data_7XJC # _model_server_result.job_id iJfpNx2upv1rsR3MMcXvjw _model_server_result.datetime_utc '2024-11-22 15:55:36' _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 7xjc # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":301}' # _entry.id 7XJC # _exptl.entry_id 7XJC _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 120 _cell.entry_id 7XJC _cell.length_a 60.57 _cell.length_b 60.57 _cell.length_c 110.89 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7XJC _symmetry.cell_setting ? _symmetry.Int_Tables_number 173 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 63' # _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,S,T,U _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3 # 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' 2_635 -y+1,x-y-2,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 121.14 -104.910317 0 3 'crystal symmetry operation' 3_865 -x+y+3,-x+1,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 151.425 52.455159 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 # 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 212 A LYS 216 1_555 B C15 RET . A RET 301 1_555 ? A ? ? A ? ? ? ? ? ? ? 1.352 ? covale ? covale2 A NZ LYS 212 A LYS 216 1_555 B C15 RET . A RET 301 1_555 ? C ? ? C ? ? ? ? ? ? ? 1.344 ? # _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 376 n n C1 C6 RET sing 377 n n C1 C16 RET sing 378 n n C1 C17 RET sing 379 n n C2 C3 RET sing 380 n n C2 H21 RET sing 381 n n C2 H22 RET sing 382 n n C3 C4 RET sing 383 n n C3 H31 RET sing 384 n n C3 H32 RET sing 385 n n C4 C5 RET sing 386 n n C4 H41 RET sing 387 n n C4 H42 RET sing 388 n n C5 C6 RET doub 389 n n C5 C18 RET sing 390 n n C6 C7 RET sing 391 n n C7 C8 RET doub 392 e n C7 H7 RET sing 393 n n C8 C9 RET sing 394 n n C8 H8 RET sing 395 n n C9 C10 RET doub 396 e n C9 C19 RET sing 397 n n C10 C11 RET sing 398 n n C10 H10 RET sing 399 n n C11 C12 RET doub 400 e n C11 H11 RET sing 401 n n C12 C13 RET sing 402 n n C12 H12 RET sing 403 n n C13 C14 RET doub 404 e n C13 C20 RET sing 405 n n C14 C15 RET sing 406 n n C14 H14 RET sing 407 n n C15 O1 RET doub 408 n n C15 H15 RET sing 409 n n C16 H161 RET sing 410 n n C16 H162 RET sing 411 n n C16 H163 RET sing 412 n n C17 H171 RET sing 413 n n C17 H172 RET sing 414 n n C17 H173 RET sing 415 n n C18 H181 RET sing 416 n n C18 H182 RET sing 417 n n C18 H183 RET sing 418 n n C19 H191 RET sing 419 n n C19 H192 RET sing 420 n n C19 H193 RET sing 421 n n C20 H201 RET sing 422 n n C20 H202 RET sing 423 n n C20 H203 RET sing 424 n n # _atom_sites.entry_id 7XJC _atom_sites.fract_transf_matrix[1][1] 0.01651 _atom_sites.fract_transf_matrix[1][2] 0.009532 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.019064 _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] 0.009018 _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 1 301 301 RET RET . C 3 L2P A 1 302 302 L2P L2P . D 3 L2P A 1 303 303 L2P L2P . E 3 L2P A 1 304 304 L2P L2P . F 3 L2P A 1 305 305 L2P L2P . G 3 L2P A 1 306 306 L2P L2P . H 4 SQU A 1 307 312 SQU SQU . I 3 L2P A 1 308 313 L2P L2P . J 3 L2P A 1 309 315 L2P L2P . K 3 L2P A 1 310 320 L2P L2P . L 3 L2P A 1 311 322 L2P L2P . M 3 L2P A 1 312 323 L2P L2P . N 3 L2P A 1 313 324 L2P L2P . O 3 L2P A 1 314 327 L2P L2P . P 3 L2P A 1 315 328 L2P L2P . Q 3 L2P A 1 316 333 L2P L2P . R 4 SQU A 1 317 341 SQU SQU . S 4 SQU A 1 318 342 SQU SQU . T 4 SQU A 1 319 343 SQU SQU . U 5 HOH A 1 401 457 HOH HOH . U 5 HOH A 2 402 455 HOH HOH . U 5 HOH A 3 403 554 HOH HOH . U 5 HOH A 4 404 532 HOH HOH . U 5 HOH A 5 405 541 HOH HOH . U 5 HOH A 6 406 540 HOH HOH . U 5 HOH A 7 407 402 HOH HOH . U 5 HOH A 8 408 416 HOH HOH . U 5 HOH A 9 409 401 HOH HOH . U 5 HOH A 10 410 548 HOH HOH . U 5 HOH A 11 411 538 HOH HOH . U 5 HOH A 12 412 406 HOH HOH . U 5 HOH A 13 413 513 HOH HOH . U 5 HOH A 14 414 456 HOH HOH . U 5 HOH A 15 415 537 HOH HOH . U 5 HOH A 16 416 451 HOH HOH . U 5 HOH A 17 417 534 HOH HOH . U 5 HOH A 18 418 405 HOH HOH . U 5 HOH A 19 419 454 HOH HOH . U 5 HOH A 20 420 536 HOH HOH . U 5 HOH A 21 421 556 HOH HOH . U 5 HOH A 22 422 551 HOH HOH . U 5 HOH A 23 423 458 HOH HOH . U 5 HOH A 24 424 549 HOH HOH . U 5 HOH A 25 425 403 HOH HOH . U 5 HOH A 26 426 407 HOH HOH . U 5 HOH A 27 427 411 HOH HOH . U 5 HOH A 28 428 512 HOH HOH . U 5 HOH A 29 429 450 HOH HOH . U 5 HOH A 30 430 419 HOH HOH . U 5 HOH A 31 431 546 HOH HOH . U 5 HOH A 32 432 511 HOH HOH . U 5 HOH A 33 433 415 HOH HOH . U 5 HOH A 34 434 542 HOH HOH . U 5 HOH A 35 435 460 HOH HOH . U 5 HOH A 36 436 502 HOH HOH . U 5 HOH A 37 437 420 HOH HOH . U 5 HOH A 38 438 514 HOH HOH . U 5 HOH A 39 439 404 HOH HOH . U 5 HOH A 40 440 501 HOH HOH . U 5 HOH A 41 441 539 HOH HOH . U 5 HOH A 42 442 531 HOH HOH . U 5 HOH A 43 443 545 HOH HOH . U 5 HOH A 44 444 535 HOH HOH . U 5 HOH A 45 445 530 HOH HOH . U 5 HOH A 46 446 547 HOH HOH . U 5 HOH A 47 447 550 HOH HOH . U 5 HOH A 48 448 552 HOH HOH . U 5 HOH A 49 449 553 HOH HOH . U 5 HOH A 50 450 544 HOH HOH . U 5 HOH A 51 451 533 HOH HOH . U 5 HOH A 52 452 453 HOH HOH . U 5 HOH A 53 453 557 HOH HOH . U 5 HOH A 54 454 412 HOH HOH . U 5 HOH A 55 455 555 HOH HOH . U 5 HOH A 56 456 543 HOH HOH . U 5 HOH A 57 457 459 HOH HOH . U 5 HOH A 58 458 558 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 . A . B 2 75.938 -7.335 -21.154 0.81 16.21 ? C1 RET 301 A 1 HETATM 2 C C1 RET . C . B 2 76.126 -7.493 -21.198 0.19 15.59 ? C1 RET 301 A 1 HETATM 3 C C2 RET . A . B 2 76.032 -6.355 -19.957 0.81 17.77 ? C2 RET 301 A 1 HETATM 4 C C2 RET . C . B 2 76.151 -6.618 -19.939 0.19 18.39 ? C2 RET 301 A 1 HETATM 5 C C3 RET . A . B 2 76.876 -5.139 -20.249 0.81 17.07 ? C3 RET 301 A 1 HETATM 6 C C3 RET . C . B 2 76.829 -5.308 -20.291 0.19 17.83 ? C3 RET 301 A 1 HETATM 7 C C4 RET . A . B 2 76.257 -4.335 -21.365 0.81 15.83 ? C4 RET 301 A 1 HETATM 8 C C4 RET . C . B 2 76.285 -4.481 -21.438 0.19 15.61 ? C4 RET 301 A 1 HETATM 9 C C5 RET . A . B 2 75.845 -5.22 -22.51 0.81 14.14 ? C5 RET 301 A 1 HETATM 10 C C5 RET . C . B 2 75.952 -5.369 -22.609 0.19 15.52 ? C5 RET 301 A 1 HETATM 11 C C6 RET . A . B 2 75.771 -6.596 -22.481 0.81 15.11 ? C6 RET 301 A 1 HETATM 12 C C6 RET . C . B 2 75.829 -6.741 -22.48 0.19 14.98 ? C6 RET 301 A 1 HETATM 13 C C7 RET . A . B 2 75.37 -7.288 -23.694 0.81 15.44 ? C7 RET 301 A 1 HETATM 14 C C7 RET . C . B 2 75.484 -7.399 -23.734 0.19 14.16 ? C7 RET 301 A 1 HETATM 15 C C8 RET . A . B 2 75.253 -8.64 -23.93 0.81 14.42 ? C8 RET 301 A 1 HETATM 16 C C8 RET . C . B 2 75.43 -8.757 -23.899 0.19 13.9 ? C8 RET 301 A 1 HETATM 17 C C9 RET . A . B 2 74.666 -9.281 -25.1 0.81 14.29 ? C9 RET 301 A 1 HETATM 18 C C9 RET . C . B 2 74.881 -9.323 -25.123 0.19 15.56 ? C9 RET 301 A 1 HETATM 19 C C10 RET . A . B 2 74.577 -10.641 -24.954 0.81 15.33 ? C10 RET 301 A 1 HETATM 20 C C10 RET . C . B 2 74.856 -10.692 -25.12 0.19 15.75 ? C10 RET 301 A 1 HETATM 21 C C11 RET . A . B 2 73.937 -11.406 -26.022 0.81 15.4 ? C11 RET 301 A 1 HETATM 22 C C11 RET . C . B 2 74.013 -11.394 -26.083 0.19 16.03 ? C11 RET 301 A 1 HETATM 23 C C12 RET . A . B 2 73.807 -12.773 -25.79 0.81 16.76 ? C12 RET 301 A 1 HETATM 24 C C12 RET . C . B 2 73.633 -12.723 -26.074 0.19 16.95 ? C12 RET 301 A 1 HETATM 25 C C13 RET . A . B 2 73.409 -13.809 -26.726 0.81 16.13 ? C13 RET 301 A 1 HETATM 26 C C13 RET . C . B 2 72.689 -13.441 -26.893 0.19 15.67 ? C13 RET 301 A 1 HETATM 27 C C14 RET . A . B 2 73.438 -15.068 -26.142 0.81 16.41 ? C14 RET 301 A 1 HETATM 28 C C14 RET . C . B 2 72.523 -14.82 -26.92 0.19 13.74 ? C14 RET 301 A 1 HETATM 29 C C15 RET . A . B 2 73.604 -16.17 -27.022 0.81 15.76 ? C15 RET 301 A 1 HETATM 30 C C15 RET . C . B 2 73.594 -15.789 -26.822 0.19 15.14 ? C15 RET 301 A 1 HETATM 31 C C16 RET . A . B 2 77.224 -8.137 -21.341 0.81 17.26 ? C16 RET 301 A 1 HETATM 32 C C16 RET . C . B 2 77.368 -8.377 -21.162 0.19 16.52 ? C16 RET 301 A 1 HETATM 33 C C17 RET . A . B 2 74.704 -8.167 -20.736 0.81 16.62 ? C17 RET 301 A 1 HETATM 34 C C17 RET . C . B 2 74.961 -8.405 -20.83 0.19 14.63 ? C17 RET 301 A 1 HETATM 35 C C18 RET . A . B 2 75.761 -4.387 -23.779 0.81 15.75 ? C18 RET 301 A 1 HETATM 36 C C18 RET . C . B 2 75.762 -4.596 -23.899 0.19 16.68 ? C18 RET 301 A 1 HETATM 37 C C19 RET . A . B 2 74.337 -8.449 -26.28 0.81 15.8 ? C19 RET 301 A 1 HETATM 38 C C19 RET . C . B 2 74.437 -8.595 -26.306 0.19 19.01 ? C19 RET 301 A 1 HETATM 39 C C20 RET . A . B 2 73.004 -13.366 -28.074 0.81 16.11 ? C20 RET 301 A 1 HETATM 40 C C20 RET . C . B 2 71.841 -12.65 -27.77 0.19 11.64 ? C20 RET 301 A 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 287 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 40 #