data_3HY4 # _model_server_result.job_id FT55jgSH7M02N8-rPja_OA _model_server_result.datetime_utc '2025-08-05 20:37:09' _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 3hy4 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":501}' # _entry.id 3HY4 # _exptl.entry_id 3HY4 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 567.53 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'N-({trans-4-[({(2R,4R,4aS,6S,8aS)-2-amino-4-hydroxy-5-[(phosphonooxy)methyl]decahydropteridin-6-yl}methyl)amino]cyclohexyl}carbonyl)-L-glutamic acid' _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 90 _cell.entry_id 3HY4 _cell.length_a 48.065 _cell.length_b 144.583 _cell.length_c 60.149 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3HY4 _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 2 2 21' # _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 _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 F _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 A NE2 HIS 89 A HIS 89 1_555 B NI NI . A NI 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.515 ? metalc ? metalc2 A OD2 ASP 91 A ASP 91 1_555 B NI NI . A NI 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.329 ? # _chem_comp.formula 'C20 H38 N7 O10 P' _chem_comp.formula_weight 567.53 _chem_comp.id N5G _chem_comp.mon_nstd_flag . _chem_comp.name 'N-({trans-4-[({(2R,4R,4aS,6S,8aS)-2-amino-4-hydroxy-5-[(phosphonooxy)methyl]decahydropteridin-6-yl}methyl)amino]cyclohexyl}carbonyl)-L-glutamic acid' _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 N1 HN1 N5G sing 237 n n C2 N1 N5G sing 238 n n C2 N3 N5G sing 239 n n C2 H2 N5G sing 240 n n NA2 C2 N5G sing 241 n n NA2 HNA2 N5G sing 242 n n NA2 HNAA N5G sing 243 n n N3 C4 N5G sing 244 n n N3 HN3 N5G sing 245 n n C4 H4 N5G sing 246 n n O4 C4 N5G sing 247 n n O4 HO4 N5G sing 248 n n C4A C4 N5G sing 249 n n C4A C8A N5G sing 250 n n C4A N5 N5G sing 251 n n C4A H4A N5G sing 252 n n N5 C6 N5G sing 253 n n C6 C9 N5G sing 254 n n C6 H6 N5G sing 255 n n C7 C6 N5G sing 256 n n C7 H7 N5G sing 257 n n C7 H7A N5G sing 258 n n N8 C7 N5G sing 259 n n N8 HN8 N5G sing 260 n n C8A N1 N5G sing 261 n n C8A N8 N5G sing 262 n n C8A H8A N5G sing 263 n n C9 N10 N5G sing 264 n n C9 H9 N5G sing 265 n n C9 H9A N5G sing 266 n n N10 C14 N5G sing 267 n n N10 HN10 N5G sing 268 n n C11 C N5G sing 269 n n C11 H11 N5G sing 270 n n C12 C11 N5G sing 271 n n C12 H12 N5G sing 272 n n C12 H12A N5G sing 273 n n C13 C12 N5G sing 274 n n C13 H13 N5G sing 275 n n C13 H13A N5G sing 276 n n C14 C13 N5G sing 277 n n C14 C15 N5G sing 278 n n C14 H14 N5G sing 279 n n C15 C16 N5G sing 280 n n C15 H15 N5G sing 281 n n C15 H15A N5G sing 282 n n C16 C11 N5G sing 283 n n C16 H16 N5G sing 284 n n C16 H16A N5G sing 285 n n C N N5G sing 286 n n C O N5G doub 287 n n N CA N5G sing 288 n n N HN N5G sing 289 n n CA CT N5G sing 290 n n CA HA N5G sing 291 n n CB CA N5G sing 292 n n CB HB N5G sing 293 n n CB HBA N5G sing 294 n n CG CB N5G sing 295 n n CG HG N5G sing 296 n n CG HGA N5G sing 297 n n CD CG N5G sing 298 n n CD OE2 N5G doub 299 n n OE1 CD N5G sing 300 n n OE1 HOE1 N5G sing 301 n n CT O1 N5G doub 302 n n CT O2 N5G sing 303 n n O2 HO2 N5G sing 304 n n CP1 N5 N5G sing 305 n n CP1 O3 N5G sing 306 n n CP1 HP1 N5G sing 307 n n CP1 H38 N5G sing 308 n n O3 P1 N5G sing 309 n n P1 O8 N5G sing 310 n n P1 O9 N5G doub 311 n n P1 O10 N5G sing 312 n n O8 H39 N5G sing 313 n n O10 H40 N5G sing 314 n n # _atom_sites.entry_id 3HY4 _atom_sites.fract_transf_matrix[1][1] 0.020805 _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] 0.006916 _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] 0.016625 _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 NI A 1 204 1 NI NI . C 3 MG A 1 205 2 MG MG . D 3 MG A 1 206 3 MG MG . E 3 MG A 1 207 4 MG MG . F 4 N5G A 1 501 501 N5G THF . G 5 PO4 A 1 502 502 PO4 PO4 . H 6 HOH A 1 208 1 HOH HOH . H 6 HOH A 2 209 2 HOH HOH . H 6 HOH A 3 210 3 HOH HOH . H 6 HOH A 4 211 4 HOH HOH . H 6 HOH A 5 212 5 HOH HOH . H 6 HOH A 6 213 6 HOH HOH . H 6 HOH A 7 214 7 HOH HOH . H 6 HOH A 8 215 8 HOH HOH . H 6 HOH A 9 216 9 HOH HOH . H 6 HOH A 10 217 10 HOH HOH . H 6 HOH A 11 218 11 HOH HOH . H 6 HOH A 12 219 12 HOH HOH . H 6 HOH A 13 220 13 HOH HOH . H 6 HOH A 14 221 14 HOH HOH . H 6 HOH A 15 222 15 HOH HOH . H 6 HOH A 16 223 16 HOH HOH . H 6 HOH A 17 224 17 HOH HOH . H 6 HOH A 18 225 18 HOH HOH . H 6 HOH A 19 226 19 HOH HOH . H 6 HOH A 20 227 20 HOH HOH . H 6 HOH A 21 228 21 HOH HOH . H 6 HOH A 22 229 22 HOH HOH . H 6 HOH A 23 230 23 HOH HOH . H 6 HOH A 24 231 24 HOH HOH . H 6 HOH A 25 232 25 HOH HOH . H 6 HOH A 26 233 26 HOH HOH . H 6 HOH A 27 234 27 HOH HOH . H 6 HOH A 28 235 28 HOH HOH . H 6 HOH A 29 236 29 HOH HOH . H 6 HOH A 30 237 30 HOH HOH . H 6 HOH A 31 238 31 HOH HOH . H 6 HOH A 32 239 32 HOH HOH . H 6 HOH A 33 240 33 HOH HOH . H 6 HOH A 34 241 34 HOH HOH . H 6 HOH A 35 242 35 HOH HOH . H 6 HOH A 36 243 36 HOH HOH . H 6 HOH A 37 244 37 HOH HOH . H 6 HOH A 38 245 38 HOH HOH . H 6 HOH A 39 246 39 HOH HOH . H 6 HOH A 40 247 40 HOH HOH . H 6 HOH A 41 248 41 HOH HOH . H 6 HOH A 42 249 42 HOH HOH . H 6 HOH A 43 250 43 HOH HOH . H 6 HOH A 44 251 44 HOH HOH . H 6 HOH A 45 252 45 HOH HOH . H 6 HOH A 46 253 46 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 N5G . . . F 4 -11.147 16.893 6.516 1 29.75 ? N1 N5G 501 A 1 HETATM 2 C C2 N5G . . . F 4 -11.292 17.569 5.786 1 28.99 ? C2 N5G 501 A 1 HETATM 3 N NA2 N5G . . . F 4 -12.607 18.173 5.738 1 28.07 ? NA2 N5G 501 A 1 HETATM 4 N N3 N5G . . . F 4 -10.019 18.477 5.876 1 24.57 ? N3 N5G 501 A 1 HETATM 5 C C4 N5G . . . F 4 -8.754 17.623 5.908 1 26.3 ? C4 N5G 501 A 1 HETATM 6 O O4 N5G . . . F 4 -7.577 18.454 5.256 1 27.14 ? O4 N5G 501 A 1 HETATM 7 C C4A N5G . . . F 4 -9.086 16.141 5.309 1 28.93 ? C4A N5G 501 A 1 HETATM 8 N N5 N5G . . . F 4 -8.008 15.322 6.152 1 30.58 ? N5 N5G 501 A 1 HETATM 9 C C6 N5G . . . F 4 -8.428 14.64 7.562 1 30.51 ? C6 N5G 501 A 1 HETATM 10 C C7 N5G . . . F 4 -9.753 13.836 7.296 1 30.73 ? C7 N5G 501 A 1 HETATM 11 N N8 N5G . . . F 4 -10.509 15.066 6.736 1 28.16 ? N8 N5G 501 A 1 HETATM 12 C C8A N5G . . . F 4 -10.354 15.843 5.597 1 28.15 ? C8A N5G 501 A 1 HETATM 13 C C9 N5G . . . F 4 -8.194 15.364 8.972 1 31.26 ? C9 N5G 501 A 1 HETATM 14 N N10 N5G . . . F 4 -7.152 14.966 9.999 1 38.2 ? N10 N5G 501 A 1 HETATM 15 C C11 N5G . . . F 4 -5.876 13.956 14.231 1 47.77 ? C11 N5G 501 A 1 HETATM 16 C C12 N5G . . . F 4 -7.024 13.169 13.557 1 46.84 ? C12 N5G 501 A 1 HETATM 17 C C13 N5G . . . F 4 -7.485 13.532 12.109 1 42.58 ? C13 N5G 501 A 1 HETATM 18 C C14 N5G . . . F 4 -6.502 14.235 11.131 1 41.98 ? C14 N5G 501 A 1 HETATM 19 C C15 N5G . . . F 4 -5.306 14.958 11.797 1 45.19 ? C15 N5G 501 A 1 HETATM 20 C C16 N5G . . . F 4 -4.868 14.577 13.251 1 48.46 ? C16 N5G 501 A 1 HETATM 21 C C N5G . . . F 4 -5.241 13.223 15.454 1 55.35 ? C N5G 501 A 1 HETATM 22 O O N5G . . . F 4 -5.945 12.795 16.307 1 52.54 ? O N5G 501 A 1 HETATM 23 N N N5G . . . F 4 -3.76 13.164 15.626 1 59.98 ? N N5G 501 A 1 HETATM 24 C CA N5G . . . F 4 -3.16 12.364 16.715 1 60.25 ? CA N5G 501 A 1 HETATM 25 C CB N5G . . . F 4 -2.674 11.005 16.152 1 58.98 ? CB N5G 501 A 1 HETATM 26 C CG N5G . . . F 4 -2.37 10.992 14.621 1 60 ? CG N5G 501 A 1 HETATM 27 C CD N5G . . . F 4 -1.433 9.903 14.049 1 63.63 ? CD N5G 501 A 1 HETATM 28 O OE2 N5G . . . F 4 -0.191 10.404 13.635 1 61.94 ? OE2 N5G 501 A 1 HETATM 29 O OE1 N5G . . . F 4 -1.359 8.735 14.825 1 62.29 ? OE1 N5G 501 A 1 HETATM 30 C CT N5G . . . F 4 -2.091 13.116 17.504 1 59.81 ? CT N5G 501 A 1 HETATM 31 O O1 N5G . . . F 4 -2.173 14.297 17.626 1 58 ? O1 N5G 501 A 1 HETATM 32 O O2 N5G . . . F 4 -1.312 12.412 18.431 1 50.55 ? O2 N5G 501 A 1 HETATM 33 C CP1 N5G . . . F 4 -6.81 14.991 5.316 1 30.85 ? CP1 N5G 501 A 1 HETATM 34 O O3 N5G . . . F 4 -6.001 14.297 5.814 1 35.5 ? O3 N5G 501 A 1 # _model_server_stats.io_time_ms 43 _model_server_stats.parse_time_ms 85 _model_server_stats.create_model_time_ms 21 _model_server_stats.query_time_ms 338 _model_server_stats.encode_time_ms 8 _model_server_stats.element_count 34 #