data_8YFL
#
_model_server_result.job_id            ochsm2CVv7OLrOmIO1VUQw 
_model_server_result.datetime_utc      '2024-10-11 07:19:25' 
_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          8yfl 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"E","auth_seq_id":1601}' 
#
_entry.id    8YFL 
#
_exptl.entry_id    8YFL 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              92.094 
_entity.id                          3 
_entity.src_method                  nat 
_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            8YFL 
_cell.length_a            60.923 
_cell.length_b            60.923 
_cell.length_c            65.394 
_cell.Z_PDB               6 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 8YFL 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        145 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 32' 
#
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,I,J 1 1 
C,D,H,K,L 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
? 3 E N N 
? 3 G N N 
? 3 H 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
covale ? covale1 B C THR 4 B THR 102 1_555 B N SEP 5 B SEP 103 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? 
covale ? covale2 B C SEP 5 B SEP 103 1_555 B N SEP 6 B SEP 104 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? 
covale ? covale3 B C SEP 6 B SEP 104 1_555 B N GLU 7 B GLU 105 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? 
covale ? covale4 D C THR 4 D THR 102 1_555 D N SEP 5 D SEP 103 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? 
covale ? covale5 D C SEP 5 D SEP 103 1_555 D N SEP 6 D SEP 104 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? 
covale ? covale6 D C SEP 6 D SEP 104 1_555 D N GLU 7 D GLU 105 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? 
#
_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                     8YFL 
_atom_sites.fract_transf_matrix[1][1]    0.016414 
_atom_sites.fract_transf_matrix[1][2]    0.009477 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.018953 
_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]    0.015292 
_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 3 GOL A 1 1601 3 GOL GOL . 
F 4 MPD A 1 1602 1 MPD MPD . 
G 3 GOL B 1 201 1 GOL GOL . 
H 3 GOL C 1 1601 4 GOL GOL . 
I 5 HOH A 1 1701 152 HOH HOH . 
I 5 HOH A 2 1702 174 HOH HOH . 
I 5 HOH A 3 1703 124 HOH HOH . 
I 5 HOH A 4 1704 150 HOH HOH . 
I 5 HOH A 5 1705 108 HOH HOH . 
I 5 HOH A 6 1706 75 HOH HOH . 
I 5 HOH A 7 1707 84 HOH HOH . 
I 5 HOH A 8 1708 34 HOH HOH . 
I 5 HOH A 9 1709 138 HOH HOH . 
I 5 HOH A 10 1710 10 HOH HOH . 
I 5 HOH A 11 1711 45 HOH HOH . 
I 5 HOH A 12 1712 62 HOH HOH . 
I 5 HOH A 13 1713 79 HOH HOH . 
I 5 HOH A 14 1714 26 HOH HOH . 
I 5 HOH A 15 1715 76 HOH HOH . 
I 5 HOH A 16 1716 17 HOH HOH . 
I 5 HOH A 17 1717 15 HOH HOH . 
I 5 HOH A 18 1718 23 HOH HOH . 
I 5 HOH A 19 1719 89 HOH HOH . 
I 5 HOH A 20 1720 83 HOH HOH . 
I 5 HOH A 21 1721 36 HOH HOH . 
I 5 HOH A 22 1722 59 HOH HOH . 
I 5 HOH A 23 1723 57 HOH HOH . 
I 5 HOH A 24 1724 104 HOH HOH . 
I 5 HOH A 25 1725 5 HOH HOH . 
I 5 HOH A 26 1726 64 HOH HOH . 
I 5 HOH A 27 1727 170 HOH HOH . 
I 5 HOH A 28 1728 40 HOH HOH . 
I 5 HOH A 29 1729 44 HOH HOH . 
I 5 HOH A 30 1730 207 HOH HOH . 
I 5 HOH A 31 1731 46 HOH HOH . 
I 5 HOH A 32 1732 98 HOH HOH . 
I 5 HOH A 33 1733 182 HOH HOH . 
I 5 HOH A 34 1734 151 HOH HOH . 
I 5 HOH A 35 1735 157 HOH HOH . 
I 5 HOH A 36 1736 28 HOH HOH . 
I 5 HOH A 37 1737 4 HOH HOH . 
I 5 HOH A 38 1738 91 HOH HOH . 
I 5 HOH A 39 1739 189 HOH HOH . 
I 5 HOH A 40 1740 8 HOH HOH . 
I 5 HOH A 41 1741 129 HOH HOH . 
I 5 HOH A 42 1742 120 HOH HOH . 
I 5 HOH A 43 1743 127 HOH HOH . 
I 5 HOH A 44 1744 202 HOH HOH . 
I 5 HOH A 45 1745 87 HOH HOH . 
I 5 HOH A 46 1746 175 HOH HOH . 
I 5 HOH A 47 1747 71 HOH HOH . 
I 5 HOH A 48 1748 11 HOH HOH . 
I 5 HOH A 49 1749 18 HOH HOH . 
I 5 HOH A 50 1750 96 HOH HOH . 
I 5 HOH A 51 1751 103 HOH HOH . 
I 5 HOH A 52 1752 109 HOH HOH . 
I 5 HOH A 53 1753 35 HOH HOH . 
I 5 HOH A 54 1754 49 HOH HOH . 
I 5 HOH A 55 1755 97 HOH HOH . 
I 5 HOH A 56 1756 179 HOH HOH . 
I 5 HOH A 57 1757 54 HOH HOH . 
I 5 HOH A 58 1758 212 HOH HOH . 
I 5 HOH A 59 1759 218 HOH HOH . 
I 5 HOH A 60 1760 183 HOH HOH . 
I 5 HOH A 61 1761 156 HOH HOH . 
I 5 HOH A 62 1762 238 HOH HOH . 
I 5 HOH A 63 1763 113 HOH HOH . 
I 5 HOH A 64 1764 242 HOH HOH . 
I 5 HOH A 65 1765 112 HOH HOH . 
I 5 HOH A 66 1766 232 HOH HOH . 
I 5 HOH A 67 1767 82 HOH HOH . 
I 5 HOH A 68 1768 141 HOH HOH . 
I 5 HOH A 69 1769 219 HOH HOH . 
I 5 HOH A 70 1770 136 HOH HOH . 
I 5 HOH A 71 1771 204 HOH HOH . 
I 5 HOH A 72 1772 220 HOH HOH . 
I 5 HOH A 73 1773 167 HOH HOH . 
I 5 HOH A 74 1774 149 HOH HOH . 
I 5 HOH A 75 1775 148 HOH HOH . 
I 5 HOH A 76 1776 66 HOH HOH . 
I 5 HOH A 77 1777 135 HOH HOH . 
I 5 HOH A 78 1778 169 HOH HOH . 
I 5 HOH A 79 1779 213 HOH HOH . 
I 5 HOH A 80 1780 168 HOH HOH . 
I 5 HOH A 81 1781 231 HOH HOH . 
I 5 HOH A 82 1782 222 HOH HOH . 
I 5 HOH A 83 1783 217 HOH HOH . 
I 5 HOH A 84 1784 163 HOH HOH . 
I 5 HOH A 85 1785 70 HOH HOH . 
I 5 HOH A 86 1786 226 HOH HOH . 
I 5 HOH A 87 1787 122 HOH HOH . 
I 5 HOH A 88 1788 214 HOH HOH . 
I 5 HOH A 89 1789 199 HOH HOH . 
I 5 HOH A 90 1790 228 HOH HOH . 
I 5 HOH A 91 1791 131 HOH HOH . 
I 5 HOH A 92 1792 114 HOH HOH . 
I 5 HOH A 93 1793 176 HOH HOH . 
I 5 HOH A 94 1794 140 HOH HOH . 
J 5 HOH B 1 301 61 HOH HOH . 
J 5 HOH B 2 302 181 HOH HOH . 
J 5 HOH B 3 303 74 HOH HOH . 
J 5 HOH B 4 304 73 HOH HOH . 
J 5 HOH B 5 305 14 HOH HOH . 
J 5 HOH B 6 306 94 HOH HOH . 
J 5 HOH B 7 307 31 HOH HOH . 
J 5 HOH B 8 308 243 HOH HOH . 
K 5 HOH C 1 1701 110 HOH HOH . 
K 5 HOH C 2 1702 85 HOH HOH . 
K 5 HOH C 3 1703 192 HOH HOH . 
K 5 HOH C 4 1704 50 HOH HOH . 
K 5 HOH C 5 1705 24 HOH HOH . 
K 5 HOH C 6 1706 9 HOH HOH . 
K 5 HOH C 7 1707 158 HOH HOH . 
K 5 HOH C 8 1708 25 HOH HOH . 
K 5 HOH C 9 1709 39 HOH HOH . 
K 5 HOH C 10 1710 88 HOH HOH . 
K 5 HOH C 11 1711 153 HOH HOH . 
K 5 HOH C 12 1712 41 HOH HOH . 
K 5 HOH C 13 1713 80 HOH HOH . 
K 5 HOH C 14 1714 184 HOH HOH . 
K 5 HOH C 15 1715 143 HOH HOH . 
K 5 HOH C 16 1716 60 HOH HOH . 
K 5 HOH C 17 1717 21 HOH HOH . 
K 5 HOH C 18 1718 22 HOH HOH . 
K 5 HOH C 19 1719 30 HOH HOH . 
K 5 HOH C 20 1720 186 HOH HOH . 
K 5 HOH C 21 1721 78 HOH HOH . 
K 5 HOH C 22 1722 37 HOH HOH . 
K 5 HOH C 23 1723 224 HOH HOH . 
K 5 HOH C 24 1724 53 HOH HOH . 
K 5 HOH C 25 1725 51 HOH HOH . 
K 5 HOH C 26 1726 81 HOH HOH . 
K 5 HOH C 27 1727 43 HOH HOH . 
K 5 HOH C 28 1728 116 HOH HOH . 
K 5 HOH C 29 1729 20 HOH HOH . 
K 5 HOH C 30 1730 55 HOH HOH . 
K 5 HOH C 31 1731 58 HOH HOH . 
K 5 HOH C 32 1732 29 HOH HOH . 
K 5 HOH C 33 1733 6 HOH HOH . 
K 5 HOH C 34 1734 99 HOH HOH . 
K 5 HOH C 35 1735 63 HOH HOH . 
K 5 HOH C 36 1736 48 HOH HOH . 
K 5 HOH C 37 1737 68 HOH HOH . 
K 5 HOH C 38 1738 3 HOH HOH . 
K 5 HOH C 39 1739 47 HOH HOH . 
K 5 HOH C 40 1740 161 HOH HOH . 
K 5 HOH C 41 1741 130 HOH HOH . 
K 5 HOH C 42 1742 142 HOH HOH . 
K 5 HOH C 43 1743 7 HOH HOH . 
K 5 HOH C 44 1744 230 HOH HOH . 
K 5 HOH C 45 1745 237 HOH HOH . 
K 5 HOH C 46 1746 160 HOH HOH . 
K 5 HOH C 47 1747 172 HOH HOH . 
K 5 HOH C 48 1748 132 HOH HOH . 
K 5 HOH C 49 1749 67 HOH HOH . 
K 5 HOH C 50 1750 56 HOH HOH . 
K 5 HOH C 51 1751 171 HOH HOH . 
K 5 HOH C 52 1752 65 HOH HOH . 
K 5 HOH C 53 1753 16 HOH HOH . 
K 5 HOH C 54 1754 190 HOH HOH . 
K 5 HOH C 55 1755 195 HOH HOH . 
K 5 HOH C 56 1756 13 HOH HOH . 
K 5 HOH C 57 1757 101 HOH HOH . 
K 5 HOH C 58 1758 42 HOH HOH . 
K 5 HOH C 59 1759 86 HOH HOH . 
K 5 HOH C 60 1760 206 HOH HOH . 
K 5 HOH C 61 1761 239 HOH HOH . 
K 5 HOH C 62 1762 27 HOH HOH . 
K 5 HOH C 63 1763 236 HOH HOH . 
K 5 HOH C 64 1764 72 HOH HOH . 
K 5 HOH C 65 1765 38 HOH HOH . 
K 5 HOH C 66 1766 198 HOH HOH . 
K 5 HOH C 67 1767 154 HOH HOH . 
K 5 HOH C 68 1768 173 HOH HOH . 
K 5 HOH C 69 1769 240 HOH HOH . 
K 5 HOH C 70 1770 225 HOH HOH . 
K 5 HOH C 71 1771 102 HOH HOH . 
K 5 HOH C 72 1772 126 HOH HOH . 
K 5 HOH C 73 1773 92 HOH HOH . 
K 5 HOH C 74 1774 209 HOH HOH . 
K 5 HOH C 75 1775 137 HOH HOH . 
K 5 HOH C 76 1776 185 HOH HOH . 
K 5 HOH C 77 1777 12 HOH HOH . 
K 5 HOH C 78 1778 164 HOH HOH . 
K 5 HOH C 79 1779 187 HOH HOH . 
K 5 HOH C 80 1780 90 HOH HOH . 
K 5 HOH C 81 1781 106 HOH HOH . 
K 5 HOH C 82 1782 194 HOH HOH . 
K 5 HOH C 83 1783 69 HOH HOH . 
K 5 HOH C 84 1784 145 HOH HOH . 
K 5 HOH C 85 1785 216 HOH HOH . 
K 5 HOH C 86 1786 178 HOH HOH . 
K 5 HOH C 87 1787 144 HOH HOH . 
K 5 HOH C 88 1788 146 HOH HOH . 
K 5 HOH C 89 1789 227 HOH HOH . 
K 5 HOH C 90 1790 201 HOH HOH . 
K 5 HOH C 91 1791 180 HOH HOH . 
K 5 HOH C 92 1792 77 HOH HOH . 
K 5 HOH C 93 1793 123 HOH HOH . 
K 5 HOH C 94 1794 155 HOH HOH . 
K 5 HOH C 95 1795 233 HOH HOH . 
K 5 HOH C 96 1796 125 HOH HOH . 
K 5 HOH C 97 1797 162 HOH HOH . 
K 5 HOH C 98 1798 93 HOH HOH . 
L 5 HOH D 1 201 19 HOH HOH . 
L 5 HOH D 2 202 119 HOH HOH . 
L 5 HOH D 3 203 52 HOH HOH . 
L 5 HOH D 4 204 95 HOH HOH . 
L 5 HOH D 5 205 33 HOH HOH . 
L 5 HOH D 6 206 241 HOH HOH . 
L 5 HOH D 7 207 235 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 . . . E 3 -8.665 4.889 -18.536 1 40.39 ? C1 GOL 1601 A 1 
HETATM 2 O O1 GOL . . . E 3 -8.315 5.146 -17.198 1 28.78 ? O1 GOL 1601 A 1 
HETATM 3 C C2 GOL . . . E 3 -9.613 3.65 -18.532 1 54.91 ? C2 GOL 1601 A 1 
HETATM 4 O O2 GOL . . . E 3 -9.669 3.03 -19.779 1 47.97 ? O2 GOL 1601 A 1 
HETATM 5 C C3 GOL . . . E 3 -10.983 4.201 -18.092 1 54.66 ? C3 GOL 1601 A 1 
HETATM 6 O O3 GOL . . . E 3 -11.812 3.098 -17.869 1 56.32 ? O3 GOL 1601 A 1 
#
_model_server_stats.io_time_ms              17 
_model_server_stats.parse_time_ms           16 
_model_server_stats.create_model_time_ms    8 
_model_server_stats.query_time_ms           356 
_model_server_stats.encode_time_ms          15 
_model_server_stats.element_count           6 
#