data_4OVV
#
_model_server_result.job_id            X5D4nRwJJFN8rRyjub8iEw 
_model_server_result.datetime_utc      '2024-11-28 21:33:08' 
_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          4ovv 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":1101}' 
#
_entry.id    4OVV 
#
_exptl.entry_id    4OVV 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              634.354 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            '(2R)-3-{[(R)-HYDROXY{[(1R,2R,3S,4R,5R,6S)-2,3,6-TRIHYDROXY-4,5-BIS(PHOSPHONOOXY)CYCLOHEXYL]OXY}PHOSPHORYL]OXY}PROPANE-1,2-DIYL DIBUTANOATE' 
_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            4OVV 
_cell.length_a            114.259 
_cell.length_b            116.083 
_cell.length_c            148.743 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 4OVV 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        19 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'P 21 21 21' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    dimeric 
_pdbx_struct_assembly.oligomeric_count      2 
_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 
_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
? 3 C N N 
? 3 E N N 
#
_chem_comp.formula           'C17 H33 O19 P3' 
_chem_comp.formula_weight    634.354 
_chem_comp.id                PBU 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              '(2R)-3-{[(R)-HYDROXY{[(1R,2R,3S,4R,5R,6S)-2,3,6-TRIHYDROXY-4,5-BIS(PHOSPHONOOXY)CYCLOHEXYL]OXY}PHOSPHORYL]OXY}PROPANE-1 ,2-DIYL DIBUTANOATE' 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     'di-butanoyl L-alpha-phosphatidyl-D-myo-inositol 4,5-bisphosphate;di-C4-PIP2' 
#
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
P1 O1 PBU sing 237 n n 
P1 OP1 PBU sing 238 n n 
P1 OP2 PBU doub 239 n n 
P1 OP3 PBU sing 240 n n 
P4 O4 PBU sing 241 n n 
P4 O41 PBU doub 242 n n 
P4 O42 PBU sing 243 n n 
P4 O43 PBU sing 244 n n 
P5 O5 PBU sing 245 n n 
P5 O51 PBU doub 246 n n 
P5 O52 PBU sing 247 n n 
P5 O53 PBU sing 248 n n 
C3' C2' PBU sing 249 n n 
C3' OP1 PBU sing 250 n n 
C3' "H3'1" PBU sing 251 n n 
C3' "H3'2" PBU sing 252 n n 
C2' O2' PBU sing 253 n n 
C2' C1' PBU sing 254 n n 
C2' H2' PBU sing 255 n n 
O2' C7 PBU sing 256 n n 
C1' O1' PBU sing 257 n n 
C1' "H1'1" PBU sing 258 n n 
C1' "H1'2" PBU sing 259 n n 
O1' C11 PBU sing 260 n n 
C1 O1 PBU sing 261 n n 
C1 C2 PBU sing 262 n n 
C1 C6 PBU sing 263 n n 
C1 H1 PBU sing 264 n n 
C2 O2 PBU sing 265 n n 
C2 C3 PBU sing 266 n n 
C2 H2 PBU sing 267 n n 
O2 H02 PBU sing 268 n n 
C3 O3 PBU sing 269 n n 
C3 C4 PBU sing 270 n n 
C3 H3 PBU sing 271 n n 
O3 H03 PBU sing 272 n n 
C4 O4 PBU sing 273 n n 
C4 C5 PBU sing 274 n n 
C4 H4 PBU sing 275 n n 
C5 O5 PBU sing 276 n n 
C5 C6 PBU sing 277 n n 
C5 H5 PBU sing 278 n n 
C6 O6 PBU sing 279 n n 
C6 H6 PBU sing 280 n n 
O6 H06 PBU sing 281 n n 
C7 O7 PBU doub 282 n n 
C7 C8 PBU sing 283 n n 
C8 C9 PBU sing 284 n n 
C8 H81 PBU sing 285 n n 
C8 H82 PBU sing 286 n n 
C9 C10 PBU sing 287 n n 
C9 H91 PBU sing 288 n n 
C9 H92 PBU sing 289 n n 
C10 H11 PBU sing 290 n n 
C10 H12 PBU sing 291 n n 
C10 H13 PBU sing 292 n n 
C11 O11 PBU doub 293 n n 
C11 C12 PBU sing 294 n n 
C12 C13 PBU sing 295 n n 
C12 H121 PBU sing 296 n n 
C12 H122 PBU sing 297 n n 
C13 C14 PBU sing 298 n n 
C13 H131 PBU sing 299 n n 
C13 H132 PBU sing 300 n n 
C14 H141 PBU sing 301 n n 
C14 H142 PBU sing 302 n n 
C14 H143 PBU sing 303 n n 
O42 H42 PBU sing 304 n n 
O43 H43 PBU sing 305 n n 
O52 H52 PBU sing 306 n n 
O53 H53 PBU sing 307 n n 
OP3 HP3 PBU sing 308 n n 
#
_atom_sites.entry_id                     4OVV 
_atom_sites.fract_transf_matrix[1][1]    0.008752 
_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]    0.008615 
_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]    0.006723 
_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 3 PBU A 1 1101 2002 PBU PBU . 
D 4 PO4 A 1 1102 2003 PO4 PO4 . 
E 3 PBU B 1 2001 2001 PBU PBU . 
F 5 HOH A 1 1201 1 HOH HOH . 
F 5 HOH A 2 1202 2 HOH HOH . 
F 5 HOH A 3 1203 3 HOH HOH . 
F 5 HOH A 4 1204 4 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 P P1 PBU . . . C 3 89.172 49.441 117.306 1 114.84 ? P1 PBU 1101 A 1 
HETATM 2 P P4 PBU . . . C 3 90.448 43.454 112.088 1 116.65 ? P4 PBU 1101 A 1 
HETATM 3 P P5 PBU . . . C 3 91 47.818 110.601 1 112.66 ? P5 PBU 1101 A 1 
HETATM 4 C C3' PBU . . . C 3 91.37 50.876 118.102 1 115.96 ? C3' PBU 1101 A 1 
HETATM 5 C C2' PBU . . . C 3 91.221 52.001 119.193 1 116.07 ? C2' PBU 1101 A 1 
HETATM 6 O O2' PBU . . . C 3 92.546 52.468 119.595 1 117.07 ? O2' PBU 1101 A 1 
HETATM 7 C C1' PBU . . . C 3 90.334 51.475 120.403 1 116.78 ? C1' PBU 1101 A 1 
HETATM 8 O O1' PBU . . . C 3 90.969 50.644 121.408 1 118.58 ? O1' PBU 1101 A 1 
HETATM 9 C C1 PBU . . . C 3 89.179 48.031 115.023 1 114.15 ? C1 PBU 1101 A 1 
HETATM 10 O O1 PBU . . . C 3 89.889 48.724 116.057 1 114.84 ? O1 PBU 1101 A 1 
HETATM 11 C C2 PBU . . . C 3 88.434 46.766 115.548 1 115.02 ? C2 PBU 1101 A 1 
HETATM 12 O O2 PBU . . . C 3 89.138 46.2 116.69 1 116.71 ? O2 PBU 1101 A 1 
HETATM 13 C C3 PBU . . . C 3 88.198 45.65 114.486 1 115.01 ? C3 PBU 1101 A 1 
HETATM 14 O O3 PBU . . . C 3 87.958 44.358 115.122 1 116.4 ? O3 PBU 1101 A 1 
HETATM 15 C C4 PBU . . . C 3 89.428 45.504 113.558 1 115.23 ? C4 PBU 1101 A 1 
HETATM 16 O O4 PBU . . . C 3 89.23 44.448 112.595 1 115.35 ? O4 PBU 1101 A 1 
HETATM 17 C C5 PBU . . . C 3 89.817 46.857 112.915 1 113.99 ? C5 PBU 1101 A 1 
HETATM 18 O O5 PBU . . . C 3 90.85 46.785 111.894 1 114.08 ? O5 PBU 1101 A 1 
HETATM 19 C C6 PBU . . . C 3 90.332 47.715 114.068 1 114.44 ? C6 PBU 1101 A 1 
HETATM 20 O O6 PBU . . . C 3 91.012 48.932 113.651 1 113.77 ? O6 PBU 1101 A 1 
HETATM 21 C C7 PBU . . . C 3 92.624 53.871 120.055 1 116.77 ? C7 PBU 1101 A 1 
HETATM 22 O O7 PBU . . . C 3 92.071 54.719 119.368 1 115.4 ? O7 PBU 1101 A 1 
HETATM 23 C C8 PBU . . . C 3 93.326 54.293 121.35 1 118.19 ? C8 PBU 1101 A 1 
HETATM 24 C C9 PBU . . . C 3 94.731 53.63 121.529 1 119.78 ? C9 PBU 1101 A 1 
HETATM 25 C C10 PBU . . . C 3 95.883 54.607 121.13 1 119.92 ? C10 PBU 1101 A 1 
HETATM 26 C C11 PBU . . . C 3 90.923 51.072 122.835 1 119.56 ? C11 PBU 1101 A 1 
HETATM 27 O O11 PBU . . . C 3 90.371 52.142 123.102 1 118.81 ? O11 PBU 1101 A 1 
HETATM 28 C C12 PBU . . . C 3 91.494 50.246 124.006 1 121.58 ? C12 PBU 1101 A 1 
HETATM 29 C C13 PBU . . . C 3 92.948 49.776 123.769 1 122.71 ? C13 PBU 1101 A 1 
HETATM 30 C C14 PBU . . . C 3 93.38 48.776 124.846 1 124.78 ? C14 PBU 1101 A 1 
HETATM 31 O O41 PBU . . . C 3 90.271 42.137 112.885 1 118.25 ? O41 PBU 1101 A 1 
HETATM 32 O O42 PBU . . . C 3 91.772 44.175 112.41 1 117.12 ? O42 PBU 1101 A 1 
HETATM 33 O O43 PBU . . . C 3 90.191 43.375 110.559 1 115.64 ? O43 PBU 1101 A 1 
HETATM 34 O O51 PBU . . . C 3 90.513 47.042 109.369 1 112.22 ? O51 PBU 1101 A 1 
HETATM 35 O O52 PBU . . . C 3 92.525 48.028 110.61 1 113.58 ? O52 PBU 1101 A 1 
HETATM 36 O O53 PBU . . . C 3 90.118 49.093 110.831 1 111.35 ? O53 PBU 1101 A 1 
HETATM 37 O OP1 PBU . . . C 3 90.079 50.814 117.422 1 114.62 ? OP1 PBU 1101 A 1 
HETATM 38 O OP2 PBU . . . C 3 87.76 49.76 116.799 1 113.44 ? OP2 PBU 1101 A 1 
HETATM 39 O OP3 PBU . . . C 3 89.397 48.542 118.535 1 116.55 ? OP3 PBU 1101 A 1 
#
_model_server_stats.io_time_ms              26 
_model_server_stats.parse_time_ms           11 
_model_server_stats.create_model_time_ms    13 
_model_server_stats.query_time_ms           295 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           39 
#