data_LHH
#

_chem_comp.id                                   LHH
_chem_comp.name                                 "[(2~{R},3~{R},4~{R},5~{R})-5-(4-acetamido-2-oxidanylidene-pyrimidin-1-yl)-4-methoxy-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate"
_chem_comp.type                                 "RNA linking"
_chem_comp.pdbx_type                            ATOMN
_chem_comp.formula                              "C12 H18 N3 O9 P"
_chem_comp.mon_nstd_parent_comp_id              C
_chem_comp.pdbx_synonyms                        ?
_chem_comp.pdbx_formal_charge                   0
_chem_comp.pdbx_initial_date                    2019-08-15
_chem_comp.pdbx_modified_date                   2020-02-14
_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                       379.260
_chem_comp.one_letter_code                      C
_chem_comp.three_letter_code                    LHH
_chem_comp.pdbx_model_coordinates_details       ?
_chem_comp.pdbx_model_coordinates_missing_flag  Y
_chem_comp.pdbx_ideal_coordinates_details       Corina
_chem_comp.pdbx_ideal_coordinates_missing_flag  N
_chem_comp.pdbx_model_coordinates_db_code       ?
_chem_comp.pdbx_subcomponent_list               ?
_chem_comp.pdbx_processing_site                 EBI
#   #
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
LHH  C4     C1   C  0  1  N  N  N  ?  ?  ?  -3.908   0.514   0.589  C4     LHH   1  
LHH  C5     C2   C  0  1  N  N  N  ?  ?  ?  -3.744  -0.490   1.563  C5     LHH   2  
LHH  C6     C3   C  0  1  N  N  N  ?  ?  ?  -2.559  -1.143   1.639  C6     LHH   3  
LHH  N1     N1   N  0  1  N  N  N  ?  ?  ?  -1.559  -0.813   0.774  N1     LHH   4  
LHH  C7     C4   C  0  1  N  N  N  ?  ?  ?  -5.262   2.152  -0.448  C7     LHH   5  
LHH  N3     N2   N  0  1  N  N  N  ?  ?  ?  -2.908   0.802  -0.232  N3     LHH   6  
LHH  N4     N3   N  0  1  N  N  N  ?  ?  ?  -5.108   1.192   0.486  N4     LHH   7  
LHH  C1     C5   C  0  1  N  N  N  ?  ?  ?  -1.041  -4.167  -1.603  C1     LHH   8  
LHH  C2     C6   C  0  1  N  N  N  ?  ?  ?  -1.748   0.152  -0.145  C2     LHH   9  
LHH  "C1'"  C7   C  0  1  N  N  R  ?  ?  ?  -0.273  -1.510   0.846  "C1'"  LHH  10  
LHH  "C2'"  C8   C  0  1  N  N  R  ?  ?  ?  -0.025  -2.331  -0.445  "C2'"  LHH  11  
LHH  "C3'"  C9   C  0  1  N  N  R  ?  ?  ?   1.520  -2.434  -0.472  "C3'"  LHH  12  
LHH  "C4'"  C10  C  0  1  N  N  R  ?  ?  ?   1.991  -1.272   0.424  "C4'"  LHH  13  
LHH  "C5'"  C11  C  0  1  N  N  N  ?  ?  ?   2.898  -0.333  -0.375  "C5'"  LHH  14  
LHH  CM7    C12  C  0  1  N  N  N  ?  ?  ?  -6.570   2.891  -0.560  CM7    LHH  15  
LHH  O2     O1   O  0  1  N  N  N  ?  ?  ?  -0.842   0.435  -0.912  O2     LHH  16  
LHH  "O2'"  O2   O  0  1  N  N  N  ?  ?  ?  -0.620  -3.626  -0.349  "O2'"  LHH  17  
LHH  "O3'"  O3   O  0  1  N  N  N  ?  ?  ?   1.947  -3.686   0.067  "O3'"  LHH  18  
LHH  "O4'"  O4   O  0  1  N  N  N  ?  ?  ?   0.818  -0.565   0.860  "O4'"  LHH  19  
LHH  "O5'"  O5   O  0  1  N  N  N  ?  ?  ?   3.422   0.674   0.492  "O5'"  LHH  20  
LHH  O7     O6   O  0  1  N  N  N  ?  ?  ?  -4.347   2.422  -1.197  O7     LHH  21  
LHH  OP1    O7   O  0  1  N  N  N  ?  ?  ?   5.806   1.178  -0.496  OP1    LHH  22  
LHH  OP2    O8   O  0  1  N  N  N  ?  ?  ?   3.795   2.560  -1.143  OP2    LHH  23  
LHH  P      P1   P  0  1  N  N  N  ?  ?  ?   4.417   1.835  -0.013  P      LHH  24  
LHH  H1     H1   H  0  1  N  N  N  ?  ?  ?  -4.549  -0.735   2.239  H1     LHH  25  
LHH  H2     H2   H  0  1  N  N  N  ?  ?  ?  -2.408  -1.916   2.378  H2     LHH  26  
LHH  H3     H3   H  0  1  N  N  N  ?  ?  ?  -5.840   0.977   1.085  H3     LHH  27  
LHH  H4     H4   H  0  1  N  N  N  ?  ?  ?  -1.482  -5.151  -1.445  H4     LHH  28  
LHH  H5     H5   H  0  1  N  N  N  ?  ?  ?  -1.781  -3.505  -2.055  H5     LHH  29  
LHH  H6     H6   H  0  1  N  N  N  ?  ?  ?  -0.181  -4.257  -2.267  H6     LHH  30  
LHH  H7     H7   H  0  1  N  N  N  ?  ?  ?  -0.236  -2.156   1.724  H7     LHH  31  
LHH  H8     H8   H  0  1  N  N  N  ?  ?  ?  -0.394  -1.798  -1.322  H8     LHH  32  
LHH  H9     H9   H  0  1  N  N  N  ?  ?  ?   1.893  -2.307  -1.488  H9     LHH  33  
LHH  H10    H10  H  0  1  N  N  N  ?  ?  ?   2.532  -1.664   1.286  H10    LHH  34  
LHH  H11    H11  H  0  1  N  N  N  ?  ?  ?   3.719  -0.903  -0.808  H11    LHH  35  
LHH  H12    H12  H  0  1  N  N  N  ?  ?  ?   2.321   0.137  -1.171  H12    LHH  36  
LHH  H13    H13  H  0  1  N  N  N  ?  ?  ?  -6.546   3.773   0.080  H13    LHH  37  
LHH  H14    H14  H  0  1  N  N  N  ?  ?  ?  -6.727   3.198  -1.595  H14    LHH  38  
LHH  H15    H15  H  0  1  N  N  N  ?  ?  ?  -7.385   2.238  -0.248  H15    LHH  39  
LHH  H16    H16  H  0  1  N  N  N  ?  ?  ?   2.907  -3.804   0.075  H16    LHH  40  
LHH  H17    H17  H  0  1  N  N  N  ?  ?  ?   6.270   0.686   0.195  H17    LHH  41  
LHH  OP3    OP3  O  0  1  N  N  N  ?  ?  ?   4.701   2.862   1.193  OP3    LHH  42  
LHH  H18    H18  H  0  1  N  N  N  ?  ?  ?   5.294   3.589   0.960  H18    LHH  43  
#   #
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
LHH  O2     C2     DOUB  N  N   1  
LHH  C1     "O2'"  SING  N  N   2  
LHH  N3     C2     SING  N  N   3  
LHH  N3     C4     DOUB  N  N   4  
LHH  C2     N1     SING  N  N   5  
LHH  N4     C4     SING  N  N   6  
LHH  N4     C7     SING  N  N   7  
LHH  C4     C5     SING  N  N   8  
LHH  "O2'"  "C2'"  SING  N  N   9  
LHH  N1     "C1'"  SING  N  N  10  
LHH  N1     C6     SING  N  N  11  
LHH  "C1'"  "C2'"  SING  N  N  12  
LHH  "C1'"  "O4'"  SING  N  N  13  
LHH  O7     C7     DOUB  N  N  14  
LHH  "C2'"  "C3'"  SING  N  N  15  
LHH  C7     CM7    SING  N  N  16  
LHH  C5     C6     DOUB  N  N  17  
LHH  "O4'"  "C4'"  SING  N  N  18  
LHH  "C3'"  "C4'"  SING  N  N  19  
LHH  "C3'"  "O3'"  SING  N  N  20  
LHH  "C4'"  "C5'"  SING  N  N  21  
LHH  "C5'"  "O5'"  SING  N  N  22  
LHH  "O5'"  P      SING  N  N  23  
LHH  P      OP1    SING  N  N  24  
LHH  P      OP2    DOUB  N  N  25  
LHH  C5     H1     SING  N  N  26  
LHH  C6     H2     SING  N  N  27  
LHH  N4     H3     SING  N  N  28  
LHH  C1     H4     SING  N  N  29  
LHH  C1     H5     SING  N  N  30  
LHH  C1     H6     SING  N  N  31  
LHH  "C1'"  H7     SING  N  N  32  
LHH  "C2'"  H8     SING  N  N  33  
LHH  "C3'"  H9     SING  N  N  34  
LHH  "C4'"  H10    SING  N  N  35  
LHH  "C5'"  H11    SING  N  N  36  
LHH  "C5'"  H12    SING  N  N  37  
LHH  CM7    H13    SING  N  N  38  
LHH  CM7    H14    SING  N  N  39  
LHH  CM7    H15    SING  N  N  40  
LHH  "O3'"  H16    SING  N  N  41  
LHH  OP1    H17    SING  N  N  42  
LHH  P      OP3    SING  N  N  43  
LHH  OP3    H18    SING  N  N  44  
#   #
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
LHH  InChI             InChI                 1.03   "InChI=1S/C12H18N3O9P/c1-6(16)13-8-3-4-15(12(18)14-8)11-10(22-2)9(17)7(24-11)5-23-25(19,20)21/h3-4,7,9-11,17H,5H2,1-2H3,(H2,19,20,21)(H,13,14,16,18)/t7-,9-,10-,11-/m1/s1"  
LHH  InChIKey          InChI                 1.03   XSIWUOJELZFTTR-QCNRFFRDSA-N  
LHH  SMILES_CANONICAL  CACTVS                3.385  "CO[C@@H]1[C@H](O)[C@@H](CO[P](O)(O)=O)O[C@H]1N2C=CC(=NC2=O)NC(C)=O"  
LHH  SMILES            CACTVS                3.385  "CO[CH]1[CH](O)[CH](CO[P](O)(O)=O)O[CH]1N2C=CC(=NC2=O)NC(C)=O"  
LHH  SMILES_CANONICAL  "OpenEye OEToolkits"  2.0.7  "CC(=O)NC1=NC(=O)N(C=C1)[C@H]2[C@@H]([C@@H]([C@H](O2)COP(=O)(O)O)O)OC"  
LHH  SMILES            "OpenEye OEToolkits"  2.0.7  "CC(=O)NC1=NC(=O)N(C=C1)C2C(C(C(O2)COP(=O)(O)O)O)OC"  
#
_pdbx_chem_comp_identifier.comp_id          LHH
_pdbx_chem_comp_identifier.type             "SYSTEMATIC NAME"
_pdbx_chem_comp_identifier.program          "OpenEye OEToolkits"
_pdbx_chem_comp_identifier.program_version  2.0.7
_pdbx_chem_comp_identifier.identifier       "[(2~{R},3~{R},4~{R},5~{R})-5-(4-acetamido-2-oxidanylidene-pyrimidin-1-yl)-4-methoxy-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
LHH  "Create component"  2019-08-15  EBI   
LHH  "Initial release"   2020-02-19  RCSB  
##
