data_6KG1 # _model_server_result.job_id Fk2Se9Pxq3YNmrnTS4Wung _model_server_result.datetime_utc '2024-10-10 15:23:13' _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 6kg1 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":503}' # _entry.id 6KG1 # _exptl.entry_id 6KG1 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 320.236 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '2-[(3-HYDROXY-2-METHYL-5-PHOSPHONOOXYMETHYL-PYRIDIN-4-YLMETHYL)-AMINO]-PROPIONIC 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 6KG1 _cell.length_a 102.9 _cell.length_b 102.9 _cell.length_c 133.2 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6KG1 _symmetry.cell_setting ? _symmetry.Int_Tables_number 92 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 41 21 2' # _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # 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' 8_554 -y,-x,-z-1/2 0 -1 0 -1 0 0 0 0 -1 0 0 -66.6 # _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 # _chem_comp.formula 'C11 H17 N2 O7 P' _chem_comp.formula_weight 320.236 _chem_comp.id PDA _chem_comp.mon_nstd_flag . _chem_comp.name '2-[(3-HYDROXY-2-METHYL-5-PHOSPHONOOXYMETHYL-PYRIDIN-4-YLMETHYL)-AMINO]-PROPIONIC ACID' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms PYRIDOXYL-ALANINE-5-PHOSPHATE # 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 C4A PDA sing 248 n n N CA PDA sing 249 n n N HN PDA sing 250 n n N1 C2 PDA doub 251 n y N1 C6 PDA sing 252 n y C2 C2A PDA sing 253 n n C2 C3 PDA sing 254 n y C2A H2A1 PDA sing 255 n n C2A H2A2 PDA sing 256 n n C2A H2A3 PDA sing 257 n n C3 O3A PDA sing 258 n n C3 C4 PDA doub 259 n y O3A HOA PDA sing 260 n n C4 C4A PDA sing 261 n n C4 C5 PDA sing 262 n y C4A H4A1 PDA sing 263 n n C4A H4A2 PDA sing 264 n n C5 C5A PDA sing 265 n n C5 C6 PDA doub 266 n y C5A OP4 PDA sing 267 n n C5A H5A1 PDA sing 268 n n C5A H5A2 PDA sing 269 n n OP4 P PDA sing 270 n n P OP1 PDA doub 271 n n P OP2 PDA sing 272 n n P OP3 PDA sing 273 n n OP2 HO2 PDA sing 274 n n OP3 HO3 PDA sing 275 n n C6 H6 PDA sing 276 n n CA CB PDA sing 277 n n CA C PDA sing 278 n n CA HA PDA sing 279 n n CB HB1 PDA sing 280 n n CB HB2 PDA sing 281 n n CB HB3 PDA sing 282 n n C O PDA sing 283 n n C OXT PDA doub 284 n n O HO PDA sing 285 n n # _atom_sites.entry_id 6KG1 _atom_sites.fract_transf_matrix[1][1] 0.009718 _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] 0.009718 _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] 0.007508 _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 IPA A 1 501 502 IPA IPA . C 3 CL A 1 502 503 CL CL . D 4 PDA A 1 503 601 PDA PDA . E 5 HOH A 1 601 1 HOH HOH . E 5 HOH A 2 602 8 HOH HOH . E 5 HOH A 3 603 2 HOH HOH . E 5 HOH A 4 604 3 HOH HOH . E 5 HOH A 5 605 7 HOH HOH . E 5 HOH A 6 606 5 HOH HOH . E 5 HOH A 7 607 6 HOH HOH . E 5 HOH A 8 608 4 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 PDA . . . D 4 23.467 -17.692 -18.276 1 94.18 ? N PDA 503 A 1 HETATM 2 N N1 PDA . . . D 4 18.276 -18.592 -18.648 1 68.46 ? N1 PDA 503 A 1 HETATM 3 C C2 PDA . . . D 4 19.041 -18.95 -17.569 1 85.24 ? C2 PDA 503 A 1 HETATM 4 C C2A PDA . . . D 4 18.376 -19.248 -16.251 1 75.12 ? C2A PDA 503 A 1 HETATM 5 C C3 PDA . . . D 4 20.547 -19.069 -17.651 1 78.38 ? C3 PDA 503 A 1 HETATM 6 O O3A PDA . . . D 4 21.281 -19.422 -16.586 1 75.25 ? O3A PDA 503 A 1 HETATM 7 C C4 PDA . . . D 4 21.243 -18.805 -18.924 1 74.02 ? C4 PDA 503 A 1 HETATM 8 C C4A PDA . . . D 4 22.796 -18.844 -19.007 1 97.57 ? C4A PDA 503 A 1 HETATM 9 C C5 PDA . . . D 4 20.295 -18.404 -20.019 1 70.61 ? C5 PDA 503 A 1 HETATM 10 C C5A PDA . . . D 4 20.796 -18.08 -21.395 1 69.14 ? C5A PDA 503 A 1 HETATM 11 O OP4 PDA . . . D 4 21.089 -19.315 -22.078 1 65.84 ? OP4 PDA 503 A 1 HETATM 12 P P PDA . . . D 4 21.854 -19.171 -23.485 1 61.25 ? P PDA 503 A 1 HETATM 13 O OP1 PDA . . . D 4 22.132 -20.621 -23.642 1 52.88 ? OP1 PDA 503 A 1 HETATM 14 O OP2 PDA . . . D 4 20.782 -18.577 -24.379 1 60.03 ? OP2 PDA 503 A 1 HETATM 15 O OP3 PDA . . . D 4 23 -18.159 -23.301 1 51.99 ? OP3 PDA 503 A 1 HETATM 16 C C6 PDA . . . D 4 18.895 -18.34 -19.815 1 73.26 ? C6 PDA 503 A 1 HETATM 17 C CA PDA . . . D 4 24.871 -17.317 -17.998 1 88.69 ? CA PDA 503 A 1 HETATM 18 C CB PDA . . . D 4 25.166 -16.013 -18.802 1 87.41 ? CB PDA 503 A 1 HETATM 19 C C PDA . . . D 4 25.283 -17.335 -16.445 1 104.04 ? C PDA 503 A 1 HETATM 20 O O PDA . . . D 4 24.528 -17.708 -15.501 1 79.62 ? O PDA 503 A 1 HETATM 21 O OXT PDA . . . D 4 26.44 -17.071 -15.987 1 90.41 ? OXT PDA 503 A 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 15 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 320 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 21 #