data_UOA
# 
_chem_comp.id                                    UOA 
_chem_comp.name                                  "[(2R,3S,4R,5R)-5-(2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)-3-hydroxy-2,4-dimethoxytetrahydrofuran-2-yl]methyl dihydrogen phosphate (non-preferred name)" 
_chem_comp.type                                  "RNA linking" 
_chem_comp.pdbx_type                             ATOMN 
_chem_comp.formula                               "C11 H17 N2 O10 P" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2018-04-06 
_chem_comp.pdbx_modified_date                    2018-09-27 
_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                        368.234 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     UOA 
_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        6CY2 
_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 
UOA "C''" C1   C 0 1 N N N 9.088  -7.603  -10.607 3.555  -2.356 1.239  "C''" UOA 1  
UOA "C1'" C2   C 0 1 N N R 11.967 -7.467  -10.278 1.333  -0.821 -0.544 "C1'" UOA 2  
UOA C2    C3   C 0 1 N N N 12.159 -5.174  -9.625  2.234  1.172  0.517  C2    UOA 3  
UOA "C2'" C4   C 0 1 N N R 11.178 -7.594  -11.517 1.310  -1.667 0.755  "C2'" UOA 4  
UOA "C3'" C5   C 0 1 N N S 12.169 -8.277  -12.430 -0.126 -2.244 0.741  "C3'" UOA 5  
UOA C4    C6   C 0 1 N N N 14.209 -3.939  -9.692  4.178  2.228  -0.233 C4    UOA 6  
UOA "C4'" C7   C 0 1 N N R 12.820 -9.271  -11.518 -0.906 -1.293 -0.189 "C4'" UOA 7  
UOA C5    C8   C 0 1 N N N 14.880 -5.044  -10.219 4.302  1.253  -1.251 C5    UOA 8  
UOA "C5'" C9   C 0 1 N N N 14.042 -9.941  -12.029 -2.085 -0.678 0.567  "C5'" UOA 9  
UOA C6    C10  C 0 1 N N N 14.152 -6.210  -10.436 3.371  0.279  -1.345 C6    UOA 10 
UOA CMC   C11  C 0 1 N N N 12.149 -11.161 -10.063 -2.047 -1.194 -2.294 CMC   UOA 11 
UOA N1    N1   N 0 1 N N N 12.778 -6.245  -10.127 2.337  0.242  -0.449 N1    UOA 12 
UOA N3    N2   N 0 1 N N N 12.865 -4.017  -9.404  3.142  2.159  0.627  N3    UOA 13 
UOA O2    O1   O 0 1 N N N 10.959 -5.196  -9.354  1.305  1.122  1.300  O2    UOA 14 
UOA "O2'" O2   O 0 1 N N N 10.020 -8.447  -11.241 2.281  -2.714 0.698  "O2'" UOA 15 
UOA "O3'" O3   O 0 1 N N N 11.469 -8.917  -13.480 -0.127 -3.572 0.213  "O3'" UOA 16 
UOA O4    O4   O 0 1 N N N 14.772 -2.871  -9.450  5.001  3.121  -0.134 O4    UOA 17 
UOA "O4'" O5   O 0 1 N N N 12.971 -8.567  -10.276 0.004  -0.261 -0.604 "O4'" UOA 18 
UOA "O5'" O6   O 0 1 N N N 14.999 -8.789  -12.141 -2.719 0.303  -0.256 "O5'" UOA 19 
UOA OP1   O7   O 0 1 N N N 16.940 -10.040 -13.189 -4.526 2.062  -0.999 OP1   UOA 20 
UOA OP2   O8   O 0 1 N N N 17.177 -7.641  -12.321 -5.075 0.228  0.646  OP2   UOA 21 
UOA P     P1   P 0 1 N N N 16.582 -8.998  -12.206 -4.000 1.153  0.221  P     UOA 22 
UOA OCM   O9   O 0 1 N N N 11.856 -10.407 -11.352 -1.381 -2.011 -1.329 OCM   UOA 23 
UOA "H''" H1   H 0 1 N N N 8.180  -8.175  -10.365 4.235  -3.204 1.159  "H''" UOA 24 
UOA H5X   H2   H 0 1 N N N 9.527  -7.202  -9.681  3.961  -1.511 0.683  H5X   UOA 25 
UOA H5W   H3   H 0 1 N N N 8.829  -6.772  -11.280 3.440  -2.080 2.287  H5W   UOA 26 
UOA "H1'" H4   H 0 1 N N N 11.304 -7.578  -9.407  1.524  -1.452 -1.412 "H1'" UOA 27 
UOA "H2'" H5   H 0 1 N N N 10.880 -6.612  -11.914 1.469  -1.039 1.631  "H2'" UOA 28 
UOA "H3'" H6   H 0 1 N N N 12.907 -7.554  -12.808 -0.552 -2.231 1.744  "H3'" UOA 29 
UOA H5    H7   H 0 1 N N N 15.934 -4.995  -10.452 5.126  1.291  -1.949 H5    UOA 30 
UOA H5S   H8   H 0 1 N N N 13.862 -10.409 -13.008 -2.803 -1.460 0.819  H5S   UOA 31 
UOA "H5'" H9   H 0 1 N N N 14.409 -10.699 -11.322 -1.725 -0.207 1.482  "H5'" UOA 32 
UOA H6    H10  H 0 1 N N N 14.639 -7.085  -10.840 3.449  -0.474 -2.115 H6    UOA 33 
UOA HMC   H11  H 0 1 N N N 11.436 -11.991 -9.953  -2.264 -1.785 -3.184 HMC   UOA 34 
UOA H5U   H12  H 0 1 N N N 13.173 -11.560 -10.097 -2.980 -0.820 -1.871 H5U   UOA 35 
UOA H5V   H13  H 0 1 N N N 12.050 -10.477 -9.207  -1.407 -0.354 -2.563 H5V   UOA 36 
UOA H3    H14  H 0 1 N N N 12.395 -3.218  -9.028  3.050  2.824  1.327  H3    UOA 37 
UOA H1    H15  H 0 1 N N N 11.068 -8.262  -14.039 0.350  -4.212 0.758  H1    UOA 38 
UOA H2    H16  H 0 1 N N N 17.554 -9.683  -13.820 -5.298 2.603  -0.782 H2    UOA 39 
UOA OP3   OP3  O 0 1 N Y N 16.944 -9.639  -10.778 -3.587 2.099  1.457  OP3   UOA 40 
UOA HOP3  HOP3 H 0 0 N Y N 17.471 -9.025  -10.279 -2.886 2.731  1.250  HOP3  UOA 41 
# 
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 
UOA "O3'" "C3'" SING N N 1  
UOA OP1   P     SING N N 2  
UOA "C3'" "C4'" SING N N 3  
UOA "C3'" "C2'" SING N N 4  
UOA OP2   P     DOUB N N 5  
UOA P     "O5'" SING N N 6  
UOA "O5'" "C5'" SING N N 7  
UOA "C5'" "C4'" SING N N 8  
UOA "C4'" OCM   SING N N 9  
UOA "C4'" "O4'" SING N N 10 
UOA "C2'" "O2'" SING N N 11 
UOA "C2'" "C1'" SING N N 12 
UOA OCM   CMC   SING N N 13 
UOA "O2'" "C''" SING N N 14 
UOA C6    C5    DOUB N N 15 
UOA C6    N1    SING N N 16 
UOA "C1'" "O4'" SING N N 17 
UOA "C1'" N1    SING N N 18 
UOA C5    C4    SING N N 19 
UOA N1    C2    SING N N 20 
UOA C4    O4    DOUB N N 21 
UOA C4    N3    SING N N 22 
UOA C2    N3    SING N N 23 
UOA C2    O2    DOUB N N 24 
UOA "C''" "H''" SING N N 25 
UOA "C''" H5X   SING N N 26 
UOA "C''" H5W   SING N N 27 
UOA "C1'" "H1'" SING N N 28 
UOA "C2'" "H2'" SING N N 29 
UOA "C3'" "H3'" SING N N 30 
UOA C5    H5    SING N N 31 
UOA "C5'" H5S   SING N N 32 
UOA "C5'" "H5'" SING N N 33 
UOA C6    H6    SING N N 34 
UOA CMC   HMC   SING N N 35 
UOA CMC   H5U   SING N N 36 
UOA CMC   H5V   SING N N 37 
UOA N3    H3    SING N N 38 
UOA "O3'" H1    SING N N 39 
UOA OP1   H2    SING N N 40 
UOA P     OP3   SING N N 41 
UOA OP3   HOP3  SING N N 42 
# 
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 
UOA SMILES           ACDLabs              12.01 "COC1C(OC(C1O)(OC)COP(O)(=O)O)N2C(NC(=O)C=C2)=O"                                                                                                                  
UOA InChI            InChI                1.03  "InChI=1S/C11H17N2O10P/c1-20-7-8(15)11(21-2,5-22-24(17,18)19)23-9(7)13-4-3-6(14)12-10(13)16/h3-4,7-9,15H,5H2,1-2H3,(H,12,14,16)(H2,17,18,19)/t7-,8+,9-,11-/m1/s1" 
UOA InChIKey         InChI                1.03  PQPFDVLUCHRYPP-PKIKSRDPSA-N                                                                                                                                       
UOA SMILES_CANONICAL CACTVS               3.385 "CO[C@@H]1[C@H](O)[C@](CO[P](O)(O)=O)(OC)O[C@H]1N2C=CC(=O)NC2=O"                                                                                                  
UOA SMILES           CACTVS               3.385 "CO[CH]1[CH](O)[C](CO[P](O)(O)=O)(OC)O[CH]1N2C=CC(=O)NC2=O"                                                                                                       
UOA SMILES_CANONICAL "OpenEye OEToolkits" 2.0.6 "CO[C@@H]1[C@@H]([C@](O[C@H]1N2C=CC(=O)NC2=O)(COP(=O)(O)O)OC)O"                                                                                                   
UOA SMILES           "OpenEye OEToolkits" 2.0.6 "COC1C(C(OC1N2C=CC(=O)NC2=O)(COP(=O)(O)O)OC)O"                                                                                                                    
# 
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 
UOA "SYSTEMATIC NAME" ACDLabs              12.01 "[(2R,3S,4R,5R)-5-(2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)-3-hydroxy-2,4-dimethoxytetrahydrofuran-2-yl]methyl dihydrogen phosphate (non-preferred name)" 
UOA "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.6 "[(2~{R},3~{S},4~{R},5~{R})-5-[2,4-bis(oxidanylidene)pyrimidin-1-yl]-2,4-dimethoxy-3-oxidanyl-oxolan-2-yl]methyl dihydrogen 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 
UOA "Create component" 2018-04-06 RCSB 
UOA "Initial release"  2018-08-29 RCSB 
UOA "Modify atom id"   2018-09-27 RCSB 
# 
