data_6MKV
#
_model_server_result.job_id            pf41GH83PqEc_NvTgr9OpA 
_model_server_result.datetime_utc      '2024-11-15 11:47:01' 
_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          6mkv 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"I","auth_seq_id":201}' 
#
_entry.id    6MKV 
#
_exptl.entry_id    6MKV 
_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    3 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90 
_cell.angle_beta          96.31 
_cell.angle_gamma         90 
_cell.entry_id            6MKV 
_cell.length_a            36.332 
_cell.length_b            63.137 
_cell.length_c            118.218 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 6MKV 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        4 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 1 21 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 dimeric 2 author_and_software_defined_assembly 1 
PISA dimeric 2 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,I,J,Q,S 1 1 
B,D,E,F,G,H,K,L,M,N,O,P,R,T 2 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
? 2 E N N 
? 2 I N N 
? 2 K 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 B NZ LYS 108 B LYS 108 1_555 E C15 RET . B RET 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.264 ? 
covale ? covale2 C NZ LYS 108 C LYS 108 1_555 I C15 RET . C RET 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.259 ? 
covale ? covale3 D NZ LYS 108 D LYS 108 1_555 K C15 RET . D RET 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.26 ? 
#
_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 279 n n 
C1 C6 RET sing 280 n n 
C1 C16 RET sing 281 n n 
C1 C17 RET sing 282 n n 
C2 C3 RET sing 283 n n 
C2 H21 RET sing 284 n n 
C2 H22 RET sing 285 n n 
C3 C4 RET sing 286 n n 
C3 H31 RET sing 287 n n 
C3 H32 RET sing 288 n n 
C4 C5 RET sing 289 n n 
C4 H41 RET sing 290 n n 
C4 H42 RET sing 291 n n 
C5 C6 RET doub 292 n n 
C5 C18 RET sing 293 n n 
C6 C7 RET sing 294 n n 
C7 C8 RET doub 295 e n 
C7 H7 RET sing 296 n n 
C8 C9 RET sing 297 n n 
C8 H8 RET sing 298 n n 
C9 C10 RET doub 299 e n 
C9 C19 RET sing 300 n n 
C10 C11 RET sing 301 n n 
C10 H10 RET sing 302 n n 
C11 C12 RET doub 303 e n 
C11 H11 RET sing 304 n n 
C12 C13 RET sing 305 n n 
C12 H12 RET sing 306 n n 
C13 C14 RET doub 307 e n 
C13 C20 RET sing 308 n n 
C14 C15 RET sing 309 n n 
C14 H14 RET sing 310 n n 
C15 O1 RET doub 311 n n 
C15 H15 RET sing 312 n n 
C16 H161 RET sing 313 n n 
C16 H162 RET sing 314 n n 
C16 H163 RET sing 315 n n 
C17 H171 RET sing 316 n n 
C17 H172 RET sing 317 n n 
C17 H173 RET sing 318 n n 
C18 H181 RET sing 319 n n 
C18 H182 RET sing 320 n n 
C18 H183 RET sing 321 n n 
C19 H191 RET sing 322 n n 
C19 H192 RET sing 323 n n 
C19 H193 RET sing 324 n n 
C20 H201 RET sing 325 n n 
C20 H202 RET sing 326 n n 
C20 H203 RET sing 327 n n 
#
_atom_sites.entry_id                     6MKV 
_atom_sites.fract_transf_matrix[1][1]    0.027524 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.003045 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.015839 
_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]    0.008511 
_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
E 2 RET B 1 201 4 RET RET . 
F 3 ACT B 1 202 3 ACT ACT . 
G 3 ACT B 1 203 4 ACT ACT . 
H 4 GOL B 1 204 2 GOL GOL . 
I 2 RET C 1 201 1 RET RET . 
J 3 ACT C 1 202 5 ACT ACT . 
K 2 RET D 1 201 3 RET RET . 
L 3 ACT D 1 202 1 ACT ACT . 
M 3 ACT D 1 203 8 ACT ACT . 
N 3 ACT D 1 204 9 ACT ACT . 
O 3 ACT D 1 205 14 ACT ACT . 
P 4 GOL D 1 206 1 GOL GOL . 
Q 5 HOH A 1 201 46 HOH HOH . 
Q 5 HOH A 2 202 71 HOH HOH . 
Q 5 HOH A 3 203 108 HOH HOH . 
Q 5 HOH A 4 204 145 HOH HOH . 
Q 5 HOH A 5 205 16 HOH HOH . 
Q 5 HOH A 6 206 133 HOH HOH . 
Q 5 HOH A 7 207 107 HOH HOH . 
Q 5 HOH A 8 208 42 HOH HOH . 
Q 5 HOH A 9 209 141 HOH HOH . 
Q 5 HOH A 10 210 104 HOH HOH . 
Q 5 HOH A 11 211 28 HOH HOH . 
Q 5 HOH A 12 212 70 HOH HOH . 
Q 5 HOH A 13 213 7 HOH HOH . 
Q 5 HOH A 14 214 143 HOH HOH . 
Q 5 HOH A 15 215 95 HOH HOH . 
Q 5 HOH A 16 216 92 HOH HOH . 
Q 5 HOH A 17 217 66 HOH HOH . 
Q 5 HOH A 18 218 188 HOH HOH . 
Q 5 HOH A 19 219 138 HOH HOH . 
Q 5 HOH A 20 220 190 HOH HOH . 
R 5 HOH B 1 301 52 HOH HOH . 
R 5 HOH B 2 302 19 HOH HOH . 
R 5 HOH B 3 303 75 HOH HOH . 
R 5 HOH B 4 304 169 HOH HOH . 
R 5 HOH B 5 305 45 HOH HOH . 
R 5 HOH B 6 306 73 HOH HOH . 
R 5 HOH B 7 307 101 HOH HOH . 
R 5 HOH B 8 308 96 HOH HOH . 
R 5 HOH B 9 309 146 HOH HOH . 
R 5 HOH B 10 310 41 HOH HOH . 
R 5 HOH B 11 311 99 HOH HOH . 
R 5 HOH B 12 312 113 HOH HOH . 
R 5 HOH B 13 313 59 HOH HOH . 
R 5 HOH B 14 314 91 HOH HOH . 
R 5 HOH B 15 315 86 HOH HOH . 
R 5 HOH B 16 316 50 HOH HOH . 
R 5 HOH B 17 317 29 HOH HOH . 
R 5 HOH B 18 318 24 HOH HOH . 
R 5 HOH B 19 319 40 HOH HOH . 
R 5 HOH B 20 320 123 HOH HOH . 
R 5 HOH B 21 321 110 HOH HOH . 
R 5 HOH B 22 322 14 HOH HOH . 
R 5 HOH B 23 323 30 HOH HOH . 
R 5 HOH B 24 324 9 HOH HOH . 
R 5 HOH B 25 325 212 HOH HOH . 
R 5 HOH B 26 326 98 HOH HOH . 
R 5 HOH B 27 327 201 HOH HOH . 
R 5 HOH B 28 328 206 HOH HOH . 
R 5 HOH B 29 329 64 HOH HOH . 
R 5 HOH B 30 330 170 HOH HOH . 
R 5 HOH B 31 331 67 HOH HOH . 
R 5 HOH B 32 332 88 HOH HOH . 
R 5 HOH B 33 333 119 HOH HOH . 
R 5 HOH B 34 334 203 HOH HOH . 
R 5 HOH B 35 335 22 HOH HOH . 
R 5 HOH B 36 336 48 HOH HOH . 
R 5 HOH B 37 337 33 HOH HOH . 
R 5 HOH B 38 338 200 HOH HOH . 
R 5 HOH B 39 339 128 HOH HOH . 
R 5 HOH B 40 340 149 HOH HOH . 
R 5 HOH B 41 341 144 HOH HOH . 
R 5 HOH B 42 342 32 HOH HOH . 
R 5 HOH B 43 343 167 HOH HOH . 
R 5 HOH B 44 344 168 HOH HOH . 
S 5 HOH C 1 301 72 HOH HOH . 
S 5 HOH C 2 302 131 HOH HOH . 
S 5 HOH C 3 303 195 HOH HOH . 
S 5 HOH C 4 304 36 HOH HOH . 
S 5 HOH C 5 305 151 HOH HOH . 
S 5 HOH C 6 306 60 HOH HOH . 
S 5 HOH C 7 307 111 HOH HOH . 
S 5 HOH C 8 308 76 HOH HOH . 
S 5 HOH C 9 309 142 HOH HOH . 
S 5 HOH C 10 310 26 HOH HOH . 
S 5 HOH C 11 311 35 HOH HOH . 
S 5 HOH C 12 312 114 HOH HOH . 
S 5 HOH C 13 313 183 HOH HOH . 
S 5 HOH C 14 314 13 HOH HOH . 
S 5 HOH C 15 315 176 HOH HOH . 
S 5 HOH C 16 316 15 HOH HOH . 
S 5 HOH C 17 317 152 HOH HOH . 
S 5 HOH C 18 318 85 HOH HOH . 
S 5 HOH C 19 319 210 HOH HOH . 
S 5 HOH C 20 320 93 HOH HOH . 
S 5 HOH C 21 321 197 HOH HOH . 
S 5 HOH C 22 322 135 HOH HOH . 
S 5 HOH C 23 323 44 HOH HOH . 
S 5 HOH C 24 324 34 HOH HOH . 
S 5 HOH C 25 325 84 HOH HOH . 
S 5 HOH C 26 326 192 HOH HOH . 
S 5 HOH C 27 327 80 HOH HOH . 
S 5 HOH C 28 328 186 HOH HOH . 
S 5 HOH C 29 329 132 HOH HOH . 
S 5 HOH C 30 330 68 HOH HOH . 
S 5 HOH C 31 331 187 HOH HOH . 
S 5 HOH C 32 332 196 HOH HOH . 
S 5 HOH C 33 333 139 HOH HOH . 
S 5 HOH C 34 334 182 HOH HOH . 
S 5 HOH C 35 335 47 HOH HOH . 
S 5 HOH C 36 336 193 HOH HOH . 
S 5 HOH C 37 337 43 HOH HOH . 
S 5 HOH C 38 338 174 HOH HOH . 
S 5 HOH C 39 339 194 HOH HOH . 
S 5 HOH C 40 340 173 HOH HOH . 
S 5 HOH C 41 341 172 HOH HOH . 
S 5 HOH C 42 342 116 HOH HOH . 
S 5 HOH C 43 343 185 HOH HOH . 
S 5 HOH C 44 344 175 HOH HOH . 
S 5 HOH C 45 345 177 HOH HOH . 
S 5 HOH C 46 346 198 HOH HOH . 
S 5 HOH C 47 347 181 HOH HOH . 
S 5 HOH C 48 348 179 HOH HOH . 
T 5 HOH D 1 301 125 HOH HOH . 
T 5 HOH D 2 302 53 HOH HOH . 
T 5 HOH D 3 303 89 HOH HOH . 
T 5 HOH D 4 304 37 HOH HOH . 
T 5 HOH D 5 305 124 HOH HOH . 
T 5 HOH D 6 306 8 HOH HOH . 
T 5 HOH D 7 307 57 HOH HOH . 
T 5 HOH D 8 308 77 HOH HOH . 
T 5 HOH D 9 309 136 HOH HOH . 
T 5 HOH D 10 310 105 HOH HOH . 
T 5 HOH D 11 311 69 HOH HOH . 
T 5 HOH D 12 312 11 HOH HOH . 
T 5 HOH D 13 313 12 HOH HOH . 
T 5 HOH D 14 314 94 HOH HOH . 
T 5 HOH D 15 315 18 HOH HOH . 
T 5 HOH D 16 316 147 HOH HOH . 
T 5 HOH D 17 317 81 HOH HOH . 
T 5 HOH D 18 318 2 HOH HOH . 
T 5 HOH D 19 319 27 HOH HOH . 
T 5 HOH D 20 320 204 HOH HOH . 
T 5 HOH D 21 321 31 HOH HOH . 
T 5 HOH D 22 322 10 HOH HOH . 
T 5 HOH D 23 323 21 HOH HOH . 
T 5 HOH D 24 324 90 HOH HOH . 
T 5 HOH D 25 325 62 HOH HOH . 
T 5 HOH D 26 326 23 HOH HOH . 
T 5 HOH D 27 327 51 HOH HOH . 
T 5 HOH D 28 328 130 HOH HOH . 
T 5 HOH D 29 329 211 HOH HOH . 
T 5 HOH D 30 330 5 HOH HOH . 
T 5 HOH D 31 331 3 HOH HOH . 
T 5 HOH D 32 332 199 HOH HOH . 
T 5 HOH D 33 333 56 HOH HOH . 
T 5 HOH D 34 334 205 HOH HOH . 
T 5 HOH D 35 335 55 HOH HOH . 
T 5 HOH D 36 336 171 HOH HOH . 
T 5 HOH D 37 337 202 HOH HOH . 
T 5 HOH D 38 338 213 HOH HOH . 
T 5 HOH D 39 339 25 HOH HOH . 
T 5 HOH D 40 340 58 HOH HOH . 
T 5 HOH D 41 341 127 HOH HOH . 
T 5 HOH D 42 342 87 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 . . . I 2 -6.158 11.668 39.206 1 51.35 ? C1 RET 201 C 1 
HETATM 2 C C2 RET . . . I 2 -6.509 13.157 39.073 1 55.58 ? C2 RET 201 C 1 
HETATM 3 C C3 RET . . . I 2 -5.791 14.062 40.063 1 56.54 ? C3 RET 201 C 1 
HETATM 4 C C4 RET . . . I 2 -4.288 13.854 40.02 1 53.65 ? C4 RET 201 C 1 
HETATM 5 C C5 RET . . . I 2 -3.88 12.414 39.986 1 54.31 ? C5 RET 201 C 1 
HETATM 6 C C6 RET . . . I 2 -4.655 11.471 39.426 1 47.17 ? C6 RET 201 C 1 
HETATM 7 C C7 RET . . . I 2 -4.179 10.121 39.187 1 46.1 ? C7 RET 201 C 1 
HETATM 8 C C8 RET . . . I 2 -3.057 9.731 38.543 1 47.09 ? C8 RET 201 C 1 
HETATM 9 C C9 RET . . . I 2 -2.616 8.36 38.324 1 47.41 ? C9 RET 201 C 1 
HETATM 10 C C10 RET . . . I 2 -1.328 8.111 37.981 1 49.48 ? C10 RET 201 C 1 
HETATM 11 C C11 RET . . . I 2 -0.737 6.829 37.71 1 42.68 ? C11 RET 201 C 1 
HETATM 12 C C12 RET . . . I 2 0.497 6.425 38.057 1 41.12 ? C12 RET 201 C 1 
HETATM 13 C C13 RET . . . I 2 1.06 5.121 37.752 1 38.84 ? C13 RET 201 C 1 
HETATM 14 C C14 RET . . . I 2 2.351 5.014 37.378 1 37.82 ? C14 RET 201 C 1 
HETATM 15 C C15 RET . . . I 2 3.056 3.822 36.977 1 35.48 ? C15 RET 201 C 1 
HETATM 16 C C16 RET . . . I 2 -6.615 10.917 37.951 1 44.8 ? C16 RET 201 C 1 
HETATM 17 C C17 RET . . . I 2 -6.948 11.129 40.402 1 55.98 ? C17 RET 201 C 1 
HETATM 18 C C18 RET . . . I 2 -2.77 12.119 40.959 1 53.13 ? C18 RET 201 C 1 
HETATM 19 C C19 RET . . . I 2 -3.627 7.262 38.498 1 50.1 ? C19 RET 201 C 1 
HETATM 20 C C20 RET . . . I 2 0.147 3.936 37.823 1 35.49 ? C20 RET 201 C 1 
#
_model_server_stats.io_time_ms              11 
_model_server_stats.parse_time_ms           14 
_model_server_stats.create_model_time_ms    8 
_model_server_stats.query_time_ms           422 
_model_server_stats.encode_time_ms          13 
_model_server_stats.element_count           20 
#