data_CMK
#

_chem_comp.id                                   CMK
_chem_comp.name                                 "CYTIDINE 5'-MONOPHOSPHATE 3-DEOXY-BETA-D-GULO-OCT-2-ULO-PYRANOSONIC ACID"
_chem_comp.type                                 NON-POLYMER
_chem_comp.pdbx_type                            HETAIN
_chem_comp.formula                              "C17 H26 N3 O15 P"
_chem_comp.mon_nstd_parent_comp_id              ?
_chem_comp.pdbx_synonyms                        "CMP-2-KETO-3-DEOXY-OCTULOSONIC ACID"
_chem_comp.pdbx_formal_charge                   0
_chem_comp.pdbx_initial_date                    2001-11-21
_chem_comp.pdbx_modified_date                   2020-06-17
_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                       543.373
_chem_comp.one_letter_code                      ?
_chem_comp.three_letter_code                    CMK
_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       1GQC
_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
CMK  N1C     N1C   N  0  1  Y  N  N  16.133  88.265  67.034   0.311  -0.423   5.611  N1C     CMK   1  
CMK  C2C     C2C   C  0  1  Y  N  N  15.872  89.363  66.266   0.727   0.851   5.501  C2C     CMK   2  
CMK  N3C     N3C   N  0  1  Y  N  N  15.142  89.208  65.012   1.643   1.349   6.328  N3C     CMK   3  
CMK  C4C     C4C   C  0  1  Y  N  N  14.720  88.055  64.586   2.171   0.598   7.286  C4C     CMK   4  
CMK  C5C     C5C   C  0  1  Y  N  N  15.015  86.872  65.442   1.761  -0.743   7.425  C5C     CMK   5  
CMK  C6C     C6C   C  0  1  Y  N  N  15.694  87.023  66.601   0.824  -1.233   6.580  C6C     CMK   6  
CMK  O2C     O2C   O  0  1  N  N  N  16.221  90.490  66.568   0.256   1.562   4.628  O2C     CMK   7  
CMK  N4C     N4C   N  0  1  N  N  N  14.067  87.915  63.460   3.117   1.124   8.135  N4C     CMK   8  
CMK  "C1'"   C1*   C  0  1  N  N  R  16.882  88.410  68.298  -0.698  -0.943   4.686  "C1'"   CMK   9  
CMK  "C2'"   C2*   C  0  1  N  N  R  16.223  87.747  69.530  -1.991  -0.103   4.773  "C2'"   CMK  10  
CMK  "O2'"   O2*   O  0  1  N  N  N  15.178  88.593  70.044  -2.956  -0.742   5.612  "O2'"   CMK  11  
CMK  "C3'"   C3*   C  0  1  N  N  S  17.402  87.539  70.490  -2.497  -0.043   3.313  "C3'"   CMK  12  
CMK  "C4'"   C4*   C  0  1  N  N  R  18.611  87.428  69.531  -1.452  -0.857   2.519  "C4'"   CMK  13  
CMK  "O4'"   O4*   O  0  1  N  N  N  18.161  87.797  68.234  -0.252  -0.797   3.320  "O4'"   CMK  14  
CMK  "O3'"   O3*   O  0  1  N  N  N  17.608  88.687  71.351  -3.788  -0.645   3.204  "O3'"   CMK  15  
CMK  "C5'"   C5*   C  0  1  N  N  N  19.237  86.024  69.418  -1.209  -0.223   1.148  "C5'"   CMK  16  
CMK  "O5'"   O5*   O  0  1  N  N  N  18.275  85.007  69.189  -0.187  -0.950   0.461  "O5'"   CMK  17  
CMK  PA      PA    P  0  1  N  N  S  18.013  83.587  69.860   0.014  -0.232  -0.965  PA      CMK  18  
CMK  O1A     O1A   O  0  1  N  N  N  17.539  83.682  71.280  -1.368  -0.275  -1.788  O1A     CMK  19  
CMK  O2A     O2A   O  0  1  N  N  N  16.976  82.864  69.061   0.421   1.174  -0.756  O2A     CMK  20  
CMK  O6      O6    O  0  1  N  N  N  21.406  81.735  69.291  -0.121  -0.464  -3.668  O6      CMK  21  
CMK  C2      C2    C  0  1  N  N  R  20.020  81.921  68.882   1.186  -0.419  -3.099  C2      CMK  22  
CMK  O2      O2    O  0  1  N  N  N  19.358  82.739  69.844   1.158  -1.004  -1.796  O2      CMK  23  
CMK  C3      C3    C  0  1  N  N  N  19.953  82.559  67.450   2.163  -1.197  -3.984  C3      CMK  24  
CMK  C4      C4    C  0  1  N  N  R  20.754  81.676  66.453   2.211  -0.542  -5.370  C4      CMK  25  
CMK  O4      O4    O  0  1  N  N  N  20.673  82.265  65.151   3.004  -1.341  -6.250  O4      CMK  26  
CMK  C5      C5    C  0  1  N  N  R  22.246  81.572  66.957   0.782  -0.436  -5.912  C5      CMK  27  
CMK  C6      C6    C  0  1  N  N  R  22.224  80.917  68.389  -0.090   0.283  -4.881  C6      CMK  28  
CMK  C7      C7    C  0  1  N  N  R  23.652  80.780  68.973  -1.512   0.422  -5.428  C7      CMK  29  
CMK  C1      C1    C  0  1  N  N  N  19.230  80.590  69.023   1.636   1.014  -2.996  C1      CMK  30  
CMK  O1X     O1X   O  0  1  N  N  N  19.195  80.066  70.236   0.735   1.988  -2.796  O1X     CMK  31  
CMK  O1Y     O1Y   O  0  1  N  N  N  18.650  80.041  68.105   2.809   1.288  -3.093  O1Y     CMK  32  
CMK  O5      O5    O  0  1  N  N  N  22.857  82.882  67.041   0.262  -1.746  -6.150  O5      CMK  33  
CMK  C8      C8    C  0  1  N  N  N  23.636  80.640  70.533  -2.386   1.142  -4.398  C8      CMK  34  
CMK  O8      O8    O  0  1  N  N  N  22.675  79.645  70.904  -3.714   1.272  -4.908  O8      CMK  35  
CMK  O7      O7    O  0  1  N  N  N  24.261  79.614  68.395  -1.485   1.178  -6.640  O7      CMK  36  
CMK  H5C     H5C   H  0  1  N  N  N  14.678  85.869  65.129   2.181  -1.367   8.200  H5C     CMK  37  
CMK  H6C     H6C   H  0  1  N  N  N  15.905  86.134  67.219   0.490  -2.257   6.669  H6C     CMK  38  
CMK  H4C1    1H4C  H  0  0  N  N  N  13.709  86.936  63.098   3.401   2.046   8.034  H4C1    CMK  39  
CMK  H4C2    2H4C  H  0  0  N  N  N  13.849  88.791  62.826   3.499   0.573   8.837  H4C2    CMK  40  
CMK  "H1'"   H1*   H  0  1  N  N  N  17.018  89.496  68.509  -0.910  -1.990   4.906  "H1'"   CMK  41  
CMK  "H2'"   H2*   H  0  1  N  N  N  15.797  86.758  69.240  -1.770   0.898   5.142  "H2'"   CMK  42  
CMK  HA      HA    H  0  1  N  N  N  14.773  88.186  70.801  -3.758  -0.202   5.576  HA      CMK  43  
CMK  "H3'"   H3*   H  0  1  N  N  N  17.275  86.606  71.087  -2.527   0.987   2.959  "H3'"   CMK  44  
CMK  "H4'"   H4*   H  0  1  N  N  N  19.397  88.148  69.858  -1.781  -1.890   2.406  "H4'"   CMK  45  
CMK  HB      HB    H  0  1  N  N  N  18.338  88.558  71.945  -4.397  -0.096   3.717  HB      CMK  46  
CMK  "H5'1"  1H5*  H  0  0  N  N  N  19.858  85.791  70.315  -2.130  -0.253   0.565  "H5'1"  CMK  47  
CMK  "H5'2"  2H5*  H  0  0  N  N  N  20.032  86.004  68.636  -0.894   0.811   1.277  "H5'2"  CMK  48  
CMK  HO1A    HO1A  H  0  0  N  N  N  17.383  82.835  71.680  -1.596  -1.207  -1.902  HO1A    CMK  49  
CMK  H3C1    1H3C  H  0  0  N  N  N  20.297  83.620  67.444   3.156  -1.176  -3.536  H3C1    CMK  50  
CMK  H3C2    2H3C  H  0  0  N  N  N  18.904  82.730  67.113   1.826  -2.229  -4.080  H3C2    CMK  51  
CMK  H4      H4    H  0  1  N  N  N  20.305  80.656  66.423   2.646   0.453  -5.288  H4      CMK  52  
CMK  HC      HC    H  0  1  N  N  N  21.163  81.725  64.542   3.889  -1.390  -5.863  HC      CMK  53  
CMK  H5      H5    H  0  1  N  N  N  22.833  80.929  66.260   0.786   0.128  -6.844  H5      CMK  54  
CMK  H6      H6    H  0  1  N  N  N  21.769  79.902  68.313   0.321   1.273  -4.686  H6      CMK  55  
CMK  H7      H7    H  0  1  N  N  N  24.248  81.680  68.693  -1.924  -0.566  -5.625  H7      CMK  56  
CMK  H1X     H1X   H  0  1  N  N  N  18.712  79.252  70.322   1.024   2.908  -2.729  H1X     CMK  57  
CMK  HD      HD    H  0  1  N  N  N  22.870  83.277  66.177   0.844  -2.164  -6.798  HD      CMK  58  
CMK  H8C1    1H8C  H  0  0  N  N  N  23.456  81.614  71.044  -2.407   0.566  -3.473  H8C1    CMK  59  
CMK  H8C2    2H8C  H  0  0  N  N  N  24.648  80.428  70.950  -1.974   2.132  -4.200  H8C2    CMK  60  
CMK  H8      H8    H  0  1  N  N  N  22.665  79.560  71.850  -4.230   1.730  -4.230  H8      CMK  61  
CMK  HE      HE    H  0  1  N  N  N  25.137  79.530  68.753  -1.115   2.044  -6.422  HE      CMK  62  
#   #
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
CMK  N1C    C2C     SING  Y  N   1  
CMK  N1C    C6C     SING  Y  N   2  
CMK  N1C    "C1'"   SING  N  N   3  
CMK  C2C    N3C     SING  Y  N   4  
CMK  C2C    O2C     DOUB  N  N   5  
CMK  N3C    C4C     DOUB  Y  N   6  
CMK  C4C    C5C     SING  Y  N   7  
CMK  C4C    N4C     SING  N  N   8  
CMK  C5C    C6C     DOUB  Y  N   9  
CMK  C5C    H5C     SING  N  N  10  
CMK  C6C    H6C     SING  N  N  11  
CMK  N4C    H4C1    SING  N  N  12  
CMK  N4C    H4C2    SING  N  N  13  
CMK  "C1'"  "C2'"   SING  N  N  14  
CMK  "C1'"  "O4'"   SING  N  N  15  
CMK  "C1'"  "H1'"   SING  N  N  16  
CMK  "C2'"  "O2'"   SING  N  N  17  
CMK  "C2'"  "C3'"   SING  N  N  18  
CMK  "C2'"  "H2'"   SING  N  N  19  
CMK  "O2'"  HA      SING  N  N  20  
CMK  "C3'"  "C4'"   SING  N  N  21  
CMK  "C3'"  "O3'"   SING  N  N  22  
CMK  "C3'"  "H3'"   SING  N  N  23  
CMK  "C4'"  "O4'"   SING  N  N  24  
CMK  "C4'"  "C5'"   SING  N  N  25  
CMK  "C4'"  "H4'"   SING  N  N  26  
CMK  "O3'"  HB      SING  N  N  27  
CMK  "C5'"  "O5'"   SING  N  N  28  
CMK  "C5'"  "H5'1"  SING  N  N  29  
CMK  "C5'"  "H5'2"  SING  N  N  30  
CMK  "O5'"  PA      SING  N  N  31  
CMK  PA     O1A     SING  N  N  32  
CMK  PA     O2A     DOUB  N  N  33  
CMK  PA     O2      SING  N  N  34  
CMK  O1A    HO1A    SING  N  N  35  
CMK  O6     C2      SING  N  N  36  
CMK  O6     C6      SING  N  N  37  
CMK  C2     O2      SING  N  N  38  
CMK  C2     C3      SING  N  N  39  
CMK  C2     C1      SING  N  N  40  
CMK  C3     C4      SING  N  N  41  
CMK  C3     H3C1    SING  N  N  42  
CMK  C3     H3C2    SING  N  N  43  
CMK  C4     O4      SING  N  N  44  
CMK  C4     C5      SING  N  N  45  
CMK  C4     H4      SING  N  N  46  
CMK  O4     HC      SING  N  N  47  
CMK  C5     C6      SING  N  N  48  
CMK  C5     O5      SING  N  N  49  
CMK  C5     H5      SING  N  N  50  
CMK  C6     C7      SING  N  N  51  
CMK  C6     H6      SING  N  N  52  
CMK  C7     C8      SING  N  N  53  
CMK  C7     O7      SING  N  N  54  
CMK  C7     H7      SING  N  N  55  
CMK  C1     O1X     SING  N  N  56  
CMK  C1     O1Y     DOUB  N  N  57  
CMK  O1X    H1X     SING  N  N  58  
CMK  O5     HD      SING  N  N  59  
CMK  C8     O8      SING  N  N  60  
CMK  C8     H8C1    SING  N  N  61  
CMK  C8     H8C2    SING  N  N  62  
CMK  O8     H8      SING  N  N  63  
CMK  O7     HE      SING  N  N  64  
#   #
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
CMK  SMILES            ACDLabs               10.04  "O=C(O)C1(OC(C(O)CO)C(O)C(O)C1)OP(=O)(O)OCC3OC(N2C(=O)N=C(N)C=C2)C(O)C3O"  
CMK  SMILES_CANONICAL  CACTVS                3.341  "NC1=NC(=O)N(C=C1)[C@@H]2O[C@H](CO[P@@](O)(=O)O[C@]3(C[C@@H](O)[C@@H](O)[C@H](O3)[C@H](O)CO)C(O)=O)[C@@H](O)[C@H]2O"  
CMK  SMILES            CACTVS                3.341  "NC1=NC(=O)N(C=C1)[CH]2O[CH](CO[P](O)(=O)O[C]3(C[CH](O)[CH](O)[CH](O3)[CH](O)CO)C(O)=O)[CH](O)[CH]2O"  
CMK  SMILES_CANONICAL  "OpenEye OEToolkits"  1.5.0  "C1[C@H]([C@H]([C@H](O[C@@]1(C(=O)O)O[P@@](=O)(O)OC[C@@H]2[C@H]([C@H]([C@@H](O2)N3C=CC(=NC3=O)N)O)O)[C@@H](CO)O)O)O"  
CMK  SMILES            "OpenEye OEToolkits"  1.5.0  "C1C(C(C(OC1(C(=O)O)OP(=O)(O)OCC2C(C(C(O2)N3C=CC(=NC3=O)N)O)O)C(CO)O)O)O"  
CMK  InChI             InChI                 1.03   "InChI=1S/C17H26N3O15P/c18-9-1-2-20(16(29)19-9)14-12(26)11(25)8(33-14)5-32-36(30,31)35-17(15(27)28)3-6(22)10(24)13(34-17)7(23)4-21/h1-2,6-8,10-14,21-26H,3-5H2,(H,27,28)(H,30,31)(H2,18,19,29)/t6-,7-,8-,10-,11-,12-,13-,14-,17-/m1/s1"  
CMK  InChIKey          InChI                 1.03   YWWJKULNWGRYAS-UOVSKDHASA-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
CMK  "SYSTEMATIC NAME"  ACDLabs               10.04  "(2R,4R,5R,6R)-2-{[(S)-{[(2R,3S,4R,5R)-5-(4-amino-2-oxopyrimidin-1(2H)-yl)-3,4-dihydroxytetrahydrofuran-2-yl]methoxy}(hydroxy)phosphoryl]oxy}-6-[(1R)-1,2-dihydroxyethyl]-4,5-dihydroxytetrahydro-2H-pyran-2-carboxylic acid (non-preferred name)"  
CMK  "SYSTEMATIC NAME"  "OpenEye OEToolkits"  1.5.0  "(2R,4R,5R,6R)-2-[[(2R,3S,4R,5R)-5-(4-amino-2-oxo-pyrimidin-1-yl)-3,4-dihydroxy-oxolan-2-yl]methoxy-hydroxy-phosphoryl]oxy-6-[(1R)-1,2-dihydroxyethyl]-4,5-dihydroxy-oxane-2-carboxylic 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
CMK  "Create component"   2001-11-21  EBI   
CMK  "Modify descriptor"  2011-06-04  RCSB  
CMK  "Modify synonyms"    2020-06-05  PDBE  
#
_pdbx_chem_comp_synonyms.ordinal     1
_pdbx_chem_comp_synonyms.comp_id     CMK
_pdbx_chem_comp_synonyms.name        "CMP-2-KETO-3-DEOXY-OCTULOSONIC ACID"
_pdbx_chem_comp_synonyms.provenance  ?
_pdbx_chem_comp_synonyms.type        ?
##
