data_5X06
#
_model_server_result.job_id            3D96oHPp7F57iVTXe9EC2A 
_model_server_result.datetime_utc      '2024-11-25 12:14:28' 
_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          5x06 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"R","auth_seq_id":1003}' 
#
_entry.id    5X06 
#
_exptl.entry_id    5X06 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              92.094 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            GLYCEROL 
_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          90 
_cell.angle_gamma         90 
_cell.entry_id            5X06 
_cell.length_a            102.112 
_cell.length_b            149.542 
_cell.length_c            200.78 
_cell.Z_PDB               16 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5X06 
_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    octameric 
_pdbx_struct_assembly.oligomeric_count      8 
_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,G,H,I,J,K,L,M,N,O,P,Q,R,S,T,U,V,W,X,Y,Z,AA,BA 
_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 I N N 
? 3 J N N 
? 3 M N N 
? 3 R 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 E OG SER 77 E SER 57 1_555 L MG MG . E MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.522 ? 
metalc ? metalc2 K O1B ADP . E ADP 1001 1_555 L MG MG . E MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.19 ? 
metalc ? metalc3 K O1A ADP . E ADP 1001 1_555 L MG MG . E MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.726 ? 
metalc ? metalc4 L MG MG . E MG 1002 1_555 Y O HOH . E HOH 1101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.542 ? 
metalc ? metalc5 F OG SER 77 F SER 57 1_555 O MG MG . F MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.662 ? 
metalc ? metalc6 N O3B ADP . F ADP 1001 1_555 O MG MG . F MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.295 ? 
metalc ? metalc7 O MG MG . F MG 1002 1_555 Z O HOH . F HOH 1102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.137 ? 
metalc ? metalc8 G OG SER 77 G SER 57 1_555 Q MG MG . G MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.817 ? 
metalc ? metalc9 P O1B ADP . G ADP 1001 1_555 Q MG MG . G MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.086 ? 
metalc ? metalc10 P O1A ADP . G ADP 1001 1_555 Q MG MG . G MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.635 ? 
metalc ? metalc11 Q MG MG . G MG 1002 1_555 AA O HOH . G HOH 1101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.088 ? 
metalc ? metalc12 H OG SER 77 H SER 57 1_555 T MG MG . H MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.565 ? 
metalc ? metalc13 T MG MG . H MG 1002 1_555 BA O HOH . H HOH 1101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.312 ? 
#
_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 173 n n 
C1 C2 GOL sing 174 n n 
C1 H11 GOL sing 175 n n 
C1 H12 GOL sing 176 n n 
O1 HO1 GOL sing 177 n n 
C2 O2 GOL sing 178 n n 
C2 C3 GOL sing 179 n n 
C2 H2 GOL sing 180 n n 
O2 HO2 GOL sing 181 n n 
C3 O3 GOL sing 182 n n 
C3 H31 GOL sing 183 n n 
C3 H32 GOL sing 184 n n 
O3 HO3 GOL sing 185 n n 
#
_atom_sites.entry_id                     5X06 
_atom_sites.fract_transf_matrix[1][1]    0.009793 
_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]    0.006687 
_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]    0.004981 
_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
I 3 GOL C 1 401 4 GOL GOL . 
J 3 GOL D 1 401 3 GOL GOL . 
K 4 ADP E 1 1001 1001 ADP ADP . 
L 5 MG E 1 1002 1002 MG MG . 
M 3 GOL E 1 1003 1 GOL GOL . 
N 4 ADP F 1 1001 1001 ADP ADP . 
O 5 MG F 1 1002 1002 MG MG . 
P 4 ADP G 1 1001 1001 ADP ADP . 
Q 5 MG G 1 1002 1002 MG MG . 
R 3 GOL G 1 1003 2 GOL GOL . 
S 4 ADP H 1 1001 1001 ADP ADP . 
T 5 MG H 1 1002 1002 MG MG . 
U 6 HOH A 1 401 2 HOH HOH . 
U 6 HOH A 2 402 12 HOH HOH . 
U 6 HOH A 3 403 14 HOH HOH . 
U 6 HOH A 4 404 4 HOH HOH . 
U 6 HOH A 5 405 3 HOH HOH . 
V 6 HOH B 1 401 13 HOH HOH . 
V 6 HOH B 2 402 22 HOH HOH . 
V 6 HOH B 3 403 1 HOH HOH . 
V 6 HOH B 4 404 11 HOH HOH . 
W 6 HOH C 1 501 27 HOH HOH . 
W 6 HOH C 2 502 28 HOH HOH . 
W 6 HOH C 3 503 10 HOH HOH . 
W 6 HOH C 4 504 7 HOH HOH . 
W 6 HOH C 5 505 29 HOH HOH . 
W 6 HOH C 6 506 8 HOH HOH . 
X 6 HOH D 1 501 26 HOH HOH . 
X 6 HOH D 2 502 24 HOH HOH . 
X 6 HOH D 3 503 6 HOH HOH . 
X 6 HOH D 4 504 30 HOH HOH . 
X 6 HOH D 5 505 9 HOH HOH . 
Y 6 HOH E 1 1101 19 HOH HOH . 
Y 6 HOH E 2 1102 25 HOH HOH . 
Y 6 HOH E 3 1103 5 HOH HOH . 
Z 6 HOH F 1 1101 23 HOH HOH . 
Z 6 HOH F 2 1102 20 HOH HOH . 
Z 6 HOH F 3 1103 21 HOH HOH . 
AA 6 HOH G 1 1101 17 HOH HOH . 
AA 6 HOH G 2 1102 18 HOH HOH . 
BA 6 HOH H 1 1101 15 HOH HOH . 
BA 6 HOH H 2 1102 16 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 . . . R 3 -53.056 -69.343 39.207 1 138.64 ? C1 GOL 1003 G 1 
HETATM 2 O O1 GOL . . . R 3 -52.651 -68.249 39.999 1 139.78 ? O1 GOL 1003 G 1 
HETATM 3 C C2 GOL . . . R 3 -54.454 -69.086 38.659 1 136.53 ? C2 GOL 1003 G 1 
HETATM 4 O O2 GOL . . . R 3 -54.603 -67.713 38.371 1 134.35 ? O2 GOL 1003 G 1 
HETATM 5 C C3 GOL . . . R 3 -54.648 -69.892 37.382 1 138.22 ? C3 GOL 1003 G 1 
HETATM 6 O O3 GOL . . . R 3 -55.941 -69.65 36.875 1 138.94 ? O3 GOL 1003 G 1 
#
_model_server_stats.io_time_ms              122 
_model_server_stats.parse_time_ms           16 
_model_server_stats.create_model_time_ms    38 
_model_server_stats.query_time_ms           289 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           6 
#