data_8SIO
#
_model_server_result.job_id            '_NHQEhazJ7k5cTJbW7qduQ' 
_model_server_result.datetime_utc      '2025-09-17 11:15:41' 
_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          8sio 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":601}' 
#
_entry.id    8SIO 
#
_exptl.entry_id    8SIO 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              569.078 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "5'-S-{3-[N'-(4'-chloro[1,1'-biphenyl]-3-yl)carbamimidamido]propyl}-5'-thioadenosine" 
_entity.pdbx_number_of_molecules    2 
_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         90 
_cell.entry_id            8SIO 
_cell.length_a            97.039 
_cell.length_b            100.782 
_cell.length_c            173.437 
_cell.Z_PDB               16 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 8SIO 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        20 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'C 2 2 21' 
#
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 software_defined_assembly 1 
PISA dimeric 2 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,C,E 1 1,2 
B,D,F 2 1,3 
#
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' 3_555 -x,y,-z+1/2 -1 0 0 0 1 0 0 0 -1 0 0 86.7185 
3 'crystal symmetry operation' 4_565 x,-y+1,-z 1 0 0 0 -1 0 0 0 -1 0 100.782 0 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 2 C N N 
? 2 D N N 
#
_chem_comp.formula           'C26 H29 Cl N8 O3 S' 
_chem_comp.formula_weight    569.078 
_chem_comp.id                GXF 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              "5'-S-{3-[N'-(4'-chloro[1,1'-biphenyl]-3-yl)carbamimidamido]propyl}-5'-thioadenosine" 
_chem_comp.type              non-polymer 
_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
C23 C22 GXF doub 129 n y 
C23 C12 GXF sing 130 n y 
C10 N5 GXF sing 131 n n 
C10 C9 GXF sing 132 n n 
C22 C21 GXF sing 133 n y 
N C GXF sing 134 n n 
N5 C11 GXF sing 135 n n 
N6 C11 GXF sing 136 n n 
N6 C12 GXF sing 137 n n 
C11 N7 GXF doub 138 n n 
C9 C8 GXF sing 139 n n 
C12 C13 GXF doub 140 n y 
C21 C14 GXF doub 141 n y 
C C3 GXF doub 142 n y 
C N1 GXF sing 143 n y 
N3 C3 GXF sing 144 n y 
N3 C4 GXF doub 145 n y 
C3 C2 GXF sing 146 n y 
C8 S GXF sing 147 n n 
N1 C1 GXF doub 148 n y 
C13 C14 GXF sing 149 n y 
C4 N4 GXF sing 150 n y 
C14 C15 GXF sing 151 n n 
C2 N4 GXF sing 152 n y 
C2 N2 GXF doub 153 n y 
S C7 GXF sing 154 n n 
C1 N2 GXF sing 155 n y 
N4 C5 GXF sing 156 n n 
C7 C6 GXF sing 157 n n 
O C5 GXF sing 158 n n 
O C6 GXF sing 159 n n 
C15 C16 GXF doub 160 n y 
C15 C20 GXF sing 161 n y 
C16 C17 GXF sing 162 n y 
C5 C25 GXF sing 163 n n 
C6 C24 GXF sing 164 n n 
C20 C19 GXF doub 165 n y 
C25 C24 GXF sing 166 n n 
C25 O2 GXF sing 167 n n 
C24 O1 GXF sing 168 n n 
C17 C18 GXF doub 169 n y 
C19 C18 GXF sing 170 n y 
C18 CL GXF sing 171 n n 
C7 H1 GXF sing 172 n n 
C7 H2 GXF sing 173 n n 
C8 H3 GXF sing 174 n n 
C8 H4 GXF sing 175 n n 
C9 H5 GXF sing 176 n n 
C9 H6 GXF sing 177 n n 
O1 H7 GXF sing 178 n n 
C1 H8 GXF sing 179 n n 
C5 H9 GXF sing 180 n n 
C6 H10 GXF sing 181 n n 
C4 H11 GXF sing 182 n n 
C17 H12 GXF sing 183 n n 
C16 H13 GXF sing 184 n n 
C19 H14 GXF sing 185 n n 
C20 H15 GXF sing 186 n n 
C13 H16 GXF sing 187 n n 
C21 H17 GXF sing 188 n n 
C22 H18 GXF sing 189 n n 
C23 H19 GXF sing 190 n n 
N6 H20 GXF sing 191 n n 
N7 H21 GXF sing 192 n n 
N5 H22 GXF sing 193 n n 
C10 H23 GXF sing 194 n n 
C10 H24 GXF sing 195 n n 
C24 H25 GXF sing 196 n n 
C25 H26 GXF sing 197 n n 
O2 H27 GXF sing 198 n n 
N H28 GXF sing 199 n n 
N H29 GXF sing 200 n n 
#
_atom_sites.entry_id                     8SIO 
_atom_sites.fract_transf_matrix[1][1]    0.010305 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.009922 
_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]    0.005766 
_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 2 GXF A 1 601 601 GXF XXX . 
D 2 GXF B 1 601 601 GXF XXX . 
E 3 HOH A 1 701 42 HOH HOH . 
E 3 HOH A 2 702 36 HOH HOH . 
E 3 HOH A 3 703 19 HOH HOH . 
E 3 HOH A 4 704 7 HOH HOH . 
E 3 HOH A 5 705 41 HOH HOH . 
E 3 HOH A 6 706 74 HOH HOH . 
E 3 HOH A 7 707 34 HOH HOH . 
E 3 HOH A 8 708 13 HOH HOH . 
E 3 HOH A 9 709 109 HOH HOH . 
E 3 HOH A 10 710 37 HOH HOH . 
E 3 HOH A 11 711 2 HOH HOH . 
E 3 HOH A 12 712 108 HOH HOH . 
E 3 HOH A 13 713 33 HOH HOH . 
E 3 HOH A 14 714 126 HOH HOH . 
E 3 HOH A 15 715 122 HOH HOH . 
E 3 HOH A 16 716 16 HOH HOH . 
E 3 HOH A 17 717 53 HOH HOH . 
E 3 HOH A 18 718 104 HOH HOH . 
E 3 HOH A 19 719 113 HOH HOH . 
E 3 HOH A 20 720 3 HOH HOH . 
E 3 HOH A 21 721 117 HOH HOH . 
E 3 HOH A 22 722 114 HOH HOH . 
E 3 HOH A 23 723 51 HOH HOH . 
E 3 HOH A 24 724 61 HOH HOH . 
E 3 HOH A 25 725 67 HOH HOH . 
E 3 HOH A 26 726 43 HOH HOH . 
E 3 HOH A 27 727 77 HOH HOH . 
E 3 HOH A 28 728 15 HOH HOH . 
E 3 HOH A 29 729 5 HOH HOH . 
E 3 HOH A 30 730 83 HOH HOH . 
E 3 HOH A 31 731 32 HOH HOH . 
E 3 HOH A 32 732 73 HOH HOH . 
E 3 HOH A 33 733 52 HOH HOH . 
E 3 HOH A 34 734 72 HOH HOH . 
E 3 HOH A 35 735 57 HOH HOH . 
E 3 HOH A 36 736 44 HOH HOH . 
E 3 HOH A 37 737 38 HOH HOH . 
E 3 HOH A 38 738 62 HOH HOH . 
E 3 HOH A 39 739 80 HOH HOH . 
E 3 HOH A 40 740 121 HOH HOH . 
E 3 HOH A 41 741 118 HOH HOH . 
E 3 HOH A 42 742 6 HOH HOH . 
E 3 HOH A 43 743 123 HOH HOH . 
E 3 HOH A 44 744 39 HOH HOH . 
E 3 HOH A 45 745 64 HOH HOH . 
E 3 HOH A 46 746 55 HOH HOH . 
E 3 HOH A 47 747 107 HOH HOH . 
E 3 HOH A 48 748 28 HOH HOH . 
E 3 HOH A 49 749 106 HOH HOH . 
E 3 HOH A 50 750 17 HOH HOH . 
E 3 HOH A 51 751 8 HOH HOH . 
E 3 HOH A 52 752 12 HOH HOH . 
E 3 HOH A 53 753 76 HOH HOH . 
E 3 HOH A 54 754 124 HOH HOH . 
E 3 HOH A 55 755 49 HOH HOH . 
E 3 HOH A 56 756 75 HOH HOH . 
E 3 HOH A 57 757 58 HOH HOH . 
E 3 HOH A 58 758 103 HOH HOH . 
E 3 HOH A 59 759 105 HOH HOH . 
E 3 HOH A 60 760 110 HOH HOH . 
F 3 HOH B 1 701 35 HOH HOH . 
F 3 HOH B 2 702 4 HOH HOH . 
F 3 HOH B 3 703 71 HOH HOH . 
F 3 HOH B 4 704 86 HOH HOH . 
F 3 HOH B 5 705 84 HOH HOH . 
F 3 HOH B 6 706 69 HOH HOH . 
F 3 HOH B 7 707 100 HOH HOH . 
F 3 HOH B 8 708 24 HOH HOH . 
F 3 HOH B 9 709 18 HOH HOH . 
F 3 HOH B 10 710 14 HOH HOH . 
F 3 HOH B 11 711 79 HOH HOH . 
F 3 HOH B 12 712 116 HOH HOH . 
F 3 HOH B 13 713 82 HOH HOH . 
F 3 HOH B 14 714 9 HOH HOH . 
F 3 HOH B 15 715 40 HOH HOH . 
F 3 HOH B 16 716 102 HOH HOH . 
F 3 HOH B 17 717 119 HOH HOH . 
F 3 HOH B 18 718 88 HOH HOH . 
F 3 HOH B 19 719 112 HOH HOH . 
F 3 HOH B 20 720 96 HOH HOH . 
F 3 HOH B 21 721 29 HOH HOH . 
F 3 HOH B 22 722 26 HOH HOH . 
F 3 HOH B 23 723 56 HOH HOH . 
F 3 HOH B 24 724 70 HOH HOH . 
F 3 HOH B 25 725 111 HOH HOH . 
F 3 HOH B 26 726 59 HOH HOH . 
F 3 HOH B 27 727 81 HOH HOH . 
F 3 HOH B 28 728 10 HOH HOH . 
F 3 HOH B 29 729 93 HOH HOH . 
F 3 HOH B 30 730 22 HOH HOH . 
F 3 HOH B 31 731 21 HOH HOH . 
F 3 HOH B 32 732 60 HOH HOH . 
F 3 HOH B 33 733 45 HOH HOH . 
F 3 HOH B 34 734 27 HOH HOH . 
F 3 HOH B 35 735 11 HOH HOH . 
F 3 HOH B 36 736 92 HOH HOH . 
F 3 HOH B 37 737 50 HOH HOH . 
F 3 HOH B 38 738 115 HOH HOH . 
F 3 HOH B 39 739 30 HOH HOH . 
F 3 HOH B 40 740 78 HOH HOH . 
F 3 HOH B 41 741 46 HOH HOH . 
F 3 HOH B 42 742 66 HOH HOH . 
F 3 HOH B 43 743 20 HOH HOH . 
F 3 HOH B 44 744 91 HOH HOH . 
F 3 HOH B 45 745 31 HOH HOH . 
F 3 HOH B 46 746 94 HOH HOH . 
F 3 HOH B 47 747 101 HOH HOH . 
F 3 HOH B 48 748 98 HOH HOH . 
F 3 HOH B 49 749 90 HOH HOH . 
F 3 HOH B 50 750 99 HOH HOH . 
F 3 HOH B 51 751 23 HOH HOH . 
F 3 HOH B 52 752 48 HOH HOH . 
F 3 HOH B 53 753 125 HOH HOH . 
F 3 HOH B 54 754 54 HOH HOH . 
F 3 HOH B 55 755 85 HOH HOH . 
F 3 HOH B 56 756 65 HOH HOH . 
F 3 HOH B 57 757 63 HOH HOH . 
F 3 HOH B 58 758 68 HOH HOH . 
F 3 HOH B 59 759 97 HOH HOH . 
F 3 HOH B 60 760 120 HOH HOH . 
F 3 HOH B 61 761 1 HOH HOH . 
F 3 HOH B 62 762 87 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 N1 GXF . . . C 2 18.852 20.387 39.395 1 49.59 ? N1 GXF 601 A 1 
HETATM 2 C C7 GXF . . . C 2 16.247 12.761 40.866 1 50.8 ? C7 GXF 601 A 1 
HETATM 3 C C8 GXF . . . C 2 14.165 11.52 39.393 1 60.5 ? C8 GXF 601 A 1 
HETATM 4 N N2 GXF . . . C 2 18.489 18.69 41.066 1 42.74 ? N2 GXF 601 A 1 
HETATM 5 C C9 GXF . . . C 2 14.687 11.722 37.974 1 52.18 ? C9 GXF 601 A 1 
HETATM 6 O O1 GXF . . . C 2 16.097 14.412 44.079 1 40.3 ? O1 GXF 601 A 1 
HETATM 7 C C1 GXF . . . C 2 19.137 19.72 40.517 1 49.31 ? C1 GXF 601 A 1 
HETATM 8 C C5 GXF . . . C 2 16.672 16.238 41.554 1 44 ? C5 GXF 601 A 1 
HETATM 9 C C6 GXF . . . C 2 16.657 13.934 41.739 1 46.2 ? C6 GXF 601 A 1 
HETATM 10 N N3 GXF . . . C 2 15.875 18.299 38.676 1 48.55 ? N3 GXF 601 A 1 
HETATM 11 C C4 GXF . . . C 2 15.647 17.351 39.552 1 41.93 ? C4 GXF 601 A 1 
HETATM 12 C C3 GXF . . . C 2 17.011 18.927 39.158 1 43.62 ? C3 GXF 601 A 1 
HETATM 13 C C2 GXF . . . C 2 17.439 18.331 40.33 1 42.87 ? C2 GXF 601 A 1 
HETATM 14 N N4 GXF . . . C 2 16.565 17.295 40.564 1 44.2 ? N4 GXF 601 A 1 
HETATM 15 CL CL GXF . . . C 2 7.085 6.693 45.224 1 97.32 ? CL GXF 601 A 1 
HETATM 16 C C18 GXF . . . C 2 7.557 6.926 43.552 1 102.77 ? C18 GXF 601 A 1 
HETATM 17 C C17 GXF . . . C 2 7.767 5.824 42.751 1 93.3 ? C17 GXF 601 A 1 
HETATM 18 C C16 GXF . . . C 2 8.299 6.001 41.484 1 83.99 ? C16 GXF 601 A 1 
HETATM 19 C C19 GXF . . . C 2 7.809 8.206 43.088 1 95.96 ? C19 GXF 601 A 1 
HETATM 20 C C20 GXF . . . C 2 8.33 8.373 41.813 1 84.39 ? C20 GXF 601 A 1 
HETATM 21 C C15 GXF . . . C 2 8.605 7.274 40.993 1 72.81 ? C15 GXF 601 A 1 
HETATM 22 C C14 GXF . . . C 2 9.166 7.45 39.627 1 51.57 ? C14 GXF 601 A 1 
HETATM 23 C C13 GXF . . . C 2 10.346 8.171 39.409 1 48.72 ? C13 GXF 601 A 1 
HETATM 24 C C21 GXF . . . C 2 8.51 6.916 38.527 1 50.94 ? C21 GXF 601 A 1 
HETATM 25 C C22 GXF . . . C 2 8.976 7.147 37.246 1 49.98 ? C22 GXF 601 A 1 
HETATM 26 C C23 GXF . . . C 2 10.105 7.914 37.036 1 47.44 ? C23 GXF 601 A 1 
HETATM 27 C C12 GXF . . . C 2 10.811 8.419 38.121 1 44.08 ? C12 GXF 601 A 1 
HETATM 28 N N6 GXF . . . C 2 12.046 8.836 37.601 1 42.69 ? N6 GXF 601 A 1 
HETATM 29 C C11 GXF . . . C 2 13.33 8.488 37.856 1 39.12 ? C11 GXF 601 A 1 
HETATM 30 N N7 GXF . . . C 2 13.502 7.274 38.255 1 34.61 ? N7 GXF 601 A 1 
HETATM 31 N N5 GXF . . . C 2 14.301 9.337 37.508 1 41.95 ? N5 GXF 601 A 1 
HETATM 32 C C10 GXF . . . C 2 14.061 10.703 37.055 1 45.23 ? C10 GXF 601 A 1 
HETATM 33 S S GXF . . . C 2 14.481 12.945 40.469 1 68.18 ? S GXF 601 A 1 
HETATM 34 O O GXF . . . C 2 17.02 15.047 40.882 1 42.44 ? O GXF 601 A 1 
HETATM 35 C C24 GXF . . . C 2 15.61 14.466 42.738 1 40.76 ? C24 GXF 601 A 1 
HETATM 36 C C25 GXF . . . C 2 15.369 15.913 42.285 1 42.87 ? C25 GXF 601 A 1 
HETATM 37 O O2 GXF . . . C 2 15.177 16.757 43.414 1 43.98 ? O2 GXF 601 A 1 
HETATM 38 C C GXF . . . C 2 17.774 20.005 38.672 1 50.72 ? C GXF 601 A 1 
HETATM 39 N N GXF . . . C 2 17.547 20.605 37.499 1 49.78 ? N GXF 601 A 1 
#
_model_server_stats.io_time_ms              21 
_model_server_stats.parse_time_ms           15 
_model_server_stats.create_model_time_ms    10 
_model_server_stats.query_time_ms           333 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           39 
#