data_3A3G
#
_model_server_result.job_id            nU0HOxzaYFzxFVm9xgZNlg 
_model_server_result.datetime_utc      '2024-11-23 12:39:48' 
_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          3a3g 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":191}' 
#
_entry.id    3A3G 
#
_exptl.entry_id    3A3G 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              326.305 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            1-deoxy-1-(6,7-dimethyl-2,4-dioxo-3,4-dihydropteridin-8(2H)-yl)-D-ribitol 
_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            3A3G 
_cell.length_a            46.689 
_cell.length_b            46.584 
_cell.length_c            161.587 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 3A3G 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        19 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 21 21 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 monomeric 1 author_and_software_defined_assembly 1 
PISA monomeric 1 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,C,E 1 1 
B,D,F 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
? 2 C N N 
? 2 D N N 
#
_chem_comp.formula           'C13 H18 N4 O6' 
_chem_comp.formula_weight    326.305 
_chem_comp.id                DLZ 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              1-deoxy-1-(6,7-dimethyl-2,4-dioxo-3,4-dihydropteridin-8(2H)-yl)-D-ribitol 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     "6,7-dimethyl-8-(1'-D-ribityl) lumazine" 
#
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
C7 C7A DLZ sing 83 n n 
C7A C5A DLZ doub 84 n n 
C7A N8 DLZ sing 85 n n 
C5A C6 DLZ sing 86 n n 
C5A N5 DLZ sing 87 n n 
N5 C4A DLZ doub 88 n n 
C4A C4 DLZ sing 89 n n 
C4A C8 DLZ sing 90 n n 
C4 O4 DLZ doub 91 n n 
C4 N3 DLZ sing 92 n n 
N3 C2 DLZ sing 93 n n 
C2 O2 DLZ doub 94 n n 
C2 N1 DLZ sing 95 n n 
N1 C8 DLZ doub 96 n n 
C8 N8 DLZ sing 97 n n 
N8 C1' DLZ sing 98 n n 
C1' C2' DLZ sing 99 n n 
C2' O2' DLZ sing 100 n n 
C2' C3' DLZ sing 101 n n 
C3' O3' DLZ sing 102 n n 
C3' C4' DLZ sing 103 n n 
C4' O4' DLZ sing 104 n n 
C4' C5' DLZ sing 105 n n 
C5' O5' DLZ sing 106 n n 
C7 H7 DLZ sing 107 n n 
C7 H7A DLZ sing 108 n n 
C7 H7B DLZ sing 109 n n 
C6 H6 DLZ sing 110 n n 
C6 H6A DLZ sing 111 n n 
C6 H6B DLZ sing 112 n n 
N3 HN3 DLZ sing 113 n n 
C1' H1' DLZ sing 114 n n 
C1' "H1'A" DLZ sing 115 n n 
C2' H2' DLZ sing 116 n n 
O2' HO2' DLZ sing 117 n n 
C3' H3' DLZ sing 118 n n 
O3' HO3' DLZ sing 119 n n 
C4' H4' DLZ sing 120 n n 
O4' HO4' DLZ sing 121 n n 
C5' H5' DLZ sing 122 n n 
C5' "H5'A" DLZ sing 123 n n 
O5' HO5' DLZ sing 124 n n 
#
_atom_sites.entry_id                     3A3G 
_atom_sites.fract_transf_matrix[1][1]    0.021418 
_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]    0.021467 
_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]    0.006189 
_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 DLZ A 1 191 1 DLZ DMR . 
D 2 DLZ B 1 191 2 DLZ DMR . 
E 3 HOH A 1 192 12 HOH HOH . 
E 3 HOH A 2 193 193 HOH HOH . 
E 3 HOH A 3 194 194 HOH HOH . 
E 3 HOH A 4 195 14 HOH HOH . 
E 3 HOH A 5 196 15 HOH HOH . 
E 3 HOH A 6 197 16 HOH HOH . 
E 3 HOH A 7 198 19 HOH HOH . 
E 3 HOH A 8 199 20 HOH HOH . 
E 3 HOH A 9 200 22 HOH HOH . 
E 3 HOH A 10 201 23 HOH HOH . 
E 3 HOH A 11 202 25 HOH HOH . 
E 3 HOH A 12 203 27 HOH HOH . 
E 3 HOH A 13 204 29 HOH HOH . 
E 3 HOH A 14 205 31 HOH HOH . 
E 3 HOH A 15 206 34 HOH HOH . 
E 3 HOH A 16 207 35 HOH HOH . 
E 3 HOH A 17 208 37 HOH HOH . 
E 3 HOH A 18 209 39 HOH HOH . 
E 3 HOH A 19 210 42 HOH HOH . 
E 3 HOH A 20 211 43 HOH HOH . 
E 3 HOH A 21 212 44 HOH HOH . 
E 3 HOH A 22 213 46 HOH HOH . 
E 3 HOH A 23 214 48 HOH HOH . 
E 3 HOH A 24 215 52 HOH HOH . 
E 3 HOH A 25 216 55 HOH HOH . 
E 3 HOH A 26 217 59 HOH HOH . 
E 3 HOH A 27 218 60 HOH HOH . 
E 3 HOH A 28 219 65 HOH HOH . 
E 3 HOH A 29 220 68 HOH HOH . 
E 3 HOH A 30 221 69 HOH HOH . 
E 3 HOH A 31 222 70 HOH HOH . 
E 3 HOH A 32 223 71 HOH HOH . 
E 3 HOH A 33 224 73 HOH HOH . 
E 3 HOH A 34 225 78 HOH HOH . 
E 3 HOH A 35 226 82 HOH HOH . 
E 3 HOH A 36 227 86 HOH HOH . 
E 3 HOH A 37 228 87 HOH HOH . 
E 3 HOH A 38 229 89 HOH HOH . 
E 3 HOH A 39 230 90 HOH HOH . 
E 3 HOH A 40 231 91 HOH HOH . 
E 3 HOH A 41 232 92 HOH HOH . 
E 3 HOH A 42 233 93 HOH HOH . 
E 3 HOH A 43 234 94 HOH HOH . 
E 3 HOH A 44 235 95 HOH HOH . 
E 3 HOH A 45 236 96 HOH HOH . 
E 3 HOH A 46 237 99 HOH HOH . 
E 3 HOH A 47 238 101 HOH HOH . 
E 3 HOH A 48 239 105 HOH HOH . 
E 3 HOH A 49 240 106 HOH HOH . 
E 3 HOH A 50 241 107 HOH HOH . 
E 3 HOH A 51 242 111 HOH HOH . 
E 3 HOH A 52 243 112 HOH HOH . 
E 3 HOH A 53 244 114 HOH HOH . 
E 3 HOH A 54 245 116 HOH HOH . 
E 3 HOH A 55 246 117 HOH HOH . 
E 3 HOH A 56 247 121 HOH HOH . 
E 3 HOH A 57 248 122 HOH HOH . 
E 3 HOH A 58 249 124 HOH HOH . 
E 3 HOH A 59 250 125 HOH HOH . 
E 3 HOH A 60 251 127 HOH HOH . 
E 3 HOH A 61 252 128 HOH HOH . 
E 3 HOH A 62 253 129 HOH HOH . 
E 3 HOH A 63 254 131 HOH HOH . 
E 3 HOH A 64 255 133 HOH HOH . 
E 3 HOH A 65 256 134 HOH HOH . 
E 3 HOH A 66 257 142 HOH HOH . 
E 3 HOH A 67 258 143 HOH HOH . 
E 3 HOH A 68 259 147 HOH HOH . 
E 3 HOH A 69 260 148 HOH HOH . 
E 3 HOH A 70 262 152 HOH HOH . 
E 3 HOH A 71 263 156 HOH HOH . 
E 3 HOH A 72 264 157 HOH HOH . 
E 3 HOH A 73 265 158 HOH HOH . 
E 3 HOH A 74 266 159 HOH HOH . 
E 3 HOH A 75 267 161 HOH HOH . 
E 3 HOH A 76 268 162 HOH HOH . 
E 3 HOH A 77 269 174 HOH HOH . 
E 3 HOH A 78 270 177 HOH HOH . 
E 3 HOH A 79 271 178 HOH HOH . 
E 3 HOH A 80 272 179 HOH HOH . 
E 3 HOH A 81 273 180 HOH HOH . 
E 3 HOH A 82 274 181 HOH HOH . 
E 3 HOH A 83 275 182 HOH HOH . 
E 3 HOH A 84 276 183 HOH HOH . 
E 3 HOH A 85 277 185 HOH HOH . 
E 3 HOH A 86 278 191 HOH HOH . 
F 3 HOH B 1 192 192 HOH HOH . 
F 3 HOH B 2 193 1 HOH HOH . 
F 3 HOH B 3 194 3 HOH HOH . 
F 3 HOH B 4 195 5 HOH HOH . 
F 3 HOH B 5 196 6 HOH HOH . 
F 3 HOH B 6 197 7 HOH HOH . 
F 3 HOH B 7 198 8 HOH HOH . 
F 3 HOH B 8 199 9 HOH HOH . 
F 3 HOH B 9 200 10 HOH HOH . 
F 3 HOH B 10 201 11 HOH HOH . 
F 3 HOH B 11 202 13 HOH HOH . 
F 3 HOH B 12 203 17 HOH HOH . 
F 3 HOH B 13 204 18 HOH HOH . 
F 3 HOH B 14 205 24 HOH HOH . 
F 3 HOH B 15 206 26 HOH HOH . 
F 3 HOH B 16 207 28 HOH HOH . 
F 3 HOH B 17 208 30 HOH HOH . 
F 3 HOH B 18 209 32 HOH HOH . 
F 3 HOH B 19 210 36 HOH HOH . 
F 3 HOH B 20 211 38 HOH HOH . 
F 3 HOH B 21 212 40 HOH HOH . 
F 3 HOH B 22 213 41 HOH HOH . 
F 3 HOH B 23 214 45 HOH HOH . 
F 3 HOH B 24 215 47 HOH HOH . 
F 3 HOH B 25 216 49 HOH HOH . 
F 3 HOH B 26 217 50 HOH HOH . 
F 3 HOH B 27 218 51 HOH HOH . 
F 3 HOH B 28 219 53 HOH HOH . 
F 3 HOH B 29 220 54 HOH HOH . 
F 3 HOH B 30 221 56 HOH HOH . 
F 3 HOH B 31 222 57 HOH HOH . 
F 3 HOH B 32 223 58 HOH HOH . 
F 3 HOH B 33 224 61 HOH HOH . 
F 3 HOH B 34 225 62 HOH HOH . 
F 3 HOH B 35 226 63 HOH HOH . 
F 3 HOH B 36 227 64 HOH HOH . 
F 3 HOH B 37 228 66 HOH HOH . 
F 3 HOH B 38 229 67 HOH HOH . 
F 3 HOH B 39 230 72 HOH HOH . 
F 3 HOH B 40 231 74 HOH HOH . 
F 3 HOH B 41 232 75 HOH HOH . 
F 3 HOH B 42 233 76 HOH HOH . 
F 3 HOH B 43 234 77 HOH HOH . 
F 3 HOH B 44 235 79 HOH HOH . 
F 3 HOH B 45 236 80 HOH HOH . 
F 3 HOH B 46 237 83 HOH HOH . 
F 3 HOH B 47 238 84 HOH HOH . 
F 3 HOH B 48 239 85 HOH HOH . 
F 3 HOH B 49 240 88 HOH HOH . 
F 3 HOH B 50 241 97 HOH HOH . 
F 3 HOH B 51 242 98 HOH HOH . 
F 3 HOH B 52 243 100 HOH HOH . 
F 3 HOH B 53 244 102 HOH HOH . 
F 3 HOH B 54 245 103 HOH HOH . 
F 3 HOH B 55 246 104 HOH HOH . 
F 3 HOH B 56 247 108 HOH HOH . 
F 3 HOH B 57 248 109 HOH HOH . 
F 3 HOH B 58 249 110 HOH HOH . 
F 3 HOH B 59 250 113 HOH HOH . 
F 3 HOH B 60 251 115 HOH HOH . 
F 3 HOH B 61 252 118 HOH HOH . 
F 3 HOH B 62 253 119 HOH HOH . 
F 3 HOH B 63 254 120 HOH HOH . 
F 3 HOH B 64 255 123 HOH HOH . 
F 3 HOH B 65 256 126 HOH HOH . 
F 3 HOH B 66 257 130 HOH HOH . 
F 3 HOH B 67 258 132 HOH HOH . 
F 3 HOH B 68 259 135 HOH HOH . 
F 3 HOH B 69 260 136 HOH HOH . 
F 3 HOH B 70 261 149 HOH HOH . 
F 3 HOH B 71 262 138 HOH HOH . 
F 3 HOH B 72 263 139 HOH HOH . 
F 3 HOH B 73 264 140 HOH HOH . 
F 3 HOH B 74 265 141 HOH HOH . 
F 3 HOH B 75 266 144 HOH HOH . 
F 3 HOH B 76 267 145 HOH HOH . 
F 3 HOH B 77 268 146 HOH HOH . 
F 3 HOH B 78 269 150 HOH HOH . 
F 3 HOH B 79 270 151 HOH HOH . 
F 3 HOH B 80 271 153 HOH HOH . 
F 3 HOH B 81 272 163 HOH HOH . 
F 3 HOH B 82 273 164 HOH HOH . 
F 3 HOH B 83 274 165 HOH HOH . 
F 3 HOH B 84 275 166 HOH HOH . 
F 3 HOH B 85 276 168 HOH HOH . 
F 3 HOH B 86 277 169 HOH HOH . 
F 3 HOH B 87 278 170 HOH HOH . 
F 3 HOH B 88 279 171 HOH HOH . 
F 3 HOH B 89 280 172 HOH HOH . 
F 3 HOH B 90 281 173 HOH HOH . 
F 3 HOH B 91 282 175 HOH HOH . 
F 3 HOH B 92 283 176 HOH HOH . 
F 3 HOH B 93 284 186 HOH HOH . 
F 3 HOH B 94 285 187 HOH HOH . 
F 3 HOH B 95 286 188 HOH HOH . 
F 3 HOH B 96 287 189 HOH HOH . 
F 3 HOH B 97 288 190 HOH HOH . 
F 3 HOH B 98 289 137 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 C7 DLZ . . . D 2 -0.937 -8.299 -37.759 1 12.3 ? C7 DLZ 191 B 1 
HETATM 2 C C7A DLZ . . . D 2 -1.829 -8.719 -36.758 1 13.74 ? C7A DLZ 191 B 1 
HETATM 3 C C5A DLZ . . . D 2 -2.178 -7.878 -35.685 1 13.29 ? C5A DLZ 191 B 1 
HETATM 4 C C6 DLZ . . . D 2 -1.685 -6.573 -35.546 1 12.8 ? C6 DLZ 191 B 1 
HETATM 5 N N5 DLZ . . . D 2 -3.062 -8.364 -34.714 1 13.47 ? N5 DLZ 191 B 1 
HETATM 6 C C4A DLZ . . . D 2 -3.573 -9.645 -34.787 1 11.49 ? C4A DLZ 191 B 1 
HETATM 7 C C4 DLZ . . . D 2 -4.445 -10.125 -33.812 1 13.2 ? C4 DLZ 191 B 1 
HETATM 8 O O4 DLZ . . . D 2 -4.762 -9.43 -32.854 1 12.61 ? O4 DLZ 191 B 1 
HETATM 9 N N3 DLZ . . . D 2 -5 -11.404 -33.93 1 13.64 ? N3 DLZ 191 B 1 
HETATM 10 C C2 DLZ . . . D 2 -4.616 -12.245 -35.01 1 13.6 ? C2 DLZ 191 B 1 
HETATM 11 O O2 DLZ . . . D 2 -5.065 -13.395 -35.125 1 12.53 ? O2 DLZ 191 B 1 
HETATM 12 N N1 DLZ . . . D 2 -3.757 -11.752 -35.96 1 11.59 ? N1 DLZ 191 B 1 
HETATM 13 C C8 DLZ . . . D 2 -3.231 -10.466 -35.851 1 12.31 ? C8 DLZ 191 B 1 
HETATM 14 N N8 DLZ . . . D 2 -2.371 -10.029 -36.826 1 13.36 ? N8 DLZ 191 B 1 
HETATM 15 C C1' DLZ . . . D 2 -2.026 -10.971 -37.975 1 12.98 ? C1' DLZ 191 B 1 
HETATM 16 C C2' DLZ . . . D 2 -0.963 -12.03 -37.554 1 12.55 ? C2' DLZ 191 B 1 
HETATM 17 O O2' DLZ . . . D 2 0.277 -11.411 -37.148 1 14.43 ? O2' DLZ 191 B 1 
HETATM 18 C C3' DLZ . . . D 2 -0.742 -13.036 -38.695 1 14.54 ? C3' DLZ 191 B 1 
HETATM 19 O O3' DLZ . . . D 2 -2.008 -13.635 -38.968 1 14.99 ? O3' DLZ 191 B 1 
HETATM 20 C C4' DLZ . . . D 2 0.207 -14.21 -38.334 1 11.25 ? C4' DLZ 191 B 1 
HETATM 21 O O4' DLZ . . . D 2 1.513 -13.687 -38.012 1 14.5 ? O4' DLZ 191 B 1 
HETATM 22 C C5' DLZ . . . D 2 0.309 -15.032 -39.616 1 13.91 ? C5' DLZ 191 B 1 
HETATM 23 O O5' DLZ . . . D 2 1.02 -16.217 -39.405 1 16.76 ? O5' DLZ 191 B 1 
#
_model_server_stats.io_time_ms              48 
_model_server_stats.parse_time_ms           7 
_model_server_stats.create_model_time_ms    3 
_model_server_stats.query_time_ms           311 
_model_server_stats.encode_time_ms          1 
_model_server_stats.element_count           23 
#