data_6XL3
#
_model_server_result.job_id            uHARrirn_KxgGESv15wMCA 
_model_server_result.datetime_utc      '2024-11-27 12:00:52' 
_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          6xl3 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":301}' 
#
_entry.id    6XL3 
#
_exptl.entry_id    6XL3 
_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    2 
_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            6XL3 
_cell.length_a            108.911 
_cell.length_b            108.911 
_cell.length_c            116.074 
_cell.Z_PDB               12 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6XL3 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        150 
_symmetry.space_group_name_Hall    'P 3 2"' 
_symmetry.space_group_name_H-M     'P 3 2 1' 
#
loop_
_pdbx_struct_assembly.method_details
_pdbx_struct_assembly.oligomeric_details
_pdbx_struct_assembly.oligomeric_count
_pdbx_struct_assembly.details
_pdbx_struct_assembly.id
PISA trimeric 3 author_and_software_defined_assembly 1 
PISA trimeric 3 author_and_software_defined_assembly 2 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,C,D,E,F,G,H,L 1 1,2,3 
B,I,J,K,M 2 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_545 -y,x-y-1,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 54.4555 -94.319693 0 
3 'crystal symmetry operation' 3_655 -x+y+1,-x,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 108.911 0 0 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 2 C N N 
? 2 I N 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 204 A LYS 204 1_555 C C15 RET . A RET 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.282 ? 
covale ? covale2 B NZ LYS 204 B LYS 204 1_555 I C15 RET . B RET 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.537 ? 
#
_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 399 n n 
C1 C6 RET sing 400 n n 
C1 C16 RET sing 401 n n 
C1 C17 RET sing 402 n n 
C2 C3 RET sing 403 n n 
C2 H21 RET sing 404 n n 
C2 H22 RET sing 405 n n 
C3 C4 RET sing 406 n n 
C3 H31 RET sing 407 n n 
C3 H32 RET sing 408 n n 
C4 C5 RET sing 409 n n 
C4 H41 RET sing 410 n n 
C4 H42 RET sing 411 n n 
C5 C6 RET doub 412 n n 
C5 C18 RET sing 413 n n 
C6 C7 RET sing 414 n n 
C7 C8 RET doub 415 e n 
C7 H7 RET sing 416 n n 
C8 C9 RET sing 417 n n 
C8 H8 RET sing 418 n n 
C9 C10 RET doub 419 e n 
C9 C19 RET sing 420 n n 
C10 C11 RET sing 421 n n 
C10 H10 RET sing 422 n n 
C11 C12 RET doub 423 e n 
C11 H11 RET sing 424 n n 
C12 C13 RET sing 425 n n 
C12 H12 RET sing 426 n n 
C13 C14 RET doub 427 e n 
C13 C20 RET sing 428 n n 
C14 C15 RET sing 429 n n 
C14 H14 RET sing 430 n n 
C15 O1 RET doub 431 n n 
C15 H15 RET sing 432 n n 
C16 H161 RET sing 433 n n 
C16 H162 RET sing 434 n n 
C16 H163 RET sing 435 n n 
C17 H171 RET sing 436 n n 
C17 H172 RET sing 437 n n 
C17 H173 RET sing 438 n n 
C18 H181 RET sing 439 n n 
C18 H182 RET sing 440 n n 
C18 H183 RET sing 441 n n 
C19 H191 RET sing 442 n n 
C19 H192 RET sing 443 n n 
C19 H193 RET sing 444 n n 
C20 H201 RET sing 445 n n 
C20 H202 RET sing 446 n n 
C20 H203 RET sing 447 n n 
#
_atom_sites.entry_id                     6XL3 
_atom_sites.fract_transf_matrix[1][1]    0.009182 
_atom_sites.fract_transf_matrix[1][2]    0.005301 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.010602 
_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]    0.008615 
_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 2 RET A 1 301 1 RET RET . 
D 3 CL A 1 302 1 CL CL . 
E 3 CL A 1 303 3 CL CL . 
F 4 C14 A 1 304 1 C14 C14 . 
G 4 C14 A 1 305 2 C14 C14 . 
H 5 BOG A 1 306 1 BOG BOG . 
I 2 RET B 1 301 2 RET RET . 
J 3 CL B 1 302 2 CL CL . 
K 6 D10 B 1 303 1 D10 D10 . 
L 7 HOH A 1 401 125 HOH HOH . 
L 7 HOH A 2 402 123 HOH HOH . 
L 7 HOH A 3 403 19 HOH HOH . 
L 7 HOH A 4 404 43 HOH HOH . 
L 7 HOH A 5 405 124 HOH HOH . 
L 7 HOH A 6 406 28 HOH HOH . 
L 7 HOH A 7 407 7 HOH HOH . 
L 7 HOH A 8 408 4 HOH HOH . 
L 7 HOH A 9 409 42 HOH HOH . 
L 7 HOH A 10 410 5 HOH HOH . 
L 7 HOH A 11 411 27 HOH HOH . 
L 7 HOH A 12 412 39 HOH HOH . 
L 7 HOH A 13 413 58 HOH HOH . 
L 7 HOH A 14 414 126 HOH HOH . 
L 7 HOH A 15 415 45 HOH HOH . 
L 7 HOH A 16 416 121 HOH HOH . 
L 7 HOH A 17 417 20 HOH HOH . 
L 7 HOH A 18 418 18 HOH HOH . 
L 7 HOH A 19 419 24 HOH HOH . 
L 7 HOH A 20 420 117 HOH HOH . 
L 7 HOH A 21 421 122 HOH HOH . 
L 7 HOH A 22 422 8 HOH HOH . 
L 7 HOH A 23 423 127 HOH HOH . 
M 7 HOH B 1 401 119 HOH HOH . 
M 7 HOH B 2 402 22 HOH HOH . 
M 7 HOH B 3 403 48 HOH HOH . 
M 7 HOH B 4 404 3 HOH HOH . 
M 7 HOH B 5 405 98 HOH HOH . 
M 7 HOH B 6 406 25 HOH HOH . 
M 7 HOH B 7 407 101 HOH HOH . 
M 7 HOH B 8 408 63 HOH HOH . 
M 7 HOH B 9 409 26 HOH HOH . 
M 7 HOH B 10 410 23 HOH HOH . 
M 7 HOH B 11 411 103 HOH HOH . 
M 7 HOH B 12 412 65 HOH HOH . 
M 7 HOH B 13 413 9 HOH HOH . 
M 7 HOH B 14 414 40 HOH HOH . 
M 7 HOH B 15 415 6 HOH HOH . 
M 7 HOH B 16 416 77 HOH HOH . 
M 7 HOH B 17 417 56 HOH HOH . 
M 7 HOH B 18 418 31 HOH HOH . 
M 7 HOH B 19 419 34 HOH HOH . 
M 7 HOH B 20 420 32 HOH HOH . 
M 7 HOH B 21 421 102 HOH HOH . 
M 7 HOH B 22 422 46 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 2 39.489 -19.809 18.204 1 36.99 ? C1 RET 301 A 1 
HETATM 2 C C2 RET . . . C 2 38.525 -20.276 17.097 1 35.38 ? C2 RET 301 A 1 
HETATM 3 C C3 RET . . . C 2 37.701 -21.504 17.46 1 36.44 ? C3 RET 301 A 1 
HETATM 4 C C4 RET . . . C 2 36.941 -21.318 18.765 1 36.01 ? C4 RET 301 A 1 
HETATM 5 C C5 RET . . . C 2 37.695 -20.554 19.827 1 35.1 ? C5 RET 301 A 1 
HETATM 6 C C6 RET . . . C 2 38.854 -19.915 19.599 1 34.14 ? C6 RET 301 A 1 
HETATM 7 C C7 RET . . . C 2 39.496 -19.183 20.675 1 34.04 ? C7 RET 301 A 1 
HETATM 8 C C8 RET . . . C 2 40.779 -18.975 20.951 1 31.21 ? C8 RET 301 A 1 
HETATM 9 C C9 RET . . . C 2 41.314 -18.24 22.073 1 36.32 ? C9 RET 301 A 1 
HETATM 10 C C10 RET . . . C 2 42.559 -17.724 21.971 1 32.54 ? C10 RET 301 A 1 
HETATM 11 C C11 RET . . . C 2 43.295 -16.986 22.954 1 34.68 ? C11 RET 301 A 1 
HETATM 12 C C12 RET . . . C 2 44.536 -16.55 22.731 1 30.59 ? C12 RET 301 A 1 
HETATM 13 C C13 RET . . . C 2 45.384 -15.849 23.664 1 36.92 ? C13 RET 301 A 1 
HETATM 14 C C14 RET . . . C 2 46.677 -15.638 23.337 1 32.95 ? C14 RET 301 A 1 
HETATM 15 C C15 RET . . . C 2 47.687 -14.997 24.131 1 32.91 ? C15 RET 301 A 1 
HETATM 16 C C16 RET . . . C 2 40.752 -20.677 18.141 1 33.65 ? C16 RET 301 A 1 
HETATM 17 C C17 RET . . . C 2 39.867 -18.358 17.88 1 35.27 ? C17 RET 301 A 1 
HETATM 18 C C18 RET . . . C 2 37.002 -20.573 21.16 1 36.74 ? C18 RET 301 A 1 
HETATM 19 C C19 RET . . . C 2 40.444 -18.077 23.292 1 35.57 ? C19 RET 301 A 1 
HETATM 20 C C20 RET . . . C 2 44.795 -15.448 24.988 1 30.58 ? C20 RET 301 A 1 
#
_model_server_stats.io_time_ms              11 
_model_server_stats.parse_time_ms           10 
_model_server_stats.create_model_time_ms    4 
_model_server_stats.query_time_ms           274 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           20 
#