data_1PWH # _model_server_result.job_id M72NBoBvepewF3uV7bvXzg _model_server_result.datetime_utc '2024-12-21 16:22:44' _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 1pwh # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"L","auth_seq_id":331}' # _entry.id 1PWH # _exptl.entry_id 1PWH _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 350.262 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description N-({3-HYDROXY-2-METHYL-5-[(PHOSPHONOOXY)METHYL]PYRIDIN-4-YL}METHYL)-O-METHYL-L-SERINE _entity.pdbx_number_of_molecules 4 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 91.66 _cell.angle_gamma 90 _cell.entry_id 1PWH _cell.length_a 62.241 _cell.length_b 109.262 _cell.length_c 98.94 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1PWH _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 1 21 1' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? monomeric 1 author_defined_assembly 1 ? monomeric 1 author_defined_assembly 2 ? monomeric 1 author_defined_assembly 3 ? monomeric 1 author_defined_assembly 4 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,E,F,M 1 1 B,G,H,N 2 1 C,I,J,O 3 1 D,K,L,P 4 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 ? 3 F N N ? 3 H N N ? 3 J N N ? 3 L N 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 O VAL 167 A VAL 167 1_555 E K K . A K 332 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.014 ? metalc ? metalc2 A O GLY 168 A GLY 168 1_555 E K K . A K 332 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.142 ? metalc ? metalc3 A OE2 GLU 194 A GLU 194 1_555 E K K . A K 332 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.921 ? metalc ? metalc4 A O ALA 198 A ALA 198 1_555 E K K . A K 332 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.863 ? metalc ? metalc5 A OG SER 200 A SER 200 1_555 E K K . A K 332 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.108 ? metalc ? metalc6 A O LEU 223 A LEU 223 1_555 E K K . A K 332 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.12 ? metalc ? metalc7 B O VAL 167 B VAL 167 1_555 G K K . B K 333 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.094 ? metalc ? metalc8 B O GLY 168 B GLY 168 1_555 G K K . B K 333 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.046 ? metalc ? metalc9 B OE2 GLU 194 B GLU 194 1_555 G K K . B K 333 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.94 ? metalc ? metalc10 B O ALA 198 B ALA 198 1_555 G K K . B K 333 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.828 ? metalc ? metalc11 B N SER 200 B SER 200 1_555 G K K . B K 333 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.713 ? metalc ? metalc12 B OG SER 200 B SER 200 1_555 G K K . B K 333 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.072 ? metalc ? metalc13 B O LEU 223 B LEU 223 1_555 G K K . B K 333 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.114 ? metalc ? metalc14 C O VAL 167 C VAL 167 1_555 I K K . C K 334 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.077 ? metalc ? metalc15 C O GLY 168 C GLY 168 1_555 I K K . C K 334 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.186 ? metalc ? metalc16 C OE2 GLU 194 C GLU 194 1_555 I K K . C K 334 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.89 ? metalc ? metalc17 C O ALA 198 C ALA 198 1_555 I K K . C K 334 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.826 ? metalc ? metalc18 C OG SER 200 C SER 200 1_555 I K K . C K 334 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.027 ? metalc ? metalc19 C N SER 200 C SER 200 1_555 I K K . C K 334 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.647 ? metalc ? metalc20 C O LEU 223 C LEU 223 1_555 I K K . C K 334 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.279 ? metalc ? metalc21 D O VAL 167 D VAL 167 1_555 K K K . D K 335 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.032 ? metalc ? metalc22 D O GLY 168 D GLY 168 1_555 K K K . D K 335 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.082 ? metalc ? metalc23 D OE2 GLU 194 D GLU 194 1_555 K K K . D K 335 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.932 ? metalc ? metalc24 D O ALA 198 D ALA 198 1_555 K K K . D K 335 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.857 ? metalc ? metalc25 D OG SER 200 D SER 200 1_555 K K K . D K 335 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.066 ? metalc ? metalc26 D O LEU 223 D LEU 223 1_555 K K K . D K 335 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.129 ? # _chem_comp.formula 'C12 H19 N2 O8 P' _chem_comp.formula_weight 350.262 _chem_comp.id PLV _chem_comp.mon_nstd_flag . _chem_comp.name N-({3-HYDROXY-2-METHYL-5-[(PHOSPHONOOXY)METHYL]PYRIDIN-4-YL}METHYL)-O-METHYL-L-SERINE _chem_comp.type non-polymer _chem_comp.pdbx_synonyms PYRIDOXYL-(O-METHYL-SERINE)-5-MONOPHOSPHATE # 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 PLV sing 260 n n N C4A PLV sing 261 n n N HN PLV sing 262 n n CA CB PLV sing 263 n n CA C PLV sing 264 n n CA HA PLV sing 265 n n CB OG PLV sing 266 n n CB HB1 PLV sing 267 n n CB HB2 PLV sing 268 n n OG C7 PLV sing 269 n n C O PLV sing 270 n n C OXT PLV doub 271 n n O HO PLV sing 272 n n N1 C2 PLV doub 273 n y N1 C6 PLV sing 274 n y C2 C2A PLV sing 275 n n C2 C3 PLV sing 276 n y C2A H2A1 PLV sing 277 n n C2A H2A2 PLV sing 278 n n C2A H2A3 PLV sing 279 n n C3 O3 PLV sing 280 n n C3 C4 PLV doub 281 n y O3 HO3 PLV sing 282 n n C4 C4A PLV sing 283 n n C4 C5 PLV sing 284 n y C4A H4A1 PLV sing 285 n n C4A H4A2 PLV sing 286 n n C5 C6 PLV doub 287 n y C5 C5A PLV sing 288 n n C6 H6 PLV sing 289 n n C5A O4P PLV sing 290 n n C5A H5A1 PLV sing 291 n n C5A H5A2 PLV sing 292 n n O4P P PLV sing 293 n n P O1P PLV sing 294 n n P O2P PLV sing 295 n n P O3P PLV doub 296 n n O1P H1P PLV sing 297 n n O2P H2P PLV sing 298 n n C7 H71 PLV sing 299 n n C7 H72 PLV sing 300 n n C7 H73 PLV sing 301 n n # _atom_sites.entry_id 1PWH _atom_sites.fract_transf_matrix[1][1] 0.016067 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.000466 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.009152 _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] 0.010111 _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 E 2 K A 1 332 332 K K . F 3 PLV A 1 328 328 PLV PLV . G 2 K B 1 333 333 K K . H 3 PLV B 1 329 329 PLV PLV . I 2 K C 1 334 334 K K . J 3 PLV C 1 330 330 PLV PLV . K 2 K D 1 335 335 K K . L 3 PLV D 1 331 331 PLV PLV . M 4 HOH A 1 333 1 HOH HOH . M 4 HOH A 2 334 3 HOH HOH . M 4 HOH A 3 335 6 HOH HOH . M 4 HOH A 4 336 7 HOH HOH . M 4 HOH A 5 337 10 HOH HOH . M 4 HOH A 6 338 11 HOH HOH . M 4 HOH A 7 339 19 HOH HOH . M 4 HOH A 8 340 22 HOH HOH . M 4 HOH A 9 341 24 HOH HOH . M 4 HOH A 10 342 25 HOH HOH . M 4 HOH A 11 343 29 HOH HOH . M 4 HOH A 12 344 31 HOH HOH . M 4 HOH A 13 345 36 HOH HOH . M 4 HOH A 14 346 37 HOH HOH . M 4 HOH A 15 347 40 HOH HOH . M 4 HOH A 16 348 43 HOH HOH . M 4 HOH A 17 349 44 HOH HOH . M 4 HOH A 18 350 50 HOH HOH . M 4 HOH A 19 351 51 HOH HOH . M 4 HOH A 20 352 54 HOH HOH . M 4 HOH A 21 353 58 HOH HOH . M 4 HOH A 22 354 64 HOH HOH . M 4 HOH A 23 355 71 HOH HOH . M 4 HOH A 24 356 79 HOH HOH . M 4 HOH A 25 357 82 HOH HOH . M 4 HOH A 26 358 84 HOH HOH . M 4 HOH A 27 359 88 HOH HOH . M 4 HOH A 28 360 89 HOH HOH . M 4 HOH A 29 361 90 HOH HOH . M 4 HOH A 30 362 93 HOH HOH . M 4 HOH A 31 363 94 HOH HOH . M 4 HOH A 32 364 98 HOH HOH . M 4 HOH A 33 365 102 HOH HOH . M 4 HOH A 34 366 106 HOH HOH . M 4 HOH A 35 367 108 HOH HOH . M 4 HOH A 36 368 111 HOH HOH . M 4 HOH A 37 369 114 HOH HOH . M 4 HOH A 38 370 117 HOH HOH . M 4 HOH A 39 371 119 HOH HOH . N 4 HOH B 1 334 2 HOH HOH . N 4 HOH B 2 335 9 HOH HOH . N 4 HOH B 3 336 14 HOH HOH . N 4 HOH B 4 337 15 HOH HOH . N 4 HOH B 5 338 30 HOH HOH . N 4 HOH B 6 339 32 HOH HOH . N 4 HOH B 7 340 34 HOH HOH . N 4 HOH B 8 341 38 HOH HOH . N 4 HOH B 9 342 39 HOH HOH . N 4 HOH B 10 343 41 HOH HOH . N 4 HOH B 11 344 45 HOH HOH . N 4 HOH B 12 345 46 HOH HOH . N 4 HOH B 13 346 52 HOH HOH . N 4 HOH B 14 347 53 HOH HOH . N 4 HOH B 15 348 56 HOH HOH . N 4 HOH B 16 349 63 HOH HOH . N 4 HOH B 17 350 65 HOH HOH . N 4 HOH B 18 351 67 HOH HOH . N 4 HOH B 19 352 68 HOH HOH . N 4 HOH B 20 353 69 HOH HOH . N 4 HOH B 21 354 70 HOH HOH . N 4 HOH B 22 355 75 HOH HOH . N 4 HOH B 23 356 78 HOH HOH . N 4 HOH B 24 357 81 HOH HOH . N 4 HOH B 25 358 83 HOH HOH . N 4 HOH B 26 359 87 HOH HOH . N 4 HOH B 27 360 92 HOH HOH . N 4 HOH B 28 361 99 HOH HOH . N 4 HOH B 29 362 104 HOH HOH . N 4 HOH B 30 363 107 HOH HOH . N 4 HOH B 31 364 109 HOH HOH . N 4 HOH B 32 365 112 HOH HOH . N 4 HOH B 33 366 113 HOH HOH . N 4 HOH B 34 367 118 HOH HOH . O 4 HOH C 1 335 4 HOH HOH . O 4 HOH C 2 336 5 HOH HOH . O 4 HOH C 3 337 13 HOH HOH . O 4 HOH C 4 338 16 HOH HOH . O 4 HOH C 5 339 28 HOH HOH . O 4 HOH C 6 340 35 HOH HOH . O 4 HOH C 7 341 49 HOH HOH . O 4 HOH C 8 342 57 HOH HOH . O 4 HOH C 9 343 59 HOH HOH . O 4 HOH C 10 344 60 HOH HOH . O 4 HOH C 11 345 61 HOH HOH . O 4 HOH C 12 346 66 HOH HOH . O 4 HOH C 13 347 73 HOH HOH . O 4 HOH C 14 348 76 HOH HOH . O 4 HOH C 15 349 77 HOH HOH . O 4 HOH C 16 350 96 HOH HOH . O 4 HOH C 17 351 100 HOH HOH . O 4 HOH C 18 352 103 HOH HOH . O 4 HOH C 19 353 105 HOH HOH . O 4 HOH C 20 354 110 HOH HOH . O 4 HOH C 21 355 116 HOH HOH . P 4 HOH D 1 336 8 HOH HOH . P 4 HOH D 2 337 12 HOH HOH . P 4 HOH D 3 338 17 HOH HOH . P 4 HOH D 4 339 18 HOH HOH . P 4 HOH D 5 340 20 HOH HOH . P 4 HOH D 6 341 21 HOH HOH . P 4 HOH D 7 342 23 HOH HOH . P 4 HOH D 8 343 26 HOH HOH . P 4 HOH D 9 344 27 HOH HOH . P 4 HOH D 10 345 33 HOH HOH . P 4 HOH D 11 346 42 HOH HOH . P 4 HOH D 12 347 47 HOH HOH . P 4 HOH D 13 348 48 HOH HOH . P 4 HOH D 14 349 55 HOH HOH . P 4 HOH D 15 350 62 HOH HOH . P 4 HOH D 16 351 72 HOH HOH . P 4 HOH D 17 352 74 HOH HOH . P 4 HOH D 18 353 80 HOH HOH . P 4 HOH D 19 354 85 HOH HOH . P 4 HOH D 20 355 86 HOH HOH . P 4 HOH D 21 356 91 HOH HOH . P 4 HOH D 22 357 95 HOH HOH . P 4 HOH D 23 358 97 HOH HOH . P 4 HOH D 24 359 101 HOH HOH . P 4 HOH D 25 360 115 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 PLV . . . L 3 21.364 -40.75 57.345 1 15.39 ? N PLV 331 D 1 HETATM 2 C CA PLV . . . L 3 22.508 -39.814 57.158 1 16.09 ? CA PLV 331 D 1 HETATM 3 C CB PLV . . . L 3 23.66 -40.036 58.08 1 15.57 ? CB PLV 331 D 1 HETATM 4 O OG PLV . . . L 3 24.413 -41.239 57.964 1 14.94 ? OG PLV 331 D 1 HETATM 5 C C PLV . . . L 3 23 -39.886 55.614 1 17.19 ? C PLV 331 D 1 HETATM 6 O O PLV . . . L 3 22.432 -40.634 54.824 1 17.37 ? O PLV 331 D 1 HETATM 7 O OXT PLV . . . L 3 23.957 -39.199 55.165 1 16.78 ? OXT PLV 331 D 1 HETATM 8 N N1 PLV . . . L 3 17.069 -43.652 58.529 1 13.34 ? N1 PLV 331 D 1 HETATM 9 C C2 PLV . . . L 3 17.718 -43.638 57.273 1 13.53 ? C2 PLV 331 D 1 HETATM 10 C C2A PLV . . . L 3 17.258 -44.548 56.182 1 12.2 ? C2A PLV 331 D 1 HETATM 11 C C3 PLV . . . L 3 18.854 -42.692 57.104 1 12.46 ? C3 PLV 331 D 1 HETATM 12 O O3 PLV . . . L 3 19.586 -42.536 55.999 1 13.02 ? O3 PLV 331 D 1 HETATM 13 C C4 PLV . . . L 3 19.229 -41.814 58.301 1 13.79 ? C4 PLV 331 D 1 HETATM 14 C C4A PLV . . . L 3 20.373 -40.825 58.218 1 14.45 ? C4A PLV 331 D 1 HETATM 15 C C5 PLV . . . L 3 18.488 -41.911 59.549 1 13.82 ? C5 PLV 331 D 1 HETATM 16 C C6 PLV . . . L 3 17.389 -42.859 59.64 1 13.64 ? C6 PLV 331 D 1 HETATM 17 C C5A PLV . . . L 3 18.83 -41.05 60.762 1 14.71 ? C5A PLV 331 D 1 HETATM 18 O O4P PLV . . . L 3 18.564 -39.651 60.583 1 16.93 ? O4P PLV 331 D 1 HETATM 19 P P PLV . . . L 3 19.029 -38.546 61.316 1 17.6 ? P PLV 331 D 1 HETATM 20 O O1P PLV . . . L 3 18.779 -38.938 62.748 1 15.24 ? O1P PLV 331 D 1 HETATM 21 O O2P PLV . . . L 3 20.424 -38.497 61.021 1 16.62 ? O2P PLV 331 D 1 HETATM 22 O O3P PLV . . . L 3 18.561 -37.242 61.259 1 17.6 ? O3P PLV 331 D 1 HETATM 23 C C7 PLV . . . L 3 25.546 -41.401 58.809 1 16.02 ? C7 PLV 331 D 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 18 _model_server_stats.query_time_ms 292 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 23 #