data_5IRX
#
_model_server_result.job_id            Lt9h2NSIBAztPosTVwBaJA 
_model_server_result.datetime_utc      '2025-03-13 17:47:27' 
_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          5irx 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"W","auth_seq_id":102}' 
#
_entry.id    5IRX 
#
_exptl.entry_id    5IRX 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              411.428 
_entity.id                          4 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            '(2S)-3-{[(S)-(2-aminoethoxy)(hydroxy)phosphoryl]oxy}-2-(hexanoyloxy)propyl hexanoate' 
_entity.pdbx_number_of_molecules    8 
_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         90 
_cell.entry_id            5IRX 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               ? 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5IRX 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        1 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 1' 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    hexameric 
_pdbx_struct_assembly.oligomeric_count      6 
_pdbx_struct_assembly.details               author_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,T,U,V,W,X,Y,Z 
_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    ? 
_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 H N N 
? 4 I N N 
? 4 L N N 
? 4 O N N 
? 4 S N N 
? 4 T N N 
? 4 W N N 
? 4 Z 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
disulf ? disulf1 E SG CYS 2 E CYS 2 1_555 E SG CYS 16 E CYS 16 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? 
disulf ? disulf2 E SG CYS 9 E CYS 9 1_555 E SG CYS 23 E CYS 23 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? 
disulf ? disulf3 E SG CYS 15 E CYS 15 1_555 E SG CYS 31 E CYS 31 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? 
disulf ? disulf4 E SG CYS 44 E CYS 44 1_555 E SG CYS 58 E CYS 58 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? 
disulf ? disulf5 E SG CYS 51 E CYS 51 1_555 E SG CYS 63 E CYS 63 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? 
disulf ? disulf6 E SG CYS 57 E CYS 57 1_555 E SG CYS 71 E CYS 71 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? 
disulf ? disulf7 F SG CYS 2 F CYS 2 1_555 F SG CYS 16 F CYS 16 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? 
disulf ? disulf8 F SG CYS 9 F CYS 9 1_555 F SG CYS 23 F CYS 23 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? 
disulf ? disulf9 F SG CYS 15 F CYS 15 1_555 F SG CYS 31 F CYS 31 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? 
disulf ? disulf10 F SG CYS 44 F CYS 44 1_555 F SG CYS 58 F CYS 58 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? 
disulf ? disulf11 F SG CYS 51 F CYS 51 1_555 F SG CYS 63 F CYS 63 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? 
disulf ? disulf12 F SG CYS 57 F CYS 57 1_555 F SG CYS 71 F CYS 71 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? 
#
_chem_comp.formula           'C17 H34 N O8 P' 
_chem_comp.formula_weight    411.428 
_chem_comp.id                6OE 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              '(2S)-3-{[(S)-(2-aminoethoxy)(hydroxy)phosphoryl]oxy}-2-(hexanoyloxy)propyl hexanoate' 
_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
C18 C17 6OE sing 205 n n 
C17 C16 6OE sing 206 n n 
C16 C15 6OE sing 207 n n 
C26 C25 6OE sing 208 n n 
C15 C14 6OE sing 209 n n 
C24 C25 6OE sing 210 n n 
C24 C23 6OE sing 211 n n 
C22 C23 6OE sing 212 n n 
C22 C21 6OE sing 213 n n 
C14 C13 6OE sing 214 n n 
O19 C13 6OE doub 215 n n 
O27 C21 6OE doub 216 n n 
C13 O12 6OE sing 217 n n 
C21 O20 6OE sing 218 n n 
C11 O12 6OE sing 219 n n 
C11 C10 6OE sing 220 n n 
O20 C10 6OE sing 221 n n 
C10 C09 6OE sing 222 n n 
C09 O08 6OE sing 223 n n 
O08 P05 6OE sing 224 n n 
O04 P05 6OE sing 225 n n 
O04 C03 6OE sing 226 n n 
P05 O07 6OE doub 227 n n 
P05 O06 6OE sing 228 n n 
C02 C03 6OE sing 229 n n 
C02 N01 6OE sing 230 n n 
N01 H011 6OE sing 231 n n 
N01 H012 6OE sing 232 n n 
C02 H022 6OE sing 233 n n 
C02 H021 6OE sing 234 n n 
C03 H032 6OE sing 235 n n 
C03 H031 6OE sing 236 n n 
O06 H2 6OE sing 237 n n 
C09 H092 6OE sing 238 n n 
C09 H091 6OE sing 239 n n 
C10 H101 6OE sing 240 n n 
C11 H112 6OE sing 241 n n 
C11 H111 6OE sing 242 n n 
C14 H142 6OE sing 243 n n 
C14 H141 6OE sing 244 n n 
C15 H151 6OE sing 245 n n 
C15 H152 6OE sing 246 n n 
C16 H161 6OE sing 247 n n 
C16 H162 6OE sing 248 n n 
C17 H172 6OE sing 249 n n 
C17 H171 6OE sing 250 n n 
C18 H181 6OE sing 251 n n 
C18 H182 6OE sing 252 n n 
C18 H3 6OE sing 253 n n 
C22 H222 6OE sing 254 n n 
C22 H221 6OE sing 255 n n 
C23 H231 6OE sing 256 n n 
C23 H232 6OE sing 257 n n 
C24 H242 6OE sing 258 n n 
C24 H241 6OE sing 259 n n 
C25 H252 6OE sing 260 n n 
C25 H251 6OE sing 261 n n 
C26 H262 6OE sing 262 n n 
C26 H261 6OE sing 263 n n 
C26 H4 6OE sing 264 n n 
#
_atom_sites.entry_id                     5IRX 
_atom_sites.fract_transf_matrix[1][1]    1 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    1 
_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]    1 
_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
G 3 6O8 A 1 801 19 6O8 LPA . 
H 4 6OE A 1 802 27 6OE LPC . 
I 4 6OE A 1 803 31 6OE LPC . 
J 5 6EU A 1 804 4 6EU 6EU . 
K 3 6O8 B 1 801 20 6O8 LPA . 
L 4 6OE B 1 802 30 6OE LPC . 
M 5 6EU B 1 803 2 6EU 6EU . 
N 3 6O8 C 1 801 18 6O8 LPA . 
O 4 6OE C 1 802 33 6OE LPC . 
P 5 6EU C 1 803 3 6EU 6EU . 
Q 3 6O8 D 1 801 21 6O8 LPA . 
R 6 6O9 D 1 802 24 6O9 LPB . 
S 4 6OE D 1 803 28 6OE LPC . 
T 4 6OE D 1 804 32 6OE LPC . 
U 5 6EU D 1 805 1 6EU 6EU . 
V 6 6O9 E 1 101 25 6O9 LPB . 
W 4 6OE E 1 102 29 6OE LPC . 
X 6 6O9 F 1 101 22 6O9 LPB . 
Y 6 6O9 F 1 102 23 6O9 LPB . 
Z 4 6OE F 1 103 26 6OE LPC . 
#
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 N N01 6OE . . . W 4 139.905 101.009 149.12 1 20 ? N01 6OE 102 E 1 
HETATM 2 C C02 6OE . . . W 4 138.768 100.857 148.236 1 20 ? C02 6OE 102 E 1 
HETATM 3 C C03 6OE . . . W 4 137.913 99.673 148.671 1 20 ? C03 6OE 102 E 1 
HETATM 4 O O04 6OE . . . W 4 137.216 99.201 147.558 1 20 ? O04 6OE 102 E 1 
HETATM 5 P P05 6OE . . . W 4 136.524 97.711 147.658 1 20 ? P05 6OE 102 E 1 
HETATM 6 O O06 6OE . . . W 4 137.395 96.793 148.479 1 20 ? O06 6OE 102 E 1 
HETATM 7 O O07 6OE . . . W 4 135.162 97.832 148.293 1 20 ? O07 6OE 102 E 1 
HETATM 8 O O08 6OE . . . W 4 136.357 97.129 146.131 1 20 ? O08 6OE 102 E 1 
HETATM 9 C C09 6OE . . . W 4 135.66 97.97 145.267 1 20 ? C09 6OE 102 E 1 
HETATM 10 C C10 6OE . . . W 4 135.964 97.622 143.822 1 20 ? C10 6OE 102 E 1 
HETATM 11 C C11 6OE . . . W 4 136.287 98.89 143.051 1 20 ? C11 6OE 102 E 1 
HETATM 12 O O12 6OE . . . W 4 135.189 99.748 143.139 1 20 ? O12 6OE 102 E 1 
HETATM 13 C C13 6OE . . . W 4 135.045 100.583 142.028 1 20 ? C13 6OE 102 E 1 
HETATM 14 C C14 6OE . . . W 4 133.658 100.897 141.475 1 20 ? C14 6OE 102 E 1 
HETATM 15 C C15 6OE . . . W 4 133.7 101.306 140.009 1 20 ? C15 6OE 102 E 1 
HETATM 16 C C16 6OE . . . W 4 132.456 100.884 139.233 1 20 ? C16 6OE 102 E 1 
HETATM 17 C C17 6OE . . . W 4 132.75 100.65 137.749 1 20 ? C17 6OE 102 E 1 
HETATM 18 C C18 6OE . . . W 4 131.761 99.713 137.051 1 20 ? C18 6OE 102 E 1 
HETATM 19 O O19 6OE . . . W 4 136.003 101.049 141.515 1 20 ? O19 6OE 102 E 1 
HETATM 20 O O20 6OE . . . W 4 134.828 97.033 143.25 1 20 ? O20 6OE 102 E 1 
HETATM 21 C C21 6OE . . . W 4 135.066 96.279 142.094 1 20 ? C21 6OE 102 E 1 
HETATM 22 C C22 6OE . . . W 4 133.974 96.096 141.044 1 20 ? C22 6OE 102 E 1 
HETATM 23 C C23 6OE . . . W 4 132.728 96.909 141.356 1 20 ? C23 6OE 102 E 1 
HETATM 24 C C24 6OE . . . W 4 131.627 96.761 140.309 1 20 ? C24 6OE 102 E 1 
HETATM 25 C C25 6OE . . . W 4 130.265 97.215 140.836 1 20 ? C25 6OE 102 E 1 
HETATM 26 C C26 6OE . . . W 4 129.321 97.739 139.759 1 20 ? C26 6OE 102 E 1 
HETATM 27 O O27 6OE . . . W 4 136.119 95.768 141.925 1 20 ? O27 6OE 102 E 1 
HETATM 28 H H011 6OE . . . W 4 139.763 101.7 149.661 1 20 ? H011 6OE 102 E 1 
HETATM 29 H H012 6OE . . . W 4 140.002 100.27 149.604 1 20 ? H012 6OE 102 E 1 
HETATM 30 H H022 6OE . . . W 4 139.082 100.704 147.333 1 20 ? H022 6OE 102 E 1 
HETATM 31 H H021 6OE . . . W 4 138.233 101.664 148.264 1 20 ? H021 6OE 102 E 1 
HETATM 32 H H032 6OE . . . W 4 138.478 98.971 149.026 1 20 ? H032 6OE 102 E 1 
HETATM 33 H H031 6OE . . . W 4 137.283 99.961 149.347 1 20 ? H031 6OE 102 E 1 
HETATM 34 H H092 6OE . . . W 4 134.712 97.881 145.428 1 20 ? H092 6OE 102 E 1 
HETATM 35 H H091 6OE . . . W 4 135.939 98.884 145.43 1 20 ? H091 6OE 102 E 1 
HETATM 36 H H101 6OE . . . W 4 136.714 97.014 143.791 1 20 ? H101 6OE 102 E 1 
HETATM 37 H H112 6OE . . . W 4 136.466 98.679 142.126 1 20 ? H112 6OE 102 E 1 
HETATM 38 H H111 6OE . . . W 4 137.061 99.312 143.449 1 20 ? H111 6OE 102 E 1 
HETATM 39 H H142 6OE . . . W 4 133.094 100.119 141.571 1 20 ? H142 6OE 102 E 1 
HETATM 40 H H141 6OE . . . W 4 133.272 101.622 141.982 1 20 ? H141 6OE 102 E 1 
HETATM 41 H H151 6OE . . . W 4 134.482 100.914 139.598 1 20 ? H151 6OE 102 E 1 
HETATM 42 H H152 6OE . . . W 4 133.775 102.267 139.966 1 20 ? H152 6OE 102 E 1 
HETATM 43 H H161 6OE . . . W 4 131.79 101.582 139.321 1 20 ? H161 6OE 102 E 1 
HETATM 44 H H162 6OE . . . W 4 132.104 100.072 139.622 1 20 ? H162 6OE 102 E 1 
HETATM 45 H H172 6OE . . . W 4 132.732 101.504 137.299 1 20 ? H172 6OE 102 E 1 
HETATM 46 H H171 6OE . . . W 4 133.64 100.279 137.661 1 20 ? H171 6OE 102 E 1 
HETATM 47 H H181 6OE . . . W 4 130.857 100.011 137.217 1 20 ? H181 6OE 102 E 1 
HETATM 48 H H182 6OE . . . W 4 131.87 98.812 137.386 1 20 ? H182 6OE 102 E 1 
HETATM 49 H H222 6OE . . . W 4 134.316 96.372 140.182 1 20 ? H222 6OE 102 E 1 
HETATM 50 H H221 6OE . . . W 4 133.734 95.162 141.002 1 20 ? H221 6OE 102 E 1 
HETATM 51 H H231 6OE . . . W 4 132.982 97.84 141.411 1 20 ? H231 6OE 102 E 1 
HETATM 52 H H232 6OE . . . W 4 132.388 96.621 142.216 1 20 ? H232 6OE 102 E 1 
HETATM 53 H H242 6OE . . . W 4 131.858 97.29 139.533 1 20 ? H242 6OE 102 E 1 
HETATM 54 H H241 6OE . . . W 4 131.57 95.831 140.049 1 20 ? H241 6OE 102 E 1 
HETATM 55 H H252 6OE . . . W 4 129.841 96.463 141.272 1 20 ? H252 6OE 102 E 1 
HETATM 56 H H251 6OE . . . W 4 130.402 97.919 141.485 1 20 ? H251 6OE 102 E 1 
HETATM 57 H H262 6OE . . . W 4 129.057 97.008 139.181 1 20 ? H262 6OE 102 E 1 
HETATM 58 H H261 6OE . . . W 4 129.768 98.419 139.238 1 20 ? H261 6OE 102 E 1 
#
_model_server_stats.io_time_ms              14 
_model_server_stats.parse_time_ms           28 
_model_server_stats.create_model_time_ms    14 
_model_server_stats.query_time_ms           286 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           58 
#