data_8TYJ
#
_model_server_result.job_id            KkQgT-qZFGxsFMj0lWhvDw 
_model_server_result.datetime_utc      '2024-11-27 03:56:45' 
_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          8tyj 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":1502}' 
#
_entry.id    8TYJ 
#
_exptl.entry_id    8TYJ 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              384.411 
_entity.id                          4 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            S-ADENOSYL-L-HOMOCYSTEINE 
_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          90 
_cell.angle_gamma         120 
_cell.entry_id            8TYJ 
_cell.length_a            168.704 
_cell.length_b            168.704 
_cell.length_c            52.23 
_cell.Z_PDB               6 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 8TYJ 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        152 
_symmetry.space_group_name_Hall    'P 31 2"' 
_symmetry.space_group_name_H-M     'P 31 2 1' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    dimeric 
_pdbx_struct_assembly.oligomeric_count      2 
_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 
_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 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      4 
_struct_asym.id                             D 
_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
metalc ? metalc1 B SG CYS 74 B CYS 77 1_555 F ZN ZN . B ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.262 ? 
metalc ? metalc2 B SG CYS 77 B CYS 80 1_555 F ZN ZN . B ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.33 ? 
metalc ? metalc3 B NE2 HIS 83 B HIS 86 1_555 F ZN ZN . B ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.157 ? 
metalc ? metalc4 B SG CYS 90 B CYS 93 1_555 F ZN ZN . B ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.266 ? 
metalc ? metalc5 B SG CYS 117 B CYS 120 1_555 G ZN ZN . B ZN 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.34 ? 
metalc ? metalc6 B SG CYS 120 B CYS 123 1_555 G ZN ZN . B ZN 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.377 ? 
metalc ? metalc7 B SG CYS 128 B CYS 131 1_555 G ZN ZN . B ZN 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.284 ? 
metalc ? metalc8 B SG CYS 130 B CYS 133 1_555 G ZN ZN . B ZN 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.354 ? 
#
_chem_comp.formula           'C14 H20 N6 O5 S' 
_chem_comp.formula_weight    384.411 
_chem_comp.id                SAH 
_chem_comp.mon_nstd_flag     n 
_chem_comp.name              S-ADENOSYL-L-HOMOCYSTEINE 
_chem_comp.type              'l-peptide linking' 
_chem_comp.pdbx_synonyms     ? 
#
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
N CA SAH sing 290 n n 
N HN1 SAH sing 291 n n 
N HN2 SAH sing 292 n n 
CA CB SAH sing 293 n n 
CA C SAH sing 294 n n 
CA HA SAH sing 295 n n 
CB CG SAH sing 296 n n 
CB HB1 SAH sing 297 n n 
CB HB2 SAH sing 298 n n 
CG SD SAH sing 299 n n 
CG HG1 SAH sing 300 n n 
CG HG2 SAH sing 301 n n 
SD C5' SAH sing 302 n n 
C O SAH doub 303 n n 
C OXT SAH sing 304 n n 
OXT HXT SAH sing 305 n n 
C5' C4' SAH sing 306 n n 
C5' "H5'1" SAH sing 307 n n 
C5' "H5'2" SAH sing 308 n n 
C4' O4' SAH sing 309 n n 
C4' C3' SAH sing 310 n n 
C4' H4' SAH sing 311 n n 
O4' C1' SAH sing 312 n n 
C3' O3' SAH sing 313 n n 
C3' C2' SAH sing 314 n n 
C3' H3' SAH sing 315 n n 
O3' HO3' SAH sing 316 n n 
C2' O2' SAH sing 317 n n 
C2' C1' SAH sing 318 n n 
C2' H2' SAH sing 319 n n 
O2' HO2' SAH sing 320 n n 
C1' N9 SAH sing 321 n n 
C1' H1' SAH sing 322 n n 
N9 C8 SAH sing 323 n y 
N9 C4 SAH sing 324 n y 
C8 N7 SAH doub 325 n y 
C8 H8 SAH sing 326 n n 
N7 C5 SAH sing 327 n y 
C5 C6 SAH sing 328 n y 
C5 C4 SAH doub 329 n y 
C6 N6 SAH sing 330 n n 
C6 N1 SAH doub 331 n y 
N6 HN61 SAH sing 332 n n 
N6 HN62 SAH sing 333 n n 
N1 C2 SAH sing 334 n y 
C2 N3 SAH doub 335 n y 
C2 H2 SAH sing 336 n n 
N3 C4 SAH sing 337 n y 
#
_atom_sites.entry_id                     8TYJ 
_atom_sites.fract_transf_matrix[1][1]    0.005928 
_atom_sites.fract_transf_matrix[1][2]    0.003422 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.006845 
_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]    0.019146 
_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
C 3 GOL A 1 1501 1501 GOL GOL . 
D 4 SAH A 1 1502 1601 SAH SAH . 
E 3 GOL A 1 1503 1701 GOL GOL . 
F 5 ZN B 1 201 151 ZN ZN . 
G 5 ZN B 1 202 251 ZN ZN . 
H 6 HOH A 1 1601 48 HOH HOH . 
H 6 HOH A 2 1602 210 HOH HOH . 
H 6 HOH A 3 1603 27 HOH HOH . 
H 6 HOH A 4 1604 206 HOH HOH . 
H 6 HOH A 5 1605 205 HOH HOH . 
H 6 HOH A 6 1606 72 HOH HOH . 
H 6 HOH A 7 1607 106 HOH HOH . 
H 6 HOH A 8 1608 139 HOH HOH . 
H 6 HOH A 9 1609 16 HOH HOH . 
H 6 HOH A 10 1610 47 HOH HOH . 
H 6 HOH A 11 1611 189 HOH HOH . 
H 6 HOH A 12 1612 185 HOH HOH . 
H 6 HOH A 13 1613 32 HOH HOH . 
H 6 HOH A 14 1614 160 HOH HOH . 
H 6 HOH A 15 1615 146 HOH HOH . 
H 6 HOH A 16 1616 31 HOH HOH . 
H 6 HOH A 17 1617 77 HOH HOH . 
H 6 HOH A 18 1618 216 HOH HOH . 
H 6 HOH A 19 1619 107 HOH HOH . 
H 6 HOH A 20 1620 40 HOH HOH . 
H 6 HOH A 21 1621 154 HOH HOH . 
H 6 HOH A 22 1622 199 HOH HOH . 
H 6 HOH A 23 1623 203 HOH HOH . 
H 6 HOH A 24 1624 105 HOH HOH . 
H 6 HOH A 25 1625 92 HOH HOH . 
H 6 HOH A 26 1626 21 HOH HOH . 
H 6 HOH A 27 1627 201 HOH HOH . 
H 6 HOH A 28 1628 26 HOH HOH . 
H 6 HOH A 29 1629 116 HOH HOH . 
H 6 HOH A 30 1630 120 HOH HOH . 
H 6 HOH A 31 1631 127 HOH HOH . 
H 6 HOH A 32 1632 6 HOH HOH . 
H 6 HOH A 33 1633 60 HOH HOH . 
H 6 HOH A 34 1634 94 HOH HOH . 
H 6 HOH A 35 1635 54 HOH HOH . 
H 6 HOH A 36 1636 55 HOH HOH . 
H 6 HOH A 37 1637 93 HOH HOH . 
H 6 HOH A 38 1638 22 HOH HOH . 
H 6 HOH A 39 1639 28 HOH HOH . 
H 6 HOH A 40 1640 132 HOH HOH . 
H 6 HOH A 41 1641 108 HOH HOH . 
H 6 HOH A 42 1642 4 HOH HOH . 
H 6 HOH A 43 1643 19 HOH HOH . 
H 6 HOH A 44 1644 62 HOH HOH . 
H 6 HOH A 45 1645 18 HOH HOH . 
H 6 HOH A 46 1646 1 HOH HOH . 
H 6 HOH A 47 1647 211 HOH HOH . 
H 6 HOH A 48 1648 11 HOH HOH . 
H 6 HOH A 49 1649 90 HOH HOH . 
H 6 HOH A 50 1650 89 HOH HOH . 
H 6 HOH A 51 1651 38 HOH HOH . 
H 6 HOH A 52 1652 10 HOH HOH . 
H 6 HOH A 53 1653 126 HOH HOH . 
H 6 HOH A 54 1654 2 HOH HOH . 
H 6 HOH A 55 1655 208 HOH HOH . 
H 6 HOH A 56 1656 207 HOH HOH . 
H 6 HOH A 57 1657 110 HOH HOH . 
H 6 HOH A 58 1658 81 HOH HOH . 
H 6 HOH A 59 1659 71 HOH HOH . 
H 6 HOH A 60 1660 23 HOH HOH . 
H 6 HOH A 61 1661 3 HOH HOH . 
H 6 HOH A 62 1662 195 HOH HOH . 
H 6 HOH A 63 1663 213 HOH HOH . 
H 6 HOH A 64 1664 78 HOH HOH . 
H 6 HOH A 65 1665 99 HOH HOH . 
H 6 HOH A 66 1666 130 HOH HOH . 
H 6 HOH A 67 1667 100 HOH HOH . 
H 6 HOH A 68 1668 49 HOH HOH . 
H 6 HOH A 69 1669 51 HOH HOH . 
H 6 HOH A 70 1670 82 HOH HOH . 
H 6 HOH A 71 1671 15 HOH HOH . 
H 6 HOH A 72 1672 161 HOH HOH . 
H 6 HOH A 73 1673 200 HOH HOH . 
H 6 HOH A 74 1674 202 HOH HOH . 
H 6 HOH A 75 1675 204 HOH HOH . 
H 6 HOH A 76 1676 75 HOH HOH . 
H 6 HOH A 77 1677 17 HOH HOH . 
H 6 HOH A 78 1678 69 HOH HOH . 
H 6 HOH A 79 1679 88 HOH HOH . 
H 6 HOH A 80 1680 36 HOH HOH . 
H 6 HOH A 81 1681 151 HOH HOH . 
H 6 HOH A 82 1682 39 HOH HOH . 
H 6 HOH A 83 1683 86 HOH HOH . 
H 6 HOH A 84 1684 144 HOH HOH . 
H 6 HOH A 85 1685 8 HOH HOH . 
H 6 HOH A 86 1686 70 HOH HOH . 
H 6 HOH A 87 1687 74 HOH HOH . 
H 6 HOH A 88 1688 79 HOH HOH . 
H 6 HOH A 89 1689 188 HOH HOH . 
H 6 HOH A 90 1690 140 HOH HOH . 
H 6 HOH A 91 1691 63 HOH HOH . 
H 6 HOH A 92 1692 142 HOH HOH . 
H 6 HOH A 93 1693 57 HOH HOH . 
H 6 HOH A 94 1694 30 HOH HOH . 
H 6 HOH A 95 1695 97 HOH HOH . 
H 6 HOH A 96 1696 64 HOH HOH . 
H 6 HOH A 97 1697 24 HOH HOH . 
H 6 HOH A 98 1698 61 HOH HOH . 
H 6 HOH A 99 1699 25 HOH HOH . 
H 6 HOH A 100 1700 95 HOH HOH . 
H 6 HOH A 101 1701 214 HOH HOH . 
H 6 HOH A 102 1702 135 HOH HOH . 
H 6 HOH A 103 1703 187 HOH HOH . 
H 6 HOH A 104 1704 209 HOH HOH . 
H 6 HOH A 105 1705 102 HOH HOH . 
H 6 HOH A 106 1706 153 HOH HOH . 
H 6 HOH A 107 1707 150 HOH HOH . 
H 6 HOH A 108 1708 156 HOH HOH . 
H 6 HOH A 109 1709 37 HOH HOH . 
H 6 HOH A 110 1710 190 HOH HOH . 
H 6 HOH A 111 1711 83 HOH HOH . 
H 6 HOH A 112 1712 184 HOH HOH . 
H 6 HOH A 113 1713 145 HOH HOH . 
H 6 HOH A 114 1714 65 HOH HOH . 
H 6 HOH A 115 1715 133 HOH HOH . 
H 6 HOH A 116 1716 186 HOH HOH . 
H 6 HOH A 117 1717 181 HOH HOH . 
H 6 HOH A 118 1718 162 HOH HOH . 
H 6 HOH A 119 1719 42 HOH HOH . 
H 6 HOH A 120 1720 180 HOH HOH . 
H 6 HOH A 121 1721 141 HOH HOH . 
H 6 HOH A 122 1722 155 HOH HOH . 
H 6 HOH A 123 1723 113 HOH HOH . 
I 6 HOH B 1 301 178 HOH HOH . 
I 6 HOH B 2 302 101 HOH HOH . 
I 6 HOH B 3 303 58 HOH HOH . 
I 6 HOH B 4 304 9 HOH HOH . 
I 6 HOH B 5 305 129 HOH HOH . 
I 6 HOH B 6 306 33 HOH HOH . 
I 6 HOH B 7 307 13 HOH HOH . 
I 6 HOH B 8 308 35 HOH HOH . 
I 6 HOH B 9 309 50 HOH HOH . 
I 6 HOH B 10 310 76 HOH HOH . 
I 6 HOH B 11 311 172 HOH HOH . 
I 6 HOH B 12 312 80 HOH HOH . 
I 6 HOH B 13 313 85 HOH HOH . 
I 6 HOH B 14 314 66 HOH HOH . 
I 6 HOH B 15 315 103 HOH HOH . 
I 6 HOH B 16 316 138 HOH HOH . 
I 6 HOH B 17 317 123 HOH HOH . 
I 6 HOH B 18 318 212 HOH HOH . 
I 6 HOH B 19 319 104 HOH HOH . 
I 6 HOH B 20 320 59 HOH HOH . 
I 6 HOH B 21 321 122 HOH HOH . 
I 6 HOH B 22 322 84 HOH HOH . 
I 6 HOH B 23 323 56 HOH HOH . 
I 6 HOH B 24 324 45 HOH HOH . 
I 6 HOH B 25 325 215 HOH HOH . 
I 6 HOH B 26 326 46 HOH HOH . 
I 6 HOH B 27 327 173 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 N N SAH . . . D 4 -86.078 19.405 -1.824 1 31.03 ? N SAH 1502 A 1 
HETATM 2 C CA SAH . . . D 4 -87.383 18.888 -1.414 1 32.88 ? CA SAH 1502 A 1 
HETATM 3 C CB SAH . . . D 4 -87.528 18.918 0.107 1 31.79 ? CB SAH 1502 A 1 
HETATM 4 C CG SAH . . . D 4 -86.317 18.265 0.807 1 34.1 ? CG SAH 1502 A 1 
HETATM 5 S SD SAH . . . D 4 -86.671 17.887 2.54 1 40.76 ? SD SAH 1502 A 1 
HETATM 6 C C SAH . . . D 4 -88.473 19.692 -2.137 1 38.42 ? C SAH 1502 A 1 
HETATM 7 O O SAH . . . D 4 -88.249 20.122 -3.29 1 34.62 ? O SAH 1502 A 1 
HETATM 8 O OXT SAH . . . D 4 -89.568 19.916 -1.613 1 37.99 ? OXT SAH 1502 A 1 
HETATM 9 C C5' SAH . . . D 4 -85.06 17.075 2.859 1 34.25 ? C5' SAH 1502 A 1 
HETATM 10 C C4' SAH . . . D 4 -84.901 15.66 2.278 1 32.28 ? C4' SAH 1502 A 1 
HETATM 11 O O4' SAH . . . D 4 -83.59 15.14 2.505 1 33.8 ? O4' SAH 1502 A 1 
HETATM 12 C C3' SAH . . . D 4 -85.87 14.634 2.865 1 35.29 ? C3' SAH 1502 A 1 
HETATM 13 O O3' SAH . . . D 4 -86.751 14.201 1.844 1 34.33 ? O3' SAH 1502 A 1 
HETATM 14 C C2' SAH . . . D 4 -84.99 13.481 3.337 1 33.32 ? C2' SAH 1502 A 1 
HETATM 15 O O2' SAH . . . D 4 -85.524 12.215 3.012 1 37.22 ? O2' SAH 1502 A 1 
HETATM 16 C C1' SAH . . . D 4 -83.688 13.724 2.598 1 32.76 ? C1' SAH 1502 A 1 
HETATM 17 N N9 SAH . . . D 4 -82.524 13.117 3.281 1 33.79 ? N9 SAH 1502 A 1 
HETATM 18 C C8 SAH . . . D 4 -82.088 13.315 4.572 1 31.82 ? C8 SAH 1502 A 1 
HETATM 19 N N7 SAH . . . D 4 -80.981 12.55 4.769 1 31.33 ? N7 SAH 1502 A 1 
HETATM 20 C C5 SAH . . . D 4 -80.709 11.868 3.63 1 28.75 ? C5 SAH 1502 A 1 
HETATM 21 C C6 SAH . . . D 4 -79.728 10.938 3.288 1 33.25 ? C6 SAH 1502 A 1 
HETATM 22 N N6 SAH . . . D 4 -78.776 10.565 4.146 1 29.79 ? N6 SAH 1502 A 1 
HETATM 23 N N1 SAH . . . D 4 -79.731 10.408 2.021 1 29.95 ? N1 SAH 1502 A 1 
HETATM 24 C C2 SAH . . . D 4 -80.695 10.773 1.102 1 30.67 ? C2 SAH 1502 A 1 
HETATM 25 N N3 SAH . . . D 4 -81.679 11.678 1.447 1 30.5 ? N3 SAH 1502 A 1 
HETATM 26 C C4 SAH . . . D 4 -81.676 12.216 2.693 1 31.62 ? C4 SAH 1502 A 1 
#
_model_server_stats.io_time_ms              20 
_model_server_stats.parse_time_ms           14 
_model_server_stats.create_model_time_ms    5 
_model_server_stats.query_time_ms           347 
_model_server_stats.encode_time_ms          16 
_model_server_stats.element_count           26 
#