data_4JPH
#
_model_server_result.job_id            hCRNTIDfHd-iD9Kq_j7EMA 
_model_server_result.datetime_utc      '2025-08-31 13:49:13' 
_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          4jph 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"G","auth_seq_id":203}' 
#
_entry.id    4JPH 
#
_exptl.entry_id    4JPH 
_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    12 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90 
_cell.angle_beta          105.5 
_cell.angle_gamma         90 
_cell.entry_id            4JPH 
_cell.length_a            73.312 
_cell.length_b            65.558 
_cell.length_c            85.077 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 4JPH 
_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 dimeric 2 author_and_software_defined_assembly 1 
PISA dimeric 2 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,E,F,G,H,I,J,K,L,M,N,O,W,X 1 1 
C,D,P,Q,R,S,T,U,V,Y,Z 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 E N N 
? 2 F N N 
? 2 G N N 
? 2 H N N 
? 2 I N N 
? 2 L N N 
? 2 M N N 
? 2 N N N 
? 2 P N N 
? 2 Q N N 
? 2 R N N 
? 2 U 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
disulf ? disulf1 A SG CYS 53 A CYS 73 1_555 A SG CYS 103 A CYS 123 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.021 ? 
disulf ? disulf2 A SG CYS 67 A CYS 87 1_555 A SG CYS 117 A CYS 137 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.046 ? 
disulf ? disulf3 A SG CYS 77 A CYS 97 1_555 A SG CYS 135 A CYS 155 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? 
disulf ? disulf4 A SG CYS 81 A CYS 101 1_555 A SG CYS 137 A CYS 157 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.052 ? 
disulf ? disulf5 B SG CYS 53 B CYS 73 1_555 B SG CYS 103 B CYS 123 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.019 ? 
disulf ? disulf6 B SG CYS 67 B CYS 87 1_555 B SG CYS 117 B CYS 137 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.054 ? 
disulf ? disulf7 B SG CYS 77 B CYS 97 1_555 B SG CYS 135 B CYS 155 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? 
disulf ? disulf8 B SG CYS 81 B CYS 101 1_555 B SG CYS 137 B CYS 157 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.049 ? 
disulf ? disulf9 C SG CYS 53 C CYS 73 1_555 C SG CYS 103 C CYS 123 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.053 ? 
disulf ? disulf10 C SG CYS 67 C CYS 87 1_555 C SG CYS 117 C CYS 137 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? 
disulf ? disulf11 C SG CYS 77 C CYS 97 1_555 C SG CYS 135 C CYS 155 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? 
disulf ? disulf12 C SG CYS 81 C CYS 101 1_555 C SG CYS 137 C CYS 157 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? 
disulf ? disulf13 D SG CYS 53 D CYS 73 1_555 D SG CYS 103 D CYS 123 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? 
disulf ? disulf14 D SG CYS 67 D CYS 87 1_555 D SG CYS 117 D CYS 137 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? 
disulf ? disulf15 D SG CYS 77 D CYS 97 1_555 D SG CYS 135 D CYS 155 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? 
disulf ? disulf16 D SG CYS 81 D CYS 101 1_555 D SG CYS 137 D CYS 157 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? 
covale ? covale1 A SG CYS 100 A CYS 120 1_555 J SG2 GSH . A GSH 206 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.075 ? 
covale ? covale2 B SG CYS 100 B CYS 120 1_555 O SG2 GSH . B GSH 205 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.081 ? 
covale ? covale3 C SG CYS 100 C CYS 120 1_555 S SG2 GSH . C GSH 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.075 ? 
covale ? covale4 D SG CYS 100 D CYS 120 1_555 V SG2 GSH . D GSH 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.122 ? 
#
_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 149 n n 
C1 C2 GOL sing 150 n n 
C1 H11 GOL sing 151 n n 
C1 H12 GOL sing 152 n n 
O1 HO1 GOL sing 153 n n 
C2 O2 GOL sing 154 n n 
C2 C3 GOL sing 155 n n 
C2 H2 GOL sing 156 n n 
O2 HO2 GOL sing 157 n n 
C3 O3 GOL sing 158 n n 
C3 H31 GOL sing 159 n n 
C3 H32 GOL sing 160 n n 
O3 HO3 GOL sing 161 n n 
#
_atom_sites.entry_id                     4JPH 
_atom_sites.fract_transf_matrix[1][1]    0.01364 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.003783 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.015254 
_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]    0.012198 
_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 GOL A 1 201 4 GOL GOL . 
F 2 GOL A 1 202 5 GOL GOL . 
G 2 GOL A 1 203 6 GOL GOL . 
H 2 GOL A 1 204 8 GOL GOL . 
I 2 GOL A 1 205 14 GOL GOL . 
J 3 GSH A 1 206 1 GSH GSH . 
K 4 CIT B 1 201 1 CIT CIT . 
L 2 GOL B 1 202 2 GOL GOL . 
M 2 GOL B 1 203 7 GOL GOL . 
N 2 GOL B 1 204 15 GOL GOL . 
O 3 GSH B 1 205 2 GSH GSH . 
P 2 GOL C 1 201 1 GOL GOL . 
Q 2 GOL C 1 202 10 GOL GOL . 
R 2 GOL C 1 203 12 GOL GOL . 
S 3 GSH C 1 204 3 GSH GSH . 
T 4 CIT D 1 201 2 CIT CIT . 
U 2 GOL D 1 202 11 GOL GOL . 
V 3 GSH D 1 203 4 GSH GSH . 
W 5 HOH A 1 301 1 HOH HOH . 
W 5 HOH A 2 302 3 HOH HOH . 
W 5 HOH A 3 303 4 HOH HOH . 
W 5 HOH A 4 304 6 HOH HOH . 
W 5 HOH A 5 305 10 HOH HOH . 
W 5 HOH A 6 306 11 HOH HOH . 
W 5 HOH A 7 307 14 HOH HOH . 
W 5 HOH A 8 308 17 HOH HOH . 
W 5 HOH A 9 309 25 HOH HOH . 
W 5 HOH A 10 310 26 HOH HOH . 
W 5 HOH A 11 311 36 HOH HOH . 
W 5 HOH A 12 312 38 HOH HOH . 
W 5 HOH A 13 313 39 HOH HOH . 
W 5 HOH A 14 314 41 HOH HOH . 
W 5 HOH A 15 315 45 HOH HOH . 
W 5 HOH A 16 316 52 HOH HOH . 
W 5 HOH A 17 317 53 HOH HOH . 
W 5 HOH A 18 318 54 HOH HOH . 
W 5 HOH A 19 319 58 HOH HOH . 
W 5 HOH A 20 320 71 HOH HOH . 
W 5 HOH A 21 321 72 HOH HOH . 
W 5 HOH A 22 322 74 HOH HOH . 
W 5 HOH A 23 323 98 HOH HOH . 
W 5 HOH A 24 324 100 HOH HOH . 
W 5 HOH A 25 325 101 HOH HOH . 
W 5 HOH A 26 326 103 HOH HOH . 
W 5 HOH A 27 327 105 HOH HOH . 
W 5 HOH A 28 328 111 HOH HOH . 
W 5 HOH A 29 329 114 HOH HOH . 
W 5 HOH A 30 330 125 HOH HOH . 
W 5 HOH A 31 331 126 HOH HOH . 
W 5 HOH A 32 332 128 HOH HOH . 
W 5 HOH A 33 333 130 HOH HOH . 
W 5 HOH A 34 334 138 HOH HOH . 
W 5 HOH A 35 335 141 HOH HOH . 
W 5 HOH A 36 336 150 HOH HOH . 
W 5 HOH A 37 337 154 HOH HOH . 
W 5 HOH A 38 338 167 HOH HOH . 
W 5 HOH A 39 339 168 HOH HOH . 
W 5 HOH A 40 340 173 HOH HOH . 
W 5 HOH A 41 341 175 HOH HOH . 
W 5 HOH A 42 342 179 HOH HOH . 
W 5 HOH A 43 343 180 HOH HOH . 
W 5 HOH A 44 344 184 HOH HOH . 
W 5 HOH A 45 345 187 HOH HOH . 
W 5 HOH A 46 346 189 HOH HOH . 
W 5 HOH A 47 347 190 HOH HOH . 
W 5 HOH A 48 348 191 HOH HOH . 
W 5 HOH A 49 349 192 HOH HOH . 
X 5 HOH B 1 301 2 HOH HOH . 
X 5 HOH B 2 302 5 HOH HOH . 
X 5 HOH B 3 303 7 HOH HOH . 
X 5 HOH B 4 304 9 HOH HOH . 
X 5 HOH B 5 305 15 HOH HOH . 
X 5 HOH B 6 306 16 HOH HOH . 
X 5 HOH B 7 307 18 HOH HOH . 
X 5 HOH B 8 308 19 HOH HOH . 
X 5 HOH B 9 309 23 HOH HOH . 
X 5 HOH B 10 310 27 HOH HOH . 
X 5 HOH B 11 311 28 HOH HOH . 
X 5 HOH B 12 312 30 HOH HOH . 
X 5 HOH B 13 313 34 HOH HOH . 
X 5 HOH B 14 314 40 HOH HOH . 
X 5 HOH B 15 315 42 HOH HOH . 
X 5 HOH B 16 316 44 HOH HOH . 
X 5 HOH B 17 317 88 HOH HOH . 
X 5 HOH B 18 318 94 HOH HOH . 
X 5 HOH B 19 319 95 HOH HOH . 
X 5 HOH B 20 320 102 HOH HOH . 
X 5 HOH B 21 321 106 HOH HOH . 
X 5 HOH B 22 322 107 HOH HOH . 
X 5 HOH B 23 323 108 HOH HOH . 
X 5 HOH B 24 324 110 HOH HOH . 
X 5 HOH B 25 325 113 HOH HOH . 
X 5 HOH B 26 326 120 HOH HOH . 
X 5 HOH B 27 327 131 HOH HOH . 
X 5 HOH B 28 328 137 HOH HOH . 
X 5 HOH B 29 329 142 HOH HOH . 
X 5 HOH B 30 330 146 HOH HOH . 
X 5 HOH B 31 331 149 HOH HOH . 
X 5 HOH B 32 332 169 HOH HOH . 
X 5 HOH B 33 333 174 HOH HOH . 
X 5 HOH B 34 334 177 HOH HOH . 
X 5 HOH B 35 335 178 HOH HOH . 
X 5 HOH B 36 336 181 HOH HOH . 
X 5 HOH B 37 337 182 HOH HOH . 
Y 5 HOH C 1 301 22 HOH HOH . 
Y 5 HOH C 2 302 29 HOH HOH . 
Y 5 HOH C 3 303 55 HOH HOH . 
Y 5 HOH C 4 304 56 HOH HOH . 
Y 5 HOH C 5 305 77 HOH HOH . 
Y 5 HOH C 6 306 92 HOH HOH . 
Y 5 HOH C 7 307 93 HOH HOH . 
Y 5 HOH C 8 308 127 HOH HOH . 
Y 5 HOH C 9 309 129 HOH HOH . 
Y 5 HOH C 10 310 134 HOH HOH . 
Y 5 HOH C 11 311 136 HOH HOH . 
Y 5 HOH C 12 312 183 HOH HOH . 
Y 5 HOH C 13 313 185 HOH HOH . 
Y 5 HOH C 14 314 186 HOH HOH . 
Z 5 HOH D 1 301 12 HOH HOH . 
Z 5 HOH D 2 302 21 HOH HOH . 
Z 5 HOH D 3 303 47 HOH HOH . 
Z 5 HOH D 4 304 51 HOH HOH . 
Z 5 HOH D 5 305 65 HOH HOH . 
Z 5 HOH D 6 306 80 HOH HOH . 
Z 5 HOH D 7 307 82 HOH HOH . 
Z 5 HOH D 8 308 89 HOH HOH . 
Z 5 HOH D 9 309 135 HOH HOH . 
Z 5 HOH D 10 310 144 HOH HOH . 
Z 5 HOH D 11 311 156 HOH HOH . 
Z 5 HOH D 12 312 171 HOH HOH . 
Z 5 HOH D 13 313 176 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 . . . G 2 -34.674 11.436 42.305 1 118.48 ? C1 GOL 203 A 1 
HETATM 2 O O1 GOL . . . G 2 -34.209 11.909 43.566 1 115.3 ? O1 GOL 203 A 1 
HETATM 3 C C2 GOL . . . G 2 -33.642 10.59 41.591 1 121.13 ? C2 GOL 203 A 1 
HETATM 4 O O2 GOL . . . G 2 -34.249 9.944 40.464 1 122.86 ? O2 GOL 203 A 1 
HETATM 5 C C3 GOL . . . G 2 -32.445 11.39 41.127 1 122.06 ? C3 GOL 203 A 1 
HETATM 6 O O3 GOL . . . G 2 -31.351 10.53 40.824 1 122.21 ? O3 GOL 203 A 1 
HETATM 7 H H11 GOL . . . G 2 -35.582 10.857 42.457 1 118.67 ? H11 GOL 203 A 1 
HETATM 8 H H12 GOL . . . G 2 -34.961 12.279 41.68 1 118.67 ? H12 GOL 203 A 1 
HETATM 9 H HO1 GOL . . . G 2 -35.002 12.288 44.028 1 114.72 ? HO1 GOL 203 A 1 
HETATM 10 H H2 GOL . . . G 2 -33.341 9.729 42.184 1 121.17 ? H2 GOL 203 A 1 
HETATM 11 H HO2 GOL . . . G 2 -34.621 10.641 39.862 1 122.99 ? HO2 GOL 203 A 1 
HETATM 12 H H31 GOL . . . G 2 -32.7 11.995 40.258 1 122.15 ? H31 GOL 203 A 1 
HETATM 13 H H32 GOL . . . G 2 -32.146 12.101 41.893 1 121.98 ? H32 GOL 203 A 1 
HETATM 14 H HO3 GOL . . . G 2 -30.561 10.918 41.284 1 122.14 ? HO3 GOL 203 A 1 
#
_model_server_stats.io_time_ms              29 
_model_server_stats.parse_time_ms           6 
_model_server_stats.create_model_time_ms    5 
_model_server_stats.query_time_ms           398 
_model_server_stats.encode_time_ms          1 
_model_server_stats.element_count           14 
#