data_2JAF
#
_model_server_result.job_id            uKRGY-XLhpPdj5ayCtsv3Q 
_model_server_result.datetime_utc      '2024-11-09 02:47:26' 
_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          2jaf 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"G","auth_seq_id":900}' 
#
_entry.id    2JAF 
#
_exptl.entry_id    2JAF 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              284.436 
_entity.id                          5 
_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            2JAF 
_cell.length_a            94.473 
_cell.length_b            94.473 
_cell.length_c            157.137 
_cell.Z_PDB               18 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 2JAF 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        155 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'H 3 2' 
#
_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 
_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_655 -y+1,x-y,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 94.473 0 0 
3 'crystal symmetry operation' 3_665 -x+y+1,-x+1,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 47.2365 81.816018 0 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      5 
_struct_asym.id                             G 
_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              242 
_struct_conn.ptnr1_symmetry                 1_555 
_struct_conn.ptnr2_label_asym_id            G 
_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              900 
_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                1.304 
_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 374 n n 
C1 C6 RET sing 375 n n 
C1 C16 RET sing 376 n n 
C1 C17 RET sing 377 n n 
C2 C3 RET sing 378 n n 
C2 H21 RET sing 379 n n 
C2 H22 RET sing 380 n n 
C3 C4 RET sing 381 n n 
C3 H31 RET sing 382 n n 
C3 H32 RET sing 383 n n 
C4 C5 RET sing 384 n n 
C4 H41 RET sing 385 n n 
C4 H42 RET sing 386 n n 
C5 C6 RET doub 387 n n 
C5 C18 RET sing 388 n n 
C6 C7 RET sing 389 n n 
C7 C8 RET doub 390 e n 
C7 H7 RET sing 391 n n 
C8 C9 RET sing 392 n n 
C8 H8 RET sing 393 n n 
C9 C10 RET doub 394 e n 
C9 C19 RET sing 395 n n 
C10 C11 RET sing 396 n n 
C10 H10 RET sing 397 n n 
C11 C12 RET doub 398 e n 
C11 H11 RET sing 399 n n 
C12 C13 RET sing 400 n n 
C12 H12 RET sing 401 n n 
C13 C14 RET doub 402 e n 
C13 C20 RET sing 403 n n 
C14 C15 RET sing 404 n n 
C14 H14 RET sing 405 n n 
C15 O1 RET doub 406 n n 
C15 H15 RET sing 407 n n 
C16 H161 RET sing 408 n n 
C16 H162 RET sing 409 n n 
C16 H163 RET sing 410 n n 
C17 H171 RET sing 411 n n 
C17 H172 RET sing 412 n n 
C17 H173 RET sing 413 n n 
C18 H181 RET sing 414 n n 
C18 H182 RET sing 415 n n 
C18 H183 RET sing 416 n n 
C19 H191 RET sing 417 n n 
C19 H192 RET sing 418 n n 
C19 H193 RET sing 419 n n 
C20 H201 RET sing 420 n n 
C20 H202 RET sing 421 n n 
C20 H203 RET sing 422 n n 
#
_atom_sites.entry_id                     2JAF 
_atom_sites.fract_transf_matrix[1][1]    0.010585 
_atom_sites.fract_transf_matrix[1][2]    0.006111 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.012223 
_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]    0.006364 
_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 CL A 1 501 501 CL CL . 
C 2 CL A 1 502 502 CL CL . 
D 3 PLM A 1 700 700 PLM PLM . 
E 3 PLM A 1 701 701 PLM PLM . 
F 4 BOG A 1 801 801 BOG BOG . 
G 5 RET A 1 900 900 RET RET . 
H 6 HOH A 1 2001 2001 HOH HOH . 
H 6 HOH A 2 2002 2002 HOH HOH . 
H 6 HOH A 3 2003 2003 HOH HOH . 
H 6 HOH A 4 2004 2004 HOH HOH . 
H 6 HOH A 5 2005 2005 HOH HOH . 
H 6 HOH A 6 2006 2006 HOH HOH . 
H 6 HOH A 7 2007 2007 HOH HOH . 
H 6 HOH A 8 2008 2008 HOH HOH . 
H 6 HOH A 9 2009 2009 HOH HOH . 
H 6 HOH A 10 2010 2010 HOH HOH . 
H 6 HOH A 11 2011 2011 HOH HOH . 
H 6 HOH A 12 2012 2012 HOH HOH . 
H 6 HOH A 13 2013 2013 HOH HOH . 
H 6 HOH A 14 2014 2014 HOH HOH . 
H 6 HOH A 15 2015 2015 HOH HOH . 
H 6 HOH A 16 2016 2016 HOH HOH . 
H 6 HOH A 17 2017 2017 HOH HOH . 
H 6 HOH A 18 2018 2018 HOH HOH . 
H 6 HOH A 19 2019 2019 HOH HOH . 
H 6 HOH A 20 2020 2020 HOH HOH . 
H 6 HOH A 21 2021 2021 HOH HOH . 
H 6 HOH A 22 2022 2022 HOH HOH . 
H 6 HOH A 23 2023 2023 HOH HOH . 
H 6 HOH A 24 2024 2024 HOH HOH . 
H 6 HOH A 25 2025 2025 HOH HOH . 
H 6 HOH A 26 2026 2026 HOH HOH . 
H 6 HOH A 27 2027 2027 HOH HOH . 
H 6 HOH A 28 2028 2028 HOH HOH . 
H 6 HOH A 29 2029 2029 HOH HOH . 
H 6 HOH A 30 2030 2030 HOH HOH . 
H 6 HOH A 31 2031 2031 HOH HOH . 
H 6 HOH A 32 2032 2032 HOH HOH . 
H 6 HOH A 33 2033 2033 HOH HOH . 
H 6 HOH A 34 2034 2034 HOH HOH . 
H 6 HOH A 35 2035 2035 HOH HOH . 
H 6 HOH A 36 2036 2036 HOH HOH . 
H 6 HOH A 37 2037 2037 HOH HOH . 
H 6 HOH A 38 2038 2038 HOH HOH . 
H 6 HOH A 39 2039 2039 HOH HOH . 
H 6 HOH A 40 2040 2040 HOH HOH . 
H 6 HOH A 41 2041 2041 HOH HOH . 
H 6 HOH A 42 2042 2042 HOH HOH . 
H 6 HOH A 43 2043 2043 HOH HOH . 
H 6 HOH A 44 2044 2044 HOH HOH . 
H 6 HOH A 45 2045 2045 HOH HOH . 
H 6 HOH A 46 2046 2046 HOH HOH . 
H 6 HOH A 47 2047 2047 HOH HOH . 
H 6 HOH A 48 2048 2048 HOH HOH . 
H 6 HOH A 49 2049 2049 HOH HOH . 
H 6 HOH A 50 2050 2050 HOH HOH . 
H 6 HOH A 51 2051 2051 HOH HOH . 
H 6 HOH A 52 2052 2052 HOH HOH . 
H 6 HOH A 53 2053 2053 HOH HOH . 
H 6 HOH A 54 2054 2054 HOH HOH . 
H 6 HOH A 55 2055 2055 HOH HOH . 
H 6 HOH A 56 2056 2056 HOH HOH . 
H 6 HOH A 57 2057 2057 HOH HOH . 
H 6 HOH A 58 2058 2058 HOH HOH . 
H 6 HOH A 59 2059 2059 HOH HOH . 
H 6 HOH A 60 2060 2060 HOH HOH . 
H 6 HOH A 61 2061 2061 HOH HOH . 
H 6 HOH A 62 2062 2062 HOH HOH . 
H 6 HOH A 63 2063 2063 HOH HOH . 
H 6 HOH A 64 2064 2064 HOH HOH . 
H 6 HOH A 65 2065 2065 HOH HOH . 
H 6 HOH A 66 2066 2066 HOH HOH . 
H 6 HOH A 67 2067 2067 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 5 34.645 14.983 30.536 1 22.24 ? C1 RET 900 A 1 
HETATM 2 C C2 RET . . . G 5 33.542 15.494 31.579 1 21.4 ? C2 RET 900 A 1 
HETATM 3 C C3 RET . . . G 5 32.582 16.602 31.081 1 21.35 ? C3 RET 900 A 1 
HETATM 4 C C4 RET . . . G 5 31.769 16.108 29.798 1 21.32 ? C4 RET 900 A 1 
HETATM 5 C C5 RET . . . G 5 32.658 15.492 28.645 1 20.6 ? C5 RET 900 A 1 
HETATM 6 C C6 RET . . . G 5 34.066 14.925 28.971 1 22.02 ? C6 RET 900 A 1 
HETATM 7 C C7 RET . . . G 5 34.906 14.449 27.82 1 21.02 ? C7 RET 900 A 1 
HETATM 8 C C8 RET . . . G 5 36.195 14.021 27.737 1 18.79 ? C8 RET 900 A 1 
HETATM 9 C C9 RET . . . G 5 36.774 13.373 26.591 1 19.79 ? C9 RET 900 A 1 
HETATM 10 C C10 RET . . . G 5 38.072 12.952 26.889 1 20.94 ? C10 RET 900 A 1 
HETATM 11 C C11 RET . . . G 5 38.886 12.273 26.008 1 20.52 ? C11 RET 900 A 1 
HETATM 12 C C12 RET . . . G 5 40.153 11.839 26.428 1 20.1 ? C12 RET 900 A 1 
HETATM 13 C C13 RET . . . G 5 41.109 11.187 25.546 1 21.77 ? C13 RET 900 A 1 
HETATM 14 C C14 RET . . . G 5 42.342 10.896 26.2 1 22.82 ? C14 RET 900 A 1 
HETATM 15 C C15 RET . . . G 5 43.493 10.479 25.575 1 24.48 ? C15 RET 900 A 1 
HETATM 16 C C16 RET . . . G 5 35.814 16.024 30.685 1 21.85 ? C16 RET 900 A 1 
HETATM 17 C C17 RET . . . G 5 35.107 13.531 31.073 1 21.17 ? C17 RET 900 A 1 
HETATM 18 C C18 RET . . . G 5 32.026 15.489 27.262 1 21.23 ? C18 RET 900 A 1 
HETATM 19 C C19 RET . . . G 5 35.912 13.05 25.245 1 21.06 ? C19 RET 900 A 1 
HETATM 20 C C20 RET . . . G 5 40.783 10.825 24.085 1 21.97 ? C20 RET 900 A 1 
#
_model_server_stats.io_time_ms              0 
_model_server_stats.parse_time_ms           6 
_model_server_stats.create_model_time_ms    2 
_model_server_stats.query_time_ms           301 
_model_server_stats.encode_time_ms          1 
_model_server_stats.element_count           20 
#