data_XUG
#

_chem_comp.id                                   XUG
_chem_comp.name                                 "2'-SE-METHYL-2'-SELENOGUANOSINE 5'-(DIHYDROGEN PHOSPHATE)"
_chem_comp.type                                 "DNA LINKING"
_chem_comp.pdbx_type                            ATOMN
_chem_comp.formula                              "C11 H16 N5 O7 P Se"
_chem_comp.mon_nstd_parent_comp_id              DG
_chem_comp.pdbx_synonyms                        "(D)-2'-METHYLSELENYL-2'-DEOXYGUANOSINE-5'-PHOSPHATE"
_chem_comp.pdbx_formal_charge                   0
_chem_comp.pdbx_initial_date                    2006-05-18
_chem_comp.pdbx_modified_date                   2021-03-01
_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                       440.208
_chem_comp.one_letter_code                      G
_chem_comp.three_letter_code                    XUG
_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  Y
_chem_comp.pdbx_model_coordinates_db_code       2H1M
_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
XUG  O6      O6    O   0  1  N  N  N  -18.257  31.299  -11.601  ?  ?  ?  O6      XUG   1  
XUG  C6      C6    C   0  1  N  N  N  -19.088  32.231  -11.552  ?  ?  ?  C6      XUG   2  
XUG  C5      C5    C   0  1  Y  N  N  -18.686  33.526  -11.233  ?  ?  ?  C5      XUG   3  
XUG  N7      N7    N   0  1  Y  N  N  -17.498  34.090  -10.936  ?  ?  ?  N7      XUG   4  
XUG  C8      C8    C   0  1  Y  N  N  -17.715  35.407  -10.713  ?  ?  ?  C8      XUG   5  
XUG  N1      N1    N   0  1  N  N  N  -20.394  31.984  -11.804  ?  ?  ?  N1      XUG   6  
XUG  C2      C2    C   0  1  N  N  N  -21.306  32.983  -11.751  ?  ?  ?  C2      XUG   7  
XUG  N2      N2    N   0  1  N  N  N  -22.610  32.736  -12.004  ?  ?  ?  N2      XUG   8  
XUG  N3      N3    N   0  1  N  N  N  -20.932  34.243  -11.447  ?  ?  ?  N3      XUG   9  
XUG  C4      C4    C   0  1  Y  N  N  -19.637  34.531  -11.187  ?  ?  ?  C4      XUG  10  
XUG  N9      N9    N   0  1  Y  N  N  -19.020  35.668  -10.869  ?  ?  ?  N9      XUG  11  
XUG  "C1'"   C1*   C   0  1  N  N  R  -19.687  36.984  -10.714  ?  ?  ?  "C1'"   XUG  12  
XUG  "O4'"   O4*   O   0  1  N  N  N  -18.713  38.002  -10.463  ?  ?  ?  "O4'"   XUG  13  
XUG  "C2'"   C2*   C   0  1  N  N  R  -20.595  36.927   -9.502  ?  ?  ?  "C2'"   XUG  14  
XUG  "SE2'"  SE2*  SE  0  0  N  N  N  -22.176  38.045   -9.828  ?  ?  ?  "SE2'"  XUG  15  
XUG  "CA'"   CA*   C   0  1  N  N  N  -23.247  36.750  -10.859  ?  ?  ?  "CA'"   XUG  16  
XUG  "C3'"   C3*   C   0  1  N  N  R  -19.755  37.550   -8.418  ?  ?  ?  "C3'"   XUG  17  
XUG  "O3'"   O3*   O   0  1  N  N  N  -20.493  38.205   -7.391  ?  ?  ?  "O3'"   XUG  18  
XUG  "C4'"   C4*   C   0  1  N  N  R  -18.886  38.535   -9.150  ?  ?  ?  "C4'"   XUG  19  
XUG  "C5'"   C5*   C   0  1  N  N  N  -17.574  38.633   -8.410  ?  ?  ?  "C5'"   XUG  20  
XUG  "O5'"   O5*   O   0  1  N  N  N  -16.756  39.517   -9.143  ?  ?  ?  "O5'"   XUG  21  
XUG  P       P     P   0  1  N  N  N  -15.215  39.144   -9.284  ?  ?  ?  P       XUG  22  
XUG  OP1     O1P   O   0  1  N  N  N  -14.481  39.930   -8.225  ?  ?  ?  OP1     XUG  23  
XUG  OP2     O2P   O   0  1  N  N  N  -15.095  37.637   -9.334  ?  ?  ?  OP2     XUG  24  
XUG  OP3     O3P   O   0  1  N  Y  N  -14.573  39.529  -10.491  ?  ?  ?  OP3     XUG  25  
XUG  H8      H8    H   0  1  N  N  N  -16.958  36.131  -10.451  ?  ?  ?  H8      XUG  26  
XUG  HN1     HN1   H   0  1  N  N  N  -20.688  31.056  -12.031  ?  ?  ?  HN1     XUG  27  
XUG  HN21    1HN2  H   0  0  N  N  N  -22.742  31.767  -12.215  ?  ?  ?  HN21    XUG  28  
XUG  HN22    2HN2  H   0  0  N  N  N  -23.337  33.422  -11.983  ?  ?  ?  HN22    XUG  29  
XUG  "H1'"   H1*   H   0  1  N  N  N  -20.248  37.209  -11.633  ?  ?  ?  "H1'"   XUG  30  
XUG  "H2'"   H2*   H   0  1  N  N  N  -20.944  35.913   -9.257  ?  ?  ?  "H2'"   XUG  31  
XUG  "HA'1"  1HA*  H   0  0  N  N  N  -23.446  37.155  -11.862  ?  ?  ?  "HA'1"  XUG  32  
XUG  "HA'2"  2HA*  H   0  0  N  N  N  -22.692  35.805  -10.949  ?  ?  ?  "HA'2"  XUG  33  
XUG  "HA'3"  3HA*  H   0  0  N  N  N  -24.200  36.568  -10.341  ?  ?  ?  "HA'3"  XUG  34  
XUG  "H3'"   H3*   H   0  1  N  N  N  -19.200  36.769   -7.877  ?  ?  ?  "H3'"   XUG  35  
XUG  "HO3'"  H3T   H   0  0  N  Y  N  -19.930  38.351   -6.640  ?  ?  ?  "HO3'"  XUG  36  
XUG  "H4'"   H4*   H   0  1  N  N  N  -19.318  39.545   -9.210  ?  ?  ?  "H4'"   XUG  37  
XUG  "H5'"   1H5*  H   0  1  N  N  N  -17.737  39.017   -7.392  ?  ?  ?  "H5'"   XUG  38  
XUG  "H5''"  2H5*  H   0  0  N  N  N  -17.100  37.645   -8.318  ?  ?  ?  "H5''"  XUG  39  
XUG  HOP2    2HOP  H   0  0  N  N  N  -14.175  37.414   -9.418  ?  ?  ?  HOP2    XUG  40  
XUG  HOP3    3HOP  H   0  0  N  N  N  -15.220  39.615  -11.181  ?  ?  ?  HOP3    XUG  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
XUG  O6      C6      DOUB  N  N   1  
XUG  C6      C5      SING  N  N   2  
XUG  C6      N1      SING  N  N   3  
XUG  C5      N7      SING  Y  N   4  
XUG  C5      C4      DOUB  Y  N   5  
XUG  N7      C8      DOUB  Y  N   6  
XUG  C8      N9      SING  Y  N   7  
XUG  C8      H8      SING  N  N   8  
XUG  N1      C2      SING  N  N   9  
XUG  N1      HN1     SING  N  N  10  
XUG  C2      N2      SING  N  N  11  
XUG  C2      N3      DOUB  N  N  12  
XUG  N2      HN21    SING  N  N  13  
XUG  N2      HN22    SING  N  N  14  
XUG  N3      C4      SING  N  N  15  
XUG  C4      N9      SING  Y  N  16  
XUG  N9      "C1'"   SING  N  N  17  
XUG  "C1'"   "O4'"   SING  N  N  18  
XUG  "C1'"   "C2'"   SING  N  N  19  
XUG  "C1'"   "H1'"   SING  N  N  20  
XUG  "O4'"   "C4'"   SING  N  N  21  
XUG  "C2'"   "SE2'"  SING  N  N  22  
XUG  "C2'"   "C3'"   SING  N  N  23  
XUG  "C2'"   "H2'"   SING  N  N  24  
XUG  "SE2'"  "CA'"   SING  N  N  25  
XUG  "CA'"   "HA'1"  SING  N  N  26  
XUG  "CA'"   "HA'2"  SING  N  N  27  
XUG  "CA'"   "HA'3"  SING  N  N  28  
XUG  "C3'"   "O3'"   SING  N  N  29  
XUG  "C3'"   "C4'"   SING  N  N  30  
XUG  "C3'"   "H3'"   SING  N  N  31  
XUG  "O3'"   "HO3'"  SING  N  N  32  
XUG  "C4'"   "C5'"   SING  N  N  33  
XUG  "C4'"   "H4'"   SING  N  N  34  
XUG  "C5'"   "O5'"   SING  N  N  35  
XUG  "C5'"   "H5'"   SING  N  N  36  
XUG  "C5'"   "H5''"  SING  N  N  37  
XUG  "O5'"   P       SING  N  N  38  
XUG  P       OP1     DOUB  N  N  39  
XUG  P       OP2     SING  N  N  40  
XUG  P       OP3     SING  N  N  41  
XUG  OP2     HOP2    SING  N  N  42  
XUG  OP3     HOP3    SING  N  N  43  
#   #
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
XUG  SMILES            ACDLabs               10.04  "O=C1c2ncn(c2N=C(N)N1)C3OC(C(O)C3[Se]C)COP(=O)(O)O"  
XUG  SMILES_CANONICAL  CACTVS                3.341  "C[Se][C@@H]1[C@H](O)[C@@H](CO[P](O)(O)=O)O[C@H]1n2cnc3C(=O)NC(=Nc23)N"  
XUG  SMILES            CACTVS                3.341  "C[Se][CH]1[CH](O)[CH](CO[P](O)(O)=O)O[CH]1n2cnc3C(=O)NC(=Nc23)N"  
XUG  SMILES_CANONICAL  "OpenEye OEToolkits"  1.5.0  "C[Se][C@@H]1[C@@H]([C@H](O[C@H]1n2cnc3c2N=C(NC3=O)N)COP(=O)(O)O)O"  
XUG  SMILES            "OpenEye OEToolkits"  1.5.0  "C[Se]C1C(C(OC1n2cnc3c2N=C(NC3=O)N)COP(=O)(O)O)O"  
XUG  InChI             InChI                 1.03   "InChI=1S/C11H16N5O7PSe/c1-25-7-6(17)4(2-22-24(19,20)21)23-10(7)16-3-13-5-8(16)14-11(12)15-9(5)18/h3-4,6-7,10,17H,2H2,1H3,(H2,19,20,21)(H3,12,14,15,18)/t4-,6-,7-,10-/m1/s1"  
XUG  InChIKey          InChI                 1.03   VGEIDTKNQDSGED-KQYNXXCUSA-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
XUG  "SYSTEMATIC NAME"  ACDLabs               10.04  "2'-Se-methyl-2'-selenoguanosine 5'-(dihydrogen phosphate)"  
XUG  "SYSTEMATIC NAME"  "OpenEye OEToolkits"  1.5.0  "[(2R,3R,4R,5R)-5-(2-amino-6-oxo-1H-purin-9-yl)-3-hydroxy-4-methylselanyl-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
XUG  "Create component"   2006-05-18  RCSB  
XUG  "Modify descriptor"  2011-06-04  RCSB  
XUG  "Modify synonyms"    2021-03-01  PDBE  
#
_pdbx_chem_comp_synonyms.ordinal     1
_pdbx_chem_comp_synonyms.comp_id     XUG
_pdbx_chem_comp_synonyms.name        "(D)-2'-METHYLSELENYL-2'-DEOXYGUANOSINE-5'-PHOSPHATE"
_pdbx_chem_comp_synonyms.provenance  ?
_pdbx_chem_comp_synonyms.type        ?
##
