . . . C 3 -2.453 33.188 10.757 1 45.72 ? C3 RET 401 A 1 HETATM 4 C C4 RET . . . C 3 -2.609 34.674 10.467 1 43.36 ? C4 RET 401 A 1 HETATM 5 C C5 RET . . . C 3 -1.358 35.466 10.702 1 40 ? C5 RET 401 A 1 HETATM 6 C C6 RET . . . C 3 -0.349 35.057 11.5 1 44.68 ? C6 RET 401 A 1 HETATM 7 C C7 RET . . . C 3 0.832 35.943 11.64 1 44.42 ? C7 RET 401 A 1 HETATM 8 C C8 RET . . . C 3 1.988 35.731 12.379 1 49.48 ? C8 RET 401 A 1 HETATM 9 C C9 RET . . . C 3 3.057 36.611 12.494 1 50.51 ? C9 RET 401 A 1 HETATM 10 C C10 RET . . . C 3 4.249 36.438 13.241 1 53 ? C10 RET 401 A 1 HETATM 11 C C11 RET . . . C 3 5.344 37.305 13.358 1 57.93 ? C11 RET 401 A 1 HETATM 12 C C12 RET . . . C 3 6.55 37.219 14.069 1 58.13 ? C12 RET 401 A 1 HETATM 13 C C13 RET . . . C 3 7.617 38.146 14.097 1 66.55 ? C13 RET 401 A 1 HETATM 14 C C14 RET . . . C 3 8.829 38.1 14.795 1 55.33 ? C14 RET 401 A 1 HETATM 15 C C15 RET . . . C 3 9.231 37.128 15.649 1 56.97 ? C15 RET 401 A 1 HETATM 16 C C16 RET . . . C 3 -0.17 33.833 13.695 1 37.52 ? C16 RET 401 A 1 HETATM 17 C C17 RET . . . C 3 0.572 32.697 11.638 1 38.19 ? C17 RET 401 A 1 HETATM 18 C C18 RET . . . C 3 -1.376 36.771 9.971 1 40.97 ? C18 RET 401 A 1 HETATM 19 C C19 RET . . . C 3 2.91 37.839 11.722 1 57.39 ? C19 RET 401 A 1 HETATM 20 C C20 RET . . . C 3 7.429 39.396 13.307 1 80.63 ? C20 RET 401 A 1 # _model_server_stats.io_time_ms 19 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 23 _model_server_stats.query_time_ms 282 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 20 #