data_3DT
# 
_chem_comp.id                                    3DT 
_chem_comp.name                                  3-methylthymidine 
_chem_comp.type                                  non-polymer 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C11 H16 N2 O5" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2010-02-16 
_chem_comp.pdbx_modified_date                    2011-06-04 
_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                        256.255 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     3DT 
_chem_comp.pdbx_model_coordinates_details        ? 
_chem_comp.pdbx_model_coordinates_missing_flag   N 
_chem_comp.pdbx_ideal_coordinates_details        Corina 
_chem_comp.pdbx_ideal_coordinates_missing_flag   N 
_chem_comp.pdbx_model_coordinates_db_code        3LFM 
_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 
3DT N1     N1     N 0 1 N N N 29.108 -6.783 -28.872 -0.544 -0.369 -0.004 N1     3DT 1  
3DT C2     C2     C 0 1 N N N 28.562 -7.304 -27.696 -1.601 -1.155 0.271  C2     3DT 2  
3DT O2     O2     O 0 1 N N N 29.168 -8.166 -27.060 -1.423 -2.329 0.533  O2     3DT 3  
3DT N3     N3     N 0 1 N N N 27.299 -6.870 -27.269 -2.852 -0.660 0.261  N3     3DT 4  
3DT C4     C4     C 0 1 N N N 26.591 -5.928 -28.024 -3.066 0.640  -0.027 C4     3DT 5  
3DT O4     O4     O 0 1 N N N 25.481 -5.553 -27.648 -4.198 1.089  -0.036 O4     3DT 6  
3DT C5     C5     C 0 1 N N N 27.139 -5.417 -29.197 -1.963 1.478  -0.318 C5     3DT 7  
3DT C6     C6     C 0 1 N N N 28.394 -5.841 -29.620 -0.718 0.955  -0.301 C6     3DT 8  
3DT C7     C7     C 0 1 N N N 26.367 -4.394 -30.030 -2.175 2.934  -0.643 C7     3DT 9  
3DT CN     CN     C 0 1 N N N 26.719 -7.394 -26.012 -3.987 -1.536 0.563  CN     3DT 10 
3DT "C1'"  "C1'"  C 0 1 N N R 30.449 -7.219 -29.331 0.807  -0.936 0.021  "C1'"  3DT 11 
3DT "C2'"  "C2'"  C 0 1 N N N 30.388 -8.224 -30.476 1.418  -0.896 -1.394 "C2'"  3DT 12 
3DT "C3'"  "C3'"  C 0 1 N N S 31.877 -8.208 -30.811 2.706  -0.054 -1.227 "C3'"  3DT 13 
3DT "O3'"  "O3'"  O 0 1 N N N 32.604 -8.894 -29.787 3.783  -0.617 -1.980 "O3'"  3DT 14 
3DT "C4'"  "C4'"  C 0 1 N N R 32.170 -6.708 -30.789 2.975  -0.170 0.294  "C4'"  3DT 15 
3DT "O4'"  "O4'"  O 0 1 N N N 31.208 -6.131 -29.884 1.653  -0.146 0.873  "O4'"  3DT 16 
3DT "C5'"  "C5'"  C 0 1 N N N 31.936 -6.097 -32.174 3.801  1.020  0.787  "C5'"  3DT 17 
3DT "O5'"  "O5'"  O 0 1 N N N 30.630 -6.432 -32.645 4.133  0.832  2.164  "O5'"  3DT 18 
3DT H6     H6     H 0 1 N N N 28.819 -5.442 -30.529 0.135  1.579  -0.520 H6     3DT 19 
3DT H7     H7     H 0 1 N N N 26.962 -4.114 -30.912 -3.240 3.163  -0.607 H7     3DT 20 
3DT H7A    H7A    H 0 1 N N N 25.412 -4.833 -30.356 -1.646 3.550  0.084  H7A    3DT 21 
3DT H7B    H7B    H 0 1 N N N 26.171 -3.499 -29.421 -1.792 3.143  -1.643 H7B    3DT 22 
3DT HN     HN     H 0 1 N N N 25.731 -6.940 -25.846 -4.183 -1.519 1.635  HN     3DT 23 
3DT HNA    HNA    H 0 1 N N N 26.613 -8.486 -26.085 -4.869 -1.187 0.026  HNA    3DT 24 
3DT HNB    HNB    H 0 1 N N N 27.383 -7.145 -25.171 -3.752 -2.554 0.253  HNB    3DT 25 
3DT "H1'"  "H1'"  H 0 1 N N N 30.905 -7.648 -28.426 0.771  -1.964 0.381  "H1'"  3DT 26 
3DT "H2'"  "H2'"  H 0 1 N N N 30.008 -9.213 -30.182 1.661  -1.904 -1.732 "H2'"  3DT 27 
3DT "H2'A" "H2'A" H 0 0 N N N 29.740 -7.913 -31.309 0.733  -0.413 -2.091 "H2'A" 3DT 28 
3DT "H3'"  "H3'"  H 0 1 N N N 32.152 -8.698 -31.757 2.533  0.983  -1.515 "H3'"  3DT 29 
3DT "HO3'" "HO3'" H 0 0 N N N 33.531 -8.884 -29.995 3.622  -0.650 -2.933 "HO3'" 3DT 30 
3DT "H4'"  "H4'"  H 0 1 N N N 33.212 -6.520 -30.490 3.478  -1.109 0.525  "H4'"  3DT 31 
3DT "H5'"  "H5'"  H 0 1 N N N 32.028 -5.003 -32.108 4.716  1.096  0.200  "H5'"  3DT 32 
3DT "H5'A" "H5'A" H 0 0 N N N 32.686 -6.490 -32.875 3.220  1.936  0.675  "H5'A" 3DT 33 
3DT "HO5'" "HO5'" H 0 0 N N N 30.495 -6.049 -33.504 4.657  1.550  2.544  "HO5'" 3DT 34 
# 
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 
3DT N1    C2     SING N N 1  
3DT N1    C6     SING N N 2  
3DT N1    "C1'"  SING N N 3  
3DT C2    O2     DOUB N N 4  
3DT C2    N3     SING N N 5  
3DT N3    C4     SING N N 6  
3DT N3    CN     SING N N 7  
3DT C4    O4     DOUB N N 8  
3DT C4    C5     SING N N 9  
3DT C5    C6     DOUB N N 10 
3DT C5    C7     SING N N 11 
3DT "C1'" "C2'"  SING N N 12 
3DT "C1'" "O4'"  SING N N 13 
3DT "C2'" "C3'"  SING N N 14 
3DT "C3'" "O3'"  SING N N 15 
3DT "C3'" "C4'"  SING N N 16 
3DT "C4'" "O4'"  SING N N 17 
3DT "C4'" "C5'"  SING N N 18 
3DT "C5'" "O5'"  SING N N 19 
3DT C6    H6     SING N N 20 
3DT C7    H7     SING N N 21 
3DT C7    H7A    SING N N 22 
3DT C7    H7B    SING N N 23 
3DT CN    HN     SING N N 24 
3DT CN    HNA    SING N N 25 
3DT CN    HNB    SING N N 26 
3DT "C1'" "H1'"  SING N N 27 
3DT "C2'" "H2'"  SING N N 28 
3DT "C2'" "H2'A" SING N N 29 
3DT "C3'" "H3'"  SING N N 30 
3DT "O3'" "HO3'" SING N N 31 
3DT "C4'" "H4'"  SING N N 32 
3DT "C5'" "H5'"  SING N N 33 
3DT "C5'" "H5'A" SING N N 34 
3DT "O5'" "HO5'" SING N N 35 
# 
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 
3DT SMILES_CANONICAL CACTVS               3.352 "CN1C(=O)N(C=C(C)C1=O)[C@H]2C[C@H](O)[C@@H](CO)O2"                                                                
3DT SMILES           CACTVS               3.352 "CN1C(=O)N(C=C(C)C1=O)[CH]2C[CH](O)[CH](CO)O2"                                                                    
3DT SMILES_CANONICAL "OpenEye OEToolkits" 1.7.0 "CC1=CN(C(=O)N(C1=O)C)[C@H]2C[C@@H]([C@H](O2)CO)O"                                                                
3DT SMILES           "OpenEye OEToolkits" 1.7.0 "CC1=CN(C(=O)N(C1=O)C)C2CC(C(O2)CO)O"                                                                             
3DT InChI            InChI                1.03  "InChI=1S/C11H16N2O5/c1-6-4-13(11(17)12(2)10(6)16)9-3-7(15)8(5-14)18-9/h4,7-9,14-15H,3,5H2,1-2H3/t7-,8+,9+/m0/s1" 
3DT InChIKey         InChI                1.03  JCVDICFLPGDHAT-DJLDLDEBSA-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 
3DT "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.6.1 "1-[(2R,4S,5R)-4-hydroxy-5-(hydroxymethyl)oxolan-2-yl]-3,5-dimethyl-pyrimidine-2,4-dione" 
# 
loop_
_pdbx_chem_comp_audit.comp_id 
_pdbx_chem_comp_audit.action_type 
_pdbx_chem_comp_audit.date 
_pdbx_chem_comp_audit.processing_site 
3DT "Create component"  2010-02-16 PDBJ 
3DT "Modify descriptor" 2011-06-04 RCSB 
# 
