data_4Y9H
#
_model_server_result.job_id            1cENnM7OmDgtoxAaSwgUkA 
_model_server_result.datetime_utc      '2024-11-26 20:07:15' 
_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          4y9h 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"B","auth_seq_id":301}' 
#
_entry.id    4Y9H 
#
_exptl.entry_id    4Y9H 
_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            4Y9H 
_cell.length_a            45.215 
_cell.length_b            102.794 
_cell.length_c            128.337 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 4Y9H 
_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 
#
_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 414 n n 
C1 C6 RET sing 415 n n 
C1 C16 RET sing 416 n n 
C1 C17 RET sing 417 n n 
C2 C3 RET sing 418 n n 
C2 H21 RET sing 419 n n 
C2 H22 RET sing 420 n n 
C3 C4 RET sing 421 n n 
C3 H31 RET sing 422 n n 
C3 H32 RET sing 423 n n 
C4 C5 RET sing 424 n n 
C4 H41 RET sing 425 n n 
C4 H42 RET sing 426 n n 
C5 C6 RET doub 427 n n 
C5 C18 RET sing 428 n n 
C6 C7 RET sing 429 n n 
C7 C8 RET doub 430 e n 
C7 H7 RET sing 431 n n 
C8 C9 RET sing 432 n n 
C8 H8 RET sing 433 n n 
C9 C10 RET doub 434 e n 
C9 C19 RET sing 435 n n 
C10 C11 RET sing 436 n n 
C10 H10 RET sing 437 n n 
C11 C12 RET doub 438 e n 
C11 H11 RET sing 439 n n 
C12 C13 RET sing 440 n n 
C12 H12 RET sing 441 n n 
C13 C14 RET doub 442 e n 
C13 C20 RET sing 443 n n 
C14 C15 RET sing 444 n n 
C14 H14 RET sing 445 n n 
C15 O1 RET doub 446 n n 
C15 H15 RET sing 447 n n 
C16 H161 RET sing 448 n n 
C16 H162 RET sing 449 n n 
C16 H163 RET sing 450 n n 
C17 H171 RET sing 451 n n 
C17 H172 RET sing 452 n n 
C17 H173 RET sing 453 n n 
C18 H181 RET sing 454 n n 
C18 H182 RET sing 455 n n 
C18 H183 RET sing 456 n n 
C19 H191 RET sing 457 n n 
C19 H192 RET sing 458 n n 
C19 H193 RET sing 459 n n 
C20 H201 RET sing 460 n n 
C20 H202 RET sing 461 n n 
C20 H203 RET sing 462 n n 
#
_atom_sites.entry_id                     4Y9H 
_atom_sites.fract_transf_matrix[1][1]    0.022117 
_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]    0.009728 
_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]    0.007792 
_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 PO4 A 1 302 310 PO4 PO4 . 
D 4 HP6 A 1 303 401 HP6 HP6 . 
E 5 D12 A 1 304 402 D12 D12 . 
F 5 D12 A 1 305 403 D12 D12 . 
G 5 D12 A 1 306 405 D12 D12 . 
H 6 D10 A 1 307 406 D10 D10 . 
I 6 D10 A 1 308 409 D10 D10 . 
J 7 R16 A 1 309 411 R16 R16 . 
K 6 D10 A 1 310 450 D10 D10 . 
L 5 D12 A 1 311 451 D12 D12 . 
M 5 D12 A 1 312 452 D12 D12 . 
N 8 DD9 A 1 313 453 DD9 DD9 . 
O 5 D12 A 1 314 454 D12 D12 . 
P 5 D12 A 1 315 455 D12 D12 . 
Q 5 D12 A 1 316 456 D12 D12 . 
R 6 D10 A 1 317 457 D10 D10 . 
S 9 HOH A 1 401 1425 HOH HOH . 
S 9 HOH A 2 402 1394 HOH HOH . 
S 9 HOH A 3 403 1280 HOH HOH . 
S 9 HOH A 4 404 1260 HOH HOH . 
S 9 HOH A 5 405 1323 HOH HOH . 
S 9 HOH A 6 406 1435 HOH HOH . 
S 9 HOH A 7 407 1286 HOH HOH . 
S 9 HOH A 8 408 1265 HOH HOH . 
S 9 HOH A 9 409 1263 HOH HOH . 
S 9 HOH A 10 410 1266 HOH HOH . 
S 9 HOH A 11 411 1292 HOH HOH . 
S 9 HOH A 12 412 1287 HOH HOH . 
S 9 HOH A 13 413 1262 HOH HOH . 
S 9 HOH A 14 414 1264 HOH HOH . 
S 9 HOH A 15 415 1309 HOH HOH . 
S 9 HOH A 16 416 1270 HOH HOH . 
S 9 HOH A 17 417 1290 HOH HOH . 
S 9 HOH A 18 418 1293 HOH HOH . 
S 9 HOH A 19 419 1299 HOH HOH . 
S 9 HOH A 20 420 1258 HOH HOH . 
S 9 HOH A 21 421 1272 HOH HOH . 
S 9 HOH A 22 422 1307 HOH HOH . 
S 9 HOH A 23 423 1414 HOH HOH . 
S 9 HOH A 24 424 1304 HOH HOH . 
S 9 HOH A 25 425 1418 HOH HOH . 
S 9 HOH A 26 426 1333 HOH HOH . 
S 9 HOH A 27 427 1289 HOH HOH . 
S 9 HOH A 28 428 1303 HOH HOH . 
S 9 HOH A 29 429 1273 HOH HOH . 
S 9 HOH A 30 430 1276 HOH HOH . 
S 9 HOH A 31 431 1321 HOH HOH . 
S 9 HOH A 32 432 1361 HOH HOH . 
S 9 HOH A 33 433 1440 HOH HOH . 
S 9 HOH A 34 434 1296 HOH HOH . 
S 9 HOH A 35 435 1277 HOH HOH . 
S 9 HOH A 36 436 1261 HOH HOH . 
S 9 HOH A 37 437 1426 HOH HOH . 
S 9 HOH A 38 438 1297 HOH HOH . 
S 9 HOH A 39 439 1338 HOH HOH . 
S 9 HOH A 40 440 1268 HOH HOH . 
S 9 HOH A 41 441 1283 HOH HOH . 
S 9 HOH A 42 442 1291 HOH HOH . 
S 9 HOH A 43 443 1349 HOH HOH . 
S 9 HOH A 44 444 1271 HOH HOH . 
S 9 HOH A 45 445 1430 HOH HOH . 
S 9 HOH A 46 446 1324 HOH HOH . 
S 9 HOH A 47 447 1441 HOH HOH . 
S 9 HOH A 48 448 1314 HOH HOH . 
S 9 HOH A 49 449 1381 HOH HOH . 
S 9 HOH A 50 450 1279 HOH HOH . 
S 9 HOH A 51 451 1285 HOH HOH . 
S 9 HOH A 52 452 1306 HOH HOH . 
S 9 HOH A 53 453 1313 HOH HOH . 
S 9 HOH A 54 454 1288 HOH HOH . 
S 9 HOH A 55 455 1259 HOH HOH . 
S 9 HOH A 56 456 1416 HOH HOH . 
S 9 HOH A 57 457 1346 HOH HOH . 
S 9 HOH A 58 458 1284 HOH HOH . 
S 9 HOH A 59 459 1274 HOH HOH . 
S 9 HOH A 60 460 1424 HOH HOH . 
S 9 HOH A 61 461 1344 HOH HOH . 
S 9 HOH A 62 462 1275 HOH HOH . 
S 9 HOH A 63 463 1325 HOH HOH . 
S 9 HOH A 64 464 1320 HOH HOH . 
S 9 HOH A 65 465 1331 HOH HOH . 
S 9 HOH A 66 466 1362 HOH HOH . 
S 9 HOH A 67 467 1308 HOH HOH . 
S 9 HOH A 68 468 1352 HOH HOH . 
S 9 HOH A 69 469 1300 HOH HOH . 
S 9 HOH A 70 470 1322 HOH HOH . 
S 9 HOH A 71 471 1373 HOH HOH . 
S 9 HOH A 72 472 1334 HOH HOH . 
S 9 HOH A 73 473 1433 HOH HOH . 
S 9 HOH A 74 474 1421 HOH HOH . 
S 9 HOH A 75 475 1438 HOH HOH . 
S 9 HOH A 76 476 1360 HOH HOH . 
S 9 HOH A 77 477 1311 HOH HOH . 
S 9 HOH A 78 478 1342 HOH HOH . 
S 9 HOH A 79 479 1327 HOH HOH . 
S 9 HOH A 80 480 1332 HOH HOH . 
S 9 HOH A 81 481 1413 HOH HOH . 
S 9 HOH A 82 482 1431 HOH HOH . 
S 9 HOH A 83 483 1427 HOH HOH . 
S 9 HOH A 84 484 1336 HOH HOH . 
S 9 HOH A 85 485 1407 HOH HOH . 
S 9 HOH A 86 486 1429 HOH HOH . 
S 9 HOH A 87 487 1422 HOH HOH . 
S 9 HOH A 88 488 1335 HOH HOH . 
S 9 HOH A 89 489 1388 HOH HOH . 
S 9 HOH A 90 490 1432 HOH HOH . 
S 9 HOH A 91 491 1423 HOH HOH . 
S 9 HOH A 92 492 1404 HOH HOH . 
S 9 HOH A 93 493 1439 HOH HOH . 
S 9 HOH A 94 494 1399 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 26.28 10.416 -3.037 1 15.89 ? C1 RET 301 A 1 
HETATM 2 C C2 RET . . . B 2 27.079 9.975 -4.185 1 21.35 ? C2 RET 301 A 1 
HETATM 3 C C3 RET . . . B 2 27.563 8.626 -4.307 1 16.4 ? C3 RET 301 A 1 
HETATM 4 C C4 RET . . . B 2 28.089 7.973 -3.008 1 14.36 ? C4 RET 301 A 1 
HETATM 5 C C5 RET . . . B 2 27.508 8.598 -1.76 1 12.52 ? C5 RET 301 A 1 
HETATM 6 C C6 RET . . . B 2 26.641 9.622 -1.758 1 13.65 ? C6 RET 301 A 1 
HETATM 7 C C7 RET . . . B 2 25.983 10.011 -0.512 1 13.53 ? C7 RET 301 A 1 
HETATM 8 C C8 RET . . . B 2 25.069 10.936 -0.324 1 13.39 ? C8 RET 301 A 1 
HETATM 9 C C9 RET . . . B 2 24.442 11.247 0.936 1 13.08 ? C9 RET 301 A 1 
HETATM 10 C C10 RET . . . B 2 23.458 12.183 0.93 1 12.61 ? C10 RET 301 A 1 
HETATM 11 C C11 RET . . . B 2 22.712 12.581 2.075 1 14.51 ? C11 RET 301 A 1 
HETATM 12 C C12 RET . . . B 2 21.786 13.525 1.853 1 14.79 ? C12 RET 301 A 1 
HETATM 13 C C13 RET . . . B 2 21.015 14.116 2.839 1 16.68 ? C13 RET 301 A 1 
HETATM 14 C C14 RET . . . B 2 20.268 15.078 2.288 1 22.94 ? C14 RET 301 A 1 
HETATM 15 C C15 RET . . . B 2 19.557 15.896 3.06 1 22.84 ? C15 RET 301 A 1 
HETATM 16 C C16 RET . . . B 2 26.697 11.868 -2.925 1 16.44 ? C16 RET 301 A 1 
HETATM 17 C C17 RET . . . B 2 24.772 10.252 -3.385 1 16.04 ? C17 RET 301 A 1 
HETATM 18 C C18 RET . . . B 2 27.939 7.938 -0.499 1 12.89 ? C18 RET 301 A 1 
HETATM 19 C C19 RET . . . B 2 24.722 10.482 2.186 1 13.66 ? C19 RET 301 A 1 
HETATM 20 C C20 RET . . . B 2 21.024 13.716 4.267 1 16.95 ? C20 RET 301 A 1 
#
_model_server_stats.io_time_ms              16 
_model_server_stats.parse_time_ms           15 
_model_server_stats.create_model_time_ms    11 
_model_server_stats.query_time_ms           1347 
_model_server_stats.encode_time_ms          51 
_model_server_stats.element_count           20 
#