data_7VD2
#
_model_server_result.job_id            sxqFYgubnEA7eB6Ge-Ugxw 
_model_server_result.datetime_utc      '2025-02-05 14:06:32' 
_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          7vd2 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"N","auth_seq_id":104}' 
#
_entry.id    7VD2 
#
_exptl.entry_id    7VD2 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              790.145 
_entity.id                          7 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            1,2-DIACYL-SN-GLYCERO-3-PHOSPHOCHOLINE 
_entity.pdbx_number_of_molecules    27 
_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            7VD2 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               ? 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 7VD2 
_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    decameric 
_pdbx_struct_assembly.oligomeric_count      10 
_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,NA,OA,PA,QA,RA,SA,TA,UA,VA,WA,XA,YA,ZA,AB 
_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
? 7 L N N 
? 7 N N N 
? 7 P N N 
? 7 R N N 
? 7 T N N 
? 7 U N N 
? 7 V N N 
? 7 W N N 
? 7 X N N 
? 7 Y N N 
? 7 AA N N 
? 7 BA N N 
? 7 DA N N 
? 7 FA N N 
? 7 GA N N 
? 7 HA N N 
? 7 IA N N 
? 7 JA N N 
? 7 LA N N 
? 7 NA N N 
? 7 PA N N 
? 7 RA N N 
? 7 SA N N 
? 7 TA N N 
? 7 WA N N 
? 7 ZA N N 
? 7 AB N N 
#
_chem_comp.formula           'C44 H88 N O8 P' 
_chem_comp.formula_weight    790.145 
_chem_comp.id                PC1 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              1,2-DIACYL-SN-GLYCERO-3-PHOSPHOCHOLINE 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     3-SN-PHOSPHATIDYLCHOLINE 
#
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 PC1 sing 235 n n 
P O14 PC1 doub 236 n n 
P O13 PC1 sing 237 n n 
P O11 PC1 sing 238 n n 
O13 C11 PC1 sing 239 n n 
C11 C12 PC1 sing 240 n n 
C11 H111 PC1 sing 241 n n 
C11 H112 PC1 sing 242 n n 
C12 N PC1 sing 243 n n 
C12 H121 PC1 sing 244 n n 
C12 H122 PC1 sing 245 n n 
N C13 PC1 sing 246 n n 
N C14 PC1 sing 247 n n 
N C15 PC1 sing 248 n n 
C13 H131 PC1 sing 249 n n 
C13 H132 PC1 sing 250 n n 
C13 H133 PC1 sing 251 n n 
C14 H141 PC1 sing 252 n n 
C14 H142 PC1 sing 253 n n 
C14 H143 PC1 sing 254 n n 
C15 H151 PC1 sing 255 n n 
C15 H152 PC1 sing 256 n n 
C15 H153 PC1 sing 257 n n 
O11 C1 PC1 sing 258 n n 
C1 C2 PC1 sing 259 n n 
C1 H11 PC1 sing 260 n n 
C1 H12 PC1 sing 261 n n 
C2 O21 PC1 sing 262 n n 
C2 C3 PC1 sing 263 n n 
C2 H2 PC1 sing 264 n n 
O21 C21 PC1 sing 265 n n 
C21 O22 PC1 doub 266 n n 
C21 C22 PC1 sing 267 n n 
C22 C23 PC1 sing 268 n n 
C22 H221 PC1 sing 269 n n 
C22 H222 PC1 sing 270 n n 
C23 C24 PC1 sing 271 n n 
C23 H231 PC1 sing 272 n n 
C23 H232 PC1 sing 273 n n 
C24 C25 PC1 sing 274 n n 
C24 H241 PC1 sing 275 n n 
C24 H242 PC1 sing 276 n n 
C25 C26 PC1 sing 277 n n 
C25 H251 PC1 sing 278 n n 
C25 H252 PC1 sing 279 n n 
C26 C27 PC1 sing 280 n n 
C26 H261 PC1 sing 281 n n 
C26 H262 PC1 sing 282 n n 
C27 C28 PC1 sing 283 n n 
C27 H271 PC1 sing 284 n n 
C27 H272 PC1 sing 285 n n 
C28 C29 PC1 sing 286 n n 
C28 H281 PC1 sing 287 n n 
C28 H282 PC1 sing 288 n n 
C29 C2A PC1 sing 289 n n 
C29 H291 PC1 sing 290 n n 
C29 H292 PC1 sing 291 n n 
C2A C2B PC1 sing 292 n n 
C2A H2A1 PC1 sing 293 n n 
C2A H2A2 PC1 sing 294 n n 
C2B C2C PC1 sing 295 n n 
C2B H2B1 PC1 sing 296 n n 
C2B H2B2 PC1 sing 297 n n 
C2C C2D PC1 sing 298 n n 
C2C H2C1 PC1 sing 299 n n 
C2C H2C2 PC1 sing 300 n n 
C2D C2E PC1 sing 301 n n 
C2D H2D1 PC1 sing 302 n n 
C2D H2D2 PC1 sing 303 n n 
C2E C2F PC1 sing 304 n n 
C2E H2E1 PC1 sing 305 n n 
C2E H2E2 PC1 sing 306 n n 
C2F C2G PC1 sing 307 n n 
C2F H2F1 PC1 sing 308 n n 
C2F H2F2 PC1 sing 309 n n 
C2G C2H PC1 sing 310 n n 
C2G H2G1 PC1 sing 311 n n 
C2G H2G2 PC1 sing 312 n n 
C2H C2I PC1 sing 313 n n 
C2H H2H1 PC1 sing 314 n n 
C2H H2H2 PC1 sing 315 n n 
C2I H2I1 PC1 sing 316 n n 
C2I H2I2 PC1 sing 317 n n 
C2I H2I3 PC1 sing 318 n n 
C3 O31 PC1 sing 319 n n 
C3 H31 PC1 sing 320 n n 
C3 H32 PC1 sing 321 n n 
O31 C31 PC1 sing 322 n n 
C31 O32 PC1 doub 323 n n 
C31 C32 PC1 sing 324 n n 
C32 C33 PC1 sing 325 n n 
C32 H321 PC1 sing 326 n n 
C32 H322 PC1 sing 327 n n 
C33 C34 PC1 sing 328 n n 
C33 H331 PC1 sing 329 n n 
C33 H332 PC1 sing 330 n n 
C34 C35 PC1 sing 331 n n 
C34 H341 PC1 sing 332 n n 
C34 H342 PC1 sing 333 n n 
C35 C36 PC1 sing 334 n n 
C35 H351 PC1 sing 335 n n 
C35 H352 PC1 sing 336 n n 
C36 C37 PC1 sing 337 n n 
C36 H361 PC1 sing 338 n n 
C36 H362 PC1 sing 339 n n 
C37 C38 PC1 sing 340 n n 
C37 H371 PC1 sing 341 n n 
C37 H372 PC1 sing 342 n n 
C38 C39 PC1 sing 343 n n 
C38 H381 PC1 sing 344 n n 
C38 H382 PC1 sing 345 n n 
C39 C3A PC1 sing 346 n n 
C39 H391 PC1 sing 347 n n 
C39 H392 PC1 sing 348 n n 
C3A C3B PC1 sing 349 n n 
C3A H3A1 PC1 sing 350 n n 
C3A H3A2 PC1 sing 351 n n 
C3B C3C PC1 sing 352 n n 
C3B H3B1 PC1 sing 353 n n 
C3B H3B2 PC1 sing 354 n n 
C3C C3D PC1 sing 355 n n 
C3C H3C1 PC1 sing 356 n n 
C3C H3C2 PC1 sing 357 n n 
C3D C3E PC1 sing 358 n n 
C3D H3D1 PC1 sing 359 n n 
C3D H3D2 PC1 sing 360 n n 
C3E C3F PC1 sing 361 n n 
C3E H3E1 PC1 sing 362 n n 
C3E H3E2 PC1 sing 363 n n 
C3F C3G PC1 sing 364 n n 
C3F H3F1 PC1 sing 365 n n 
C3F H3F2 PC1 sing 366 n n 
C3G C3H PC1 sing 367 n n 
C3G H3G1 PC1 sing 368 n n 
C3G H3G2 PC1 sing 369 n n 
C3H C3I PC1 sing 370 n n 
C3H H3H1 PC1 sing 371 n n 
C3H H3H2 PC1 sing 372 n n 
C3I H3I1 PC1 sing 373 n n 
C3I H3I2 PC1 sing 374 n n 
C3I H3I3 PC1 sing 375 n n 
#
_atom_sites.entry_id                     7VD2 
_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
K 6 UND A 1 101 71 UND UND . 
L 7 PC1 A 1 102 82 PC1 PC1 . 
M 6 UND A 1 103 290 UND UND . 
N 7 PC1 A 1 104 421 PC1 PC1 . 
O 6 UND F 1 101 70 UND UND . 
P 7 PC1 F 1 102 305 PC1 PC1 . 
Q 6 UND F 1 103 406 UND UND . 
R 7 PC1 G 1 101 76 PC1 PC1 . 
S 6 UND G 1 102 77 UND UND . 
T 7 PC1 G 1 103 78 PC1 PC1 . 
U 7 PC1 G 1 104 79 PC1 PC1 . 
V 7 PC1 G 1 105 83 PC1 PC1 . 
W 7 PC1 H 1 201 30 PC1 PC1 . 
X 7 PC1 H 1 202 31 PC1 PC1 . 
Y 7 PC1 H 1 203 298 PC1 PC1 . 
Z 6 UND H 1 204 299 UND UND . 
AA 7 PC1 C 1 201 80 PC1 PC1 . 
BA 7 PC1 C 1 202 81 PC1 PC1 . 
CA 6 UND C 1 203 85 UND UND . 
DA 7 PC1 J 1 101 72 PC1 PC1 . 
EA 6 UND J 1 102 73 UND UND . 
FA 7 PC1 J 1 103 74 PC1 PC1 . 
GA 7 PC1 J 1 104 75 PC1 PC1 . 
HA 7 PC1 J 1 105 84 PC1 PC1 . 
IA 7 PC1 B 1 401 296 PC1 PC1 . 
JA 7 PC1 B 1 402 297 PC1 PC1 . 
KA 6 UND B 1 403 300 UND UND . 
LA 7 PC1 B 1 404 401 PC1 PC1 . 
MA 6 UND B 1 405 402 UND UND . 
NA 7 PC1 B 1 406 403 PC1 PC1 . 
OA 6 UND B 1 407 407 UND UND . 
PA 7 PC1 B 1 408 423 PC1 PC1 . 
QA 6 UND B 1 409 424 UND UND . 
RA 7 PC1 I 1 401 285 PC1 PC1 . 
SA 7 PC1 I 1 402 287 PC1 PC1 . 
TA 7 PC1 I 1 403 288 PC1 PC1 . 
UA 6 UND I 1 404 289 UND UND . 
VA 6 UND I 1 405 291 UND UND . 
WA 7 PC1 I 1 406 307 PC1 PC1 . 
XA 6 UND I 1 407 308 UND UND . 
YA 6 UND I 1 408 404 UND UND . 
ZA 7 PC1 I 1 409 405 PC1 PC1 . 
AB 7 PC1 I 1 410 408 PC1 PC1 . 
#
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 O O12 PC1 . . . N 7 161.299 118.652 110.812 1 20 -1 O12 PC1 104 A 1 
HETATM 2 P P PC1 . . . N 7 160.45 119.875 111.019 1 20 ? P PC1 104 A 1 
HETATM 3 O O14 PC1 . . . N 7 159.685 120.447 109.856 1 20 ? O14 PC1 104 A 1 
HETATM 4 O O13 PC1 . . . N 7 159.494 119.538 112.266 1 20 ? O13 PC1 104 A 1 
HETATM 5 C C11 PC1 . . . N 7 158.046 119.482 112.114 1 20 ? C11 PC1 104 A 1 
HETATM 6 C C12 PC1 . . . N 7 157.603 118.202 111.44 1 20 ? C12 PC1 104 A 1 
HETATM 7 N N PC1 . . . N 7 157.357 116.97 112.3 1 20 ? N PC1 104 A 1 
HETATM 8 C C13 PC1 . . . N 7 157.317 115.768 111.412 1 20 ? C13 PC1 104 A 1 
HETATM 9 C C14 PC1 . . . N 7 158.445 116.769 113.309 1 20 ? C14 PC1 104 A 1 
HETATM 10 C C15 PC1 . . . N 7 156.043 117.075 113.01 1 20 ? C15 PC1 104 A 1 
HETATM 11 O O11 PC1 . . . N 7 161.414 121.016 111.612 1 20 ? O11 PC1 104 A 1 
HETATM 12 C C1 PC1 . . . N 7 160.852 122.272 112.092 1 20 ? C1 PC1 104 A 1 
HETATM 13 C C2 PC1 . . . N 7 160.761 122.26 113.602 1 20 ? C2 PC1 104 A 1 
HETATM 14 O O21 PC1 . . . N 7 161.343 121.019 114.085 1 20 ? O21 PC1 104 A 1 
HETATM 15 C C21 PC1 . . . N 7 162.523 121.076 114.718 1 20 ? C21 PC1 104 A 1 
HETATM 16 O O22 PC1 . . . N 7 163.555 121.303 114.143 1 20 ? O22 PC1 104 A 1 
HETATM 17 C C22 PC1 . . . N 7 162.397 120.819 116.191 1 20 ? C22 PC1 104 A 1 
HETATM 18 C C23 PC1 . . . N 7 162.345 122.07 117.012 1 20 ? C23 PC1 104 A 1 
HETATM 19 C C24 PC1 . . . N 7 163.72 122.587 117.408 1 20 ? C24 PC1 104 A 1 
HETATM 20 C C25 PC1 . . . N 7 164.288 121.966 118.663 1 20 ? C25 PC1 104 A 1 
HETATM 21 C C26 PC1 . . . N 7 163.81 122.593 119.952 1 20 ? C26 PC1 104 A 1 
HETATM 22 C C27 PC1 . . . N 7 163.513 121.602 121.045 1 20 ? C27 PC1 104 A 1 
HETATM 23 C C28 PC1 . . . N 7 163.315 122.223 122.407 1 20 ? C28 PC1 104 A 1 
HETATM 24 C C29 PC1 . . . N 7 162.273 121.548 123.276 1 20 ? C29 PC1 104 A 1 
HETATM 25 C C2A PC1 . . . N 7 162.568 120.112 123.664 1 20 ? C2A PC1 104 A 1 
HETATM 26 C C2B PC1 . . . N 7 163.75 119.921 124.588 1 20 ? C2B PC1 104 A 1 
HETATM 27 C C2C PC1 . . . N 7 164.967 119.319 123.93 1 20 ? C2C PC1 104 A 1 
HETATM 28 C C2D PC1 . . . N 7 166.166 119.213 124.834 1 20 ? C2D PC1 104 A 1 
HETATM 29 C C2E PC1 . . . N 7 167.29 118.38 124.272 1 20 ? C2E PC1 104 A 1 
HETATM 30 C C2F PC1 . . . N 7 168.633 118.621 124.922 1 20 ? C2F PC1 104 A 1 
HETATM 31 C C2G PC1 . . . N 7 169.403 119.808 124.379 1 20 ? C2G PC1 104 A 1 
HETATM 32 C C2H PC1 . . . N 7 170.511 119.485 123.404 1 20 ? C2H PC1 104 A 1 
HETATM 33 C C2I PC1 . . . N 7 170.052 118.884 122.095 1 20 ? C2I PC1 104 A 1 
HETATM 34 C C3 PC1 . . . N 7 159.35 122.381 114.134 1 20 ? C3 PC1 104 A 1 
HETATM 35 O O31 PC1 . . . N 7 159.316 121.846 115.473 1 20 ? O31 PC1 104 A 1 
HETATM 36 C C31 PC1 . . . N 7 158.51 120.809 115.678 1 20 ? C31 PC1 104 A 1 
HETATM 37 O O32 PC1 . . . N 7 158.869 119.667 115.578 1 20 ? O32 PC1 104 A 1 
HETATM 38 C C32 PC1 . . . N 7 157.124 121.245 116.064 1 20 ? C32 PC1 104 A 1 
HETATM 39 C C33 PC1 . . . N 7 157.069 122.084 117.308 1 20 ? C33 PC1 104 A 1 
HETATM 40 C C34 PC1 . . . N 7 157.619 121.379 118.544 1 20 ? C34 PC1 104 A 1 
HETATM 41 C C35 PC1 . . . N 7 158.995 121.832 118.982 1 20 ? C35 PC1 104 A 1 
HETATM 42 C C36 PC1 . . . N 7 159.021 123.129 119.763 1 20 ? C36 PC1 104 A 1 
HETATM 43 C C37 PC1 . . . N 7 158.537 123.032 121.191 1 20 ? C37 PC1 104 A 1 
HETATM 44 C C38 PC1 . . . N 7 159.199 124.013 122.126 1 20 ? C38 PC1 104 A 1 
HETATM 45 C C39 PC1 . . . N 7 158.555 124.126 123.486 1 20 ? C39 PC1 104 A 1 
HETATM 46 C C3A PC1 . . . N 7 158.636 122.875 124.336 1 20 ? C3A PC1 104 A 1 
HETATM 47 C C3B PC1 . . . N 7 158.886 123.114 125.806 1 20 ? C3B PC1 104 A 1 
HETATM 48 C C3C PC1 . . . N 7 157.734 123.751 126.547 1 20 ? C3C PC1 104 A 1 
HETATM 49 C C3D PC1 . . . N 7 158.075 124.227 127.941 1 20 ? C3D PC1 104 A 1 
HETATM 50 C C3E PC1 . . . N 7 158.661 125.625 128.019 1 20 ? C3E PC1 104 A 1 
HETATM 51 C C3F PC1 . . . N 7 157.68 126.731 128.365 1 20 ? C3F PC1 104 A 1 
HETATM 52 C C3G PC1 . . . N 7 156.748 127.151 127.246 1 20 ? C3G PC1 104 A 1 
HETATM 53 C C3H PC1 . . . N 7 155.381 126.515 127.257 1 20 ? C3H PC1 104 A 1 
HETATM 54 C C3I PC1 . . . N 7 154.749 126.429 125.893 1 20 ? C3I PC1 104 A 1 
#
_model_server_stats.io_time_ms              13 
_model_server_stats.parse_time_ms           11 
_model_server_stats.create_model_time_ms    31 
_model_server_stats.query_time_ms           336 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           54 
#