data_8YIN
#
_model_server_result.job_id            9_l9d9cYu3ZsjrrpUJKHKA 
_model_server_result.datetime_utc      '2024-12-26 13:05:10' 
_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          8yin 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"W","auth_seq_id":402}' 
#
_entry.id    8YIN 
#
_exptl.entry_id    8YIN 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              593.773 
_entity.id                          13 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            '(1R)-2-{[(S)-(2-aminoethoxy)(hydroxy)phosphoryl]oxy}-1-[(heptanoyloxy)methyl]ethyl octadecanoate' 
_entity.pdbx_number_of_molecules    2 
_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            8YIN 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               ? 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 8YIN 
_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    eicosameric 
_pdbx_struct_assembly.oligomeric_count      20 
_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,AA,BA,CA,DA,EA,FA,GA,HA,IA,JA,KA,LA,MA 
_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
? 13 W N N 
? 13 IA 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 134 E CYS 164 1_555 E SG CYS 150 E CYS 180 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.409 ? 
disulf ? disulf2 O SG CYS 134 P CYS 164 1_555 O SG CYS 150 P CYS 180 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.41 ? 
metalc ? metalc1 B NE2 HIS 82 C HIS 82 1_555 X FE HEM . C HEM 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.778 ? 
metalc ? metalc2 B NE2 HIS 96 C HIS 96 1_555 Y FE HEM . C HEM 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.714 ? 
metalc ? metalc3 B NE2 HIS 183 C HIS 183 1_555 X FE HEM . C HEM 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.706 ? 
metalc ? metalc4 B NE2 HIS 197 C HIS 197 1_555 Y FE HEM . C HEM 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.714 ? 
metalc ? metalc5 D NE2 HIS 44 D HIS 105 1_555 CA FE HEM . D HEM 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.765 ? 
metalc ? metalc6 G NE2 HIS 82 N HIS 82 1_555 JA FE HEM . N HEM 405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.785 ? 
metalc ? metalc7 G NE2 HIS 96 N HIS 96 1_555 GA FE HEM . N HEM 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.708 ? 
metalc ? metalc8 G NE2 HIS 183 N HIS 183 1_555 JA FE HEM . N HEM 405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.707 ? 
metalc ? metalc9 G NE2 HIS 197 N HIS 197 1_555 GA FE HEM . N HEM 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.711 ? 
metalc ? metalc10 M NE2 HIS 44 O HIS 105 1_555 LA FE HEM . O HEM 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.765 ? 
#
_chem_comp.formula           'C30 H60 N O8 P' 
_chem_comp.formula_weight    593.773 
_chem_comp.id                9PE 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              '(1R)-2-{[(S)-(2-aminoethoxy)(hydroxy)phosphoryl]oxy}-1-[(heptanoyloxy)methyl]ethyl octadecanoate' 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     3-SN-PHOSPHATIDYLETHANOLAMINE 
#
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
O12 P 9PE doub 221 n n 
P O11 9PE sing 222 n n 
P O14 9PE sing 223 n n 
P O13 9PE sing 224 n n 
C12 N 9PE sing 225 n n 
N HN 9PE sing 226 n n 
N HNA 9PE sing 227 n n 
O11 C1 9PE sing 228 n n 
O13 C11 9PE sing 229 n n 
O14 HO14 9PE sing 230 n n 
C11 C12 9PE sing 231 n n 
C11 H11 9PE sing 232 n n 
C11 H11A 9PE sing 233 n n 
C12 H12 9PE sing 234 n n 
C12 H12A 9PE sing 235 n n 
C2 C1 9PE sing 236 n n 
C1 H1 9PE sing 237 n n 
C1 H1A 9PE sing 238 n n 
O21 C2 9PE sing 239 n n 
C2 C3 9PE sing 240 n n 
C2 H2 9PE sing 241 n n 
O31 C3 9PE sing 242 n n 
C3 H3 9PE sing 243 n n 
C3 H3A 9PE sing 244 n n 
O31 C31 9PE sing 245 n n 
C31 O32 9PE doub 246 n n 
C32 C31 9PE sing 247 n n 
C33 C32 9PE sing 248 n n 
C32 H32 9PE sing 249 n n 
C32 H32A 9PE sing 250 n n 
C34 C33 9PE sing 251 n n 
C33 H33 9PE sing 252 n n 
C33 H33A 9PE sing 253 n n 
C35 C34 9PE sing 254 n n 
C34 H34 9PE sing 255 n n 
C34 H34A 9PE sing 256 n n 
C36 C35 9PE sing 257 n n 
C35 H35 9PE sing 258 n n 
C35 H35A 9PE sing 259 n n 
C37 C36 9PE sing 260 n n 
C36 H36 9PE sing 261 n n 
C36 H36A 9PE sing 262 n n 
C37 H37 9PE sing 263 n n 
C37 H37A 9PE sing 264 n n 
C37 H37B 9PE sing 265 n n 
C21 O21 9PE sing 266 n n 
O22 C21 9PE doub 267 n n 
C22 C21 9PE sing 268 n n 
C23 C22 9PE sing 269 n n 
C22 H22 9PE sing 270 n n 
C22 H22A 9PE sing 271 n n 
C23 C24 9PE sing 272 n n 
C23 H23 9PE sing 273 n n 
C23 H23A 9PE sing 274 n n 
C25 C24 9PE sing 275 n n 
C24 H24 9PE sing 276 n n 
C24 H24A 9PE sing 277 n n 
C26 C25 9PE sing 278 n n 
C25 H25 9PE sing 279 n n 
C25 H25A 9PE sing 280 n n 
C27 C26 9PE sing 281 n n 
C26 H26 9PE sing 282 n n 
C26 H26A 9PE sing 283 n n 
C28 C27 9PE sing 284 n n 
C27 H27 9PE sing 285 n n 
C27 H27A 9PE sing 286 n n 
C28 C29 9PE sing 287 n n 
C28 H28 9PE sing 288 n n 
C28 H28A 9PE sing 289 n n 
C2A C29 9PE sing 290 n n 
C29 H29 9PE sing 291 n n 
C29 H29A 9PE sing 292 n n 
C2A C2B 9PE sing 293 n n 
C2A H2A 9PE sing 294 n n 
C2A H2AA 9PE sing 295 n n 
C2C C2B 9PE sing 296 n n 
C2B H2B 9PE sing 297 n n 
C2B H2BA 9PE sing 298 n n 
C2C C2D 9PE sing 299 n n 
C2C H2C 9PE sing 300 n n 
C2C H2CA 9PE sing 301 n n 
C2E C2D 9PE sing 302 n n 
C2D H2D 9PE sing 303 n n 
C2D H2DA 9PE sing 304 n n 
C2E C2F 9PE sing 305 n n 
C2E H2E 9PE sing 306 n n 
C2E H2EA 9PE sing 307 n n 
C2G C2F 9PE sing 308 n n 
C2F H2F 9PE sing 309 n n 
C2F H2FA 9PE sing 310 n n 
C2H C2G 9PE sing 311 n n 
C2G H2G 9PE sing 312 n n 
C2G H2GA 9PE sing 313 n n 
C2I C2H 9PE sing 314 n n 
C2H H2H 9PE sing 315 n n 
C2H H2HA 9PE sing 316 n n 
C2I H2I 9PE sing 317 n n 
C2I H2IA 9PE sing 318 n n 
C2I H2IB 9PE sing 319 n n 
#
_atom_sites.entry_id                     8YIN 
_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
U 11 6PH A 1 501 501 6PH 6PH . 
V 12 CN3 C 1 401 401 CN3 CN3 . 
W 13 9PE C 1 402 402 9PE 9PE . 
X 14 HEM C 1 403 403 HEM HEM . 
Y 14 HEM C 1 404 404 HEM HEM . 
Z 15 CN5 C 1 405 405 CN5 CN5 . 
AA 16 UQ6 C 1 406 406 UQ6 UQ6 . 
BA 17 A1D6O C 1 407 407 A1D6O A1D . 
CA 14 HEM D 1 401 401 HEM HEM . 
DA 11 6PH E 1 301 301 6PH 6PH . 
EA 18 8PE H 1 101 101 8PE 8PE . 
FA 12 CN3 N 1 401 404 CN3 CN3 . 
GA 14 HEM N 1 402 405 HEM HEM . 
HA 16 UQ6 N 1 403 401 UQ6 UQ6 . 
IA 13 9PE N 1 404 402 9PE 9PE . 
JA 14 HEM N 1 405 403 HEM HEM . 
KA 17 A1D6O N 1 406 406 A1D6O A1D . 
LA 14 HEM O 1 401 401 HEM HEM . 
MA 18 8PE S 1 101 101 8PE 8PE . 
#
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 P P 9PE . . . W 13 165.569 141.722 157.725 1 66.37 ? P 9PE 402 C 1 
HETATM 2 N N 9PE . . . W 13 166.167 139.805 162.308 1 66.37 ? N 9PE 402 C 1 
HETATM 3 O O11 9PE . . . W 13 165.118 141.22 156.226 1 66.37 ? O11 9PE 402 C 1 
HETATM 4 O O12 9PE . . . W 13 166.927 142.372 157.645 1 66.37 ? O12 9PE 402 C 1 
HETATM 5 O O13 9PE . . . W 13 165.637 140.429 158.741 1 66.37 ? O13 9PE 402 C 1 
HETATM 6 O O14 9PE . . . W 13 164.567 142.723 158.242 1 66.37 ? O14 9PE 402 C 1 
HETATM 7 C C11 9PE . . . W 13 166.2 140.61 160.009 1 66.37 ? C11 9PE 402 C 1 
HETATM 8 C C12 9PE . . . W 13 165.573 139.626 160.995 1 66.37 ? C12 9PE 402 C 1 
HETATM 9 C C1 9PE . . . W 13 166.109 141.119 155.245 1 66.37 ? C1 9PE 402 C 1 
HETATM 10 C C2 9PE . . . W 13 165.493 141.337 153.864 1 66.37 ? C2 9PE 402 C 1 
HETATM 11 C C3 9PE . . . W 13 166.613 141.377 152.821 1 66.37 ? C3 9PE 402 C 1 
HETATM 12 O O31 9PE . . . W 13 166.065 141.645 151.564 1 66.37 ? O31 9PE 402 C 1 
HETATM 13 O O32 9PE . . . W 13 168.107 141.987 150.704 1 66.37 ? O32 9PE 402 C 1 
HETATM 14 C C31 9PE . . . W 13 166.944 142.194 150.63 1 66.37 ? C31 9PE 402 C 1 
HETATM 15 C C32 9PE . . . W 13 166.38 143.071 149.519 1 66.37 ? C32 9PE 402 C 1 
HETATM 16 C C33 9PE . . . W 13 165.17 142.368 148.91 1 66.37 ? C33 9PE 402 C 1 
HETATM 17 C C34 9PE . . . W 13 164.549 143.256 147.838 1 66.37 ? C34 9PE 402 C 1 
HETATM 18 C C35 9PE . . . W 13 163.038 143.045 147.822 1 66.37 ? C35 9PE 402 C 1 
HETATM 19 C C36 9PE . . . W 13 162.486 143.426 146.45 1 66.37 ? C36 9PE 402 C 1 
HETATM 20 C C37 9PE . . . W 13 161.101 142.809 146.273 1 66.37 ? C37 9PE 402 C 1 
HETATM 21 O O21 9PE . . . W 13 164.594 140.297 153.586 1 66.37 ? O21 9PE 402 C 1 
HETATM 22 O O22 9PE . . . W 13 163.282 141.788 152.539 1 66.37 ? O22 9PE 402 C 1 
HETATM 23 C C21 9PE . . . W 13 163.426 140.674 152.913 1 66.37 ? C21 9PE 402 C 1 
HETATM 24 C C22 9PE . . . W 13 162.327 139.652 152.647 1 66.37 ? C22 9PE 402 C 1 
HETATM 25 C C23 9PE . . . W 13 161.742 139.926 151.265 1 66.37 ? C23 9PE 402 C 1 
HETATM 26 C C24 9PE . . . W 13 160.236 140.158 151.352 1 66.37 ? C24 9PE 402 C 1 
HETATM 27 C C25 9PE . . . W 13 159.817 140.954 150.119 1 66.37 ? C25 9PE 402 C 1 
HETATM 28 C C26 9PE . . . W 13 158.304 141.146 150.077 1 66.37 ? C26 9PE 402 C 1 
HETATM 29 C C27 9PE . . . W 13 158 142.478 149.392 1 66.37 ? C27 9PE 402 C 1 
HETATM 30 C C28 9PE . . . W 13 156.773 142.343 148.493 1 66.37 ? C28 9PE 402 C 1 
HETATM 31 C C29 9PE . . . W 13 156.221 143.729 148.164 1 66.37 ? C29 9PE 402 C 1 
HETATM 32 C C2A 9PE . . . W 13 155.403 144.238 149.345 1 66.37 ? C2A 9PE 402 C 1 
HETATM 33 C C2B 9PE . . . W 13 154.936 145.664 149.075 1 66.37 ? C2B 9PE 402 C 1 
HETATM 34 C C2C 9PE . . . W 13 156.146 146.59 149.106 1 66.37 ? C2C 9PE 402 C 1 
HETATM 35 C C2D 9PE . . . W 13 155.842 147.942 148.455 1 66.37 ? C2D 9PE 402 C 1 
HETATM 36 C C2E 9PE . . . W 13 155.151 147.79 147.093 1 66.37 ? C2E 9PE 402 C 1 
HETATM 37 C C2F 9PE . . . W 13 155.624 148.813 146.053 1 66.37 ? C2F 9PE 402 C 1 
HETATM 38 C C2G 9PE . . . W 13 155.819 150.196 146.67 1 66.37 ? C2G 9PE 402 C 1 
HETATM 39 C C2H 9PE . . . W 13 154.486 150.935 146.697 1 66.37 ? C2H 9PE 402 C 1 
HETATM 40 C C2I 9PE . . . W 13 154.217 151.408 148.123 1 66.37 ? C2I 9PE 402 C 1 
#
_model_server_stats.io_time_ms              18 
_model_server_stats.parse_time_ms           9 
_model_server_stats.create_model_time_ms    39 
_model_server_stats.query_time_ms           320 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           40 
#