data_2Z0P
#
_model_server_result.job_id            JzDCbA3FDRGpNd6g_AOxtQ 
_model_server_result.datetime_utc      '2024-11-26 11:13:40' 
_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          2z0p 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"F","auth_seq_id":501}' 
#
_entry.id    2Z0P 
#
_exptl.entry_id    2Z0P 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              716.35 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            '(2R)-3-{[(S)-{[(2S,3R,5S,6S)-2,6-DIHYDROXY-3,4,5-TRIS(PHOSPHONOOXY)CYCLOHEXYL]OXY}(HYDROXY)PHOSPHORYL]OXY}-2-(1-HYDROXY BUTOXY)PROPYL BUTYRATE' 
_entity.pdbx_number_of_molecules    4 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90 
_cell.angle_beta          94.33 
_cell.angle_gamma         90 
_cell.entry_id            2Z0P 
_cell.length_a            59.417 
_cell.length_b            62.499 
_cell.length_c            117.064 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 2Z0P 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        4 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 1 21 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 
? monomeric 1 author_defined_assembly 3 
? monomeric 1 author_defined_assembly 4 
PISA dimeric 2 software_defined_assembly 5 
PISA dimeric 2 software_defined_assembly 6 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,E,F,M 1 1 
B,G,H,N 2 1 
C,I,J,O 3 1 
D,K,L,P 4 1 
A,B,E,F,G,H,M,N 5 1 
C,D,I,J,K,L,O,P 6 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 F N N 
? 3 H N N 
? 3 J N N 
? 3 L 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 142 A HIS 143 1_555 E ZN ZN . A ZN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.083 ? 
metalc ? metalc2 A SG CYS 153 A CYS 154 1_555 E ZN ZN . A ZN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.29 ? 
metalc ? metalc3 A SG CYS 154 A CYS 155 1_555 E ZN ZN . A ZN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.452 ? 
metalc ? metalc4 A SG CYS 164 A CYS 165 1_555 E ZN ZN . A ZN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.972 ? 
metalc ? metalc5 B ND1 HIS 142 B HIS 143 1_555 G ZN ZN . B ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.012 ? 
metalc ? metalc6 B SG CYS 153 B CYS 154 1_555 G ZN ZN . B ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.263 ? 
metalc ? metalc7 B SG CYS 154 B CYS 155 1_555 G ZN ZN . B ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.509 ? 
metalc ? metalc8 B SG CYS 164 B CYS 165 1_555 G ZN ZN . B ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.932 ? 
metalc ? metalc9 C ND1 HIS 142 C HIS 143 1_555 I ZN ZN . C ZN 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2 ? 
metalc ? metalc10 C SG CYS 153 C CYS 154 1_555 I ZN ZN . C ZN 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.16 ? 
metalc ? metalc11 C SG CYS 154 C CYS 155 1_555 I ZN ZN . C ZN 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.311 ? 
metalc ? metalc12 C SG CYS 164 C CYS 165 1_555 I ZN ZN . C ZN 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.079 ? 
metalc ? metalc13 D ND1 HIS 142 D HIS 143 1_555 K ZN ZN . D ZN 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.09 ? 
metalc ? metalc14 D SG CYS 153 D CYS 154 1_555 K ZN ZN . D ZN 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.252 ? 
metalc ? metalc15 D SG CYS 154 D CYS 155 1_555 K ZN ZN . D ZN 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.294 ? 
metalc ? metalc16 D SG CYS 164 D CYS 165 1_555 K ZN ZN . D ZN 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.186 ? 
#
_chem_comp.formula           'C17 H36 O22 P4' 
_chem_comp.formula_weight    716.35 
_chem_comp.id                4PT 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              '(2R)-3-{[(S)-{[(2S,3R,5S,6S)-2,6-DIHYDROXY-3,4,5-TRIS(PHOSPHONOOXY)CYCLOHEXYL]OXY}(HYDROXY)PHOSPHORYL]OXY}-2-(1-HYDROXY BUTOXY)PROPYL BUTYRATE' 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     DIC4-PHOSPHATIDYLINOSITOL(3,4,5)TRISPHOSPHATE 
#
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
O0F C0E 4PT sing 1 n n 
O0F C0L 4PT sing 2 n n 
C0E C0C 4PT sing 3 n n 
C0E H0E1 4PT sing 4 n n 
C0E H0E2 4PT sing 5 n n 
C0C O0D 4PT sing 6 n n 
C0C C0B 4PT sing 7 n n 
C0C H0C 4PT sing 8 n n 
O0D C0G 4PT sing 9 n n 
C0B OP1 4PT sing 10 n n 
C0B H0B1 4PT sing 11 n n 
C0B H0B2 4PT sing 12 n n 
OP1 P1 4PT sing 13 n n 
P1 OP3 4PT sing 14 n n 
P1 OP2 4PT doub 15 n n 
P1 O1 4PT sing 16 n n 
OP3 HP3 4PT sing 17 n n 
O1 C1 4PT sing 18 n n 
C1 C2 4PT sing 19 n n 
C1 C6 4PT sing 20 n n 
C1 H1 4PT sing 21 n n 
C2 O2 4PT sing 22 n n 
C2 C3 4PT sing 23 n n 
C2 H2 4PT sing 24 n n 
O2 HA 4PT sing 25 n n 
C3 O3 4PT sing 26 n n 
C3 C4 4PT sing 27 n n 
C3 H3 4PT sing 28 n n 
O3 P3 4PT sing 29 n n 
P3 O11 4PT sing 30 n n 
P3 O10 4PT sing 31 n n 
P3 O12 4PT doub 32 n n 
O11 H11 4PT sing 33 n n 
O10 H10 4PT sing 34 n n 
C4 O4 4PT sing 35 n n 
C4 C5 4PT sing 36 n n 
C4 H4 4PT sing 37 n n 
O4 P4 4PT sing 38 n n 
P4 OP5 4PT sing 39 n n 
P4 OP6 4PT sing 40 n n 
P4 OP4 4PT doub 41 n n 
OP5 HP5 4PT sing 42 n n 
OP6 HP6 4PT sing 43 n n 
C5 O5 4PT sing 44 n n 
C5 C6 4PT sing 45 n n 
C5 H5 4PT sing 46 n n 
O5 P5 4PT sing 47 n n 
P5 OP8 4PT sing 48 n n 
P5 OP7 4PT sing 49 n n 
P5 OP9 4PT doub 50 n n 
OP8 HP8 4PT sing 51 n n 
OP7 HP7 4PT sing 52 n n 
C6 O6 4PT sing 53 n n 
C6 H6 4PT sing 54 n n 
O6 HB 4PT sing 55 n n 
C0L O0M 4PT doub 56 n n 
C0L C0N 4PT sing 57 n n 
C0N C0P 4PT sing 58 n n 
C0N H0N1 4PT sing 59 n n 
C0N H0N2 4PT sing 60 n n 
C0P C0Q 4PT sing 61 n n 
C0P H0P1 4PT sing 62 n n 
C0P H0P2 4PT sing 63 n n 
C0Q H0Q1 4PT sing 64 n n 
C0Q H0Q2 4PT sing 65 n n 
C0Q H0Q3 4PT sing 66 n n 
C0G O0H 4PT sing 67 n n 
C0G C0I 4PT sing 68 n n 
C0G H0G 4PT sing 69 n n 
O0H H0H 4PT sing 70 n n 
C0I C0J 4PT sing 71 n n 
C0I H0I1 4PT sing 72 n n 
C0I H0I2 4PT sing 73 n n 
C0J C0K 4PT sing 74 n n 
C0J H0J1 4PT sing 75 n n 
C0J H0J2 4PT sing 76 n n 
C0K H0K1 4PT sing 77 n n 
C0K H0K2 4PT sing 78 n n 
C0K H0K3 4PT sing 79 n n 
#
_atom_sites.entry_id                     2Z0P 
_atom_sites.fract_transf_matrix[1][1]    0.01683 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.001274 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.016 
_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]    0.008567 
_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
E 2 ZN A 1 301 301 ZN ZN2 . 
F 3 4PT A 1 501 501 4PT 4PT . 
G 2 ZN B 1 302 302 ZN ZN2 . 
H 3 4PT B 1 502 502 4PT 4PT . 
I 2 ZN C 1 303 303 ZN ZN2 . 
J 3 4PT C 1 503 503 4PT 4PT . 
K 2 ZN D 1 304 304 ZN ZN2 . 
L 3 4PT D 1 504 504 4PT 4PT . 
M 4 HOH A 1 502 14 HOH TIP . 
M 4 HOH A 2 503 15 HOH TIP . 
M 4 HOH A 3 504 18 HOH TIP . 
M 4 HOH A 4 505 19 HOH TIP . 
M 4 HOH A 5 506 20 HOH TIP . 
M 4 HOH A 6 507 24 HOH TIP . 
M 4 HOH A 7 508 31 HOH TIP . 
M 4 HOH A 8 509 32 HOH TIP . 
M 4 HOH A 9 510 33 HOH TIP . 
M 4 HOH A 10 511 36 HOH TIP . 
M 4 HOH A 11 512 47 HOH TIP . 
M 4 HOH A 12 513 50 HOH TIP . 
M 4 HOH A 13 514 56 HOH TIP . 
N 4 HOH B 1 503 3 HOH TIP . 
N 4 HOH B 2 504 5 HOH TIP . 
N 4 HOH B 3 505 6 HOH TIP . 
N 4 HOH B 4 506 8 HOH TIP . 
N 4 HOH B 5 507 9 HOH TIP . 
N 4 HOH B 6 508 10 HOH TIP . 
N 4 HOH B 7 509 12 HOH TIP . 
N 4 HOH B 8 510 13 HOH TIP . 
N 4 HOH B 9 511 16 HOH TIP . 
N 4 HOH B 10 512 17 HOH TIP . 
N 4 HOH B 11 513 21 HOH TIP . 
N 4 HOH B 12 514 23 HOH TIP . 
N 4 HOH B 13 515 26 HOH TIP . 
N 4 HOH B 14 516 30 HOH TIP . 
N 4 HOH B 15 517 37 HOH TIP . 
N 4 HOH B 16 518 38 HOH TIP . 
N 4 HOH B 17 519 39 HOH TIP . 
N 4 HOH B 18 520 45 HOH TIP . 
N 4 HOH B 19 521 49 HOH TIP . 
N 4 HOH B 20 522 51 HOH TIP . 
N 4 HOH B 21 523 52 HOH TIP . 
N 4 HOH B 22 524 53 HOH TIP . 
N 4 HOH B 23 525 61 HOH TIP . 
N 4 HOH B 24 526 63 HOH TIP . 
N 4 HOH B 25 527 65 HOH TIP . 
O 4 HOH C 1 504 7 HOH TIP . 
O 4 HOH C 2 505 22 HOH TIP . 
O 4 HOH C 3 506 55 HOH TIP . 
O 4 HOH C 4 507 57 HOH TIP . 
O 4 HOH C 5 508 59 HOH TIP . 
O 4 HOH C 6 509 67 HOH TIP . 
P 4 HOH D 1 505 1 HOH TIP . 
P 4 HOH D 2 506 2 HOH TIP . 
P 4 HOH D 3 507 4 HOH TIP . 
P 4 HOH D 4 508 11 HOH TIP . 
P 4 HOH D 5 509 25 HOH TIP . 
P 4 HOH D 6 510 27 HOH TIP . 
P 4 HOH D 7 511 28 HOH TIP . 
P 4 HOH D 8 512 29 HOH TIP . 
P 4 HOH D 9 513 34 HOH TIP . 
P 4 HOH D 10 514 35 HOH TIP . 
P 4 HOH D 11 515 40 HOH TIP . 
P 4 HOH D 12 516 41 HOH TIP . 
P 4 HOH D 13 517 42 HOH TIP . 
P 4 HOH D 14 518 43 HOH TIP . 
P 4 HOH D 15 519 44 HOH TIP . 
P 4 HOH D 16 520 46 HOH TIP . 
P 4 HOH D 17 521 48 HOH TIP . 
P 4 HOH D 18 522 54 HOH TIP . 
P 4 HOH D 19 523 58 HOH TIP . 
P 4 HOH D 20 524 60 HOH TIP . 
P 4 HOH D 21 525 62 HOH TIP . 
P 4 HOH D 22 526 64 HOH TIP . 
P 4 HOH D 23 527 66 HOH TIP . 
P 4 HOH D 24 528 68 HOH TIP . 
#
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 OP1 4PT . . . F 3 -26.063 15.782 91.884 1 78.87 ? OP1 4PT 501 A 1 
HETATM 2 P P1 4PT . . . F 3 -25.498 15.655 90.522 1 79.16 ? P1 4PT 501 A 1 
HETATM 3 O OP3 4PT . . . F 3 -25.963 14.305 89.777 1 77.12 ? OP3 4PT 501 A 1 
HETATM 4 O OP2 4PT . . . F 3 -23.887 15.645 90.531 1 77.65 ? OP2 4PT 501 A 1 
HETATM 5 O O1 4PT . . . F 3 -25.928 16.887 89.576 1 76.77 ? O1 4PT 501 A 1 
HETATM 6 C C1 4PT . . . F 3 -25.337 17.042 88.283 1 74.18 ? C1 4PT 501 A 1 
HETATM 7 C C2 4PT . . . F 3 -24.763 18.454 88.152 1 71.99 ? C2 4PT 501 A 1 
HETATM 8 O O2 4PT . . . F 3 -25.82 19.405 88.309 1 70.95 ? O2 4PT 501 A 1 
HETATM 9 C C3 4PT . . . F 3 -24.137 18.625 86.767 1 70 ? C3 4PT 501 A 1 
HETATM 10 O O3 4PT . . . F 3 -23.581 19.937 86.644 1 68.3 ? O3 4PT 501 A 1 
HETATM 11 P P3 4PT . . . F 3 -21.994 20.157 86.812 1 67.11 ? P3 4PT 501 A 1 
HETATM 12 O O11 4PT . . . F 3 -21.552 19.354 88.135 1 68.62 ? O11 4PT 501 A 1 
HETATM 13 O O10 4PT . . . F 3 -21.626 21.59 86.876 1 67.46 ? O10 4PT 501 A 1 
HETATM 14 O O12 4PT . . . F 3 -21.308 19.402 85.566 1 65.09 ? O12 4PT 501 A 1 
HETATM 15 C C4 4PT . . . F 3 -25.191 18.411 85.679 1 69.51 ? C4 4PT 501 A 1 
HETATM 16 O O4 4PT . . . F 3 -24.569 18.524 84.397 1 66.46 ? O4 4PT 501 A 1 
HETATM 17 P P4 4PT . . . F 3 -24.472 19.953 83.662 1 60.66 ? P4 4PT 501 A 1 
HETATM 18 O OP5 4PT . . . F 3 -22.93 20.406 83.754 1 62.26 ? OP5 4PT 501 A 1 
HETATM 19 O OP6 4PT . . . F 3 -24.75 19.679 82.101 1 61.76 ? OP6 4PT 501 A 1 
HETATM 20 O OP4 4PT . . . F 3 -25.395 20.959 84.234 1 60.76 ? OP4 4PT 501 A 1 
HETATM 21 C C5 4PT . . . F 3 -25.838 17.029 85.805 1 72.8 ? C5 4PT 501 A 1 
HETATM 22 O O5 4PT . . . F 3 -26.892 16.884 84.849 1 74.29 ? O5 4PT 501 A 1 
HETATM 23 P P5 4PT . . . F 3 -26.594 16.694 83.277 1 74.86 ? P5 4PT 501 A 1 
HETATM 24 O OP8 4PT . . . F 3 -25.006 16.498 83.096 1 74.04 ? OP8 4PT 501 A 1 
HETATM 25 O OP7 4PT . . . F 3 -27.121 17.819 82.474 1 74.36 ? OP7 4PT 501 A 1 
HETATM 26 O OP9 4PT . . . F 3 -27.262 15.285 82.877 1 76.03 ? OP9 4PT 501 A 1 
HETATM 27 C C6 4PT . . . F 3 -26.4 16.796 87.21 1 73.35 ? C6 4PT 501 A 1 
HETATM 28 O O6 4PT . . . F 3 -26.853 15.444 87.31 1 72.62 ? O6 4PT 501 A 1 
#
_model_server_stats.io_time_ms              12 
_model_server_stats.parse_time_ms           21 
_model_server_stats.create_model_time_ms    12 
_model_server_stats.query_time_ms           336 
_model_server_stats.encode_time_ms          20 
_model_server_stats.element_count           28 
#