data_4YHZ
#
_model_server_result.job_id            u896Wnoyil6eS9nNosSAOA 
_model_server_result.datetime_utc      '2024-12-26 13:02:06' 
_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          4yhz 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"G","auth_seq_id":304}' 
#
_entry.id    4YHZ 
#
_exptl.entry_id    4YHZ 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              92.094 
_entity.id                          4 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            GLYCEROL 
_entity.pdbx_number_of_molecules    7 
_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         120 
_cell.entry_id            4YHZ 
_cell.length_a            130.375 
_cell.length_b            130.375 
_cell.length_c            96.365 
_cell.Z_PDB               6 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 4YHZ 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        152 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'P 31 2 1' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    hexameric 
_pdbx_struct_assembly.oligomeric_count      6 
_pdbx_struct_assembly.details               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 
_pdbx_struct_assembly_gen.assembly_id        1 
_pdbx_struct_assembly_gen.oper_expression    1,2 
#
loop_
_pdbx_struct_oper_list.id
_pdbx_struct_oper_list.type
_pdbx_struct_oper_list.name
_pdbx_struct_oper_list.symmetry_operation
_pdbx_struct_oper_list.matrix[1][1]
_pdbx_struct_oper_list.matrix[1][2]
_pdbx_struct_oper_list.matrix[1][3]
_pdbx_struct_oper_list.matrix[2][1]
_pdbx_struct_oper_list.matrix[2][2]
_pdbx_struct_oper_list.matrix[2][3]
_pdbx_struct_oper_list.matrix[3][1]
_pdbx_struct_oper_list.matrix[3][2]
_pdbx_struct_oper_list.matrix[3][3]
_pdbx_struct_oper_list.vector[1]
_pdbx_struct_oper_list.vector[2]
_pdbx_struct_oper_list.vector[3]
1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 
2 'crystal symmetry operation' 5_555 x-y,-y,-z+2/3 1 0 0 0 -1 0 0 0 -1 0 0 64.243333 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 4 D N N 
? 4 E N N 
? 4 F N N 
? 4 G N N 
? 4 H N N 
? 4 I N N 
? 4 J 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 22 H CYS 22 1_555 A SG CYS 96 H CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.054 ? 
disulf ? disulf2 A SG CYS 148 H CYS 148 1_555 A SG CYS 204 H CYS 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? 
disulf ? disulf3 B SG CYS 22 L CYS 22 1_555 B SG CYS 87 L CYS 87 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.068 ? 
disulf ? disulf4 B SG CYS 135 L CYS 135 1_555 B SG CYS 195 L CYS 195 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.017 ? 
covale ? covale1 C C THR 3 P THR 3 1_555 C N M3L 4 P M3L 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.334 ? 
covale ? covale2 C C M3L 4 P M3L 4 1_555 C N GLN 5 P GLN 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.334 ? 
#
_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                     4YHZ 
_atom_sites.fract_transf_matrix[1][1]    0.00767 
_atom_sites.fract_transf_matrix[1][2]    0.004428 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.008857 
_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]    0.010377 
_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
D 4 GOL H 1 301 1 GOL GOL . 
E 4 GOL H 1 302 2 GOL GOL . 
F 4 GOL H 1 303 5 GOL GOL . 
G 4 GOL H 1 304 6 GOL GOL . 
H 4 GOL H 1 305 8 GOL GOL . 
I 4 GOL L 1 301 3 GOL GOL . 
J 4 GOL L 1 302 7 GOL GOL . 
K 5 SO4 L 1 303 1 SO4 SO4 . 
L 6 HOH H 1 401 159 HOH HOH . 
L 6 HOH H 2 402 134 HOH HOH . 
L 6 HOH H 3 403 13 HOH HOH . 
L 6 HOH H 4 404 14 HOH HOH . 
L 6 HOH H 5 405 96 HOH HOH . 
L 6 HOH H 6 406 53 HOH HOH . 
L 6 HOH H 7 407 2 HOH HOH . 
L 6 HOH H 8 408 11 HOH HOH . 
L 6 HOH H 9 409 58 HOH HOH . 
L 6 HOH H 10 410 101 HOH HOH . 
L 6 HOH H 11 411 32 HOH HOH . 
L 6 HOH H 12 412 4 HOH HOH . 
L 6 HOH H 13 413 65 HOH HOH . 
L 6 HOH H 14 414 151 HOH HOH . 
L 6 HOH H 15 415 7 HOH HOH . 
L 6 HOH H 16 416 26 HOH HOH . 
L 6 HOH H 17 417 124 HOH HOH . 
L 6 HOH H 18 418 10 HOH HOH . 
L 6 HOH H 19 419 36 HOH HOH . 
L 6 HOH H 20 420 64 HOH HOH . 
L 6 HOH H 21 421 41 HOH HOH . 
L 6 HOH H 22 422 110 HOH HOH . 
L 6 HOH H 23 423 98 HOH HOH . 
L 6 HOH H 24 424 31 HOH HOH . 
L 6 HOH H 25 425 5 HOH HOH . 
L 6 HOH H 26 426 149 HOH HOH . 
L 6 HOH H 27 427 6 HOH HOH . 
L 6 HOH H 28 428 28 HOH HOH . 
L 6 HOH H 29 429 105 HOH HOH . 
L 6 HOH H 30 430 68 HOH HOH . 
L 6 HOH H 31 431 62 HOH HOH . 
L 6 HOH H 32 432 152 HOH HOH . 
L 6 HOH H 33 433 171 HOH HOH . 
L 6 HOH H 34 434 99 HOH HOH . 
L 6 HOH H 35 435 106 HOH HOH . 
L 6 HOH H 36 436 109 HOH HOH . 
L 6 HOH H 37 437 44 HOH HOH . 
L 6 HOH H 38 438 78 HOH HOH . 
L 6 HOH H 39 439 114 HOH HOH . 
L 6 HOH H 40 440 8 HOH HOH . 
L 6 HOH H 41 441 61 HOH HOH . 
L 6 HOH H 42 442 56 HOH HOH . 
L 6 HOH H 43 443 1 HOH HOH . 
L 6 HOH H 44 444 119 HOH HOH . 
L 6 HOH H 45 445 25 HOH HOH . 
L 6 HOH H 46 446 42 HOH HOH . 
L 6 HOH H 47 447 138 HOH HOH . 
L 6 HOH H 48 448 54 HOH HOH . 
L 6 HOH H 49 449 77 HOH HOH . 
L 6 HOH H 50 450 67 HOH HOH . 
L 6 HOH H 51 451 15 HOH HOH . 
L 6 HOH H 52 452 165 HOH HOH . 
L 6 HOH H 53 453 82 HOH HOH . 
L 6 HOH H 54 454 17 HOH HOH . 
L 6 HOH H 55 455 164 HOH HOH . 
L 6 HOH H 56 456 158 HOH HOH . 
L 6 HOH H 57 457 104 HOH HOH . 
L 6 HOH H 58 458 112 HOH HOH . 
L 6 HOH H 59 459 83 HOH HOH . 
L 6 HOH H 60 460 81 HOH HOH . 
L 6 HOH H 61 461 39 HOH HOH . 
L 6 HOH H 62 462 100 HOH HOH . 
L 6 HOH H 63 463 91 HOH HOH . 
L 6 HOH H 64 464 168 HOH HOH . 
L 6 HOH H 65 465 127 HOH HOH . 
L 6 HOH H 66 466 50 HOH HOH . 
L 6 HOH H 67 467 48 HOH HOH . 
L 6 HOH H 68 468 167 HOH HOH . 
L 6 HOH H 69 469 131 HOH HOH . 
L 6 HOH H 70 470 123 HOH HOH . 
L 6 HOH H 71 471 111 HOH HOH . 
L 6 HOH H 72 472 174 HOH HOH . 
L 6 HOH H 73 473 79 HOH HOH . 
L 6 HOH H 74 474 30 HOH HOH . 
L 6 HOH H 75 475 150 HOH HOH . 
L 6 HOH H 76 476 142 HOH HOH . 
L 6 HOH H 77 477 60 HOH HOH . 
L 6 HOH H 78 478 40 HOH HOH . 
L 6 HOH H 79 479 140 HOH HOH . 
L 6 HOH H 80 480 172 HOH HOH . 
L 6 HOH H 81 481 103 HOH HOH . 
L 6 HOH H 82 482 125 HOH HOH . 
L 6 HOH H 83 483 153 HOH HOH . 
L 6 HOH H 84 484 92 HOH HOH . 
L 6 HOH H 85 485 163 HOH HOH . 
L 6 HOH H 86 486 115 HOH HOH . 
L 6 HOH H 87 487 72 HOH HOH . 
L 6 HOH H 88 488 137 HOH HOH . 
L 6 HOH H 89 489 93 HOH HOH . 
L 6 HOH H 90 490 166 HOH HOH . 
L 6 HOH H 91 491 84 HOH HOH . 
M 6 HOH L 1 401 145 HOH HOH . 
M 6 HOH L 2 402 128 HOH HOH . 
M 6 HOH L 3 403 29 HOH HOH . 
M 6 HOH L 4 404 34 HOH HOH . 
M 6 HOH L 5 405 9 HOH HOH . 
M 6 HOH L 6 406 35 HOH HOH . 
M 6 HOH L 7 407 66 HOH HOH . 
M 6 HOH L 8 408 12 HOH HOH . 
M 6 HOH L 9 409 19 HOH HOH . 
M 6 HOH L 10 410 59 HOH HOH . 
M 6 HOH L 11 411 108 HOH HOH . 
M 6 HOH L 12 412 116 HOH HOH . 
M 6 HOH L 13 413 51 HOH HOH . 
M 6 HOH L 14 414 24 HOH HOH . 
M 6 HOH L 15 415 146 HOH HOH . 
M 6 HOH L 16 416 69 HOH HOH . 
M 6 HOH L 17 417 155 HOH HOH . 
M 6 HOH L 18 418 113 HOH HOH . 
M 6 HOH L 19 419 143 HOH HOH . 
M 6 HOH L 20 420 16 HOH HOH . 
M 6 HOH L 21 421 161 HOH HOH . 
M 6 HOH L 22 422 136 HOH HOH . 
M 6 HOH L 23 423 89 HOH HOH . 
M 6 HOH L 24 424 3 HOH HOH . 
M 6 HOH L 25 425 33 HOH HOH . 
M 6 HOH L 26 426 47 HOH HOH . 
M 6 HOH L 27 427 126 HOH HOH . 
M 6 HOH L 28 428 45 HOH HOH . 
M 6 HOH L 29 429 129 HOH HOH . 
M 6 HOH L 30 430 43 HOH HOH . 
M 6 HOH L 31 431 122 HOH HOH . 
M 6 HOH L 32 432 74 HOH HOH . 
M 6 HOH L 33 433 133 HOH HOH . 
M 6 HOH L 34 434 130 HOH HOH . 
M 6 HOH L 35 435 18 HOH HOH . 
M 6 HOH L 36 436 117 HOH HOH . 
M 6 HOH L 37 437 23 HOH HOH . 
M 6 HOH L 38 438 21 HOH HOH . 
M 6 HOH L 39 439 38 HOH HOH . 
M 6 HOH L 40 440 144 HOH HOH . 
M 6 HOH L 41 441 169 HOH HOH . 
M 6 HOH L 42 442 76 HOH HOH . 
M 6 HOH L 43 443 139 HOH HOH . 
M 6 HOH L 44 444 70 HOH HOH . 
M 6 HOH L 45 445 22 HOH HOH . 
M 6 HOH L 46 446 75 HOH HOH . 
M 6 HOH L 47 447 94 HOH HOH . 
M 6 HOH L 48 448 73 HOH HOH . 
M 6 HOH L 49 449 95 HOH HOH . 
M 6 HOH L 50 450 154 HOH HOH . 
M 6 HOH L 51 451 49 HOH HOH . 
M 6 HOH L 52 452 55 HOH HOH . 
M 6 HOH L 53 453 102 HOH HOH . 
M 6 HOH L 54 454 157 HOH HOH . 
M 6 HOH L 55 455 90 HOH HOH . 
M 6 HOH L 56 456 118 HOH HOH . 
M 6 HOH L 57 457 121 HOH HOH . 
M 6 HOH L 58 458 86 HOH HOH . 
M 6 HOH L 59 459 52 HOH HOH . 
M 6 HOH L 60 460 46 HOH HOH . 
M 6 HOH L 61 461 141 HOH HOH . 
M 6 HOH L 62 462 107 HOH HOH . 
M 6 HOH L 63 463 173 HOH HOH . 
M 6 HOH L 64 464 57 HOH HOH . 
M 6 HOH L 65 465 147 HOH HOH . 
M 6 HOH L 66 466 120 HOH HOH . 
M 6 HOH L 67 467 63 HOH HOH . 
M 6 HOH L 68 468 87 HOH HOH . 
M 6 HOH L 69 469 135 HOH HOH . 
M 6 HOH L 70 470 97 HOH HOH . 
M 6 HOH L 71 471 160 HOH HOH . 
M 6 HOH L 72 472 148 HOH HOH . 
M 6 HOH L 73 473 156 HOH HOH . 
M 6 HOH L 74 474 132 HOH HOH . 
M 6 HOH L 75 475 80 HOH HOH . 
M 6 HOH L 76 476 71 HOH HOH . 
N 6 HOH P 1 101 20 HOH HOH . 
N 6 HOH P 2 102 37 HOH HOH . 
N 6 HOH P 3 103 27 HOH HOH . 
N 6 HOH P 4 104 88 HOH HOH . 
N 6 HOH P 5 105 170 HOH HOH . 
N 6 HOH P 6 106 85 HOH HOH . 
N 6 HOH P 7 107 162 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 4 -49.082 5.703 30.926 1 62.85 ? C1 GOL 304 H 1 
HETATM 2 O O1 GOL . . . G 4 -50.223 6.258 31.548 1 69.4 ? O1 GOL 304 H 1 
HETATM 3 C C2 GOL . . . G 4 -48.815 6.444 29.632 1 55.56 ? C2 GOL 304 H 1 
HETATM 4 O O2 GOL . . . G 4 -48.122 7.646 29.886 1 64.66 ? O2 GOL 304 H 1 
HETATM 5 C C3 GOL . . . G 4 -48.022 5.568 28.688 1 55.54 ? C3 GOL 304 H 1 
HETATM 6 O O3 GOL . . . G 4 -48.45 4.23 28.843 1 57.38 ? O3 GOL 304 H 1 
#
_model_server_stats.io_time_ms              56 
_model_server_stats.parse_time_ms           9 
_model_server_stats.create_model_time_ms    4 
_model_server_stats.query_time_ms           318 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           6 
#