data_F5P # _chem_comp.id F5P _chem_comp.name ;(2R,3R,4S,5R,6S)-3-(acetylamino)-5-amino-4-hydroxy-6-methyltetrahydro-2H-pyran-2-yl [(2R,3S,4R,5R)-5-(2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)-3,4-dihydroxytetrahydrofuran-2-yl]methyl dihydrogen diphosphate ; _chem_comp.type NON-POLYMER _chem_comp.pdbx_type HETAIN _chem_comp.formula "C17 H28 N4 O15 P2" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms "UDP-4-amino-4,6-dideoxy-L-AltNAc" _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2018-02-28 _chem_comp.pdbx_modified_date 2020-06-17 _chem_comp.pdbx_ambiguous_flag N _chem_comp.pdbx_release_status REL _chem_comp.pdbx_replaced_by ? _chem_comp.pdbx_replaces ? _chem_comp.formula_weight 590.370 _chem_comp.one_letter_code ? _chem_comp.three_letter_code F5P _chem_comp.pdbx_model_coordinates_details ? _chem_comp.pdbx_model_coordinates_missing_flag N _chem_comp.pdbx_ideal_coordinates_details Corina _chem_comp.pdbx_ideal_coordinates_missing_flag N _chem_comp.pdbx_model_coordinates_db_code 6CI4 _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site RCSB # # loop_ _chem_comp_atom.comp_id _chem_comp_atom.atom_id _chem_comp_atom.alt_atom_id _chem_comp_atom.type_symbol _chem_comp_atom.charge _chem_comp_atom.pdbx_align _chem_comp_atom.pdbx_aromatic_flag _chem_comp_atom.pdbx_leaving_atom_flag _chem_comp_atom.pdbx_stereo_config _chem_comp_atom.model_Cartn_x _chem_comp_atom.model_Cartn_y _chem_comp_atom.model_Cartn_z _chem_comp_atom.pdbx_model_Cartn_x_ideal _chem_comp_atom.pdbx_model_Cartn_y_ideal _chem_comp_atom.pdbx_model_Cartn_z_ideal _chem_comp_atom.pdbx_component_atom_id _chem_comp_atom.pdbx_component_comp_id _chem_comp_atom.pdbx_ordinal F5P C13 C1 C 0 1 N N N 32.314 28.294 -1.093 2.759 2.273 -0.491 C13 F5P 1 F5P C15 C2 C 0 1 N N S 34.901 28.105 -1.440 5.128 2.476 0.325 C15 F5P 2 F5P C17 C3 C 0 1 N N R 35.224 30.329 -1.460 5.337 0.123 0.799 C17 F5P 3 F5P C21 C4 C 0 1 N N N 36.338 31.652 2.464 6.588 -3.562 -0.732 C21 F5P 4 F5P C22 C5 C 0 1 N N N 35.004 31.084 2.264 5.965 -2.621 -1.586 C22 F5P 5 F5P C02 C6 C 0 1 N N R 30.889 22.843 6.528 -7.157 -1.692 0.429 C02 F5P 6 F5P C03 C7 C 0 1 N N S 32.234 23.252 5.959 -6.233 -2.024 -0.746 C03 F5P 7 F5P C04 C8 C 0 1 N N N 33.231 23.676 7.003 -6.190 -3.540 -0.948 C04 F5P 8 F5P C06 C9 C 0 1 N N R 31.244 23.964 3.928 -4.839 -0.127 -0.284 C06 F5P 9 F5P C14 C10 C 0 1 N N R 33.493 28.864 -1.861 3.762 1.805 0.566 C14 F5P 10 F5P C16 C11 C 0 1 N N R 35.835 28.908 -1.825 6.104 1.291 0.127 C16 F5P 11 F5P C19 C12 C 0 1 N N N 36.915 31.327 -0.027 6.363 -2.066 1.049 C19 F5P 12 F5P C23 C13 C 0 1 N N N 34.630 30.604 0.941 5.566 -1.435 -1.078 C23 F5P 13 F5P C32 C14 C 0 1 N N R 29.854 23.531 4.403 -5.707 0.281 0.911 C32 F5P 14 F5P C34 C15 C 0 1 N N N 27.811 24.827 5.286 -4.194 0.233 2.820 C34 F5P 15 F5P C35 C16 C 0 1 N N N 27.286 26.084 5.994 -3.664 -0.417 4.072 C35 F5P 16 F5P C37 C17 C 0 1 N N S 29.932 22.506 5.460 -7.148 -0.178 0.665 C37 F5P 17 F5P N01 N1 N 0 1 N N N 31.246 21.661 7.326 -8.523 -2.132 0.119 N01 F5P 18 F5P N18 N2 N 0 1 N N N 35.552 30.725 -0.194 5.770 -1.163 0.248 N18 F5P 19 F5P N20 N3 N 0 1 N N N 37.234 31.803 1.361 6.765 -3.258 0.570 N20 F5P 20 F5P N33 N4 N 0 1 N N N 29.243 24.728 5.057 -5.193 -0.351 2.128 N33 F5P 21 F5P O05 O1 O 0 1 N N N 32.042 24.403 5.054 -4.917 -1.543 -0.466 O05 F5P 22 F5P O07 O2 O 0 1 N N N 31.132 25.001 3.077 -3.483 0.248 -0.038 O07 F5P 23 F5P O09 O3 O 0 1 N N N 33.701 25.123 2.657 -2.188 -0.647 -2.144 O09 F5P 24 F5P O10 O4 O 0 1 N N N 32.114 26.301 1.023 -1.064 1.131 -0.567 O10 F5P 25 F5P O12 O5 O 0 1 N N N 32.557 28.521 0.322 1.472 1.724 -0.201 O12 F5P 26 F5P O24 O6 O 0 1 N N N 36.706 32.034 3.520 6.956 -4.638 -1.167 O24 F5P 27 F5P O25 O7 O 0 1 N N N 37.664 31.423 -0.902 6.529 -1.806 2.225 O25 F5P 28 F5P O26 O8 O 0 1 N N N 33.713 30.117 -1.580 3.959 0.385 0.458 O26 F5P 29 F5P O27 O9 O 0 1 N N N 36.125 28.784 -3.269 7.345 1.536 0.792 O27 F5P 30 F5P O28 O10 O 0 1 N N N 34.967 26.806 -2.083 5.508 3.257 1.460 O28 F5P 31 F5P O29 O11 O 0 1 N N N 32.308 28.152 2.869 -0.204 3.572 -1.032 O29 F5P 32 F5P O30 O12 O 0 1 N N N 30.238 28.033 1.308 0.462 1.639 -2.513 O30 F5P 33 F5P O31 O13 O 0 1 N N N 32.227 23.735 1.202 -3.031 1.730 -2.031 O31 F5P 34 F5P O36 O14 O 0 1 N N N 27.114 23.952 4.933 -3.722 1.282 2.434 O36 F5P 35 F5P O38 O15 O 0 1 N N N 30.333 21.230 4.881 -7.673 0.488 -0.485 O38 F5P 36 F5P P08 P1 P 0 1 N N N 32.329 25.012 1.976 -2.454 0.639 -1.213 P08 F5P 37 F5P P11 P2 P 0 1 N N N 31.706 27.804 1.497 0.173 2.008 -1.109 P11 F5P 38 F5P H132 H1 H 0 0 N N N 31.387 28.800 -1.400 2.701 3.361 -0.479 H132 F5P 39 F5P H131 H2 H 0 0 N N N 32.225 27.215 -1.290 3.084 1.936 -1.475 H131 F5P 40 F5P H151 H3 H 0 0 N N N 34.887 27.977 -0.348 5.095 3.097 -0.570 H151 F5P 41 F5P H171 H4 H 0 0 N N N 35.552 31.058 -2.215 5.478 0.143 1.880 H171 F5P 42 F5P H221 H5 H 0 0 N N N 34.307 31.022 3.086 5.811 -2.848 -2.631 H221 F5P 43 F5P H021 H6 H 0 0 N N N 30.491 23.642 7.170 -6.804 -2.202 1.325 H021 F5P 44 F5P H031 H7 H 0 0 N N N 32.650 22.407 5.390 -6.610 -1.547 -1.651 H031 F5P 45 F5P H043 H8 H 0 0 N N N 33.406 22.845 7.703 -7.194 -3.907 -1.161 H043 F5P 46 F5P H042 H9 H 0 0 N N N 34.178 23.950 6.515 -5.532 -3.776 -1.785 H042 F5P 47 F5P H041 H10 H 0 0 N N N 32.838 24.543 7.554 -5.813 -4.016 -0.044 H041 F5P 48 F5P H061 H11 H 0 0 N N N 31.731 23.104 3.444 -5.198 0.375 -1.183 H061 F5P 49 F5P H141 H12 H 0 0 N N N 33.336 28.697 -2.937 3.397 2.054 1.562 H141 F5P 50 F5P H161 H13 H 0 0 N N N 36.764 28.778 -1.251 6.264 1.092 -0.933 H161 F5P 51 F5P H231 H14 H 0 0 N N N 33.660 30.152 0.793 5.090 -0.705 -1.715 H231 F5P 52 F5P H321 H15 H 0 0 N N N 29.244 23.188 3.554 -5.684 1.364 1.025 H321 F5P 53 F5P H352 H16 H 0 0 N N N 26.194 26.015 6.103 -4.207 -1.343 4.258 H352 F5P 54 F5P H353 H17 H 0 0 N N N 27.749 26.165 6.989 -2.604 -0.636 3.947 H353 F5P 55 F5P H351 H18 H 0 0 N N N 27.540 26.973 5.398 -3.799 0.259 4.917 H351 F5P 56 F5P H371 H19 H 0 0 N N N 28.934 22.392 5.909 -7.760 0.058 1.536 H371 F5P 57 F5P H1 H20 H 0 1 N N N 31.895 21.924 8.040 -8.554 -3.128 -0.043 H1 F5P 58 F5P H012 H21 H 0 0 N N N 30.422 21.282 7.748 -9.164 -1.865 0.851 H012 F5P 59 F5P H201 H23 H 0 0 N N N 38.116 32.247 1.521 7.191 -3.898 1.162 H201 F5P 60 F5P H331 H24 H 0 0 N N N 29.835 25.481 5.345 -5.570 -1.190 2.436 H331 F5P 61 F5P H2 H25 H 0 1 N N N 34.220 24.354 2.452 -1.810 -1.402 -1.673 H2 F5P 62 F5P H271 H26 H 0 0 N N N 36.488 27.924 -3.447 7.861 2.257 0.408 H271 F5P 63 F5P H281 H27 H 0 0 N N N 35.776 26.372 -1.840 6.374 3.679 1.375 H281 F5P 64 F5P H3 H28 H 0 1 N N N 31.625 28.484 3.440 -0.406 3.884 -0.140 H3 F5P 65 F5P H381 H29 H 0 0 N N N 30.382 20.573 5.565 -8.584 0.244 -0.699 H381 F5P 66 # # loop_ _chem_comp_bond.comp_id _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.value_order _chem_comp_bond.pdbx_aromatic_flag _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_ordinal F5P O27 C16 SING N N 1 F5P O28 C15 SING N N 2 F5P C14 O26 SING N N 3 F5P C14 C15 SING N N 4 F5P C14 C13 SING N N 5 F5P C16 C17 SING N N 6 F5P C16 C15 SING N N 7 F5P O26 C17 SING N N 8 F5P C17 N18 SING N N 9 F5P C13 O12 SING N N 10 F5P O25 C19 DOUB N N 11 F5P N18 C19 SING N N 12 F5P N18 C23 SING N N 13 F5P C19 N20 SING N N 14 F5P O12 P11 SING N N 15 F5P C23 C22 DOUB N N 16 F5P O10 P11 SING N N 17 F5P O10 P08 SING N N 18 F5P O31 P08 DOUB N N 19 F5P O30 P11 DOUB N N 20 F5P N20 C21 SING N N 21 F5P P11 O29 SING N N 22 F5P P08 O09 SING N N 23 F5P P08 O07 SING N N 24 F5P C22 C21 SING N N 25 F5P C21 O24 DOUB N N 26 F5P O07 C06 SING N N 27 F5P C06 C32 SING N N 28 F5P C06 O05 SING N N 29 F5P C32 N33 SING N N 30 F5P C32 C37 SING N N 31 F5P O38 C37 SING N N 32 F5P O36 C34 DOUB N N 33 F5P O05 C03 SING N N 34 F5P N33 C34 SING N N 35 F5P C34 C35 SING N N 36 F5P C37 C02 SING N N 37 F5P C03 C02 SING N N 38 F5P C03 C04 SING N N 39 F5P C02 N01 SING N N 40 F5P C13 H132 SING N N 41 F5P C13 H131 SING N N 42 F5P C15 H151 SING N N 43 F5P C17 H171 SING N N 44 F5P C22 H221 SING N N 45 F5P C02 H021 SING N N 46 F5P C03 H031 SING N N 47 F5P C04 H043 SING N N 48 F5P C04 H042 SING N N 49 F5P C04 H041 SING N N 50 F5P C06 H061 SING N N 51 F5P C14 H141 SING N N 52 F5P C16 H161 SING N N 53 F5P C23 H231 SING N N 54 F5P C32 H321 SING N N 55 F5P C35 H352 SING N N 56 F5P C35 H353 SING N N 57 F5P C35 H351 SING N N 58 F5P C37 H371 SING N N 59 F5P N01 H1 SING N N 60 F5P N01 H012 SING N N 61 F5P N20 H201 SING N N 62 F5P N33 H331 SING N N 63 F5P O09 H2 SING N N 64 F5P O27 H271 SING N N 65 F5P O28 H281 SING N N 66 F5P O29 H3 SING N N 67 F5P O38 H381 SING N N 68 # # loop_ _pdbx_chem_comp_descriptor.comp_id _pdbx_chem_comp_descriptor.type _pdbx_chem_comp_descriptor.program _pdbx_chem_comp_descriptor.program_version _pdbx_chem_comp_descriptor.descriptor F5P SMILES ACDLabs 12.01 "C(OP(OP(OC1C(NC(C)=O)C(C(N)C(C)O1)O)(O)=O)(O)=O)C3C(C(C(N2C(NC(=O)C=C2)=O)O3)O)O" F5P InChI InChI 1.03 "InChI=1S/C17H28N4O15P2/c1-6-10(18)13(25)11(19-7(2)22)16(33-6)35-38(30,31)36-37(28,29)32-5-8-12(24)14(26)15(34-8)21-4-3-9(23)20-17(21)27/h3-4,6,8,10-16,24-26H,5,18H2,1-2H3,(H,19,22)(H,28,29)(H,30,31)(H,20,23,27)/t6-,8+,10-,11+,12+,13-,14+,15+,16+/m0/s1" F5P InChIKey InChI 1.03 FUUMLYWEEZBCQR-NAGKVERXSA-N F5P SMILES_CANONICAL CACTVS 3.385 "C[C@@H]1O[C@H](O[P](O)(=O)O[P](O)(=O)OC[C@H]2O[C@H]([C@H](O)[C@@H]2O)N3C=CC(=O)NC3=O)[C@H](NC(C)=O)[C@@H](O)[C@H]1N" F5P SMILES CACTVS 3.385 "C[CH]1O[CH](O[P](O)(=O)O[P](O)(=O)OC[CH]2O[CH]([CH](O)[CH]2O)N3C=CC(=O)NC3=O)[CH](NC(C)=O)[CH](O)[CH]1N" F5P SMILES_CANONICAL "OpenEye OEToolkits" 2.0.6 "C[C@H]1[C@@H]([C@@H]([C@H]([C@H](O1)OP(=O)(O)OP(=O)(O)OC[C@@H]2[C@H]([C@H]([C@@H](O2)N3C=CC(=O)NC3=O)O)O)NC(=O)C)O)N" F5P SMILES "OpenEye OEToolkits" 2.0.6 "CC1C(C(C(C(O1)OP(=O)(O)OP(=O)(O)OCC2C(C(C(O2)N3C=CC(=O)NC3=O)O)O)NC(=O)C)O)N" # # loop_ _pdbx_chem_comp_identifier.comp_id _pdbx_chem_comp_identifier.type _pdbx_chem_comp_identifier.program _pdbx_chem_comp_identifier.program_version _pdbx_chem_comp_identifier.identifier F5P "SYSTEMATIC NAME" ACDLabs 12.01 "(2R,3R,4S,5R,6S)-3-(acetylamino)-5-amino-4-hydroxy-6-methyltetrahydro-2H-pyran-2-yl [(2R,3S,4R,5R)-5-(2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)-3,4-dihydroxytetrahydrofuran-2-yl]methyl dihydrogen diphosphate (non-preferred name)" F5P "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.6 "[(2~{R},3~{R},4~{S},5~{R},6~{S})-3-acetamido-5-azanyl-6-methyl-4-oxidanyl-oxan-2-yl] [[(2~{R},3~{S},4~{R},5~{R})-5-[2,4-bis(oxidanylidene)pyrimidin-1-yl]-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-oxidanyl-phosphoryl] hydrogen phosphate" # # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site F5P "Create component" 2018-02-28 RCSB F5P "Modify synonyms" 2018-03-05 RCSB F5P "Initial release" 2018-10-17 RCSB F5P "Modify synonyms" 2020-06-05 PDBE # _pdbx_chem_comp_synonyms.ordinal 1 _pdbx_chem_comp_synonyms.comp_id F5P _pdbx_chem_comp_synonyms.name "UDP-4-amino-4,6-dideoxy-L-AltNAc" _pdbx_chem_comp_synonyms.provenance ? _pdbx_chem_comp_synonyms.type ? ##