data_4Y3J
#
_model_server_result.job_id            XxF43YawSh9xlxZp02AvRA 
_model_server_result.datetime_utc      '2024-11-23 20:41:49' 
_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          4y3j 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"B","auth_seq_id":401}' 
#
_entry.id    4Y3J 
#
_exptl.entry_id    4Y3J 
_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    5 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90 
_cell.angle_beta          109.08 
_cell.angle_gamma         90 
_cell.entry_id            4Y3J 
_cell.length_a            45.216 
_cell.length_b            73.272 
_cell.length_c            52.787 
_cell.Z_PDB               2 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 4Y3J 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        4 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'P 1 21 1' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    monomeric 
_pdbx_struct_assembly.oligomeric_count      1 
_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 
_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
? 2 B N N 
? 2 C N N 
? 2 D N N 
? 2 E N N 
? 2 F N N 
#
_struct_conn.conn_type_id                   disulf 
_struct_conn.details                        ? 
_struct_conn.id                             disulf1 
_struct_conn.ptnr1_label_asym_id            A 
_struct_conn.ptnr1_label_atom_id            SG 
_struct_conn.ptnr1_label_comp_id            CYS 
_struct_conn.ptnr1_label_seq_id             255 
_struct_conn.ptnr1_auth_asym_id             A 
_struct_conn.ptnr1_auth_comp_id             CYS 
_struct_conn.ptnr1_auth_seq_id              255 
_struct_conn.ptnr1_symmetry                 1_555 
_struct_conn.ptnr2_label_asym_id            A 
_struct_conn.ptnr2_label_atom_id            SG 
_struct_conn.ptnr2_label_comp_id            CYS 
_struct_conn.ptnr2_label_seq_id             290 
_struct_conn.ptnr2_auth_asym_id             A 
_struct_conn.ptnr2_auth_comp_id             CYS 
_struct_conn.ptnr2_auth_seq_id              290 
_struct_conn.ptnr2_symmetry                 1_555 
_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                2.041 
_struct_conn.pdbx_value_order               ? 
#
_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 
#
_atom_sites.entry_id                     4Y3J 
_atom_sites.fract_transf_matrix[1][1]    0.022116 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.00765 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.013648 
_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]    0.020045 
_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
B 2 GOL A 1 401 401 GOL GOL . 
C 2 GOL A 1 402 402 GOL GOL . 
D 2 GOL A 1 403 403 GOL GOL . 
E 2 GOL A 1 404 404 GOL GOL . 
F 2 GOL A 1 405 405 GOL GOL . 
G 3 ACT A 1 406 406 ACT ACT . 
H 3 ACT A 1 407 407 ACT ACT . 
I 3 ACT A 1 408 408 ACT ACT . 
J 3 ACT A 1 409 409 ACT ACT . 
K 3 ACT A 1 410 410 ACT ACT . 
L 4 DMS A 1 411 411 DMS DMS . 
M 4 DMS A 1 412 412 DMS DMS . 
N 4 DMS A 1 413 413 DMS DMS . 
O 4 DMS A 1 414 414 DMS DMS . 
P 5 HIC A 1 415 415 HIC HIC . 
Q 6 HOH A 1 501 501 HOH HOH . 
Q 6 HOH A 2 503 503 HOH HOH . 
Q 6 HOH A 3 569 569 HOH HOH . 
Q 6 HOH A 4 582 582 HOH HOH . 
Q 6 HOH A 5 584 584 HOH HOH . 
Q 6 HOH A 6 588 588 HOH HOH . 
Q 6 HOH A 7 589 589 HOH HOH . 
Q 6 HOH A 8 612 612 HOH HOH . 
Q 6 HOH A 9 621 621 HOH HOH . 
Q 6 HOH A 10 629 629 HOH HOH . 
Q 6 HOH A 11 638 638 HOH HOH . 
Q 6 HOH A 12 674 674 HOH HOH . 
Q 6 HOH A 13 677 677 HOH HOH . 
Q 6 HOH A 14 678 678 HOH HOH . 
Q 6 HOH A 15 686 686 HOH HOH . 
Q 6 HOH A 16 690 690 HOH HOH . 
Q 6 HOH A 17 696 696 HOH HOH . 
Q 6 HOH A 18 731 731 HOH HOH . 
Q 6 HOH A 19 733 733 HOH HOH . 
Q 6 HOH A 20 738 738 HOH HOH . 
Q 6 HOH A 21 744 744 HOH HOH . 
Q 6 HOH A 22 747 747 HOH HOH . 
Q 6 HOH A 23 748 748 HOH HOH . 
Q 6 HOH A 24 760 760 HOH HOH . 
Q 6 HOH A 25 775 775 HOH HOH . 
Q 6 HOH A 26 786 786 HOH HOH . 
Q 6 HOH A 27 798 798 HOH HOH . 
Q 6 HOH A 28 804 804 HOH HOH . 
Q 6 HOH A 29 806 806 HOH HOH . 
Q 6 HOH A 30 807 807 HOH HOH . 
Q 6 HOH A 31 813 813 HOH HOH . 
Q 6 HOH A 32 819 819 HOH HOH . 
Q 6 HOH A 33 826 826 HOH HOH . 
Q 6 HOH A 34 830 830 HOH HOH . 
Q 6 HOH A 35 835 835 HOH HOH . 
Q 6 HOH A 36 852 852 HOH HOH . 
Q 6 HOH A 37 855 855 HOH HOH . 
Q 6 HOH A 38 861 861 HOH HOH . 
Q 6 HOH A 39 864 864 HOH HOH . 
Q 6 HOH A 40 867 867 HOH HOH . 
Q 6 HOH A 41 877 877 HOH HOH . 
Q 6 HOH A 42 896 896 HOH HOH . 
Q 6 HOH A 43 897 897 HOH HOH . 
Q 6 HOH A 44 905 905 HOH HOH . 
Q 6 HOH A 45 913 913 HOH HOH . 
Q 6 HOH A 46 925 925 HOH HOH . 
Q 6 HOH A 47 938 938 HOH HOH . 
Q 6 HOH A 48 948 948 HOH HOH . 
Q 6 HOH A 49 955 955 HOH HOH . 
Q 6 HOH A 50 957 957 HOH HOH . 
Q 6 HOH A 51 959 959 HOH HOH . 
Q 6 HOH A 52 970 970 HOH HOH . 
Q 6 HOH A 53 971 971 HOH HOH . 
Q 6 HOH A 54 978 978 HOH HOH . 
Q 6 HOH A 55 988 988 HOH HOH . 
Q 6 HOH A 56 992 992 HOH HOH . 
Q 6 HOH A 57 996 996 HOH HOH . 
Q 6 HOH A 58 1010 1010 HOH HOH . 
Q 6 HOH A 59 1014 1014 HOH HOH . 
Q 6 HOH A 60 1026 1026 HOH HOH . 
Q 6 HOH A 61 1029 1029 HOH HOH . 
Q 6 HOH A 62 1030 1030 HOH HOH . 
Q 6 HOH A 63 1038 1038 HOH HOH . 
Q 6 HOH A 64 1070 1070 HOH HOH . 
Q 6 HOH A 65 1071 1071 HOH HOH . 
Q 6 HOH A 66 1077 1077 HOH HOH . 
Q 6 HOH A 67 1081 1081 HOH HOH . 
Q 6 HOH A 68 1089 1089 HOH HOH . 
Q 6 HOH A 69 1091 1091 HOH HOH . 
Q 6 HOH A 70 1092 1092 HOH HOH . 
Q 6 HOH A 71 1095 1095 HOH HOH . 
Q 6 HOH A 72 1102 1102 HOH HOH . 
Q 6 HOH A 73 1107 1107 HOH HOH . 
Q 6 HOH A 74 1110 1110 HOH HOH . 
Q 6 HOH A 75 1111 1111 HOH HOH . 
Q 6 HOH A 76 1115 1115 HOH HOH . 
Q 6 HOH A 77 1124 1124 HOH HOH . 
Q 6 HOH A 78 1149 1149 HOH HOH . 
Q 6 HOH A 79 1162 1162 HOH HOH . 
Q 6 HOH A 80 1173 1173 HOH HOH . 
Q 6 HOH A 81 1180 1180 HOH HOH . 
Q 6 HOH A 82 1190 1190 HOH HOH . 
Q 6 HOH A 83 1207 1207 HOH HOH . 
Q 6 HOH A 84 1223 1223 HOH HOH . 
Q 6 HOH A 85 1226 1226 HOH HOH . 
Q 6 HOH A 86 1239 1239 HOH HOH . 
Q 6 HOH A 87 1244 1244 HOH HOH . 
Q 6 HOH A 88 1269 1269 HOH HOH . 
Q 6 HOH A 89 1282 1282 HOH HOH . 
Q 6 HOH A 90 1290 1290 HOH HOH . 
Q 6 HOH A 91 1292 1292 HOH HOH . 
Q 6 HOH A 92 1302 1302 HOH HOH . 
Q 6 HOH A 93 1304 1304 HOH HOH . 
Q 6 HOH A 94 1311 1311 HOH HOH . 
Q 6 HOH A 95 1312 1312 HOH HOH . 
Q 6 HOH A 96 1316 1316 HOH HOH . 
Q 6 HOH A 97 1329 1329 HOH HOH . 
Q 6 HOH A 98 1340 1340 HOH HOH . 
Q 6 HOH A 99 1342 1342 HOH HOH . 
Q 6 HOH A 100 1359 1359 HOH HOH . 
Q 6 HOH A 101 1365 1365 HOH HOH . 
Q 6 HOH A 102 1369 1369 HOH HOH . 
Q 6 HOH A 103 1384 1384 HOH HOH . 
Q 6 HOH A 104 1387 1387 HOH HOH . 
Q 6 HOH A 105 1388 1388 HOH HOH . 
Q 6 HOH A 106 1392 1392 HOH HOH . 
Q 6 HOH A 107 1394 1394 HOH HOH . 
Q 6 HOH A 108 1401 1401 HOH HOH . 
Q 6 HOH A 109 1410 1410 HOH HOH . 
Q 6 HOH A 110 1421 1421 HOH HOH . 
Q 6 HOH A 111 1441 1441 HOH HOH . 
Q 6 HOH A 112 1448 1448 HOH HOH . 
Q 6 HOH A 113 1450 1450 HOH HOH . 
Q 6 HOH A 114 1459 1459 HOH HOH . 
Q 6 HOH A 115 1460 1460 HOH HOH . 
Q 6 HOH A 116 1461 1461 HOH HOH . 
Q 6 HOH A 117 1463 1463 HOH HOH . 
Q 6 HOH A 118 1466 1466 HOH HOH . 
Q 6 HOH A 119 1475 1475 HOH HOH . 
Q 6 HOH A 120 1495 1495 HOH HOH . 
Q 6 HOH A 121 1516 1516 HOH HOH . 
Q 6 HOH A 122 1534 1534 HOH HOH . 
Q 6 HOH A 123 1535 1535 HOH HOH . 
Q 6 HOH A 124 1538 1538 HOH HOH . 
Q 6 HOH A 125 1540 1540 HOH HOH . 
Q 6 HOH A 126 1555 1555 HOH HOH . 
Q 6 HOH A 127 1562 1562 HOH HOH . 
Q 6 HOH A 128 1566 1566 HOH HOH . 
Q 6 HOH A 129 1572 1572 HOH HOH . 
Q 6 HOH A 130 1593 1593 HOH HOH . 
Q 6 HOH A 131 1594 1594 HOH HOH . 
Q 6 HOH A 132 1610 1610 HOH HOH . 
Q 6 HOH A 133 1612 1612 HOH HOH . 
Q 6 HOH A 134 1637 1637 HOH HOH . 
Q 6 HOH A 135 1638 1638 HOH HOH . 
Q 6 HOH A 136 1640 1640 HOH HOH . 
Q 6 HOH A 137 1646 1646 HOH HOH . 
Q 6 HOH A 138 1651 1651 HOH HOH . 
Q 6 HOH A 139 1699 1699 HOH HOH . 
Q 6 HOH A 140 1706 1706 HOH HOH . 
Q 6 HOH A 141 1709 1709 HOH HOH . 
Q 6 HOH A 142 1718 1718 HOH HOH . 
Q 6 HOH A 143 1731 1731 HOH HOH . 
Q 6 HOH A 144 1737 1737 HOH HOH . 
Q 6 HOH A 145 1739 1739 HOH HOH . 
Q 6 HOH A 146 1745 1745 HOH HOH . 
Q 6 HOH A 147 1757 1757 HOH HOH . 
Q 6 HOH A 148 1772 1772 HOH HOH . 
Q 6 HOH A 149 1776 1776 HOH HOH . 
Q 6 HOH A 150 1782 1782 HOH HOH . 
Q 6 HOH A 151 1784 1784 HOH HOH . 
Q 6 HOH A 152 1791 1791 HOH HOH . 
Q 6 HOH A 153 1792 1792 HOH HOH . 
Q 6 HOH A 154 1805 1805 HOH HOH . 
Q 6 HOH A 155 1840 1840 HOH HOH . 
Q 6 HOH A 156 1846 1846 HOH HOH . 
Q 6 HOH A 157 1853 1853 HOH HOH . 
Q 6 HOH A 158 1859 1859 HOH HOH . 
Q 6 HOH A 159 1897 1897 HOH HOH . 
Q 6 HOH A 160 1906 1906 HOH HOH . 
Q 6 HOH A 161 1910 1910 HOH HOH . 
Q 6 HOH A 162 1932 1932 HOH HOH . 
Q 6 HOH A 163 1973 1973 HOH HOH . 
Q 6 HOH A 164 1977 1977 HOH HOH . 
Q 6 HOH A 165 1984 1984 HOH HOH . 
Q 6 HOH A 166 1987 1987 HOH HOH . 
Q 6 HOH A 167 1999 1999 HOH HOH . 
Q 6 HOH A 168 2055 2055 HOH HOH . 
Q 6 HOH A 169 2057 2057 HOH HOH . 
Q 6 HOH A 170 2060 2060 HOH HOH . 
Q 6 HOH A 171 2084 2084 HOH HOH . 
Q 6 HOH A 172 2085 2085 HOH HOH . 
Q 6 HOH A 173 2093 2093 HOH HOH . 
Q 6 HOH A 174 2095 2095 HOH HOH . 
Q 6 HOH A 175 2102 2102 HOH HOH . 
Q 6 HOH A 176 2107 2107 HOH HOH . 
Q 6 HOH A 177 2110 2110 HOH HOH . 
Q 6 HOH A 178 2137 2137 HOH HOH . 
Q 6 HOH A 179 2138 2138 HOH HOH . 
Q 6 HOH A 180 2156 2156 HOH HOH . 
Q 6 HOH A 181 2159 2159 HOH HOH . 
Q 6 HOH A 182 2163 2163 HOH HOH . 
Q 6 HOH A 183 2166 2166 HOH HOH . 
Q 6 HOH A 184 2167 2167 HOH HOH . 
Q 6 HOH A 185 2180 2180 HOH HOH . 
Q 6 HOH A 186 2185 2185 HOH HOH . 
Q 6 HOH A 187 2198 2198 HOH HOH . 
Q 6 HOH A 188 2227 2227 HOH HOH . 
Q 6 HOH A 189 2247 2247 HOH HOH . 
Q 6 HOH A 190 2283 2283 HOH HOH . 
Q 6 HOH A 191 2307 2307 HOH HOH . 
Q 6 HOH A 192 2308 2308 HOH HOH . 
Q 6 HOH A 193 2319 2319 HOH HOH . 
Q 6 HOH A 194 2331 2331 HOH HOH . 
Q 6 HOH A 195 2339 2339 HOH HOH . 
Q 6 HOH A 196 2344 2344 HOH HOH . 
Q 6 HOH A 197 2354 2354 HOH HOH . 
Q 6 HOH A 198 2355 2355 HOH HOH . 
Q 6 HOH A 199 2357 2357 HOH HOH . 
Q 6 HOH A 200 2364 2364 HOH HOH . 
Q 6 HOH A 201 2384 2384 HOH HOH . 
Q 6 HOH A 202 2450 2450 HOH HOH . 
Q 6 HOH A 203 2451 2451 HOH HOH . 
Q 6 HOH A 204 2459 2459 HOH HOH . 
Q 6 HOH A 205 2520 2520 HOH HOH . 
Q 6 HOH A 206 2524 2524 HOH HOH . 
Q 6 HOH A 207 2533 2533 HOH HOH . 
Q 6 HOH A 208 2535 2535 HOH HOH . 
Q 6 HOH A 209 2552 2552 HOH HOH . 
Q 6 HOH A 210 2585 2585 HOH HOH . 
Q 6 HOH A 211 2602 2602 HOH HOH . 
Q 6 HOH A 212 2611 2611 HOH HOH . 
Q 6 HOH A 213 2625 2625 HOH HOH . 
Q 6 HOH A 214 2660 2660 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 . . . B 2 3.629 15.981 -16.028 1 27.61 ? C1 GOL 401 A 1 
HETATM 2 O O1 GOL . . . B 2 3.75 17.012 -16.982 1 29.25 ? O1 GOL 401 A 1 
HETATM 3 C C2 GOL . . . B 2 2.333 15.236 -16.291 1 26.42 ? C2 GOL 401 A 1 
HETATM 4 O O2 GOL . . . B 2 1.259 16.144 -16.203 1 27.25 ? O2 GOL 401 A 1 
HETATM 5 C C3 GOL . . . B 2 2.358 14.618 -17.681 1 23.89 ? C3 GOL 401 A 1 
HETATM 6 O O3 GOL . . . B 2 3.202 13.5 -17.654 1 20.7 ? O3 GOL 401 A 1 
HETATM 7 H H11 GOL . . . B 2 3.62 16.402 -15.023 1 33.13 ? H11 GOL 401 A 1 
HETATM 8 H H12 GOL . . . B 2 4.474 15.298 -16.109 1 33.13 ? H12 GOL 401 A 1 
HETATM 9 H HO1 GOL . . . B 2 4.549 17.545 -16.787 1 35.1 ? HO1 GOL 401 A 1 
HETATM 10 H H2 GOL . . . B 2 2.219 14.445 -15.55 1 31.71 ? H2 GOL 401 A 1 
HETATM 11 H HO2 GOL . . . B 2 1.365 16.843 -16.882 1 32.7 ? HO2 GOL 401 A 1 
HETATM 12 H H31 GOL . . . B 2 2.726 15.345 -18.405 1 28.67 ? H31 GOL 401 A 1 
HETATM 13 H H32 GOL . . . B 2 1.352 14.318 -17.974 1 28.67 ? H32 GOL 401 A 1 
HETATM 14 H HO3 GOL . . . B 2 3.957 13.646 -18.262 1 24.84 ? HO3 GOL 401 A 1 
#
_model_server_stats.io_time_ms              13 
_model_server_stats.parse_time_ms           12 
_model_server_stats.create_model_time_ms    24 
_model_server_stats.query_time_ms           313 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           14 
#