data_1VPX
#
_model_server_result.job_id            nB_-9pGqy4LlzHAnOqbcpA 
_model_server_result.datetime_utc      '2025-02-05 07:49:18' 
_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          1vpx 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"X","auth_seq_id":219}' 
#
_entry.id    1VPX 
#
_exptl.entry_id    1VPX 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              92.094 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            GLYCEROL 
_entity.pdbx_number_of_molecules    21 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90 
_cell.angle_beta          108.99 
_cell.angle_gamma         90 
_cell.entry_id            1VPX 
_cell.length_a            145.298 
_cell.length_b            104.419 
_cell.length_c            171.124 
_cell.Z_PDB               40 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 1VPX 
_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
PISA decameric 10 author_and_software_defined_assembly 1 
PISA decameric 10 author_and_software_defined_assembly 2 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,B,C,D,E,F,G,H,I,J,U,V,W,X,Y,Z,AA,BA,CA,DA,QA,RA,SA,TA,UA,VA,WA,XA,YA,ZA 1 1 
K,L,M,N,O,P,Q,R,S,T,EA,FA,GA,HA,IA,JA,KA,LA,MA,NA,OA,PA,AB,BB,CB,DB,EB,FB,GB,HB,IB 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
? 2 U N N 
? 2 V N N 
? 2 W N N 
? 2 X N N 
? 2 Y N N 
? 2 Z N N 
? 2 AA N N 
? 2 BA N N 
? 2 CA N N 
? 2 DA N N 
? 2 EA N N 
? 2 FA N N 
? 2 GA N N 
? 2 HA N N 
? 2 JA N N 
? 2 KA N N 
? 2 LA N N 
? 2 MA N N 
? 2 NA N N 
? 2 OA N N 
? 2 PA N N 
#
_chem_comp.formula           'C3 H8 O3' 
_chem_comp.formula_weight    92.094 
_chem_comp.id                GOL 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              GLYCEROL 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     GLYCERIN;PROPANE-1,2,3-TRIOL 
#
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
C1 O1 GOL sing 129 n n 
C1 C2 GOL sing 130 n n 
C1 H11 GOL sing 131 n n 
C1 H12 GOL sing 132 n n 
O1 HO1 GOL sing 133 n n 
C2 O2 GOL sing 134 n n 
C2 C3 GOL sing 135 n n 
C2 H2 GOL sing 136 n n 
O2 HO2 GOL sing 137 n n 
C3 O3 GOL sing 138 n n 
C3 H31 GOL sing 139 n n 
C3 H32 GOL sing 140 n n 
O3 HO3 GOL sing 141 n n 
#
_atom_sites.entry_id                     1VPX 
_atom_sites.fract_transf_matrix[1][1]    0.006882 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.002368 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.009577 
_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]    0.00618 
_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 2 GOL A 1 219 13 GOL GOL . 
V 2 GOL B 1 219 1 GOL GOL . 
W 2 GOL C 1 219 2 GOL GOL . 
X 2 GOL D 1 219 14 GOL GOL . 
Y 2 GOL E 1 219 15 GOL GOL . 
Z 2 GOL F 1 219 8 GOL GOL . 
AA 2 GOL G 1 219 9 GOL GOL . 
BA 2 GOL H 1 219 10 GOL GOL . 
CA 2 GOL I 1 219 11 GOL GOL . 
DA 2 GOL J 1 219 12 GOL GOL . 
EA 2 GOL K 1 219 5 GOL GOL . 
FA 2 GOL L 1 219 19 GOL GOL . 
GA 2 GOL M 1 219 20 GOL GOL . 
HA 2 GOL N 1 219 6 GOL GOL . 
IA 3 SO4 O 1 219 22 SO4 SO4 . 
JA 2 GOL O 1 220 7 GOL GOL . 
KA 2 GOL P 1 219 16 GOL GOL . 
LA 2 GOL P 1 220 21 GOL GOL . 
MA 2 GOL Q 1 219 17 GOL GOL . 
NA 2 GOL R 1 219 3 GOL GOL . 
OA 2 GOL S 1 219 4 GOL GOL . 
PA 2 GOL T 1 219 18 GOL GOL . 
QA 4 HOH A 1 220 31 HOH HOH . 
QA 4 HOH A 2 221 39 HOH HOH . 
QA 4 HOH A 3 222 64 HOH HOH . 
QA 4 HOH A 4 223 66 HOH HOH . 
QA 4 HOH A 5 224 67 HOH HOH . 
RA 4 HOH B 1 220 43 HOH HOH . 
RA 4 HOH B 2 221 52 HOH HOH . 
RA 4 HOH B 3 222 63 HOH HOH . 
RA 4 HOH B 4 223 68 HOH HOH . 
RA 4 HOH B 5 224 70 HOH HOH . 
RA 4 HOH B 6 225 72 HOH HOH . 
SA 4 HOH C 1 220 23 HOH HOH . 
SA 4 HOH C 2 221 34 HOH HOH . 
SA 4 HOH C 3 222 35 HOH HOH . 
SA 4 HOH C 4 223 73 HOH HOH . 
SA 4 HOH C 5 224 74 HOH HOH . 
SA 4 HOH C 6 225 75 HOH HOH . 
SA 4 HOH C 7 226 76 HOH HOH . 
TA 4 HOH D 1 220 32 HOH HOH . 
TA 4 HOH D 2 221 33 HOH HOH . 
TA 4 HOH D 3 222 41 HOH HOH . 
TA 4 HOH D 4 223 44 HOH HOH . 
TA 4 HOH D 5 224 50 HOH HOH . 
TA 4 HOH D 6 225 53 HOH HOH . 
TA 4 HOH D 7 226 78 HOH HOH . 
TA 4 HOH D 8 227 79 HOH HOH . 
TA 4 HOH D 9 228 80 HOH HOH . 
TA 4 HOH D 10 229 81 HOH HOH . 
TA 4 HOH D 11 230 82 HOH HOH . 
TA 4 HOH D 12 231 83 HOH HOH . 
TA 4 HOH D 13 232 84 HOH HOH . 
TA 4 HOH D 14 233 88 HOH HOH . 
TA 4 HOH D 15 234 89 HOH HOH . 
TA 4 HOH D 16 235 90 HOH HOH . 
UA 4 HOH E 1 220 29 HOH HOH . 
UA 4 HOH E 2 221 38 HOH HOH . 
UA 4 HOH E 3 222 51 HOH HOH . 
UA 4 HOH E 4 223 87 HOH HOH . 
UA 4 HOH E 5 224 92 HOH HOH . 
UA 4 HOH E 6 225 93 HOH HOH . 
UA 4 HOH E 7 226 94 HOH HOH . 
VA 4 HOH F 1 220 25 HOH HOH . 
VA 4 HOH F 2 221 46 HOH HOH . 
VA 4 HOH F 3 222 58 HOH HOH . 
VA 4 HOH F 4 223 65 HOH HOH . 
VA 4 HOH F 5 224 96 HOH HOH . 
WA 4 HOH G 1 220 26 HOH HOH . 
WA 4 HOH G 2 221 27 HOH HOH . 
WA 4 HOH G 3 222 36 HOH HOH . 
WA 4 HOH G 4 223 37 HOH HOH . 
WA 4 HOH G 5 224 47 HOH HOH . 
WA 4 HOH G 6 225 62 HOH HOH . 
WA 4 HOH G 7 226 85 HOH HOH . 
WA 4 HOH G 8 227 86 HOH HOH . 
WA 4 HOH G 9 228 95 HOH HOH . 
WA 4 HOH G 10 229 114 HOH HOH . 
WA 4 HOH G 11 230 115 HOH HOH . 
WA 4 HOH G 12 231 116 HOH HOH . 
WA 4 HOH G 13 232 117 HOH HOH . 
WA 4 HOH G 14 233 118 HOH HOH . 
WA 4 HOH G 15 234 119 HOH HOH . 
WA 4 HOH G 16 235 120 HOH HOH . 
WA 4 HOH G 17 236 126 HOH HOH . 
XA 4 HOH H 1 220 40 HOH HOH . 
XA 4 HOH H 2 221 42 HOH HOH . 
XA 4 HOH H 3 222 121 HOH HOH . 
YA 4 HOH I 1 220 77 HOH HOH . 
YA 4 HOH I 2 221 91 HOH HOH . 
YA 4 HOH I 3 222 123 HOH HOH . 
YA 4 HOH I 4 223 124 HOH HOH . 
ZA 4 HOH J 1 220 45 HOH HOH . 
ZA 4 HOH J 2 221 59 HOH HOH . 
ZA 4 HOH J 3 222 60 HOH HOH . 
ZA 4 HOH J 4 223 61 HOH HOH . 
ZA 4 HOH J 5 224 69 HOH HOH . 
ZA 4 HOH J 6 225 71 HOH HOH . 
ZA 4 HOH J 7 226 125 HOH HOH . 
AB 4 HOH K 1 220 28 HOH HOH . 
AB 4 HOH K 2 221 105 HOH HOH . 
AB 4 HOH K 3 222 106 HOH HOH . 
BB 4 HOH L 1 220 108 HOH HOH . 
CB 4 HOH M 1 220 101 HOH HOH . 
CB 4 HOH M 2 221 109 HOH HOH . 
DB 4 HOH O 1 221 24 HOH HOH . 
DB 4 HOH O 2 222 107 HOH HOH . 
DB 4 HOH O 3 223 111 HOH HOH . 
DB 4 HOH O 4 224 112 HOH HOH . 
DB 4 HOH O 5 225 113 HOH HOH . 
EB 4 HOH P 1 221 49 HOH HOH . 
EB 4 HOH P 2 222 97 HOH HOH . 
EB 4 HOH P 3 223 99 HOH HOH . 
FB 4 HOH Q 1 220 30 HOH HOH . 
FB 4 HOH Q 2 221 54 HOH HOH . 
FB 4 HOH Q 3 222 55 HOH HOH . 
FB 4 HOH Q 4 223 98 HOH HOH . 
FB 4 HOH Q 5 224 100 HOH HOH . 
FB 4 HOH Q 6 225 102 HOH HOH . 
FB 4 HOH Q 7 226 110 HOH HOH . 
GB 4 HOH R 1 220 48 HOH HOH . 
GB 4 HOH R 2 221 56 HOH HOH . 
HB 4 HOH S 1 220 57 HOH HOH . 
HB 4 HOH S 2 221 103 HOH HOH . 
IB 4 HOH T 1 220 104 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 C C1 GOL . . . X 2 6.975 -9.932 32.938 1 65.76 ? C1 GOL 219 D 1 
HETATM 2 O O1 GOL . . . X 2 6.276 -10 31.692 1 61.45 ? O1 GOL 219 D 1 
HETATM 3 C C2 GOL . . . X 2 8.429 -10.417 32.955 1 58.34 ? C2 GOL 219 D 1 
HETATM 4 O O2 GOL . . . X 2 8.579 -11.819 32.762 1 58.91 ? O2 GOL 219 D 1 
HETATM 5 C C3 GOL . . . X 2 9.225 -9.655 31.918 1 52.46 ? C3 GOL 219 D 1 
HETATM 6 O O3 GOL . . . X 2 10.223 -10.555 31.5 1 64.16 ? O3 GOL 219 D 1 
#
_model_server_stats.io_time_ms              19 
_model_server_stats.parse_time_ms           11 
_model_server_stats.create_model_time_ms    44 
_model_server_stats.query_time_ms           329 
_model_server_stats.encode_time_ms          10 
_model_server_stats.element_count           6 
#