data_5KKH
#
_model_server_result.job_id            tC38ahgjgWE5YSt04aUEXA 
_model_server_result.datetime_utc      '2024-11-02 03:34:08' 
_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          5kkh 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"G","auth_seq_id":304}' 
#
_entry.id    5KKH 
#
_exptl.entry_id    5KKH 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              284.436 
_entity.id                          4 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            RETINAL 
_entity.pdbx_number_of_molecules    3 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90 
_cell.angle_beta          116.26 
_cell.angle_gamma         90 
_cell.entry_id            5KKH 
_cell.length_a            106.11 
_cell.length_b            61.27 
_cell.length_c            119.03 
_cell.Z_PDB               12 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5KKH 
_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    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 
_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 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 4 G N N 
? 4 K N N 
? 4 O 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 224 A LYS 224 1_555 G C15 RET . A RET 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.338 ? 
covale ? covale2 B NZ LYS 224 B LYS 224 1_555 K C15 RET . B RET 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.306 ? 
covale ? covale3 C NZ LYS 224 C LYS 224 1_555 O C15 RET . C RET 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.289 ? 
#
_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 392 n n 
C1 C6 RET sing 393 n n 
C1 C16 RET sing 394 n n 
C1 C17 RET sing 395 n n 
C2 C3 RET sing 396 n n 
C2 H21 RET sing 397 n n 
C2 H22 RET sing 398 n n 
C3 C4 RET sing 399 n n 
C3 H31 RET sing 400 n n 
C3 H32 RET sing 401 n n 
C4 C5 RET sing 402 n n 
C4 H41 RET sing 403 n n 
C4 H42 RET sing 404 n n 
C5 C6 RET doub 405 n n 
C5 C18 RET sing 406 n n 
C6 C7 RET sing 407 n n 
C7 C8 RET doub 408 e n 
C7 H7 RET sing 409 n n 
C8 C9 RET sing 410 n n 
C8 H8 RET sing 411 n n 
C9 C10 RET doub 412 e n 
C9 C19 RET sing 413 n n 
C10 C11 RET sing 414 n n 
C10 H10 RET sing 415 n n 
C11 C12 RET doub 416 e n 
C11 H11 RET sing 417 n n 
C12 C13 RET sing 418 n n 
C12 H12 RET sing 419 n n 
C13 C14 RET doub 420 e n 
C13 C20 RET sing 421 n n 
C14 C15 RET sing 422 n n 
C14 H14 RET sing 423 n n 
C15 O1 RET doub 424 n n 
C15 H15 RET sing 425 n n 
C16 H161 RET sing 426 n n 
C16 H162 RET sing 427 n n 
C16 H163 RET sing 428 n n 
C17 H171 RET sing 429 n n 
C17 H172 RET sing 430 n n 
C17 H173 RET sing 431 n n 
C18 H181 RET sing 432 n n 
C18 H182 RET sing 433 n n 
C18 H183 RET sing 434 n n 
C19 H191 RET sing 435 n n 
C19 H192 RET sing 436 n n 
C19 H193 RET sing 437 n n 
C20 H201 RET sing 438 n n 
C20 H202 RET sing 439 n n 
C20 H203 RET sing 440 n n 
#
_atom_sites.entry_id                     5KKH 
_atom_sites.fract_transf_matrix[1][1]    0.009424 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.00465 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.016321 
_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]    0.009368 
_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
D 2 OLC A 1 301 3 OLC OLC . 
E 3 OLB A 1 302 5 OLB OLB . 
F 2 OLC A 1 303 7 OLC OLC . 
G 4 RET A 1 304 301 RET RET . 
H 2 OLC B 1 301 4 OLC OLC . 
I 2 OLC B 1 302 6 OLC OLC . 
J 3 OLB B 1 303 9 OLB OLB . 
K 4 RET B 1 304 303 RET RET . 
L 2 OLC C 1 301 1 OLC OLC . 
M 2 OLC C 1 302 2 OLC OLC . 
N 3 OLB C 1 303 8 OLB OLB . 
O 4 RET C 1 304 302 RET RET . 
P 5 HOH A 1 401 19 HOH HOH . 
P 5 HOH A 2 402 69 HOH HOH . 
P 5 HOH A 3 403 67 HOH HOH . 
P 5 HOH A 4 404 43 HOH HOH . 
P 5 HOH A 5 405 4 HOH HOH . 
P 5 HOH A 6 406 75 HOH HOH . 
P 5 HOH A 7 407 50 HOH HOH . 
P 5 HOH A 8 408 18 HOH HOH . 
P 5 HOH A 9 409 1 HOH HOH . 
P 5 HOH A 10 410 47 HOH HOH . 
P 5 HOH A 11 411 87 HOH HOH . 
P 5 HOH A 12 412 49 HOH HOH . 
P 5 HOH A 13 413 36 HOH HOH . 
P 5 HOH A 14 414 22 HOH HOH . 
P 5 HOH A 15 415 5 HOH HOH . 
P 5 HOH A 16 416 59 HOH HOH . 
P 5 HOH A 17 417 14 HOH HOH . 
P 5 HOH A 18 418 70 HOH HOH . 
P 5 HOH A 19 419 21 HOH HOH . 
P 5 HOH A 20 420 76 HOH HOH . 
P 5 HOH A 21 421 63 HOH HOH . 
P 5 HOH A 22 422 80 HOH HOH . 
P 5 HOH A 23 423 20 HOH HOH . 
P 5 HOH A 24 424 2 HOH HOH . 
P 5 HOH A 25 425 51 HOH HOH . 
P 5 HOH A 26 426 45 HOH HOH . 
P 5 HOH A 27 427 42 HOH HOH . 
P 5 HOH A 28 428 7 HOH HOH . 
P 5 HOH A 29 429 79 HOH HOH . 
P 5 HOH A 30 430 33 HOH HOH . 
P 5 HOH A 31 431 60 HOH HOH . 
P 5 HOH A 32 432 77 HOH HOH . 
Q 5 HOH B 1 401 12 HOH HOH . 
Q 5 HOH B 2 402 37 HOH HOH . 
Q 5 HOH B 3 403 83 HOH HOH . 
Q 5 HOH B 4 404 16 HOH HOH . 
Q 5 HOH B 5 405 81 HOH HOH . 
Q 5 HOH B 6 406 15 HOH HOH . 
Q 5 HOH B 7 407 6 HOH HOH . 
Q 5 HOH B 8 408 8 HOH HOH . 
Q 5 HOH B 9 409 10 HOH HOH . 
Q 5 HOH B 10 410 11 HOH HOH . 
Q 5 HOH B 11 411 71 HOH HOH . 
Q 5 HOH B 12 412 55 HOH HOH . 
Q 5 HOH B 13 413 9 HOH HOH . 
Q 5 HOH B 14 414 24 HOH HOH . 
Q 5 HOH B 15 415 54 HOH HOH . 
Q 5 HOH B 16 416 74 HOH HOH . 
Q 5 HOH B 17 417 53 HOH HOH . 
Q 5 HOH B 18 418 85 HOH HOH . 
Q 5 HOH B 19 419 38 HOH HOH . 
Q 5 HOH B 20 420 13 HOH HOH . 
Q 5 HOH B 21 421 82 HOH HOH . 
Q 5 HOH B 22 422 62 HOH HOH . 
R 5 HOH C 1 401 39 HOH HOH . 
R 5 HOH C 2 402 66 HOH HOH . 
R 5 HOH C 3 403 28 HOH HOH . 
R 5 HOH C 4 404 32 HOH HOH . 
R 5 HOH C 5 405 61 HOH HOH . 
R 5 HOH C 6 406 68 HOH HOH . 
R 5 HOH C 7 407 65 HOH HOH . 
R 5 HOH C 8 408 23 HOH HOH . 
R 5 HOH C 9 409 25 HOH HOH . 
R 5 HOH C 10 410 73 HOH HOH . 
R 5 HOH C 11 411 26 HOH HOH . 
R 5 HOH C 12 412 86 HOH HOH . 
R 5 HOH C 13 413 44 HOH HOH . 
R 5 HOH C 14 414 58 HOH HOH . 
R 5 HOH C 15 415 34 HOH HOH . 
R 5 HOH C 16 416 29 HOH HOH . 
R 5 HOH C 17 417 72 HOH HOH . 
R 5 HOH C 18 418 48 HOH HOH . 
R 5 HOH C 19 419 41 HOH HOH . 
R 5 HOH C 20 420 17 HOH HOH . 
R 5 HOH C 21 421 57 HOH HOH . 
R 5 HOH C 22 422 27 HOH HOH . 
R 5 HOH C 23 423 56 HOH HOH . 
R 5 HOH C 24 424 31 HOH HOH . 
R 5 HOH C 25 425 30 HOH HOH . 
R 5 HOH C 26 426 64 HOH HOH . 
R 5 HOH C 27 427 40 HOH HOH . 
R 5 HOH C 28 428 46 HOH HOH . 
R 5 HOH C 29 429 84 HOH HOH . 
R 5 HOH C 30 430 78 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 . . . G 4 -43.589 4.265 141.21 1 14.44 ? C1 RET 304 A 1 
HETATM 2 C C2 RET . . . G 4 -44.543 4.401 142.401 1 7.09 ? C2 RET 304 A 1 
HETATM 3 C C3 RET . . . G 4 -45.821 5.139 142.001 1 11.34 ? C3 RET 304 A 1 
HETATM 4 C C4 RET . . . G 4 -46.528 4.269 140.96 1 9.27 ? C4 RET 304 A 1 
HETATM 5 C C5 RET . . . G 4 -45.632 4.123 139.754 1 9.16 ? C5 RET 304 A 1 
HETATM 6 C C6 RET . . . G 4 -44.301 3.912 139.893 1 8.01 ? C6 RET 304 A 1 
HETATM 7 C C7 RET . . . G 4 -43.565 3.529 138.7 1 12.64 ? C7 RET 304 A 1 
HETATM 8 C C8 RET . . . G 4 -42.221 3.606 138.551 1 9.41 ? C8 RET 304 A 1 
HETATM 9 C C9 RET . . . G 4 -41.546 3.17 137.347 1 11.6 ? C9 RET 304 A 1 
HETATM 10 C C10 RET . . . G 4 -40.191 3.238 137.318 1 13.17 ? C10 RET 304 A 1 
HETATM 11 C C11 RET . . . G 4 -39.351 2.889 136.314 1 8.83 ? C11 RET 304 A 1 
HETATM 12 C C12 RET . . . G 4 -38.032 2.861 136.62 1 6.36 ? C12 RET 304 A 1 
HETATM 13 C C13 RET . . . G 4 -36.976 2.536 135.681 1 8.53 ? C13 RET 304 A 1 
HETATM 14 C C14 RET . . . G 4 -35.722 2.916 136.003 1 13.22 ? C14 RET 304 A 1 
HETATM 15 C C15 RET . . . G 4 -34.551 2.68 135.186 1 15.92 ? C15 RET 304 A 1 
HETATM 16 C C16 RET . . . G 4 -42.878 5.604 141.007 1 6.73 ? C16 RET 304 A 1 
HETATM 17 C C17 RET . . . G 4 -42.577 3.2 141.64 1 9.07 ? C17 RET 304 A 1 
HETATM 18 C C18 RET . . . G 4 -46.329 3.963 138.421 1 14.92 ? C18 RET 304 A 1 
HETATM 19 C C19 RET . . . G 4 -42.402 2.614 136.233 1 15.17 ? C19 RET 304 A 1 
HETATM 20 C C20 RET . . . G 4 -37.248 1.817 134.383 1 10.16 ? C20 RET 304 A 1 
#
_model_server_stats.io_time_ms              8 
_model_server_stats.parse_time_ms           7 
_model_server_stats.create_model_time_ms    6 
_model_server_stats.query_time_ms           214 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           20 
#