data_UD1 # _chem_comp.id UD1 _chem_comp.name URIDINE-DIPHOSPHATE-N-ACETYLGLUCOSAMINE _chem_comp.type NON-POLYMER _chem_comp.pdbx_type HETAIN _chem_comp.formula "C17 H27 N3 O17 P2" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 1999-07-08 _chem_comp.pdbx_modified_date 2011-06-04 _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 607.354 _chem_comp.one_letter_code ? _chem_comp.three_letter_code UD1 _chem_comp.pdbx_model_coordinates_details ? _chem_comp.pdbx_model_coordinates_missing_flag N _chem_comp.pdbx_ideal_coordinates_details ? _chem_comp.pdbx_ideal_coordinates_missing_flag N _chem_comp.pdbx_model_coordinates_db_code 1UAE _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 UD1 "C1'" "C1'" C 0 1 N N R 41.142 19.895 41.275 -0.127 -0.516 -4.650 "C1'" UD1 1 UD1 "C2'" "C2'" C 0 1 N N R 39.922 20.273 42.124 -0.001 0.298 -5.939 "C2'" UD1 2 UD1 "C3'" "C3'" C 0 1 N N R 40.414 20.933 43.420 -1.173 1.282 -6.027 "C3'" UD1 3 UD1 "C4'" "C4'" C 0 1 N N S 41.395 20.041 44.176 -2.482 0.500 -5.875 "C4'" UD1 4 UD1 "C5'" "C5'" C 0 1 N N R 42.549 19.668 43.198 -2.422 -0.327 -4.589 "C5'" UD1 5 UD1 "C6'" "C6'" C 0 1 N N N 43.553 18.700 43.816 -3.738 -1.087 -4.411 "C6'" UD1 6 UD1 "C7'" "C7'" C 0 1 N N N 38.282 20.741 40.434 2.375 0.482 -6.444 "C7'" UD1 7 UD1 "C8'" "C8'" C 0 1 N N N 37.434 21.730 39.726 3.675 1.245 -6.433 "C8'" UD1 8 UD1 "N2'" "N2'" N 0 1 N N N 39.015 21.203 41.421 1.262 1.039 -5.929 "N2'" UD1 9 UD1 "O1'" "O1'" O 0 1 N N N 41.832 21.099 40.932 -0.126 0.371 -3.530 "O1'" UD1 10 UD1 "O3'" "O3'" O 0 1 N N N 39.243 21.218 44.204 -1.150 1.942 -7.294 "O3'" UD1 11 UD1 "O4'" "O4'" O 0 1 N N N 41.968 20.802 45.242 -3.579 1.413 -5.807 "O4'" UD1 12 UD1 "O5'" "O5'" O 0 1 N N N 42.024 19.073 41.998 -1.344 -1.259 -4.665 "O5'" UD1 13 UD1 "O6'" "O6'" O 0 1 N N N 42.820 17.665 44.484 -3.683 -1.861 -3.211 "O6'" UD1 14 UD1 "O7'" "O7'" O 0 1 N N N 38.281 19.567 40.080 2.331 -0.634 -6.916 "O7'" UD1 15 UD1 N1 N1 N 0 1 N N N 49.475 22.055 38.263 -0.670 0.697 6.267 N1 UD1 16 UD1 C2 C2 C 0 1 N N N 50.422 22.498 37.371 -1.413 -0.367 5.916 C2 UD1 17 UD1 N3 N3 N 0 1 N N N 50.069 22.625 36.101 -2.661 -0.529 6.394 N3 UD1 18 UD1 C4 C4 C 0 1 N N N 48.911 22.278 35.580 -3.192 0.385 7.231 C4 UD1 19 UD1 C5 C5 C 0 1 N N N 47.868 21.764 36.476 -2.423 1.513 7.604 C5 UD1 20 UD1 C6 C6 C 0 1 N N N 48.141 21.647 37.783 -1.172 1.648 7.114 C6 UD1 21 UD1 O2 O2 O 0 1 N N N 51.569 22.800 37.658 -0.948 -1.200 5.162 O2 UD1 22 UD1 O4 O4 O 0 1 N N N 48.727 22.370 34.378 -4.322 0.242 7.660 O4 UD1 23 UD1 C1B C1* C 0 1 N N R 49.767 22.058 39.699 0.685 0.843 5.734 C1B UD1 24 UD1 C2B C2* C 0 1 N N R 48.803 22.921 40.531 1.541 -0.407 6.058 C2B UD1 25 UD1 "O2'" O2* O 0 1 N N N 49.279 24.274 40.524 2.141 -0.295 7.349 "O2'" UD1 26 UD1 C3B C3* C 0 1 N N S 48.841 22.227 41.906 2.617 -0.363 4.942 C3B UD1 27 UD1 C4B C4* C 0 1 N N R 49.103 20.755 41.520 1.982 0.512 3.844 C4B UD1 28 UD1 O4B O4* O 0 1 N N N 49.659 20.753 40.214 0.664 0.873 4.291 O4B UD1 29 UD1 O3B O3* O 0 1 N N N 49.990 22.708 42.589 3.821 0.232 5.431 O3B UD1 30 UD1 C5B C5* C 0 1 N N N 47.796 19.911 41.395 1.890 -0.277 2.537 C5B UD1 31 UD1 O5B O5* O 0 1 N N N 46.680 20.607 40.813 1.293 0.539 1.528 O5B UD1 32 UD1 PA PA P 0 1 N N S 45.508 19.865 40.122 1.228 -0.350 0.187 PA UD1 33 UD1 O1A O1A O 0 1 N N N 45.645 18.433 40.549 0.411 -1.558 0.436 O1A UD1 34 UD1 O2A O2A O 0 1 N N N 45.643 19.998 38.680 2.718 -0.788 -0.238 O2A UD1 35 UD1 O3A O3A O 0 1 N N N 44.268 20.503 40.622 0.563 0.513 -0.997 O3A UD1 36 UD1 PB PB P 0 1 N N R 43.003 21.028 39.895 0.530 -0.432 -2.299 PB UD1 37 UD1 O1B O1B O 0 1 N N N 42.642 20.176 38.739 -0.276 -1.639 -2.012 O1B UD1 38 UD1 O2B O2B O 0 1 N N N 43.202 22.455 39.529 2.031 -0.869 -2.684 O2B UD1 39 UD1 "H1'" "H1'" H 0 1 N N N 40.797 19.343 40.369 0.715 -1.203 -4.569 "H1'" UD1 40 UD1 "H2'" "H2'" H 0 1 N N N 39.347 19.341 42.336 -0.022 -0.372 -6.798 "H2'" UD1 41 UD1 "H3'" "H3'" H 0 1 N N N 40.978 21.868 43.194 -1.092 2.019 -5.229 "H3'" UD1 42 UD1 "H4'" "H4'" H 0 1 N N N 40.878 19.133 44.566 -2.613 -0.163 -6.730 "H4'" UD1 43 UD1 "H5'" "H5'" H 0 1 N N N 43.076 20.621 42.963 -2.268 0.335 -3.738 "H5'" UD1 44 UD1 "H6'1" "1H6'" H 0 0 N N N 44.280 18.300 43.071 -4.562 -0.377 -4.348 "H6'1" UD1 45 UD1 "H6'2" "2H6'" H 0 0 N N N 44.286 19.208 44.484 -3.893 -1.749 -5.263 "H6'2" UD1 46 UD1 "H8'1" "1H8'" H 0 0 N N N 36.811 21.337 38.888 4.457 0.637 -6.888 "H8'1" UD1 47 UD1 "H8'2" "2H8'" H 0 0 N N N 36.784 22.262 40.459 3.558 2.169 -6.998 "H8'2" UD1 48 UD1 "H8'3" "3H8'" H 0 0 N N N 38.064 22.574 39.363 3.949 1.480 -5.405 "H8'3" UD1 49 UD1 "HN2'" "'HN2" H 0 0 N N N 38.891 22.195 41.623 1.297 1.932 -5.551 "HN2'" UD1 50 UD1 "HO3'" "'HO3" H 0 0 N N N 39.547 21.626 45.005 -1.902 2.550 -7.306 "HO3'" UD1 51 UD1 "HO4'" "'HO4" H 0 0 N N N 42.578 20.246 45.712 -4.381 0.880 -5.711 "HO4'" UD1 52 UD1 "HO6'" "'HO6" H 0 0 N N N 43.445 17.062 44.868 -4.529 -2.323 -3.137 "HO6'" UD1 53 UD1 HN3 HN3 H 0 1 N N N 50.754 23.028 35.463 -3.181 -1.305 6.134 HN3 UD1 54 UD1 H5 H5 H 0 1 N N N 46.856 21.458 36.160 -2.831 2.256 8.274 H5 UD1 55 UD1 H6 H6 H 0 1 N N N 47.330 21.246 38.414 -0.571 2.502 7.388 H6 UD1 56 UD1 H1B H1* H 0 1 N N N 50.796 22.478 39.782 1.157 1.743 6.129 H1B UD1 57 UD1 H2B H2* H 0 1 N N N 47.753 22.993 40.161 0.943 -1.316 5.987 H2B UD1 58 UD1 "HO2'" *HO2 H 0 0 N N N 48.683 24.807 41.037 2.657 -1.101 7.489 "HO2'" UD1 59 UD1 H3B H3* H 0 1 N N N 47.933 22.383 42.535 2.816 -1.365 4.563 H3B UD1 60 UD1 H4B H4* H 0 1 N N N 49.754 20.320 42.313 2.581 1.410 3.693 H4B UD1 61 UD1 HO3A *HO3 H 0 0 N N N 50.013 22.280 43.436 4.136 -0.328 6.153 HO3A UD1 62 UD1 "H5'1" 1H5* H 0 0 N N N 47.997 18.968 40.834 1.279 -1.167 2.692 "H5'1" UD1 63 UD1 "H5'2" 2H5* H 0 0 N N N 47.512 19.489 42.387 2.890 -0.573 2.220 "H5'2" UD1 64 UD1 HOA2 2HOA H 0 0 N N N 44.924 19.543 38.256 3.216 0.026 -0.390 HOA2 UD1 65 UD1 HOB2 2HOB H 0 0 N N N 43.912 22.411 38.899 2.522 -0.055 -2.863 HOB2 UD1 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 UD1 "C1'" "C2'" SING N N 1 UD1 "C1'" "O1'" SING N N 2 UD1 "C1'" "O5'" SING N N 3 UD1 "C1'" "H1'" SING N N 4 UD1 "C2'" "C3'" SING N N 5 UD1 "C2'" "N2'" SING N N 6 UD1 "C2'" "H2'" SING N N 7 UD1 "C3'" "C4'" SING N N 8 UD1 "C3'" "O3'" SING N N 9 UD1 "C3'" "H3'" SING N N 10 UD1 "C4'" "C5'" SING N N 11 UD1 "C4'" "O4'" SING N N 12 UD1 "C4'" "H4'" SING N N 13 UD1 "C5'" "C6'" SING N N 14 UD1 "C5'" "O5'" SING N N 15 UD1 "C5'" "H5'" SING N N 16 UD1 "C6'" "O6'" SING N N 17 UD1 "C6'" "H6'1" SING N N 18 UD1 "C6'" "H6'2" SING N N 19 UD1 "C7'" "C8'" SING N N 20 UD1 "C7'" "N2'" SING N N 21 UD1 "C7'" "O7'" DOUB N N 22 UD1 "C8'" "H8'1" SING N N 23 UD1 "C8'" "H8'2" SING N N 24 UD1 "C8'" "H8'3" SING N N 25 UD1 "N2'" "HN2'" SING N N 26 UD1 "O1'" PB SING N N 27 UD1 "O3'" "HO3'" SING N N 28 UD1 "O4'" "HO4'" SING N N 29 UD1 "O6'" "HO6'" SING N N 30 UD1 N1 C2 SING N N 31 UD1 N1 C6 SING N N 32 UD1 N1 C1B SING N N 33 UD1 C2 N3 SING N N 34 UD1 C2 O2 DOUB N N 35 UD1 N3 C4 SING N N 36 UD1 N3 HN3 SING N N 37 UD1 C4 C5 SING N N 38 UD1 C4 O4 DOUB N N 39 UD1 C5 C6 DOUB N N 40 UD1 C5 H5 SING N N 41 UD1 C6 H6 SING N N 42 UD1 C1B C2B SING N N 43 UD1 C1B O4B SING N N 44 UD1 C1B H1B SING N N 45 UD1 C2B "O2'" SING N N 46 UD1 C2B C3B SING N N 47 UD1 C2B H2B SING N N 48 UD1 "O2'" "HO2'" SING N N 49 UD1 C3B C4B SING N N 50 UD1 C3B O3B SING N N 51 UD1 C3B H3B SING N N 52 UD1 C4B O4B SING N N 53 UD1 C4B C5B SING N N 54 UD1 C4B H4B SING N N 55 UD1 O3B HO3A SING N N 56 UD1 C5B O5B SING N N 57 UD1 C5B "H5'1" SING N N 58 UD1 C5B "H5'2" SING N N 59 UD1 O5B PA SING N N 60 UD1 PA O1A DOUB N N 61 UD1 PA O2A SING N N 62 UD1 PA O3A SING N N 63 UD1 O2A HOA2 SING N N 64 UD1 O3A PB SING N N 65 UD1 PB O1B DOUB N N 66 UD1 PB O2B SING N N 67 UD1 O2B HOB2 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 UD1 SMILES ACDLabs 10.04 "O=P(OC1OC(C(O)C(O)C1NC(=O)C)CO)(O)OP(=O)(O)OCC3OC(N2C=CC(=O)NC2=O)C(O)C3O" UD1 SMILES_CANONICAL CACTVS 3.341 "CC(=O)N[C@@H]1[C@@H](O)[C@H](O)[C@@H](CO)O[C@@H]1O[P@](O)(=O)O[P@](O)(=O)OC[C@H]2O[C@H]([C@H](O)[C@@H]2O)N3C=CC(=O)NC3=O" UD1 SMILES CACTVS 3.341 "CC(=O)N[CH]1[CH](O)[CH](O)[CH](CO)O[CH]1O[P](O)(=O)O[P](O)(=O)OC[CH]2O[CH]([CH](O)[CH]2O)N3C=CC(=O)NC3=O" UD1 SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 "CC(=O)N[C@@H]1[C@H]([C@@H]([C@H](O[C@@H]1O[P@@](=O)(O)O[P@@](=O)(O)OC[C@@H]2[C@H]([C@H]([C@@H](O2)N3C=CC(=O)NC3=O)O)O)CO)O)O" UD1 SMILES "OpenEye OEToolkits" 1.5.0 "CC(=O)NC1C(C(C(OC1OP(=O)(O)OP(=O)(O)OCC2C(C(C(O2)N3C=CC(=O)NC3=O)O)O)CO)O)O" UD1 InChI InChI 1.03 ;InChI=1S/C17H27N3O17P2/c1-6(22)18-10-13(26)11(24)7(4-21)35-16(10)36-39(31,32)37-38(29,30)33-5-8-12(25)14(27)15(34-8)20-3-2-9(23)19-17(20)28/h2-3,7-8,10-16,21,24-27H,4-5H2,1H3,(H,18,22)(H,29,30)(H,31,32)(H,19,23,28)/t7-,8-,10-,11-,12-,13-,14-,15-,16-/m1/s1 ; UD1 InChIKey InChI 1.03 LFTYTUAZOPRMMI-CFRASDGPSA-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 UD1 "SYSTEMATIC NAME" ACDLabs 10.04 "(2R,3R,4R,5S,6R)-3-(acetylamino)-4,5-dihydroxy-6-(hydroxymethyl)tetrahydro-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)" UD1 "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "[[(2R,3R,4R,5S,6R)-3-acetamido-4,5-dihydroxy-6-(hydroxymethyl)oxan-2-yl]oxy-hydroxy-phosphoryl] [(2R,3S,4R,5R)-5-(2,4-dioxopyrimidin-1-yl)-3,4-dihydroxy-oxolan-2-yl]methyl 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 UD1 "Create component" 1999-07-08 RCSB UD1 "Modify descriptor" 2011-06-04 RCSB #