data_TTD
#

_chem_comp.id                                   TTD
_chem_comp.name                                 "CIS-SYN CYCLOBUTANE THYMINE DIMER"
_chem_comp.type                                 "DNA LINKING"
_chem_comp.pdbx_type                            ATOMN
_chem_comp.formula                              "C20 H28 N4 O15 P2"
_chem_comp.mon_nstd_parent_comp_id              DT
_chem_comp.pdbx_synonyms                        
;[(3S,4S,9S,10R,12R,15AR,18BS,18CS)-3,7-DIHYDROXY-15A,15B-DIMETHYL-7-OXIDO-13,15,16,18-TETRAOXOHEXADECAHYDRO-1H-1,4-EPOX
Y-9,12-METHANO-6,8,11-TRIOXA-12A,14,17,18A-TETRAAZA-7-PHOSPHACYCLOHEXADECA[1,2,3,4-DEF]BIPHENYLEN-10-YL]METHYL DIHYDROGEN PHOSPHATE
;

_chem_comp.pdbx_formal_charge                   0
_chem_comp.pdbx_initial_date                    2004-03-16
_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                       626.402
_chem_comp.one_letter_code                      T
_chem_comp.three_letter_code                    TTD
_chem_comp.pdbx_model_coordinates_details       ?
_chem_comp.pdbx_model_coordinates_missing_flag  Y
_chem_comp.pdbx_ideal_coordinates_details       ?
_chem_comp.pdbx_ideal_coordinates_missing_flag  N
_chem_comp.pdbx_model_coordinates_db_code       1SKS
_chem_comp.pdbx_subcomponent_list               ?
_chem_comp.pdbx_processing_site                 PDBJ
#   #
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
TTD  P       P     P  0  1  N  N  N  44.974  34.117  22.754   3.395  -5.992   1.952  P       TTD   1  
TTD  OP1     O1P   O  0  1  N  N  N  44.423  33.598  24.035   4.834  -6.355   2.179  OP1     TTD   2  
TTD  OP2     O2P   O  0  1  N  N  N  46.404  33.880  22.420   2.701  -6.689   0.668  OP2     TTD   3  
TTD  OP3     O3P   O  0  1  N  Y  N       ?       ?       ?   2.396  -6.370   3.166  OP3     TTD   4  
TTD  "O5'"   O5*   O  0  1  N  N  N  44.083  33.560  21.554   3.115  -4.413   1.730  "O5'"   TTD   5  
TTD  "C5'"   C5*   C  0  1  N  N  N  43.721  32.176  21.480   1.782  -3.987   1.509  "C5'"   TTD   6  
TTD  C4R     C4R   C  0  1  N  N  R  42.875  31.901  20.214   1.777  -2.481   1.332  C4R     TTD   7  
TTD  "O4'"   O4*   O  0  1  N  N  N  41.463  32.019  20.410   2.556  -2.111   0.176  "O4'"   TTD   8  
TTD  C3R     C3R   C  0  1  N  N  S  43.340  32.850  19.086   0.401  -1.890   1.074  C3R     TTD   9  
TTD  O3R     O3R   O  0  1  N  N  N  44.013  31.900  18.151  -0.367  -1.741   2.249  O3R     TTD  10  
TTD  "C2'"   C2*   C  0  1  N  N  N  41.939  33.463  18.719   0.798  -0.553   0.489  "C2'"   TTD  11  
TTD  "C1'"   C1*   C  0  1  N  N  R  40.983  32.313  19.088   1.946  -0.942  -0.423  "C1'"   TTD  12  
TTD  N1      N1    N  0  1  N  N  N  39.492  32.476  19.390   1.549  -1.214  -1.824  N1      TTD  13  
TTD  C2      C2    C  0  1  N  N  N  38.939  31.199  19.708   1.866  -0.236  -2.782  C2      TTD  14  
TTD  O2      O2    O  0  1  N  N  N  39.604  30.166  19.707   2.082   0.948  -2.511  O2      TTD  15  
TTD  N3      N3    N  0  1  N  N  N  37.649  31.143  20.023   2.025  -0.707  -4.091  N3      TTD  16  
TTD  C4      C4    C  0  1  N  N  N  36.762  32.177  20.092   2.113  -2.028  -4.537  C4      TTD  17  
TTD  O4      O4    O  0  1  N  N  N  35.610  31.912  20.413   2.529  -2.299  -5.668  O4      TTD  18  
TTD  C5      C5    C  0  1  N  N  R  37.282  33.546  19.775   1.668  -3.089  -3.502  C5      TTD  19  
TTD  C5A     C5A   C  0  1  N  N  N  37.112  34.198  21.243   2.833  -3.997  -3.153  C5A     TTD  20  
TTD  C6      C6    C  0  1  N  N  R  38.653  33.664  19.399   1.048  -2.561  -2.201  C6      TTD  21  
TTD  PB      PB    P  0  1  N  N  S  44.894  32.047  16.774  -1.850  -2.393   2.325  PB      TTD  22  
TTD  O5P     O5P   O  0  1  N  N  N  45.040  33.260  15.971  -2.634  -1.999   3.544  O5P     TTD  23  
TTD  O4P     O4P   O  0  1  N  N  N  45.126  30.599  16.363  -1.573  -3.983   2.202  O4P     TTD  24  
TTD  O5R     O5R   O  0  1  N  N  N  43.554  31.920  15.856  -2.545  -2.031   0.908  O5R     TTD  25  
TTD  C5R     C5R   C  0  1  N  N  N  42.675  33.043  15.611  -2.889  -0.679   0.642  C5R     TTD  26  
TTD  O4R     O4R   O  0  1  N  N  N  40.473  32.845  16.394  -1.663  -0.657  -1.483  O4R     TTD  27  
TTD  C2R     C2R   C  0  1  N  N  N  39.646  34.260  14.801  -3.400  -1.041  -3.061  C2R     TTD  28  
TTD  C1R     C1R   C  0  1  N  N  R  39.305  33.194  15.800  -1.904  -0.717  -2.898  C1R     TTD  29  
TTD  N1T     N1T   N  0  1  N  N  N  38.182  33.620  16.723  -1.043  -1.680  -3.599  N1T     TTD  30  
TTD  C2T     C2T   C  0  1  N  N  N  36.952  33.215  16.205  -1.164  -1.661  -5.007  C2T     TTD  31  
TTD  O2T     O2T   O  0  1  N  N  N  36.816  32.602  15.165  -1.664  -0.721  -5.636  O2T     TTD  32  
TTD  N3T     N3T   N  0  1  N  N  N  35.847  33.524  16.901  -0.761  -2.811  -5.687  N3T     TTD  33  
TTD  C4T     C4T   C  0  1  N  N  N  35.800  34.214  18.093  -0.153  -3.956  -5.191  C4T     TTD  34  
TTD  O4T     O4T   O  0  1  N  N  N  34.661  34.368  18.522   0.006  -4.965  -5.883  O4T     TTD  35  
TTD  C5T     C5T   C  0  1  N  N  S  37.128  34.660  18.665   0.314  -3.831  -3.741  C5T     TTD  36  
TTD  C5M     C5M   C  0  1  N  N  N  36.886  36.124  19.248   0.269  -5.202  -3.079  C5M     TTD  37  
TTD  C6T     C6T   C  0  1  N  N  S  38.226  34.362  18.002  -0.367  -2.772  -2.831  C6T     TTD  38  
TTD  "C4'"   C4*   C  0  1  N  N  R  41.270  32.603  15.259  -2.936  -0.421  -0.857  "C4'"   TTD  39  
TTD  "C3'"   C3*   C  0  1  N  N  S  40.770  33.511  14.140  -3.871  -1.311  -1.646  "C3'"   TTD  40  
TTD  "O3'"   O3*   O  0  1  N  N  N  40.328  32.738  13.021  -5.222  -0.953  -1.453  "O3'"   TTD  41  
TTD  HOP2    2HOP  H  0  0  N  N  N  46.755  34.211  21.602   2.798  -7.657   0.543  HOP2    TTD  42  
TTD  HOP3    3HOP  H  0  0  N  N  N   0.351   0.331  -0.817   2.441  -7.269   3.556  HOP3    TTD  43  
TTD  "H5'"   1H5*  H  0  1  N  N  N  44.614  31.511  21.533   1.395  -4.472   0.612  "H5'"   TTD  44  
TTD  "H5''"  2H5*  H  0  0  N  N  N  43.203  31.833  22.406   1.170  -4.266   2.368  "H5''"  TTD  45  
TTD  H4R     H4R   H  0  1  N  N  N  43.045  30.834  19.938   2.242  -2.028   2.215  H4R     TTD  46  
TTD  H3R     H3R   H  0  1  N  N  N  44.062  33.689  19.212  -0.139  -2.484   0.330  H3R     TTD  47  
TTD  "H2'"   1H2*  H  0  1  N  N  N  41.709  34.441  19.201   0.000   0.000  -0.000  "H2'"   TTD  48  
TTD  "H2''"  2H2*  H  0  0  N  N  N  41.846  33.838  17.673   1.161   0.098   1.296  "H2''"  TTD  49  
TTD  "H1'"   H1*   H  0  1  N  N  N  41.003  31.650  18.191   2.703  -0.151  -0.423  "H1'"   TTD  50  
TTD  HN3     HN3   H  0  1  N  N  N  37.302  30.207  20.234   2.264   0.001  -4.781  HN3     TTD  51  
TTD  H5A1    1H5A  H  0  0  N  N  N  37.499  35.216  21.007   3.454  -4.177  -4.036  H5A1    TTD  52  
TTD  H5A2    2H5A  H  0  0  N  N  N  36.096  34.142  21.700   3.459  -3.547  -2.377  H5A2    TTD  53  
TTD  H5A3    3H5A  H  0  0  N  N  N  37.601  33.660  22.088   2.469  -4.962  -2.786  H5A3    TTD  54  
TTD  H6      H6    H  0  1  N  N  N  39.373  34.184  20.072   1.221  -3.289  -1.398  H6      TTD  55  
TTD  H4P     H4P   H  0  1  N  N  N  45.635  30.684  15.566  -2.334  -4.600   2.253  H4P     TTD  56  
TTD  H5R1    1H5R  H  0  0  N  N  N  42.672  33.749  16.474  -2.149  -0.021   1.108  H5R1    TTD  57  
TTD  H5R2    2H5R  H  0  0  N  N  N  43.093  33.719  14.829  -3.863  -0.478   1.099  H5R2    TTD  58  
TTD  H2R1    1H2R  H  0  0  N  N  N  38.823  34.631  14.146  -3.605  -1.891  -3.719  H2R1    TTD  59  
TTD  H2R2    2H2R  H  0  0  N  N  N  39.870  35.278  15.194  -3.926  -0.180  -3.492  H2R2    TTD  60  
TTD  H1R     H1R   H  0  1  N  N  N  38.873  32.281  15.326  -1.695   0.277  -3.313  H1R     TTD  61  
TTD  HT      HT    H  0  1  N  N  N  34.969  33.207  16.489  -0.969  -2.822  -6.682  HT      TTD  62  
TTD  H71     1H5M  H  0  1  N  N  N  36.777  36.910  18.464   0.847  -5.930  -3.657  H71     TTD  63  
TTD  H72     2H5M  H  0  1  N  N  N  36.008  36.132  19.935   0.684  -5.158  -2.068  H72     TTD  64  
TTD  H73     3H5M  H  0  1  N  N  N  37.691  36.397  19.968  -0.764  -5.557  -3.013  H73     TTD  65  
TTD  H6T     H6T   H  0  1  N  N  N  38.860  35.109  17.471  -1.078  -3.228  -2.130  H6T     TTD  66  
TTD  "H4'"   H4*   H  0  1  N  N  N  41.235  31.532  14.950  -3.196   0.637  -1.002  "H4'"   TTD  67  
TTD  H1      H1    H  0  1  N  N  N  41.548  34.192  13.722  -3.736  -2.371  -1.403  H1      TTD  68  
TTD  "HO3'"  H3T   H  0  0  N  Y  N  41.038  32.264  12.603  -5.700  -1.244  -2.244  "HO3'"  TTD  69  
#   #
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
TTD  P      OP1     DOUB  N  N   1  
TTD  P      OP2     SING  N  N   2  
TTD  P      OP3     SING  N  N   3  
TTD  P      "O5'"   SING  N  N   4  
TTD  OP2    HOP2    SING  N  N   5  
TTD  OP3    HOP3    SING  N  N   6  
TTD  "O5'"  "C5'"   SING  N  N   7  
TTD  "C5'"  C4R     SING  N  N   8  
TTD  "C5'"  "H5'"   SING  N  N   9  
TTD  "C5'"  "H5''"  SING  N  N  10  
TTD  C4R    "O4'"   SING  N  N  11  
TTD  C4R    C3R     SING  N  N  12  
TTD  C4R    H4R     SING  N  N  13  
TTD  "O4'"  "C1'"   SING  N  N  14  
TTD  C3R    O3R     SING  N  N  15  
TTD  C3R    "C2'"   SING  N  N  16  
TTD  C3R    H3R     SING  N  N  17  
TTD  O3R    PB      SING  N  N  18  
TTD  "C2'"  "C1'"   SING  N  N  19  
TTD  "C2'"  "H2'"   SING  N  N  20  
TTD  "C2'"  "H2''"  SING  N  N  21  
TTD  "C1'"  N1      SING  N  N  22  
TTD  "C1'"  "H1'"   SING  N  N  23  
TTD  N1     C2      SING  N  N  24  
TTD  N1     C6      SING  N  N  25  
TTD  C2     O2      DOUB  N  N  26  
TTD  C2     N3      SING  N  N  27  
TTD  N3     C4      SING  N  N  28  
TTD  N3     HN3     SING  N  N  29  
TTD  C4     O4      DOUB  N  N  30  
TTD  C4     C5      SING  N  N  31  
TTD  C5     C5A     SING  N  N  32  
TTD  C5     C6      SING  N  N  33  
TTD  C5     C5T     SING  N  N  34  
TTD  C5A    H5A1    SING  N  N  35  
TTD  C5A    H5A2    SING  N  N  36  
TTD  C5A    H5A3    SING  N  N  37  
TTD  C6     C6T     SING  N  N  38  
TTD  C6     H6      SING  N  N  39  
TTD  PB     O5P     DOUB  N  N  40  
TTD  PB     O4P     SING  N  N  41  
TTD  PB     O5R     SING  N  N  42  
TTD  O4P    H4P     SING  N  N  43  
TTD  O5R    C5R     SING  N  N  44  
TTD  C5R    "C4'"   SING  N  N  45  
TTD  C5R    H5R1    SING  N  N  46  
TTD  C5R    H5R2    SING  N  N  47  
TTD  O4R    C1R     SING  N  N  48  
TTD  O4R    "C4'"   SING  N  N  49  
TTD  C2R    C1R     SING  N  N  50  
TTD  C2R    "C3'"   SING  N  N  51  
TTD  C2R    H2R1    SING  N  N  52  
TTD  C2R    H2R2    SING  N  N  53  
TTD  C1R    N1T     SING  N  N  54  
TTD  C1R    H1R     SING  N  N  55  
TTD  N1T    C2T     SING  N  N  56  
TTD  N1T    C6T     SING  N  N  57  
TTD  C2T    O2T     DOUB  N  N  58  
TTD  C2T    N3T     SING  N  N  59  
TTD  N3T    C4T     SING  N  N  60  
TTD  N3T    HT      SING  N  N  61  
TTD  C4T    O4T     DOUB  N  N  62  
TTD  C4T    C5T     SING  N  N  63  
TTD  C5T    C5M     SING  N  N  64  
TTD  C5T    C6T     SING  N  N  65  
TTD  C5M    H71     SING  N  N  66  
TTD  C5M    H72     SING  N  N  67  
TTD  C5M    H73     SING  N  N  68  
TTD  C6T    H6T     SING  N  N  69  
TTD  "C4'"  "C3'"   SING  N  N  70  
TTD  "C4'"  "H4'"   SING  N  N  71  
TTD  "C3'"  "O3'"   SING  N  N  72  
TTD  "C3'"  H1      SING  N  N  73  
TTD  "O3'"  "HO3'"  SING  N  N  74  
#   #
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
TTD  SMILES            ACDLabs               10.04  "O=C1NC(=O)C5(C4N1C2OC(C(O)C2)COP(=O)(O)OC6C(OC(N3C(=O)NC(=O)C5(C34)C)C6)COP(=O)(O)O)C"  
TTD  SMILES_CANONICAL  CACTVS                3.341  "C[C@]12[C@H]3[C@@H]4N([C@H]5C[C@H](O[P@](O)(=O)OC[C@H]6O[C@H](C[C@@H]6O)N3C(=O)NC1=O)[C@@H](CO[P](O)(O)=O)O5)C(=O)NC(=O)[C@]24C"  
TTD  SMILES            CACTVS                3.341  "C[C]12[CH]3[CH]4N([CH]5C[CH](O[P](O)(=O)OC[CH]6O[CH](C[CH]6O)N3C(=O)NC1=O)[CH](CO[P](O)(O)=O)O5)C(=O)NC(=O)[C]24C"  
TTD  SMILES_CANONICAL  "OpenEye OEToolkits"  1.5.0  "C[C@@]12[C@H]3[C@H]4[C@@]1(C(=O)NC(=O)N4[C@H]5C[C@@H]([C@H](O5)COP(=O)(O)O)O[P@@](=O)(OC[C@@H]6[C@H](C[C@H](N3C(=O)NC2=O)O6)O)O)C"  
TTD  SMILES            "OpenEye OEToolkits"  1.5.0  "CC12C3C4C1(C(=O)NC(=O)N4C5CC(C(O5)COP(=O)(O)O)OP(=O)(OCC6C(CC(N3C(=O)NC2=O)O6)O)O)C"  
TTD  InChI             InChI                 1.03   "InChI=1S/C20H28N4O15P2/c1-19-13-14-20(19,2)16(27)22-18(29)24(14)12-4-8(10(38-12)6-35-40(30,31)32)39-41(33,34)36-5-9-7(25)3-11(37-9)23(13)17(28)21-15(19)26/h7-14,25H,3-6H2,1-2H3,(H,33,34)(H,21,26,28)(H,22,27,29)(H2,30,31,32)/t7-,8-,9+,10+,11+,12+,13+,14-,19-,20+/m0/s1"  
TTD  InChIKey          InChI                 1.03   LWAHHJJPLXBMFO-MQBJNLFFSA-N  
#
_pdbx_chem_comp_identifier.comp_id          TTD
_pdbx_chem_comp_identifier.type             "SYSTEMATIC NAME"
_pdbx_chem_comp_identifier.program          ACDLabs
_pdbx_chem_comp_identifier.program_version  10.04
_pdbx_chem_comp_identifier.identifier       "[(1R,3R,4S,6S,9R,10S,12R,15aS,15bR,18bR,18cS)-6,10-dihydroxy-15a,15b-dimethyl-6-oxido-13,15,16,18-tetraoxohexadecahydro-8H-9,12-epoxy-1,4-methano-2,5,7-trioxa-12a,14,17,18a-tetraaza-6-phosphacyclohexadeca[1,2,3,4-def]biphenylen-3-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
TTD  "Create component"   2004-03-16  PDBJ  
TTD  "Modify descriptor"  2011-06-04  RCSB  
TTD  "Modify synonyms"    2020-06-05  PDBE  
#
_pdbx_chem_comp_synonyms.ordinal     1
_pdbx_chem_comp_synonyms.comp_id     TTD
_pdbx_chem_comp_synonyms.name        "[(3S,4S,9S,10R,12R,15AR,18BS,18CS)-3,7-DIHYDROXY-15A,15B-DIMETHYL-7-OXIDO-13,15,16,18-TETRAOXOHEXADECAHYDRO-1H-1,4-EPOXY-9,12-METHANO-6,8,11-TRIOXA-12A,14,17,18A-TETRAAZA-7-PHOSPHACYCLOHEXADECA[1,2,3,4-DEF]BIPHENYLEN-10-YL]METHYL DIHYDROGEN PHOSPHATE"
_pdbx_chem_comp_synonyms.provenance  ?
_pdbx_chem_comp_synonyms.type        ?
##
