data_5ITC
#
_model_server_result.job_id            zQJ8W8QYXN_ezixwdji7RA 
_model_server_result.datetime_utc      '2024-11-01 19:35:15' 
_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          5itc 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"M","auth_seq_id":301}' 
#
_entry.id    5ITC 
#
_exptl.entry_id    5ITC 
_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          116.16 
_cell.angle_gamma         90 
_cell.entry_id            5ITC 
_cell.length_a            106.715 
_cell.length_b            61.586 
_cell.length_c            119.089 
_cell.Z_PDB               12 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5ITC 
_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,S 
_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
? 2 D N N 
? 2 J N N 
? 2 M 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 D C15 RET . A RET 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? 
covale ? covale2 B NZ LYS 224 B LYS 224 1_555 J C15 RET . B RET 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? 
covale ? covale3 C NZ LYS 224 C LYS 224 1_555 M C15 RET . C RET 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.336 ? 
#
_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                     5ITC 
_atom_sites.fract_transf_matrix[1][1]    0.009371 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.004603 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.016237 
_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]    0.009356 
_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 RET A 1 301 301 RET RET . 
E 3 OLC A 1 302 1 OLC OLC . 
F 4 OLB A 1 303 2 OLB OLB . 
G 3 OLC A 1 304 4 OLC OLC . 
H 4 OLB A 1 305 6 OLB OLB . 
I 4 OLB A 1 306 7 OLB OLB . 
J 2 RET B 1 301 303 RET RET . 
K 4 OLB B 1 302 5 OLB OLB . 
L 4 OLB B 1 303 9 OLB OLB . 
M 2 RET C 1 301 302 RET RET . 
N 4 OLB C 1 302 3 OLB OLB . 
O 3 OLC C 1 303 8 OLC OLC . 
P 4 OLB C 1 304 10 OLB OLB . 
Q 5 HOH A 1 401 75 HOH HOH . 
Q 5 HOH A 2 402 177 HOH HOH . 
Q 5 HOH A 3 403 77 HOH HOH . 
Q 5 HOH A 4 404 6 HOH HOH . 
Q 5 HOH A 5 405 8 HOH HOH . 
Q 5 HOH A 6 406 136 HOH HOH . 
Q 5 HOH A 7 407 153 HOH HOH . 
Q 5 HOH A 8 408 154 HOH HOH . 
Q 5 HOH A 9 409 140 HOH HOH . 
Q 5 HOH A 10 410 97 HOH HOH . 
Q 5 HOH A 11 411 54 HOH HOH . 
Q 5 HOH A 12 412 159 HOH HOH . 
Q 5 HOH A 13 413 156 HOH HOH . 
Q 5 HOH A 14 414 47 HOH HOH . 
Q 5 HOH A 15 415 12 HOH HOH . 
Q 5 HOH A 16 416 5 HOH HOH . 
Q 5 HOH A 17 417 152 HOH HOH . 
Q 5 HOH A 18 418 41 HOH HOH . 
Q 5 HOH A 19 419 11 HOH HOH . 
Q 5 HOH A 20 420 96 HOH HOH . 
Q 5 HOH A 21 421 42 HOH HOH . 
Q 5 HOH A 22 422 131 HOH HOH . 
Q 5 HOH A 23 423 88 HOH HOH . 
Q 5 HOH A 24 424 33 HOH HOH . 
Q 5 HOH A 25 425 87 HOH HOH . 
Q 5 HOH A 26 426 7 HOH HOH . 
Q 5 HOH A 27 427 30 HOH HOH . 
Q 5 HOH A 28 428 52 HOH HOH . 
Q 5 HOH A 29 429 63 HOH HOH . 
Q 5 HOH A 30 430 3 HOH HOH . 
Q 5 HOH A 31 431 82 HOH HOH . 
Q 5 HOH A 32 432 2 HOH HOH . 
Q 5 HOH A 33 433 84 HOH HOH . 
Q 5 HOH A 34 434 4 HOH HOH . 
Q 5 HOH A 35 435 14 HOH HOH . 
Q 5 HOH A 36 436 125 HOH HOH . 
Q 5 HOH A 37 437 46 HOH HOH . 
Q 5 HOH A 38 438 174 HOH HOH . 
Q 5 HOH A 39 439 29 HOH HOH . 
Q 5 HOH A 40 440 76 HOH HOH . 
Q 5 HOH A 41 441 91 HOH HOH . 
Q 5 HOH A 42 442 126 HOH HOH . 
Q 5 HOH A 43 443 24 HOH HOH . 
Q 5 HOH A 44 444 15 HOH HOH . 
Q 5 HOH A 45 445 18 HOH HOH . 
Q 5 HOH A 46 446 36 HOH HOH . 
Q 5 HOH A 47 447 62 HOH HOH . 
Q 5 HOH A 48 448 171 HOH HOH . 
Q 5 HOH A 49 449 31 HOH HOH . 
Q 5 HOH A 50 450 16 HOH HOH . 
Q 5 HOH A 51 451 141 HOH HOH . 
Q 5 HOH A 52 452 13 HOH HOH . 
Q 5 HOH A 53 453 148 HOH HOH . 
Q 5 HOH A 54 454 163 HOH HOH . 
Q 5 HOH A 55 455 89 HOH HOH . 
Q 5 HOH A 56 456 160 HOH HOH . 
Q 5 HOH A 57 457 180 HOH HOH . 
R 5 HOH B 1 401 109 HOH HOH . 
R 5 HOH B 2 402 146 HOH HOH . 
R 5 HOH B 3 403 67 HOH HOH . 
R 5 HOH B 4 404 147 HOH HOH . 
R 5 HOH B 5 405 102 HOH HOH . 
R 5 HOH B 6 406 143 HOH HOH . 
R 5 HOH B 7 407 175 HOH HOH . 
R 5 HOH B 8 408 110 HOH HOH . 
R 5 HOH B 9 409 111 HOH HOH . 
R 5 HOH B 10 410 145 HOH HOH . 
R 5 HOH B 11 411 27 HOH HOH . 
R 5 HOH B 12 412 19 HOH HOH . 
R 5 HOH B 13 413 32 HOH HOH . 
R 5 HOH B 14 414 103 HOH HOH . 
R 5 HOH B 15 415 50 HOH HOH . 
R 5 HOH B 16 416 59 HOH HOH . 
R 5 HOH B 17 417 68 HOH HOH . 
R 5 HOH B 18 418 101 HOH HOH . 
R 5 HOH B 19 419 179 HOH HOH . 
R 5 HOH B 20 420 9 HOH HOH . 
R 5 HOH B 21 421 162 HOH HOH . 
R 5 HOH B 22 422 150 HOH HOH . 
R 5 HOH B 23 423 155 HOH HOH . 
R 5 HOH B 24 424 115 HOH HOH . 
R 5 HOH B 25 425 55 HOH HOH . 
R 5 HOH B 26 426 127 HOH HOH . 
R 5 HOH B 27 427 98 HOH HOH . 
R 5 HOH B 28 428 108 HOH HOH . 
R 5 HOH B 29 429 112 HOH HOH . 
R 5 HOH B 30 430 149 HOH HOH . 
R 5 HOH B 31 431 25 HOH HOH . 
R 5 HOH B 32 432 144 HOH HOH . 
R 5 HOH B 33 433 107 HOH HOH . 
R 5 HOH B 34 434 113 HOH HOH . 
R 5 HOH B 35 435 10 HOH HOH . 
R 5 HOH B 36 436 114 HOH HOH . 
R 5 HOH B 37 437 37 HOH HOH . 
R 5 HOH B 38 438 142 HOH HOH . 
R 5 HOH B 39 439 129 HOH HOH . 
R 5 HOH B 40 440 99 HOH HOH . 
R 5 HOH B 41 441 161 HOH HOH . 
R 5 HOH B 42 442 38 HOH HOH . 
R 5 HOH B 43 443 43 HOH HOH . 
R 5 HOH B 44 444 60 HOH HOH . 
R 5 HOH B 45 445 94 HOH HOH . 
R 5 HOH B 46 446 130 HOH HOH . 
R 5 HOH B 47 447 35 HOH HOH . 
R 5 HOH B 48 448 86 HOH HOH . 
R 5 HOH B 49 449 176 HOH HOH . 
R 5 HOH B 50 450 85 HOH HOH . 
R 5 HOH B 51 451 151 HOH HOH . 
R 5 HOH B 52 452 173 HOH HOH . 
S 5 HOH C 1 401 57 HOH HOH . 
S 5 HOH C 2 402 137 HOH HOH . 
S 5 HOH C 3 403 122 HOH HOH . 
S 5 HOH C 4 404 48 HOH HOH . 
S 5 HOH C 5 405 23 HOH HOH . 
S 5 HOH C 6 406 80 HOH HOH . 
S 5 HOH C 7 407 165 HOH HOH . 
S 5 HOH C 8 408 40 HOH HOH . 
S 5 HOH C 9 409 118 HOH HOH . 
S 5 HOH C 10 410 21 HOH HOH . 
S 5 HOH C 11 411 65 HOH HOH . 
S 5 HOH C 12 412 78 HOH HOH . 
S 5 HOH C 13 413 93 HOH HOH . 
S 5 HOH C 14 414 49 HOH HOH . 
S 5 HOH C 15 415 120 HOH HOH . 
S 5 HOH C 16 416 169 HOH HOH . 
S 5 HOH C 17 417 79 HOH HOH . 
S 5 HOH C 18 418 39 HOH HOH . 
S 5 HOH C 19 419 117 HOH HOH . 
S 5 HOH C 20 420 119 HOH HOH . 
S 5 HOH C 21 421 74 HOH HOH . 
S 5 HOH C 22 422 1 HOH HOH . 
S 5 HOH C 23 423 51 HOH HOH . 
S 5 HOH C 24 424 61 HOH HOH . 
S 5 HOH C 25 425 128 HOH HOH . 
S 5 HOH C 26 426 167 HOH HOH . 
S 5 HOH C 27 427 164 HOH HOH . 
S 5 HOH C 28 428 66 HOH HOH . 
S 5 HOH C 29 429 116 HOH HOH . 
S 5 HOH C 30 430 121 HOH HOH . 
S 5 HOH C 31 431 181 HOH HOH . 
S 5 HOH C 32 432 28 HOH HOH . 
S 5 HOH C 33 433 166 HOH HOH . 
S 5 HOH C 34 434 44 HOH HOH . 
S 5 HOH C 35 435 158 HOH HOH . 
S 5 HOH C 36 436 135 HOH HOH . 
S 5 HOH C 37 437 106 HOH HOH . 
S 5 HOH C 38 438 134 HOH HOH . 
S 5 HOH C 39 439 123 HOH HOH . 
S 5 HOH C 40 440 124 HOH HOH . 
S 5 HOH C 41 441 92 HOH HOH . 
S 5 HOH C 42 442 34 HOH HOH . 
S 5 HOH C 43 443 90 HOH HOH . 
S 5 HOH C 44 444 168 HOH HOH . 
S 5 HOH C 45 445 138 HOH HOH . 
S 5 HOH C 46 446 170 HOH HOH . 
S 5 HOH C 47 447 105 HOH HOH . 
S 5 HOH C 48 448 133 HOH HOH . 
S 5 HOH C 49 449 178 HOH HOH . 
S 5 HOH C 50 450 26 HOH HOH . 
S 5 HOH C 51 451 81 HOH HOH . 
S 5 HOH C 52 452 132 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 . . . M 2 90.027 -10.131 141.249 1 17.44 ? C1 RET 301 C 1 
HETATM 2 C C2 RET . . . M 2 90.556 -11.004 142.387 1 15.57 ? C2 RET 301 C 1 
HETATM 3 C C3 RET . . . M 2 90.512 -12.48 141.994 1 16.15 ? C3 RET 301 C 1 
HETATM 4 C C4 RET . . . M 2 91.563 -12.732 140.92 1 13.39 ? C4 RET 301 C 1 
HETATM 5 C C5 RET . . . M 2 91.276 -11.774 139.779 1 18.76 ? C5 RET 301 C 1 
HETATM 6 C C6 RET . . . M 2 90.651 -10.576 139.915 1 16.71 ? C6 RET 301 C 1 
HETATM 7 C C7 RET . . . M 2 90.709 -9.695 138.759 1 18.07 ? C7 RET 301 C 1 
HETATM 8 C C8 RET . . . M 2 89.892 -8.654 138.474 1 21.1 ? C8 RET 301 C 1 
HETATM 9 C C9 RET . . . M 2 90.001 -7.828 137.28 1 19.11 ? C9 RET 301 C 1 
HETATM 10 C C10 RET . . . M 2 89.313 -6.663 137.294 1 18.32 ? C10 RET 301 C 1 
HETATM 11 C C11 RET . . . M 2 89.209 -5.729 136.316 1 16.57 ? C11 RET 301 C 1 
HETATM 12 C C12 RET . . . M 2 88.733 -4.515 136.695 1 13.97 ? C12 RET 301 C 1 
HETATM 13 C C13 RET . . . M 2 88.456 -3.445 135.751 1 17.26 ? C13 RET 301 C 1 
HETATM 14 C C14 RET . . . M 2 87.596 -2.495 136.176 1 19.11 ? C14 RET 301 C 1 
HETATM 15 C C15 RET . . . M 2 87.123 -1.392 135.363 1 17.76 ? C15 RET 301 C 1 
HETATM 16 C C16 RET . . . M 2 88.495 -10.115 141.16 1 13.46 ? C16 RET 301 C 1 
HETATM 17 C C17 RET . . . M 2 90.502 -8.74 141.676 1 19.51 ? C17 RET 301 C 1 
HETATM 18 C C18 RET . . . M 2 91.63 -12.274 138.396 1 20.64 ? C18 RET 301 C 1 
HETATM 19 C C19 RET . . . M 2 90.839 -8.246 136.089 1 15.69 ? C19 RET 301 C 1 
HETATM 20 C C20 RET . . . M 2 89.007 -3.459 134.313 1 16.22 ? C20 RET 301 C 1 
#
_model_server_stats.io_time_ms              17 
_model_server_stats.parse_time_ms           12 
_model_server_stats.create_model_time_ms    7 
_model_server_stats.query_time_ms           326 
_model_server_stats.encode_time_ms          9 
_model_server_stats.element_count           20 
#