data_7LEO
#
_model_server_result.job_id            -tIhRR-n2WSSzHGwrdeflQ 
_model_server_result.datetime_utc      '2024-11-05 04:06:56' 
_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          7leo 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"E","auth_seq_id":303}' 
#
_entry.id    7LEO 
#
_exptl.entry_id    7LEO 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              482.568 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            '(4S,7R)-7-(heptanoyloxy)-4-hydroxy-N,N,N-trimethyl-10-oxo-3,5,9-trioxa-4-phosphahexadecan-1-aminium 4-oxide' 
_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          107.72 
_cell.angle_gamma         90 
_cell.entry_id            7LEO 
_cell.length_a            83.388 
_cell.length_b            50.888 
_cell.length_c            37.485 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 7LEO 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        5 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'C 1 2 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
? monomeric 1 author_defined_assembly 1 
? monomeric 1 author_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,D,E,F,G,K 1 1 
B,H,I,J,L 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
? 3 E N N 
? 3 F N N 
? 3 G 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
metalc ? metalc1 A ND1 HIS 3 A HIS 231 1_555 C ZN ZN . A ZN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.014 ? 
metalc ? metalc2 A SG CYS 16 A CYS 244 1_555 D ZN ZN . A ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.294 ? 
metalc ? metalc3 A SG CYS 19 A CYS 247 1_555 D ZN ZN . A ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.3 ? 
metalc ? metalc4 A SG CYS 33 A CYS 261 1_555 C ZN ZN . A ZN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.304 ? 
metalc ? metalc5 A SG CYS 36 A CYS 264 1_555 C ZN ZN . A ZN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.312 ? 
metalc ? metalc6 A ND1 HIS 41 A HIS 269 1_555 D ZN ZN . A ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.094 ? 
metalc ? metalc7 A SG CYS 44 A CYS 272 1_555 D ZN ZN . A ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.285 ? 
metalc ? metalc8 A SG CYS 52 A CYS 280 1_555 C ZN ZN . A ZN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.257 ? 
metalc ? metalc9 B ND1 HIS 3 D HIS 231 1_555 H ZN ZN . D ZN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? 
metalc ? metalc10 B SG CYS 16 D CYS 244 1_555 I ZN ZN . D ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.335 ? 
metalc ? metalc11 B SG CYS 19 D CYS 247 1_555 I ZN ZN . D ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.318 ? 
metalc ? metalc12 B SG CYS 33 D CYS 261 1_555 H ZN ZN . D ZN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.297 ? 
metalc ? metalc13 B SG CYS 36 D CYS 264 1_555 H ZN ZN . D ZN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.322 ? 
metalc ? metalc14 B ND1 HIS 41 D HIS 269 1_555 I ZN ZN . D ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.093 ? 
metalc ? metalc15 B SG CYS 44 D CYS 272 1_555 I ZN ZN . D ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.319 ? 
metalc ? metalc16 B SG CYS 52 D CYS 280 1_555 H ZN ZN . D ZN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.323 ? 
#
_chem_comp.formula           'C22 H45 N O8 P 1' 
_chem_comp.formula_weight    482.568 
_chem_comp.id                XP5 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              '(4S,7R)-7-(heptanoyloxy)-4-hydroxy-N,N,N-trimethyl-10-oxo-3,5,9-trioxa-4-phosphahexadecan-1-aminium 4-oxide' 
_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
O1 P1 XP5 doub 355 n n 
O2 P1 XP5 sing 356 n n 
P1 O3 XP5 sing 357 n n 
P1 O4 XP5 sing 358 n n 
O3 C1 XP5 sing 359 n n 
C1 C2 XP5 sing 360 n n 
C2 N1 XP5 sing 361 n n 
N1 C3 XP5 sing 362 n n 
N1 C4 XP5 sing 363 n n 
N1 C5 XP5 sing 364 n n 
O4 C6 XP5 sing 365 n n 
C6 CAM XP5 sing 366 n n 
C8 O5 XP5 sing 367 n n 
C8 CAM XP5 sing 368 n n 
O5 C9 XP5 sing 369 n n 
C9 O6 XP5 doub 370 n n 
C9 C10 XP5 sing 371 n n 
C10 C11 XP5 sing 372 n n 
C11 C12 XP5 sing 373 n n 
C12 C13 XP5 sing 374 n n 
C13 C14 XP5 sing 375 n n 
C14 C15 XP5 sing 376 n n 
O7 C17 XP5 doub 377 n n 
C17 O8 XP5 sing 378 n n 
C17 C18 XP5 sing 379 n n 
O8 CAM XP5 sing 380 n n 
C18 C19 XP5 sing 381 n n 
C19 C20 XP5 sing 382 n n 
C20 C21 XP5 sing 383 n n 
C21 C22 XP5 sing 384 n n 
C22 C23 XP5 sing 385 n n 
O2 H2 XP5 sing 386 n n 
C1 H11C XP5 sing 387 n n 
C1 H12C XP5 sing 388 n n 
C2 H21C XP5 sing 389 n n 
C2 H22C XP5 sing 390 n n 
C3 H31C XP5 sing 391 n n 
C3 H32C XP5 sing 392 n n 
C3 H33C XP5 sing 393 n n 
C4 H41C XP5 sing 394 n n 
C4 H42C XP5 sing 395 n n 
C4 H43C XP5 sing 396 n n 
C5 H51C XP5 sing 397 n n 
C5 H52C XP5 sing 398 n n 
C5 H53C XP5 sing 399 n n 
C6 H61C XP5 sing 400 n n 
C6 H62C XP5 sing 401 n n 
CAM HAM XP5 sing 402 n n 
C8 H81C XP5 sing 403 n n 
C8 H82C XP5 sing 404 n n 
C10 H101 XP5 sing 405 n n 
C10 H102 XP5 sing 406 n n 
C11 H111 XP5 sing 407 n n 
C11 H112 XP5 sing 408 n n 
C12 H121 XP5 sing 409 n n 
C12 H122 XP5 sing 410 n n 
C13 H131 XP5 sing 411 n n 
C13 H132 XP5 sing 412 n n 
C14 H141 XP5 sing 413 n n 
C14 H142 XP5 sing 414 n n 
C15 H151 XP5 sing 415 n n 
C15 H152 XP5 sing 416 n n 
C15 H153 XP5 sing 417 n n 
C18 H181 XP5 sing 418 n n 
C18 H182 XP5 sing 419 n n 
C19 H191 XP5 sing 420 n n 
C19 H192 XP5 sing 421 n n 
C20 H201 XP5 sing 422 n n 
C20 H202 XP5 sing 423 n n 
C21 H211 XP5 sing 424 n n 
C21 H212 XP5 sing 425 n n 
C22 H221 XP5 sing 426 n n 
C22 H222 XP5 sing 427 n n 
C23 H231 XP5 sing 428 n n 
C23 H232 XP5 sing 429 n n 
C23 H233 XP5 sing 430 n n 
#
_atom_sites.entry_id                     7LEO 
_atom_sites.fract_transf_matrix[1][1]    0.011992 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.003833 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.019651 
_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]    0.028007 
_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
C 2 ZN A 1 301 1 ZN ZN . 
D 2 ZN A 1 302 2 ZN ZN . 
E 3 XP5 A 1 303 1 XP5 LIG . 
F 3 XP5 A 1 304 2 XP5 LIG . 
G 3 XP5 A 1 305 3 XP5 LIG . 
H 2 ZN D 1 301 1 ZN ZN . 
I 2 ZN D 1 302 2 ZN ZN . 
J 4 XZJ D 1 303 1 XZJ AJH . 
K 5 HOH A 1 401 31 HOH HOH . 
K 5 HOH A 2 402 15 HOH HOH . 
K 5 HOH A 3 403 47 HOH HOH . 
K 5 HOH A 4 404 52 HOH HOH . 
K 5 HOH A 5 405 48 HOH HOH . 
K 5 HOH A 6 406 60 HOH HOH . 
K 5 HOH A 7 407 49 HOH HOH . 
K 5 HOH A 8 408 32 HOH HOH . 
K 5 HOH A 9 409 5 HOH HOH . 
K 5 HOH A 10 410 22 HOH HOH . 
K 5 HOH A 11 411 27 HOH HOH . 
K 5 HOH A 12 412 30 HOH HOH . 
K 5 HOH A 13 413 62 HOH HOH . 
K 5 HOH A 14 414 2 HOH HOH . 
K 5 HOH A 15 415 50 HOH HOH . 
K 5 HOH A 16 416 1 HOH HOH . 
K 5 HOH A 17 417 53 HOH HOH . 
K 5 HOH A 18 418 58 HOH HOH . 
K 5 HOH A 19 419 21 HOH HOH . 
K 5 HOH A 20 420 11 HOH HOH . 
K 5 HOH A 21 421 56 HOH HOH . 
K 5 HOH A 22 422 57 HOH HOH . 
K 5 HOH A 23 423 17 HOH HOH . 
K 5 HOH A 24 424 33 HOH HOH . 
K 5 HOH A 25 425 37 HOH HOH . 
K 5 HOH A 26 426 25 HOH HOH . 
K 5 HOH A 27 427 12 HOH HOH . 
K 5 HOH A 28 428 55 HOH HOH . 
K 5 HOH A 29 429 59 HOH HOH . 
K 5 HOH A 30 430 42 HOH HOH . 
K 5 HOH A 31 431 41 HOH HOH . 
K 5 HOH A 32 432 43 HOH HOH . 
K 5 HOH A 33 433 26 HOH HOH . 
K 5 HOH A 34 434 28 HOH HOH . 
K 5 HOH A 35 435 54 HOH HOH . 
K 5 HOH A 36 436 34 HOH HOH . 
K 5 HOH A 37 437 51 HOH HOH . 
K 5 HOH A 38 438 44 HOH HOH . 
K 5 HOH A 39 439 19 HOH HOH . 
L 5 HOH D 1 401 10 HOH HOH . 
L 5 HOH D 2 402 35 HOH HOH . 
L 5 HOH D 3 403 6 HOH HOH . 
L 5 HOH D 4 404 39 HOH HOH . 
L 5 HOH D 5 405 61 HOH HOH . 
L 5 HOH D 6 406 20 HOH HOH . 
L 5 HOH D 7 407 23 HOH HOH . 
L 5 HOH D 8 408 4 HOH HOH . 
L 5 HOH D 9 409 13 HOH HOH . 
L 5 HOH D 10 410 18 HOH HOH . 
L 5 HOH D 11 411 14 HOH HOH . 
L 5 HOH D 12 412 38 HOH HOH . 
L 5 HOH D 13 413 16 HOH HOH . 
L 5 HOH D 14 414 24 HOH HOH . 
L 5 HOH D 15 415 7 HOH HOH . 
L 5 HOH D 16 416 3 HOH HOH . 
L 5 HOH D 17 417 29 HOH HOH . 
L 5 HOH D 18 418 8 HOH HOH . 
L 5 HOH D 19 419 40 HOH HOH . 
L 5 HOH D 20 420 36 HOH HOH . 
L 5 HOH D 21 421 46 HOH HOH . 
L 5 HOH D 22 422 45 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 O O1 XP5 . . . E 3 -12.537 12.652 4.486 1 48.12 ? O1 XP5 303 A 1 
HETATM 2 O O2 XP5 . . . E 3 -12.497 10.624 5.909 1 45.78 -1 O2 XP5 303 A 1 
HETATM 3 P P1 XP5 . . . E 3 -12.613 11.141 4.487 1 51.41 ? P1 XP5 303 A 1 
HETATM 4 O O3 XP5 . . . E 3 -14.089 10.71 3.891 1 50.07 ? O3 XP5 303 A 1 
HETATM 5 C C1 XP5 . . . E 3 -14.199 10.059 2.655 1 43.67 ? C1 XP5 303 A 1 
HETATM 6 C C2 XP5 . . . E 3 -15.57 9.377 2.582 1 42.59 ? C2 XP5 303 A 1 
HETATM 7 N N1 XP5 . . . E 3 -16.674 10.315 2.408 1 49.04 ? N1 XP5 303 A 1 
HETATM 8 C C3 XP5 . . . E 3 -17.126 10.803 3.7 1 44 ? C3 XP5 303 A 1 
HETATM 9 C C4 XP5 . . . E 3 -17.784 9.644 1.757 1 47.93 ? C4 XP5 303 A 1 
HETATM 10 C C5 XP5 . . . E 3 -16.29 11.438 1.573 1 48.54 ? C5 XP5 303 A 1 
HETATM 11 O O4 XP5 . . . E 3 -11.413 10.481 3.561 1 44.75 ? O4 XP5 303 A 1 
HETATM 12 C C6 XP5 . . . E 3 -10.739 11.311 2.667 1 43.12 ? C6 XP5 303 A 1 
HETATM 13 C C8 XP5 . . . E 3 -8.601 11.407 1.488 1 44.47 ? C8 XP5 303 A 1 
HETATM 14 O O5 XP5 . . . E 3 -7.224 11.575 1.631 1 45.46 ? O5 XP5 303 A 1 
HETATM 15 C C9 XP5 . . . E 3 -6.452 10.444 1.332 1 45.16 ? C9 XP5 303 A 1 
HETATM 16 O O6 XP5 . . . E 3 -6.964 9.425 0.982 1 40.76 ? O6 XP5 303 A 1 
HETATM 17 C C10 XP5 . . . E 3 -4.933 10.542 1.472 1 44.61 ? C10 XP5 303 A 1 
HETATM 18 C C11 XP5 . . . E 3 -4.51 10.844 2.908 1 48.28 ? C11 XP5 303 A 1 
HETATM 19 C C12 XP5 . . . E 3 -3.073 11.354 3.014 1 52.21 ? C12 XP5 303 A 1 
HETATM 20 C C13 XP5 . . . E 3 -2.089 10.19 3.082 1 50.35 ? C13 XP5 303 A 1 
HETATM 21 C C14 XP5 . . . E 3 -1.066 10.278 4.213 1 48.9 ? C14 XP5 303 A 1 
HETATM 22 C C15 XP5 . . . E 3 -1.461 9.413 5.41 1 46.27 ? C15 XP5 303 A 1 
HETATM 23 O O7 XP5 . . . E 3 -7.264 10.464 4.547 1 42.35 ? O7 XP5 303 A 1 
HETATM 24 C C17 XP5 . . . E 3 -7.577 11.603 4.492 1 44.66 ? C17 XP5 303 A 1 
HETATM 25 O O8 XP5 . . . E 3 -8.771 11.986 3.857 1 44.18 ? O8 XP5 303 A 1 
HETATM 26 C C18 XP5 . . . E 3 -6.65 12.654 5.099 1 48.13 ? C18 XP5 303 A 1 
HETATM 27 C C19 XP5 . . . E 3 -6.763 12.707 6.615 1 47.3 ? C19 XP5 303 A 1 
HETATM 28 C C20 XP5 . . . E 3 -8.02 13.468 7.036 1 47.81 ? C20 XP5 303 A 1 
HETATM 29 C C21 XP5 . . . E 3 -7.962 13.988 8.472 1 50.07 ? C21 XP5 303 A 1 
HETATM 30 C C22 XP5 . . . E 3 -6.616 13.741 9.15 1 50.16 ? C22 XP5 303 A 1 
HETATM 31 C C23 XP5 . . . E 3 -6.324 14.788 10.22 1 52.53 ? C23 XP5 303 A 1 
HETATM 32 C CAM XP5 . . . E 3 -9.239 11.118 2.85 1 41.16 ? CAM XP5 303 A 1 
#
_model_server_stats.io_time_ms              8 
_model_server_stats.parse_time_ms           12 
_model_server_stats.create_model_time_ms    2 
_model_server_stats.query_time_ms           339 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           32 
#