data_AWC
#

_chem_comp.id                                   AWC
_chem_comp.name                                 "2'-deoxy-5'-O-[(R)-hydroxy(oxo)-lambda~5~-phosphanyl]-5-selenophen-2-yluridine"
_chem_comp.type                                 "DNA linking"
_chem_comp.pdbx_type                            ATOMN
_chem_comp.formula                              "C13 H15 N2 O7 P Se"
_chem_comp.mon_nstd_parent_comp_id              ?
_chem_comp.pdbx_synonyms                        ?
_chem_comp.pdbx_formal_charge                   0
_chem_comp.pdbx_initial_date                    2018-11-28
_chem_comp.pdbx_modified_date                   2019-05-10
_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                       421.201
_chem_comp.one_letter_code                      ?
_chem_comp.three_letter_code                    AWC
_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       6IP7
_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
AWC  P      P1   P   0  1  N  N  N   4.285  10.966  -5.664   5.996   1.490  -0.720  P      AWC   1  
AWC  "C5'"  C1   C   0  1  N  N  N   2.064  12.347  -5.980   4.404  -0.434   0.229  "C5'"  AWC   2  
AWC  "O5'"  O1   O   0  1  N  N  N   2.740  11.285  -5.321   4.735   0.952   0.123  "O5'"  AWC   3  
AWC  "C4'"  C2   C   0  1  N  N  R   0.705  12.246  -5.291   3.155  -0.596   1.099  "C4'"  AWC   4  
AWC  "O4'"  O2   O   0  1  N  N  N   0.869  12.567  -3.905   2.003  -0.021   0.445  "O4'"  AWC   5  
AWC  "C3'"  C3   C   0  1  N  N  S  -0.296  13.221  -5.850   2.780  -2.092   1.242  "C3'"  AWC   6  
AWC  "O3'"  O3   O   0  1  N  N  N  -1.504  12.459  -5.978   3.491  -2.695   2.325  "O3'"  AWC   7  
AWC  "C2'"  C4   C   0  1  N  N  N  -0.439  14.305  -4.810   1.265  -2.019   1.550  "C2'"  AWC   8  
AWC  "C1'"  C5   C   0  1  N  N  R  -0.205  13.478  -3.552   0.841  -0.631   1.031  "C1'"  AWC   9  
AWC  N1     N1   N   0  1  N  N  N   0.195  14.235  -2.336  -0.208  -0.776   0.019  N1     AWC  10  
AWC  C2     C6   C   0  1  N  N  N  -0.210  13.764  -1.132   0.074  -1.404  -1.134  C2     AWC  11  
AWC  O2     O4   O   0  1  N  N  N  -0.908  12.744  -1.040   1.196  -1.838  -1.311  O2     AWC  12  
AWC  N3     N2   N   0  1  N  N  N   0.149  14.440   0.047  -0.847  -1.567  -2.099  N3     AWC  13  
AWC  C4     C7   C   0  1  N  N  N   0.939  15.604  -0.001  -2.101  -1.097  -1.932  C4     AWC  14  
AWC  O4     O5   O   0  1  N  N  N   1.207  16.118   1.087  -2.940  -1.241  -2.802  O4     AWC  15  
AWC  C5     C8   C   0  1  N  N  N   1.378  16.100  -1.247  -2.433  -0.405  -0.676  C5     AWC  16  
AWC  C6     C9   C   0  1  N  N  N   1.006  15.410  -2.413  -1.452  -0.276   0.270  C6     AWC  17  
AWC  OP1    O6   O   0  1  N  N  N   4.803   9.809  -4.887   5.849   3.077  -0.952  OP1    AWC  18  
AWC  OP2    O7   O   0  1  N  N  N   4.421  10.830  -7.124   7.244   1.214   0.027  OP2    AWC  19  
AWC  C7     C10  C   0  1  Y  N  N   2.138  17.205  -1.342  -3.783   0.128  -0.441  C7     AWC  20  
AWC  C8     C11  C   0  1  Y  N  N   2.703  17.713  -2.454  -4.871   0.085  -1.248  C8     AWC  21  
AWC  C9     C12  C   0  1  Y  N  N   3.442  18.866  -2.333  -6.122   0.663  -0.854  C9     AWC  22  
AWC  C10    C13  C   0  1  Y  N  N   3.569  19.418  -1.108  -6.286   1.274   0.326  C10    AWC  23  
AWC  SE     SE1  SE  0  0  Y  N  N   2.593  18.324   0.126  -4.490   1.089   1.141  SE     AWC  24  
AWC  H5S    H1   H   0  1  N  N  N   2.547  13.318  -5.795   4.210  -0.838  -0.764  H5S    AWC  25  
AWC  "H5'"  H2   H   0  1  N  N  N   1.988  12.175  -7.064   5.236  -0.973   0.684  "H5'"  AWC  26  
AWC  "H4'"  H3   H   0  1  N  N  N   0.320  11.222  -5.404   3.309  -0.140   2.077  "H4'"  AWC  27  
AWC  "H3'"  H4   H   0  1  N  N  N   0.043  13.634  -6.812   2.962  -2.630   0.312  "H3'"  AWC  28  
AWC  H1     H5   H   0  1  N  N  N  -2.192  13.012  -6.329   3.290  -3.632   2.455  H1     AWC  29  
AWC  H5T    H6   H   0  1  N  N  N   0.320  15.092  -4.931   0.729  -2.805   1.018  H5T    AWC  30  
AWC  "H2'"  H7   H   0  1  N  N  N  -1.442  14.757  -4.823   1.089  -2.095   2.623  "H2'"  AWC  31  
AWC  "H1'"  H8   H   0  1  N  N  N  -1.118  12.904  -3.334   0.479  -0.021   1.858  "H1'"  AWC  32  
AWC  H3     H9   H   0  1  N  N  N  -0.161  14.090   0.931  -0.610  -2.026  -2.921  H3     AWC  33  
AWC  H6     H10  H   0  1  N  N  N   1.336  15.770  -3.376  -1.660   0.221   1.206  H6     AWC  34  
AWC  H2     H11  H   0  1  N  N  N   5.146   9.154  -5.484   6.576   3.470  -1.454  H2     AWC  35  
AWC  H4     H12  H   0  1  N  N  N   5.022  12.113  -5.266   6.042   0.831  -1.977  H4     AWC  36  
AWC  H8     H13  H   0  1  N  N  N   2.579  17.229  -3.412  -4.793  -0.396  -2.212  H8     AWC  37  
AWC  H9     H14  H   0  1  N  N  N   3.909  19.318  -3.196  -6.960   0.605  -1.533  H9     AWC  38  
AWC  H10    H15  H   0  1  N  N  N   4.121  20.314  -0.867  -7.171   1.743   0.730  H10    AWC  39  
#   #
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
AWC  OP2    P      DOUB  N  N   1  
AWC  "C5'"  "O5'"  SING  N  N   2  
AWC  "C5'"  "C4'"  SING  N  N   3  
AWC  "O3'"  "C3'"  SING  N  N   4  
AWC  "C3'"  "C4'"  SING  N  N   5  
AWC  "C3'"  "C2'"  SING  N  N   6  
AWC  P      "O5'"  SING  N  N   7  
AWC  P      OP1    SING  N  N   8  
AWC  "C4'"  "O4'"  SING  N  N   9  
AWC  "C2'"  "C1'"  SING  N  N  10  
AWC  "O4'"  "C1'"  SING  N  N  11  
AWC  "C1'"  N1     SING  N  N  12  
AWC  C8     C9     SING  Y  N  13  
AWC  C8     C7     DOUB  Y  N  14  
AWC  C6     N1     SING  N  N  15  
AWC  C6     C5     DOUB  N  N  16  
AWC  N1     C2     SING  N  N  17  
AWC  C9     C10    DOUB  Y  N  18  
AWC  C7     C5     SING  N  N  19  
AWC  C7     SE     SING  Y  N  20  
AWC  C5     C4     SING  N  N  21  
AWC  C2     O2     DOUB  N  N  22  
AWC  C2     N3     SING  N  N  23  
AWC  C10    SE     SING  Y  N  24  
AWC  C4     N3     SING  N  N  25  
AWC  C4     O4     DOUB  N  N  26  
AWC  "C5'"  H5S    SING  N  N  27  
AWC  "C5'"  "H5'"  SING  N  N  28  
AWC  "C4'"  "H4'"  SING  N  N  29  
AWC  "C3'"  "H3'"  SING  N  N  30  
AWC  "O3'"  H1     SING  N  N  31  
AWC  "C2'"  H5T    SING  N  N  32  
AWC  "C2'"  "H2'"  SING  N  N  33  
AWC  "C1'"  "H1'"  SING  N  N  34  
AWC  N3     H3     SING  N  N  35  
AWC  C6     H6     SING  N  N  36  
AWC  OP1    H2     SING  N  N  37  
AWC  C8     H8     SING  N  N  38  
AWC  C9     H9     SING  N  N  39  
AWC  C10    H10    SING  N  N  40  
AWC  P      H4     SING  N  N  41  
#   #
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
AWC  SMILES            ACDLabs               12.01  "P(OCC1OC(CC1O)N2C(=O)NC(=O)C(=C2)c3[se]ccc3)(O)=O"  
AWC  InChI             InChI                 1.03   "InChI=1S/C13H15N2O7PSe/c16-8-4-11(22-9(8)6-21-23(19)20)15-5-7(10-2-1-3-24-10)12(17)14-13(15)18/h1-3,5,8-9,11,16,23H,4,6H2,(H,19,20)(H,14,17,18)/t8-,9+,11+/m0/s1"  
AWC  InChIKey          InChI                 1.03   WYJQDKVLIYFCFU-IQJOONFLSA-N  
AWC  SMILES_CANONICAL  CACTVS                3.385  "O[C@H]1C[C@@H](O[C@@H]1CO[PH](O)=O)N2C=C(C(=O)NC2=O)c3[se]ccc3"  
AWC  SMILES            CACTVS                3.385  "O[CH]1C[CH](O[CH]1CO[PH](O)=O)N2C=C(C(=O)NC2=O)c3[se]ccc3"  
AWC  SMILES_CANONICAL  "OpenEye OEToolkits"  2.0.6  "c1cc([se]c1)C2=CN(C(=O)NC2=O)[C@H]3C[C@@H]([C@H](O3)COP(=O)O)O"  
AWC  SMILES            "OpenEye OEToolkits"  2.0.6  "c1cc([se]c1)C2=CN(C(=O)NC2=O)C3CC(C(O3)COP(=O)O)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
AWC  "SYSTEMATIC NAME"  ACDLabs               12.01  "2'-deoxy-5'-O-[(R)-hydroxy(oxo)-lambda~5~-phosphanyl]-5-selenophen-2-yluridine"  
AWC  "SYSTEMATIC NAME"  "OpenEye OEToolkits"  2.0.6  "[(2~{R},3~{S},5~{R})-5-[2,4-bis(oxidanylidene)-5-selenophen-2-yl-pyrimidin-1-yl]-3-oxidanyl-oxolan-2-yl]methoxyphosphinic acid"  
#   #
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
AWC  "Create component"  2018-11-28  RCSB  
AWC  "Initial release"   2019-05-15  RCSB  
##
