data_9D79
#
_model_server_result.job_id            Wq8XQFU_7TmzWQWU8aOrcg 
_model_server_result.datetime_utc      '2025-06-20 10:43:38' 
_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          9d79 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"G","auth_seq_id":302}' 
#
_entry.id    9D79 
#
_exptl.entry_id    9D79 
_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    1 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90 
_cell.angle_beta          91.13 
_cell.angle_gamma         90 
_cell.entry_id            9D79 
_cell.length_a            37.081 
_cell.length_b            66.58 
_cell.length_c            193.165 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 9D79 
_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 monomeric 1 author_and_software_defined_assembly 1 
PISA monomeric 1 author_and_software_defined_assembly 2 
PISA monomeric 1 author_and_software_defined_assembly 3 
PISA monomeric 1 author_and_software_defined_assembly 4 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,E,I 1 1 
B,F,G,J 2 1 
C,H,K 3 1 
D,L 4 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 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      3 
_struct_asym.id                             G 
_struct_asym.pdbx_modified                  N 
_struct_asym.pdbx_blank_PDB_chainid_flag    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
covale ? covale1 A OG SER 83 A SER 83 1_555 E C7 Y33 . A Y33 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.448 ? 
covale ? covale2 A C PHE 85 A PHE 85 1_555 A N KCX 86 A KCX 86 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.322 ? 
covale ? covale3 A C KCX 86 A KCX 86 1_555 A N ILE 87 A ILE 87 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.337 ? 
covale ? covale4 B OG SER 83 B SER 83 1_555 F C7 Y33 . B Y33 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.458 ? 
covale ? covale5 B C PHE 85 B PHE 85 1_555 B N KCX 86 B KCX 86 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? 
covale ? covale6 B C KCX 86 B KCX 86 1_555 B N ILE 87 B ILE 87 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? 
covale ? covale7 C OG SER 83 C SER 83 1_555 H C7 Y33 . C Y33 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? 
covale ? covale8 C C PHE 85 C PHE 85 1_555 C N KCX 86 C KCX 86 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? 
covale ? covale9 C C KCX 86 C KCX 86 1_555 C N ILE 87 C ILE 87 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.336 ? 
covale ? covale10 D C PHE 85 D PHE 85 1_555 D N KCX 86 D KCX 86 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.334 ? 
covale ? covale11 D C KCX 86 D KCX 86 1_555 D N ILE 87 D ILE 87 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? 
#
_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                     9D79 
_atom_sites.fract_transf_matrix[1][1]    0.026968 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.000531 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.01502 
_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]    0.005178 
_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 Y33 A 1 301 301 Y33 Y33 . 
F 2 Y33 B 1 301 301 Y33 Y33 . 
G 3 GOL B 1 302 302 GOL GOL . 
H 2 Y33 C 1 301 301 Y33 Y33 . 
I 4 HOH A 1 401 210 HOH HOH . 
I 4 HOH A 2 402 144 HOH HOH . 
I 4 HOH A 3 403 75 HOH HOH . 
I 4 HOH A 4 404 96 HOH HOH . 
I 4 HOH A 5 405 156 HOH HOH . 
I 4 HOH A 6 406 16 HOH HOH . 
I 4 HOH A 7 407 152 HOH HOH . 
I 4 HOH A 8 408 107 HOH HOH . 
I 4 HOH A 9 409 18 HOH HOH . 
I 4 HOH A 10 410 105 HOH HOH . 
I 4 HOH A 11 411 140 HOH HOH . 
I 4 HOH A 12 412 28 HOH HOH . 
I 4 HOH A 13 413 216 HOH HOH . 
I 4 HOH A 14 414 193 HOH HOH . 
I 4 HOH A 15 415 215 HOH HOH . 
I 4 HOH A 16 416 43 HOH HOH . 
I 4 HOH A 17 417 91 HOH HOH . 
I 4 HOH A 18 418 155 HOH HOH . 
I 4 HOH A 19 419 8 HOH HOH . 
I 4 HOH A 20 420 51 HOH HOH . 
I 4 HOH A 21 421 1 HOH HOH . 
I 4 HOH A 22 422 145 HOH HOH . 
I 4 HOH A 23 423 220 HOH HOH . 
I 4 HOH A 24 424 207 HOH HOH . 
I 4 HOH A 25 425 221 HOH HOH . 
I 4 HOH A 26 426 114 HOH HOH . 
I 4 HOH A 27 427 10 HOH HOH . 
I 4 HOH A 28 428 181 HOH HOH . 
I 4 HOH A 29 429 209 HOH HOH . 
I 4 HOH A 30 430 132 HOH HOH . 
I 4 HOH A 31 431 185 HOH HOH . 
I 4 HOH A 32 432 49 HOH HOH . 
I 4 HOH A 33 433 142 HOH HOH . 
I 4 HOH A 34 434 56 HOH HOH . 
I 4 HOH A 35 435 44 HOH HOH . 
I 4 HOH A 36 436 208 HOH HOH . 
I 4 HOH A 37 437 192 HOH HOH . 
I 4 HOH A 38 438 206 HOH HOH . 
I 4 HOH A 39 439 76 HOH HOH . 
I 4 HOH A 40 440 164 HOH HOH . 
J 4 HOH B 1 401 92 HOH HOH . 
J 4 HOH B 2 402 104 HOH HOH . 
J 4 HOH B 3 403 217 HOH HOH . 
J 4 HOH B 4 404 100 HOH HOH . 
J 4 HOH B 5 405 11 HOH HOH . 
J 4 HOH B 6 406 81 HOH HOH . 
J 4 HOH B 7 407 84 HOH HOH . 
J 4 HOH B 8 408 30 HOH HOH . 
J 4 HOH B 9 409 157 HOH HOH . 
J 4 HOH B 10 410 57 HOH HOH . 
J 4 HOH B 11 411 22 HOH HOH . 
J 4 HOH B 12 412 9 HOH HOH . 
J 4 HOH B 13 413 71 HOH HOH . 
J 4 HOH B 14 414 61 HOH HOH . 
J 4 HOH B 15 415 108 HOH HOH . 
J 4 HOH B 16 416 138 HOH HOH . 
J 4 HOH B 17 417 82 HOH HOH . 
J 4 HOH B 18 418 66 HOH HOH . 
J 4 HOH B 19 419 24 HOH HOH . 
J 4 HOH B 20 420 64 HOH HOH . 
J 4 HOH B 21 421 161 HOH HOH . 
J 4 HOH B 22 422 134 HOH HOH . 
J 4 HOH B 23 423 110 HOH HOH . 
J 4 HOH B 24 424 125 HOH HOH . 
J 4 HOH B 25 425 195 HOH HOH . 
J 4 HOH B 26 426 58 HOH HOH . 
J 4 HOH B 27 427 59 HOH HOH . 
J 4 HOH B 28 428 151 HOH HOH . 
J 4 HOH B 29 429 174 HOH HOH . 
J 4 HOH B 30 430 148 HOH HOH . 
J 4 HOH B 31 431 42 HOH HOH . 
J 4 HOH B 32 432 25 HOH HOH . 
J 4 HOH B 33 433 19 HOH HOH . 
J 4 HOH B 34 434 137 HOH HOH . 
J 4 HOH B 35 435 115 HOH HOH . 
J 4 HOH B 36 436 158 HOH HOH . 
J 4 HOH B 37 437 83 HOH HOH . 
J 4 HOH B 38 438 154 HOH HOH . 
J 4 HOH B 39 439 2 HOH HOH . 
J 4 HOH B 40 440 111 HOH HOH . 
J 4 HOH B 41 441 23 HOH HOH . 
J 4 HOH B 42 442 38 HOH HOH . 
J 4 HOH B 43 443 187 HOH HOH . 
J 4 HOH B 44 444 146 HOH HOH . 
J 4 HOH B 45 445 27 HOH HOH . 
J 4 HOH B 46 446 48 HOH HOH . 
J 4 HOH B 47 447 130 HOH HOH . 
J 4 HOH B 48 448 21 HOH HOH . 
J 4 HOH B 49 449 65 HOH HOH . 
J 4 HOH B 50 450 70 HOH HOH . 
J 4 HOH B 51 451 12 HOH HOH . 
J 4 HOH B 52 452 205 HOH HOH . 
J 4 HOH B 53 453 120 HOH HOH . 
J 4 HOH B 54 454 39 HOH HOH . 
J 4 HOH B 55 455 80 HOH HOH . 
J 4 HOH B 56 456 79 HOH HOH . 
J 4 HOH B 57 457 88 HOH HOH . 
K 4 HOH C 1 401 78 HOH HOH . 
K 4 HOH C 2 402 121 HOH HOH . 
K 4 HOH C 3 403 186 HOH HOH . 
K 4 HOH C 4 404 62 HOH HOH . 
K 4 HOH C 5 405 63 HOH HOH . 
K 4 HOH C 6 406 32 HOH HOH . 
K 4 HOH C 7 407 135 HOH HOH . 
K 4 HOH C 8 408 73 HOH HOH . 
K 4 HOH C 9 409 41 HOH HOH . 
K 4 HOH C 10 410 20 HOH HOH . 
K 4 HOH C 11 411 128 HOH HOH . 
K 4 HOH C 12 412 143 HOH HOH . 
K 4 HOH C 13 413 196 HOH HOH . 
K 4 HOH C 14 414 34 HOH HOH . 
K 4 HOH C 15 415 173 HOH HOH . 
K 4 HOH C 16 416 45 HOH HOH . 
K 4 HOH C 17 417 6 HOH HOH . 
K 4 HOH C 18 418 166 HOH HOH . 
K 4 HOH C 19 419 47 HOH HOH . 
K 4 HOH C 20 420 55 HOH HOH . 
K 4 HOH C 21 421 113 HOH HOH . 
K 4 HOH C 22 422 189 HOH HOH . 
K 4 HOH C 23 423 95 HOH HOH . 
K 4 HOH C 24 424 202 HOH HOH . 
K 4 HOH C 25 425 35 HOH HOH . 
K 4 HOH C 26 426 159 HOH HOH . 
K 4 HOH C 27 427 77 HOH HOH . 
K 4 HOH C 28 428 147 HOH HOH . 
K 4 HOH C 29 429 37 HOH HOH . 
K 4 HOH C 30 430 31 HOH HOH . 
K 4 HOH C 31 431 177 HOH HOH . 
K 4 HOH C 32 432 15 HOH HOH . 
K 4 HOH C 33 433 98 HOH HOH . 
K 4 HOH C 34 434 54 HOH HOH . 
K 4 HOH C 35 435 69 HOH HOH . 
K 4 HOH C 36 436 183 HOH HOH . 
K 4 HOH C 37 437 175 HOH HOH . 
K 4 HOH C 38 438 129 HOH HOH . 
K 4 HOH C 39 439 184 HOH HOH . 
K 4 HOH C 40 440 214 HOH HOH . 
K 4 HOH C 41 441 172 HOH HOH . 
K 4 HOH C 42 442 93 HOH HOH . 
K 4 HOH C 43 443 141 HOH HOH . 
K 4 HOH C 44 444 106 HOH HOH . 
K 4 HOH C 45 445 101 HOH HOH . 
K 4 HOH C 46 446 153 HOH HOH . 
K 4 HOH C 47 447 117 HOH HOH . 
K 4 HOH C 48 448 46 HOH HOH . 
K 4 HOH C 49 449 127 HOH HOH . 
K 4 HOH C 50 450 17 HOH HOH . 
K 4 HOH C 51 451 86 HOH HOH . 
K 4 HOH C 52 452 139 HOH HOH . 
K 4 HOH C 53 453 13 HOH HOH . 
K 4 HOH C 54 454 36 HOH HOH . 
K 4 HOH C 55 455 136 HOH HOH . 
K 4 HOH C 56 456 203 HOH HOH . 
K 4 HOH C 57 457 3 HOH HOH . 
K 4 HOH C 58 458 74 HOH HOH . 
K 4 HOH C 59 459 204 HOH HOH . 
K 4 HOH C 60 460 122 HOH HOH . 
K 4 HOH C 61 461 119 HOH HOH . 
K 4 HOH C 62 462 218 HOH HOH . 
K 4 HOH C 63 463 178 HOH HOH . 
K 4 HOH C 64 464 168 HOH HOH . 
K 4 HOH C 65 465 219 HOH HOH . 
K 4 HOH C 66 466 90 HOH HOH . 
K 4 HOH C 67 467 123 HOH HOH . 
K 4 HOH C 68 468 50 HOH HOH . 
K 4 HOH C 69 469 162 HOH HOH . 
K 4 HOH C 70 470 112 HOH HOH . 
K 4 HOH C 71 471 211 HOH HOH . 
K 4 HOH C 72 472 126 HOH HOH . 
K 4 HOH C 73 473 85 HOH HOH . 
K 4 HOH C 74 474 60 HOH HOH . 
K 4 HOH C 75 475 53 HOH HOH . 
K 4 HOH C 76 476 72 HOH HOH . 
L 4 HOH D 1 301 116 HOH HOH . 
L 4 HOH D 2 302 7 HOH HOH . 
L 4 HOH D 3 303 5 HOH HOH . 
L 4 HOH D 4 304 198 HOH HOH . 
L 4 HOH D 5 305 176 HOH HOH . 
L 4 HOH D 6 306 199 HOH HOH . 
L 4 HOH D 7 307 33 HOH HOH . 
L 4 HOH D 8 308 68 HOH HOH . 
L 4 HOH D 9 309 171 HOH HOH . 
L 4 HOH D 10 310 182 HOH HOH . 
L 4 HOH D 11 311 223 HOH HOH . 
L 4 HOH D 12 312 163 HOH HOH . 
L 4 HOH D 13 313 222 HOH HOH . 
L 4 HOH D 14 314 133 HOH HOH . 
L 4 HOH D 15 315 109 HOH HOH . 
L 4 HOH D 16 316 131 HOH HOH . 
L 4 HOH D 17 317 194 HOH HOH . 
L 4 HOH D 18 318 212 HOH HOH . 
L 4 HOH D 19 319 180 HOH HOH . 
L 4 HOH D 20 320 52 HOH HOH . 
L 4 HOH D 21 321 4 HOH HOH . 
L 4 HOH D 22 322 200 HOH HOH . 
L 4 HOH D 23 323 213 HOH HOH . 
L 4 HOH D 24 324 118 HOH HOH . 
L 4 HOH D 25 325 87 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 3 20.04 -40.983 17.65 1 36.65 ? C1 GOL 302 B 1 
HETATM 2 O O1 GOL . . . G 3 19.55 -40.035 18.574 1 33.4 ? O1 GOL 302 B 1 
HETATM 3 C C2 GOL . . . G 3 21.426 -40.566 17.165 1 36.95 ? C2 GOL 302 B 1 
HETATM 4 O O2 GOL . . . G 3 22.228 -40.1 18.244 1 31.61 ? O2 GOL 302 B 1 
HETATM 5 C C3 GOL . . . G 3 22.099 -41.722 16.436 1 40.64 ? C3 GOL 302 B 1 
HETATM 6 O O3 GOL . . . G 3 21.307 -42.03 15.309 1 43.97 ? O3 GOL 302 B 1 
#
_model_server_stats.io_time_ms              249 
_model_server_stats.parse_time_ms           301 
_model_server_stats.create_model_time_ms    37 
_model_server_stats.query_time_ms           462 
_model_server_stats.encode_time_ms          8 
_model_server_stats.element_count           6 
#