data_PTP
# 
_chem_comp.id                                    PTP 
_chem_comp.name                                  "THYMIDINE-3',5'-DIPHOSPHATE" 
_chem_comp.type                                  NON-POLYMER 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C10 H16 N2 O11 P2" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     1999-07-08 
_chem_comp.pdbx_modified_date                    2008-10-14 
_chem_comp.pdbx_ambiguous_flag                   N 
_chem_comp.pdbx_release_status                   OBS 
_chem_comp.pdbx_replaced_by                      THP 
_chem_comp.pdbx_replaces                         ? 
_chem_comp.formula_weight                        402.188 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     PTP 
_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        2SNS 
_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 
PTP N1     N1   N 0 1 N N N 3.740 17.490 25.150 0.154  -0.582 2.719  N1     PTP 1  
PTP C2     C2   C 0 1 N N N 3.080 18.430 25.980 0.095  0.761  2.671  C2     PTP 2  
PTP O2     O2   O 0 1 N N N 3.100 18.250 27.280 -0.178 1.311  1.623  O2     PTP 3  
PTP N3     N3   N 0 1 N N N 2.410 19.540 25.680 0.335  1.503  3.768  N3     PTP 4  
PTP C4     C4   C 0 1 N N N 2.460 19.710 24.090 0.635  0.907  4.940  C4     PTP 5  
PTP O4     O4   O 0 1 N N N 1.770 20.820 23.610 0.852  1.579  5.933  O4     PTP 6  
PTP C5     C5   C 0 1 N N N 3.000 18.770 23.180 0.705  -0.504 5.003  C5     PTP 7  
PTP C5M    C5M  C 0 1 N N N 2.970 19.050 21.790 1.043  -1.195 6.299  C5M    PTP 8  
PTP C6     C6   C 0 1 N N N 3.710 17.680 23.670 0.460  -1.225 3.888  C6     PTP 9  
PTP "C1'"  C1*  C 0 1 N N R 4.440 16.180 25.620 -0.111 -1.363 1.509  "C1'"  PTP 10 
PTP "C2'"  C2*  C 0 1 N N N 3.270 15.130 25.900 -1.534 -1.067 0.997  "C2'"  PTP 11 
PTP "C3'"  C3*  C 0 1 N N S 3.960 13.790 25.280 -1.317 -0.537 -0.441 "C3'"  PTP 12 
PTP "O3'"  O3*  O 0 1 N N N 4.490 12.940 26.290 -2.300 -1.065 -1.333 "O3'"  PTP 13 
PTP "P3'"  P3*  P 0 1 N N N 4.820 11.500 26.010 -3.072 0.194  -1.973 "P3'"  PTP 14 
PTP O13    O13  O 0 1 N N N 5.460 10.640 27.310 -2.106 1.046  -2.701 O13    PTP 15 
PTP O23    O23  O 0 1 N N N 6.040 11.300 24.900 -4.201 -0.330 -2.994 O23    PTP 16 
PTP O33    O33  O 0 1 N N N 3.710 10.600 25.360 -3.766 1.050  -0.799 O33    PTP 17 
PTP "C4'"  C4*  C 0 1 N N R 5.050 14.240 24.370 0.091  -1.088 -0.780 "C4'"  PTP 18 
PTP "O4'"  O4*  O 0 1 N N N 5.250 15.740 24.710 0.807  -0.985 0.471  "O4'"  PTP 19 
PTP "C5'"  C5*  C 0 1 N N N 4.580 14.110 22.900 0.758  -0.233 -1.859 "C5'"  PTP 20 
PTP "O5'"  O5*  O 0 1 N N N 5.540 14.850 22.210 2.053  -0.761 -2.153 "O5'"  PTP 21 
PTP "P5'"  P5*  P 0 1 N N N 6.210 13.990 20.640 2.694  0.181  -3.289 "P5'"  PTP 22 
PTP O15    O15  O 0 1 N N N 5.110 14.290 19.290 2.796  1.567  -2.780 O15    PTP 23 
PTP O25    O25  O 0 1 N N N 7.660 14.490 20.370 4.162  -0.358 -3.670 O25    PTP 24 
PTP O35    O35  O 0 1 N N N 6.320 12.500 21.140 1.757  0.158  -4.598 O35    PTP 25 
PTP HN3    HN3  H 0 1 N N N 1.990 20.087 26.431 0.288  2.471  3.716  HN3    PTP 26 
PTP H5M1   1H5M H 0 0 N N N 3.395 18.309 21.073 1.206  -0.448 7.077  H5M1   PTP 27 
PTP H5M2   2H5M H 0 0 N N N 1.917 19.269 21.493 0.219  -1.847 6.589  H5M2   PTP 28 
PTP H5M3   3H5M H 0 0 N N N 3.458 20.036 21.614 1.948  -1.788 6.170  H5M3   PTP 29 
PTP H6     H6   H 0 1 N N N 4.209 17.018 22.942 0.505  -2.303 3.918  H6     PTP 30 
PTP "H1'"  H1*  H 0 1 N N N 5.054 16.352 26.534 -0.009 -2.427 1.725  "H1'"  PTP 31 
PTP "H2'1" 1H2* H 0 0 N N N 2.919 15.057 26.955 -2.131 -1.979 0.981  "H2'1" PTP 32 
PTP "H2'2" 2H2* H 0 0 N N N 2.265 15.396 25.495 -2.012 -0.308 1.615  "H2'2" PTP 33 
PTP "H3'"  H3*  H 0 1 N N N 3.189 13.194 24.737 -1.323 0.552  -0.458 "H3'"  PTP 34 
PTP H23    H23  H 0 1 N N N 6.248 10.390 24.723 -4.638 0.453  -3.354 H23    PTP 35 
PTP H33    H33  H 0 1 N N N 3.918 9.690  25.183 -4.386 0.459  -0.351 H33    PTP 36 
PTP "H4'"  H4*  H 0 1 N N N 5.983 13.641 24.492 0.029  -2.128 -1.100 "H4'"  PTP 37 
PTP "H5'1" 1H5* H 0 0 N N N 4.447 13.062 22.540 0.148  -0.245 -2.762 "H5'1" PTP 38 
PTP "H5'2" 2H5* H 0 0 N N N 3.525 14.422 22.715 0.857  0.791  -1.501 "H5'2" PTP 39 
PTP H25    H25  H 0 1 N N N 7.993 14.062 19.589 4.509  0.232  -4.352 H25    PTP 40 
PTP H35    H35  H 0 1 N N N 6.653 12.072 20.359 1.717  -0.760 -4.897 H35    PTP 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 
PTP N1    C2     SING N N 1  
PTP N1    C6     SING N N 2  
PTP N1    "C1'"  SING N N 3  
PTP C2    O2     DOUB N N 4  
PTP C2    N3     SING N N 5  
PTP N3    C4     SING N N 6  
PTP N3    HN3    SING N N 7  
PTP C4    O4     DOUB N N 8  
PTP C4    C5     SING N N 9  
PTP C5    C5M    SING N N 10 
PTP C5    C6     DOUB N N 11 
PTP C5M   H5M1   SING N N 12 
PTP C5M   H5M2   SING N N 13 
PTP C5M   H5M3   SING N N 14 
PTP C6    H6     SING N N 15 
PTP "C1'" "C2'"  SING N N 16 
PTP "C1'" "O4'"  SING N N 17 
PTP "C1'" "H1'"  SING N N 18 
PTP "C2'" "C3'"  SING N N 19 
PTP "C2'" "H2'1" SING N N 20 
PTP "C2'" "H2'2" SING N N 21 
PTP "C3'" "O3'"  SING N N 22 
PTP "C3'" "C4'"  SING N N 23 
PTP "C3'" "H3'"  SING N N 24 
PTP "O3'" "P3'"  SING N N 25 
PTP "P3'" O13    DOUB N N 26 
PTP "P3'" O23    SING N N 27 
PTP "P3'" O33    SING N N 28 
PTP O23   H23    SING N N 29 
PTP O33   H33    SING N N 30 
PTP "C4'" "O4'"  SING N N 31 
PTP "C4'" "C5'"  SING N N 32 
PTP "C4'" "H4'"  SING N N 33 
PTP "C5'" "O5'"  SING N N 34 
PTP "C5'" "H5'1" SING N N 35 
PTP "C5'" "H5'2" SING N N 36 
PTP "O5'" "P5'"  SING N N 37 
PTP "P5'" O15    DOUB N N 38 
PTP "P5'" O25    SING N N 39 
PTP "P5'" O35    SING N N 40 
PTP O25   H25    SING N N 41 
PTP O35   H35    SING N N 42 
# 
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 
PTP SMILES           ACDLabs              10.04 "O=C1NC(=O)N(C=C1C)C2OC(C(OP(=O)(O)O)C2)COP(=O)(O)O"                                                                                                                                       
PTP InChI            InChI                1.02b "InChI=1/C10H16N2O11P2/c1-5-3-12(10(14)11-9(5)13)8-2-6(23-25(18,19)20)7(22-8)4-21-24(15,16)17/h3,6-8H,2,4H2,1H3,(H,11,13,14)(H2,15,16,17)(H2,18,19,20)/t6-,7+,8+/m0/s1/f/h11,15-16,18-19H" 
PTP InChIKey         InChI                1.02b CSNCBOPUCJOHLS-AAFSSDHBDI                                                                                                                                                                  
PTP SMILES_CANONICAL CACTVS               3.341 "CC1=CN([C@H]2C[C@H](O[P](O)(O)=O)[C@@H](CO[P](O)(O)=O)O2)C(=O)NC1=O"                                                                                                                      
PTP SMILES           CACTVS               3.341 "CC1=CN([CH]2C[CH](O[P](O)(O)=O)[CH](CO[P](O)(O)=O)O2)C(=O)NC1=O"                                                                                                                          
PTP SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 "CC1=CN(C(=O)NC1=O)[C@H]2C[C@@H]([C@H](O2)COP(=O)(O)O)OP(=O)(O)O"                                                                                                                          
PTP SMILES           "OpenEye OEToolkits" 1.5.0 "CC1=CN(C(=O)NC1=O)C2CC(C(O2)COP(=O)(O)O)OP(=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 
PTP "SYSTEMATIC NAME" ACDLabs              10.04 
;thymidine 3',5'-bis(dihydrogen phosphate)
;
PTP "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "[(2R,3S,5R)-5-(5-methyl-2,4-dioxo-pyrimidin-1-yl)-2-(phosphonooxymethyl)oxolan-3-yl] 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 
PTP "Create component" 1999-07-08 RCSB 
# 
