data_3WL3
#
_model_server_result.job_id            0n1I9_EnBUF6qmBtGwJPqQ 
_model_server_result.datetime_utc      '2024-11-08 09:57:29' 
_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          3wl3 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"M","auth_seq_id":305}' 
#
_entry.id    3WL3 
#
_exptl.entry_id    3WL3 
_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    3 
_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            3WL3 
_cell.length_a            77.561 
_cell.length_b            77.561 
_cell.length_c            229.114 
_cell.Z_PDB               18 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3WL3 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        154 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 32 2 1' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    hexameric 
_pdbx_struct_assembly.oligomeric_count      6 
_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 
_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' 4_555 y,x,-z -0.5 0.866025 0 0.866025 0.5 0 0 0 -1 0 0 0 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 4 H N N 
? 4 L N N 
? 4 M 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 A ND1 HIS 44 A HIS 44 1_555 D ZN ZN . A ZN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.065 ? 
metalc ? metalc2 A OD2 ASP 47 A ASP 47 1_555 D ZN ZN . A ZN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? 
metalc ? metalc3 A NE2 HIS 155 A HIS 155 1_555 D ZN ZN . A ZN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.058 ? 
metalc ? metalc4 D ZN ZN . A ZN 301 1_555 E O1 PO4 . A PO4 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.812 ? 
metalc ? metalc5 B ND1 HIS 44 B HIS 44 1_555 I ZN ZN . B ZN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.253 ? 
metalc ? metalc6 B OD2 ASP 47 B ASP 47 1_555 I ZN ZN . B ZN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.951 ? 
metalc ? metalc7 B NE2 HIS 155 B HIS 155 1_555 I ZN ZN . B ZN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.27 ? 
metalc ? metalc8 I ZN ZN . B ZN 301 1_555 J O2 PO4 . B PO4 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.741 ? 
metalc ? metalc9 C ND1 HIS 44 C HIS 44 1_555 N ZN ZN . C ZN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? 
metalc ? metalc10 C OD2 ASP 47 C ASP 47 1_555 N ZN ZN . C ZN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.119 ? 
metalc ? metalc11 C NE2 HIS 155 C HIS 155 1_555 N ZN ZN . C ZN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.189 ? 
metalc ? metalc12 N ZN ZN . C ZN 301 1_555 O O3 PO4 . C PO4 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.065 ? 
#
_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                     3WL3 
_atom_sites.fract_transf_matrix[1][1]    0.012893 
_atom_sites.fract_transf_matrix[1][2]    0.007444 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.014888 
_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]    0.004365 
_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 2 ZN A 1 301 1 ZN ZN . 
E 3 PO4 A 1 302 1 PO4 PO4 . 
F 3 PO4 A 1 303 4 PO4 PO4 . 
G 3 PO4 A 1 304 5 PO4 PO4 . 
H 4 GOL A 1 305 1 GOL GOL . 
I 2 ZN B 1 301 2 ZN ZN . 
J 3 PO4 B 1 302 2 PO4 PO4 . 
K 3 PO4 B 1 303 6 PO4 PO4 . 
L 4 GOL B 1 304 2 GOL GOL . 
M 4 GOL B 1 305 3 GOL GOL . 
N 2 ZN C 1 301 3 ZN ZN . 
O 3 PO4 C 1 302 3 PO4 PO4 . 
P 5 HOH A 1 401 3 HOH HOH . 
P 5 HOH A 2 402 4 HOH HOH . 
P 5 HOH A 3 403 5 HOH HOH . 
P 5 HOH A 4 404 8 HOH HOH . 
P 5 HOH A 5 405 11 HOH HOH . 
P 5 HOH A 6 406 15 HOH HOH . 
P 5 HOH A 7 407 17 HOH HOH . 
P 5 HOH A 8 408 21 HOH HOH . 
P 5 HOH A 9 409 23 HOH HOH . 
P 5 HOH A 10 410 26 HOH HOH . 
P 5 HOH A 11 411 30 HOH HOH . 
P 5 HOH A 12 412 32 HOH HOH . 
P 5 HOH A 13 413 33 HOH HOH . 
P 5 HOH A 14 414 35 HOH HOH . 
P 5 HOH A 15 415 36 HOH HOH . 
P 5 HOH A 16 416 37 HOH HOH . 
P 5 HOH A 17 417 39 HOH HOH . 
P 5 HOH A 18 418 40 HOH HOH . 
P 5 HOH A 19 419 41 HOH HOH . 
P 5 HOH A 20 420 45 HOH HOH . 
P 5 HOH A 21 421 46 HOH HOH . 
P 5 HOH A 22 422 51 HOH HOH . 
P 5 HOH A 23 423 53 HOH HOH . 
P 5 HOH A 24 424 54 HOH HOH . 
P 5 HOH A 25 425 58 HOH HOH . 
P 5 HOH A 26 426 61 HOH HOH . 
P 5 HOH A 27 427 62 HOH HOH . 
P 5 HOH A 28 428 64 HOH HOH . 
P 5 HOH A 29 429 65 HOH HOH . 
P 5 HOH A 30 430 66 HOH HOH . 
P 5 HOH A 31 431 67 HOH HOH . 
P 5 HOH A 32 432 68 HOH HOH . 
P 5 HOH A 33 433 69 HOH HOH . 
P 5 HOH A 34 434 70 HOH HOH . 
P 5 HOH A 35 435 71 HOH HOH . 
P 5 HOH A 36 436 72 HOH HOH . 
P 5 HOH A 37 437 73 HOH HOH . 
P 5 HOH A 38 438 74 HOH HOH . 
P 5 HOH A 39 439 75 HOH HOH . 
P 5 HOH A 40 440 76 HOH HOH . 
P 5 HOH A 41 441 77 HOH HOH . 
P 5 HOH A 42 442 78 HOH HOH . 
P 5 HOH A 43 443 79 HOH HOH . 
P 5 HOH A 44 444 80 HOH HOH . 
P 5 HOH A 45 445 81 HOH HOH . 
P 5 HOH A 46 446 82 HOH HOH . 
P 5 HOH A 47 447 83 HOH HOH . 
P 5 HOH A 48 448 84 HOH HOH . 
P 5 HOH A 49 449 85 HOH HOH . 
P 5 HOH A 50 450 86 HOH HOH . 
P 5 HOH A 51 451 97 HOH HOH . 
P 5 HOH A 52 452 104 HOH HOH . 
P 5 HOH A 53 453 106 HOH HOH . 
P 5 HOH A 54 454 107 HOH HOH . 
P 5 HOH A 55 455 108 HOH HOH . 
P 5 HOH A 56 456 109 HOH HOH . 
P 5 HOH A 57 457 110 HOH HOH . 
P 5 HOH A 58 458 116 HOH HOH . 
P 5 HOH A 59 459 117 HOH HOH . 
P 5 HOH A 60 460 120 HOH HOH . 
Q 5 HOH B 1 401 7 HOH HOH . 
Q 5 HOH B 2 402 10 HOH HOH . 
Q 5 HOH B 3 403 12 HOH HOH . 
Q 5 HOH B 4 404 16 HOH HOH . 
Q 5 HOH B 5 405 18 HOH HOH . 
Q 5 HOH B 6 406 19 HOH HOH . 
Q 5 HOH B 7 407 20 HOH HOH . 
Q 5 HOH B 8 408 22 HOH HOH . 
Q 5 HOH B 9 409 24 HOH HOH . 
Q 5 HOH B 10 410 27 HOH HOH . 
Q 5 HOH B 11 411 34 HOH HOH . 
Q 5 HOH B 12 412 42 HOH HOH . 
Q 5 HOH B 13 413 43 HOH HOH . 
Q 5 HOH B 14 414 44 HOH HOH . 
Q 5 HOH B 15 415 48 HOH HOH . 
Q 5 HOH B 16 416 49 HOH HOH . 
Q 5 HOH B 17 417 50 HOH HOH . 
Q 5 HOH B 18 418 52 HOH HOH . 
Q 5 HOH B 19 419 87 HOH HOH . 
Q 5 HOH B 20 420 88 HOH HOH . 
Q 5 HOH B 21 421 89 HOH HOH . 
Q 5 HOH B 22 422 90 HOH HOH . 
Q 5 HOH B 23 423 91 HOH HOH . 
Q 5 HOH B 24 424 92 HOH HOH . 
Q 5 HOH B 25 425 99 HOH HOH . 
Q 5 HOH B 26 426 101 HOH HOH . 
Q 5 HOH B 27 427 105 HOH HOH . 
Q 5 HOH B 28 428 111 HOH HOH . 
Q 5 HOH B 29 429 112 HOH HOH . 
Q 5 HOH B 30 430 113 HOH HOH . 
Q 5 HOH B 31 431 114 HOH HOH . 
Q 5 HOH B 32 432 115 HOH HOH . 
Q 5 HOH B 33 433 118 HOH HOH . 
Q 5 HOH B 34 434 119 HOH HOH . 
Q 5 HOH B 35 435 121 HOH HOH . 
Q 5 HOH B 36 436 122 HOH HOH . 
Q 5 HOH B 37 437 129 HOH HOH . 
R 5 HOH C 1 401 1 HOH HOH . 
R 5 HOH C 2 402 2 HOH HOH . 
R 5 HOH C 3 403 6 HOH HOH . 
R 5 HOH C 4 404 9 HOH HOH . 
R 5 HOH C 5 405 13 HOH HOH . 
R 5 HOH C 6 406 14 HOH HOH . 
R 5 HOH C 7 407 25 HOH HOH . 
R 5 HOH C 8 408 28 HOH HOH . 
R 5 HOH C 9 409 29 HOH HOH . 
R 5 HOH C 10 410 31 HOH HOH . 
R 5 HOH C 11 411 38 HOH HOH . 
R 5 HOH C 12 412 47 HOH HOH . 
R 5 HOH C 13 413 55 HOH HOH . 
R 5 HOH C 14 414 56 HOH HOH . 
R 5 HOH C 15 415 57 HOH HOH . 
R 5 HOH C 16 416 59 HOH HOH . 
R 5 HOH C 17 417 60 HOH HOH . 
R 5 HOH C 18 418 63 HOH HOH . 
R 5 HOH C 19 419 93 HOH HOH . 
R 5 HOH C 20 420 94 HOH HOH . 
R 5 HOH C 21 421 95 HOH HOH . 
R 5 HOH C 22 422 96 HOH HOH . 
R 5 HOH C 23 423 98 HOH HOH . 
R 5 HOH C 24 424 100 HOH HOH . 
R 5 HOH C 25 425 102 HOH HOH . 
R 5 HOH C 26 426 103 HOH HOH . 
R 5 HOH C 27 427 123 HOH HOH . 
R 5 HOH C 28 428 124 HOH HOH . 
R 5 HOH C 29 429 125 HOH HOH . 
R 5 HOH C 30 430 126 HOH HOH . 
R 5 HOH C 31 431 127 HOH HOH . 
R 5 HOH C 32 432 128 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 . . . M 4 0.264 18.937 -3.417 1 49.05 ? C1 GOL 305 B 1 
HETATM 2 O O1 GOL . . . M 4 -0.006 20.285 -3.215 1 47.44 ? O1 GOL 305 B 1 
HETATM 3 C C2 GOL . . . M 4 1.747 18.91 -3.722 1 50.01 ? C2 GOL 305 B 1 
HETATM 4 O O2 GOL . . . M 4 1.951 18.999 -5.126 1 46.9 ? O2 GOL 305 B 1 
HETATM 5 C C3 GOL . . . M 4 2.235 17.584 -3.157 1 49.95 ? C3 GOL 305 B 1 
HETATM 6 O O3 GOL . . . M 4 2.939 16.827 -4.113 1 53.09 ? O3 GOL 305 B 1 
#
_model_server_stats.io_time_ms              7 
_model_server_stats.parse_time_ms           6 
_model_server_stats.create_model_time_ms    11 
_model_server_stats.query_time_ms           218 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           6 
#