data_7VGT
#
_model_server_result.job_id            '_b5YaUbS-OxNYsSalEnMLQ' 
_model_server_result.datetime_utc      '2024-10-19 22:22:17' 
_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          7vgt 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"B","auth_seq_id":301}' 
#
_entry.id    7VGT 
#
_exptl.entry_id    7VGT 
_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          131.5 
_cell.angle_gamma         90 
_cell.entry_id            7VGT 
_cell.length_a            104.3 
_cell.length_b            51.1 
_cell.length_c            78.4 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 7VGT 
_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    monomeric 
_pdbx_struct_assembly.oligomeric_count      1 
_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 
#
_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             242 
_struct_conn.ptnr1_auth_asym_id             A 
_struct_conn.ptnr1_auth_comp_id             LYS 
_struct_conn.ptnr1_auth_seq_id              235 
_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                1.31 
_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 327 n n 
C1 C6 RET sing 328 n n 
C1 C16 RET sing 329 n n 
C1 C17 RET sing 330 n n 
C2 C3 RET sing 331 n n 
C2 H21 RET sing 332 n n 
C2 H22 RET sing 333 n n 
C3 C4 RET sing 334 n n 
C3 H31 RET sing 335 n n 
C3 H32 RET sing 336 n n 
C4 C5 RET sing 337 n n 
C4 H41 RET sing 338 n n 
C4 H42 RET sing 339 n n 
C5 C6 RET doub 340 n n 
C5 C18 RET sing 341 n n 
C6 C7 RET sing 342 n n 
C7 C8 RET doub 343 e n 
C7 H7 RET sing 344 n n 
C8 C9 RET sing 345 n n 
C8 H8 RET sing 346 n n 
C9 C10 RET doub 347 e n 
C9 C19 RET sing 348 n n 
C10 C11 RET sing 349 n n 
C10 H10 RET sing 350 n n 
C11 C12 RET doub 351 e n 
C11 H11 RET sing 352 n n 
C12 C13 RET sing 353 n n 
C12 H12 RET sing 354 n n 
C13 C14 RET doub 355 e n 
C13 C20 RET sing 356 n n 
C14 C15 RET sing 357 n n 
C14 H14 RET sing 358 n n 
C15 O1 RET doub 359 n n 
C15 H15 RET sing 360 n n 
C16 H161 RET sing 361 n n 
C16 H162 RET sing 362 n n 
C16 H163 RET sing 363 n n 
C17 H171 RET sing 364 n n 
C17 H172 RET sing 365 n n 
C17 H173 RET sing 366 n n 
C18 H181 RET sing 367 n n 
C18 H182 RET sing 368 n n 
C18 H183 RET sing 369 n n 
C19 H191 RET sing 370 n n 
C19 H192 RET sing 371 n n 
C19 H193 RET sing 372 n n 
C20 H201 RET sing 373 n n 
C20 H202 RET sing 374 n n 
C20 H203 RET sing 375 n n 
#
_atom_sites.entry_id                     7VGT 
_atom_sites.fract_transf_matrix[1][1]    0.009588 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.008483 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.019569 
_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]    0.017031 
_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 1 RET RET . 
C 3 HEX A 1 302 1 HEX HEX . 
D 3 HEX A 1 303 2 HEX HEX . 
E 3 HEX A 1 304 3 HEX HEX . 
F 3 HEX A 1 305 4 HEX HEX . 
G 4 D10 A 1 306 2 D10 D10 . 
H 4 D10 A 1 307 3 D10 D10 . 
I 4 D10 A 1 308 4 D10 D10 . 
J 5 BR A 1 309 1 BR BR . 
K 5 BR A 1 310 2 BR BR . 
L 5 BR A 1 311 3 BR BR . 
M 6 HOH A 1 401 552 HOH HOH . 
M 6 HOH A 2 402 404 HOH HOH . 
M 6 HOH A 3 403 524 HOH HOH . 
M 6 HOH A 4 404 507 HOH HOH . 
M 6 HOH A 5 405 401 HOH HOH . 
M 6 HOH A 6 406 411 HOH HOH . 
M 6 HOH A 7 407 405 HOH HOH . 
M 6 HOH A 8 408 410 HOH HOH . 
M 6 HOH A 9 409 417 HOH HOH . 
M 6 HOH A 10 410 435 HOH HOH . 
M 6 HOH A 11 411 408 HOH HOH . 
M 6 HOH A 12 412 504 HOH HOH . 
M 6 HOH A 13 413 402 HOH HOH . 
M 6 HOH A 14 414 406 HOH HOH . 
M 6 HOH A 15 415 447 HOH HOH . 
M 6 HOH A 16 416 528 HOH HOH . 
M 6 HOH A 17 417 512 HOH HOH . 
M 6 HOH A 18 418 420 HOH HOH . 
M 6 HOH A 19 419 501 HOH HOH . 
M 6 HOH A 20 420 514 HOH HOH . 
M 6 HOH A 21 421 439 HOH HOH . 
M 6 HOH A 22 422 503 HOH HOH . 
M 6 HOH A 23 423 407 HOH HOH . 
M 6 HOH A 24 424 429 HOH HOH . 
M 6 HOH A 25 425 461 HOH HOH . 
M 6 HOH A 26 426 523 HOH HOH . 
M 6 HOH A 27 427 434 HOH HOH . 
M 6 HOH A 28 428 508 HOH HOH . 
M 6 HOH A 29 429 454 HOH HOH . 
M 6 HOH A 30 430 511 HOH HOH . 
M 6 HOH A 31 431 544 HOH HOH . 
M 6 HOH A 32 432 462 HOH HOH . 
M 6 HOH A 33 433 467 HOH HOH . 
M 6 HOH A 34 434 502 HOH HOH . 
M 6 HOH A 35 435 422 HOH HOH . 
M 6 HOH A 36 436 513 HOH HOH . 
M 6 HOH A 37 437 526 HOH HOH . 
M 6 HOH A 38 438 510 HOH HOH . 
M 6 HOH A 39 439 403 HOH HOH . 
M 6 HOH A 40 440 424 HOH HOH . 
M 6 HOH A 41 441 442 HOH HOH . 
M 6 HOH A 42 442 509 HOH HOH . 
M 6 HOH A 43 443 438 HOH HOH . 
M 6 HOH A 44 444 433 HOH HOH . 
M 6 HOH A 45 445 455 HOH HOH . 
M 6 HOH A 46 446 421 HOH HOH . 
M 6 HOH A 47 447 458 HOH HOH . 
M 6 HOH A 48 448 425 HOH HOH . 
M 6 HOH A 49 449 412 HOH HOH . 
M 6 HOH A 50 450 457 HOH HOH . 
M 6 HOH A 51 451 517 HOH HOH . 
M 6 HOH A 52 452 515 HOH HOH . 
M 6 HOH A 53 453 436 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 -4.964 7.614 24.103 1 28.29 ? C1 RET 301 A 1 
HETATM 2 C C2 RET . . . B 2 -4.083 8.471 23.159 1 21.84 ? C2 RET 301 A 1 
HETATM 3 C C3 RET . . . B 2 -2.598 8.435 23.381 1 24.26 ? C3 RET 301 A 1 
HETATM 4 C C4 RET . . . B 2 -2.28 8.81 24.792 1 23.8 ? C4 RET 301 A 1 
HETATM 5 C C5 RET . . . B 2 -3.253 8.323 25.821 1 20.33 ? C5 RET 301 A 1 
HETATM 6 C C6 RET . . . B 2 -4.37 7.588 25.514 1 21.34 ? C6 RET 301 A 1 
HETATM 7 C C7 RET . . . B 2 -4.912 6.633 26.495 1 18.43 ? C7 RET 301 A 1 
HETATM 8 C C8 RET . . . B 2 -6.143 6.149 26.679 1 19.11 ? C8 RET 301 A 1 
HETATM 9 C C9 RET . . . B 2 -6.585 5.212 27.677 1 23.57 ? C9 RET 301 A 1 
HETATM 10 C C10 RET . . . B 2 -7.692 4.479 27.429 1 18.14 ? C10 RET 301 A 1 
HETATM 11 C C11 RET . . . B 2 -8.31 3.498 28.265 1 26.47 ? C11 RET 301 A 1 
HETATM 12 C C12 RET . . . B 2 -9.347 2.699 27.829 1 25.15 ? C12 RET 301 A 1 
HETATM 13 C C13 RET . . . B 2 -10.015 1.685 28.618 1 23.27 ? C13 RET 301 A 1 
HETATM 14 C C14 RET . . . B 2 -10.905 0.89 28.029 1 28.68 ? C14 RET 301 A 1 
HETATM 15 C C15 RET . . . B 2 -11.654 -0.171 28.65 1 25.95 ? C15 RET 301 A 1 
HETATM 16 C C16 RET . . . B 2 -6.379 8.211 24.106 1 24.75 ? C16 RET 301 A 1 
HETATM 17 C C17 RET . . . B 2 -4.968 6.183 23.513 1 21.22 ? C17 RET 301 A 1 
HETATM 18 C C18 RET . . . B 2 -2.593 8.375 27.203 1 18.58 ? C18 RET 301 A 1 
HETATM 19 C C19 RET . . . B 2 -5.798 5.108 28.948 1 21.66 ? C19 RET 301 A 1 
HETATM 20 C C20 RET . . . B 2 -9.655 1.584 30.07 1 19.93 ? C20 RET 301 A 1 
#
_model_server_stats.io_time_ms              7 
_model_server_stats.parse_time_ms           9 
_model_server_stats.create_model_time_ms    6 
_model_server_stats.query_time_ms           236 
_model_server_stats.encode_time_ms          1 
_model_server_stats.element_count           20 
#