data_NTT
# 
_chem_comp.id                                    NTT 
_chem_comp.name                                  "[(1R,5R,7R,8S)-8-hydroxy-3-methyl-7-(5-methyl-2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)-2,6-dioxa-3-azabicyclo[3.2.1]oct-5-yl]methyl dihydrogen phosphate" 
_chem_comp.type                                  "DNA linking" 
_chem_comp.pdbx_type                             ATOMN 
_chem_comp.formula                               "C12 H18 N3 O9 P" 
_chem_comp.mon_nstd_parent_comp_id               DT 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2014-08-05 
_chem_comp.pdbx_modified_date                    2015-08-14 
_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                       ? 
_chem_comp.three_letter_code                     NTT 
_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        4U6K 
_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 
NTT P      P1   P 0 1 N N N 30.987 9.812  60.579 4.046  1.498  0.278  P      NTT 1  
NTT OP1    O1   O 0 1 N N N 30.456 8.467  60.099 3.536  2.835  -0.099 OP1    NTT 2  
NTT OP2    O2   O 0 1 N N N 32.399 10.348 60.374 4.753  1.581  1.722  OP2    NTT 3  
NTT "O5'"  O3   O 0 1 N N N 29.983 11.100 60.453 2.822  0.454  0.338  "O5'"  NTT 4  
NTT N1     N1   N 0 1 N N N 29.281 15.046 60.921 -2.316 0.025  0.359  N1     NTT 5  
NTT C6     C1   C 0 1 N N N 30.494 14.321 60.883 -1.986 1.264  -0.118 C6     NTT 6  
NTT C2     C2   C 0 1 N N N 29.295 16.464 61.011 -3.591 -0.273 0.670  C2     NTT 7  
NTT O2     O4   O 0 1 N N N 28.247 17.126 61.036 -3.862 -1.380 1.093  O2     NTT 8  
NTT N3     N2   N 0 1 N N N 30.553 17.097 61.064 -4.570 0.638  0.521  N3     NTT 9  
NTT C4     C3   C 0 1 N N N 31.793 16.403 61.029 -4.286 1.871  0.054  C4     NTT 10 
NTT O4     O5   O 0 1 N N N 32.829 17.081 61.080 -5.172 2.696  -0.082 O4     NTT 11 
NTT C5     C4   C 0 1 N N N 31.726 14.922 60.929 -2.949 2.197  -0.278 C5     NTT 12 
NTT C7     C5   C 0 1 N N N 32.986 14.148 60.877 -2.605 3.568  -0.801 C7     NTT 13 
NTT "C2'"  C6   C 0 1 N N R 27.602 14.283 59.350 -1.196 -1.881 -0.738 "C2'"  NTT 14 
NTT "C5'"  C7   C 0 1 N N N 28.598 10.809 60.308 1.931  0.235  -0.758 "C5'"  NTT 15 
NTT "C4'"  C8   C 0 1 N N R 27.824 12.133 60.087 0.890  -0.815 -0.366 "C4'"  NTT 16 
NTT "O4'"  O6   O 0 1 N N N 28.107 12.947 61.259 0.004  -0.356 0.675  "O4'"  NTT 17 
NTT "C1'"  C9   C 0 1 N N R 27.996 14.347 60.850 -1.273 -0.990 0.527  "C1'"  NTT 18 
NTT "C3'"  C10  C 0 1 N N S 28.334 12.998 58.938 -0.058 -1.185 -1.541 "C3'"  NTT 19 
NTT "O3'"  O7   O 0 1 N N N 27.946 12.524 57.658 0.569  -2.092 -2.450 "O3'"  NTT 20 
NTT "O2'"  O8   O 0 1 N N N 26.207 14.127 59.146 -0.678 -3.157 -0.308 "O2'"  NTT 21 
NTT "C6'"  C11  C 0 1 N N N 26.290 11.872 60.024 1.502  -2.179 0.143  "C6'"  NTT 22 
NTT "N6'"  N3   N 0 1 N N N 25.584 13.213 60.006 0.419  -3.030 0.654  "N6'"  NTT 23 
NTT "C7'"  C12  C 0 1 N N N 24.079 13.004 59.718 0.928  -4.351 1.048  "C7'"  NTT 24 
NTT HOP2   H2   H 0 0 N N N 32.914 9.710  59.893 5.501  2.192  1.759  HOP2   NTT 25 
NTT H72    H3   H 0 1 N N N 30.448 13.244 60.815 -0.961 1.495  -0.365 H72    NTT 26 
NTT H3     H4   H 0 1 N N N 30.575 18.095 61.130 -5.484 0.407  0.750  H3     NTT 27 
NTT H71    H5   H 0 1 N N N 33.842 14.837 60.928 -2.680 3.570  -1.888 H71    NTT 28 
NTT H1     H6   H 0 1 N N N 33.024 13.452 61.728 -3.298 4.299  -0.387 H1     NTT 29 
NTT H73    H7   H 0 1 N N N 33.028 13.580 59.936 -1.587 3.824  -0.506 H73    NTT 30 
NTT "H2'"  H8   H 0 1 N N N 28.010 15.150 58.810 -2.137 -1.954 -1.282 "H2'"  NTT 31 
NTT "H5''" H9   H 0 0 N N N 28.228 10.313 61.218 1.429  1.169  -1.009 "H5''" NTT 32 
NTT "H5'"  H10  H 0 1 N N N 28.449 10.146 59.443 2.496  -0.117 -1.621 "H5'"  NTT 33 
NTT "H1'"  H11  H 0 1 N N N 27.219 14.874 61.424 -1.489 -1.604 1.401  "H1'"  NTT 34 
NTT "H3'"  H12  H 0 1 N N N 29.422 13.137 59.015 -0.420 -0.296 -2.056 "H3'"  NTT 35 
NTT "HO3'" H13  H 0 0 N Y N 28.427 11.731 57.454 -0.027 -2.450 -3.122 "HO3'" NTT 36 
NTT H14    H14  H 0 1 N N N 25.973 11.296 60.906 2.006  -2.683 -0.681 H14    NTT 37 
NTT H15    H15  H 0 1 N N N 26.045 11.309 59.111 2.216  -1.982 0.943  H15    NTT 38 
NTT H16    H16  H 0 1 N N N 23.777 13.632 58.867 1.360  -4.848 0.179  H16    NTT 39 
NTT H17    H17  H 0 1 N N N 23.895 11.947 59.476 1.693  -4.231 1.815  H17    NTT 40 
NTT H18    H18  H 0 1 N N N 23.494 13.284 60.606 0.110  -4.954 1.442  H18    NTT 41 
NTT OP3    OP3  O 0 1 N Y N 30.742 9.588  62.091 5.119  1.005  -0.817 OP3    NTT 42 
NTT HOP3   HOP3 H 0 0 N N N 30.359 8.729  62.226 5.496  0.133  -0.634 HOP3   NTT 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 
NTT "O3'" "C3'"  SING N N 1  
NTT "C3'" "C2'"  SING N N 2  
NTT "C3'" "C4'"  SING N N 3  
NTT "O2'" "C2'"  SING N N 4  
NTT "O2'" "N6'"  SING N N 5  
NTT "C2'" "C1'"  SING N N 6  
NTT "C7'" "N6'"  SING N N 7  
NTT "N6'" "C6'"  SING N N 8  
NTT "C6'" "C4'"  SING N N 9  
NTT "C4'" "C5'"  SING N N 10 
NTT "C4'" "O4'"  SING N N 11 
NTT OP1   P      DOUB N N 12 
NTT "C5'" "O5'"  SING N N 13 
NTT OP2   P      SING N N 14 
NTT "O5'" P      SING N N 15 
NTT "C1'" N1     SING N N 16 
NTT "C1'" "O4'"  SING N N 17 
NTT C7    C5     SING N N 18 
NTT C6    N1     SING N N 19 
NTT C6    C5     DOUB N N 20 
NTT N1    C2     SING N N 21 
NTT C5    C4     SING N N 22 
NTT C2    O2     DOUB N N 23 
NTT C2    N3     SING N N 24 
NTT C4    N3     SING N N 25 
NTT C4    O4     DOUB N N 26 
NTT OP2   HOP2   SING N N 27 
NTT C6    H72    SING N N 28 
NTT N3    H3     SING N N 29 
NTT C7    H71    SING N N 30 
NTT C7    H1     SING N N 31 
NTT C7    H73    SING N N 32 
NTT "C2'" "H2'"  SING N N 33 
NTT "C5'" "H5''" SING N N 34 
NTT "C5'" "H5'"  SING N N 35 
NTT "C1'" "H1'"  SING N N 36 
NTT "C3'" "H3'"  SING N N 37 
NTT "O3'" "HO3'" SING N N 38 
NTT "C6'" H14    SING N N 39 
NTT "C6'" H15    SING N N 40 
NTT "C7'" H16    SING N N 41 
NTT "C7'" H17    SING N N 42 
NTT "C7'" H18    SING N N 43 
NTT P     OP3    SING N N 44 
NTT OP3   HOP3   SING N N 45 
# 
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 
NTT SMILES           ACDLabs              12.01 "O=C1C(=CN(C(=O)N1)C3OC2(C(O)C3ON(C)C2)COP(=O)(O)O)C"                                                                                                                     
NTT InChI            InChI                1.03  "InChI=1S/C12H18N3O9P/c1-6-3-15(11(18)13-9(6)17)10-7-8(16)12(23-10,4-14(2)24-7)5-22-25(19,20)21/h3,7-8,10,16H,4-5H2,1-2H3,(H,13,17,18)(H2,19,20,21)/t7-,8+,10-,12-/m1/s1" 
NTT InChIKey         InChI                1.03  OFICQOIAWJEWLX-UJYYTQATSA-N                                                                                                                                               
NTT SMILES_CANONICAL CACTVS               3.385 "CN1C[C@]2(CO[P](O)(O)=O)O[C@H]([C@H](O1)[C@@H]2O)N3C=C(C)C(=O)NC3=O"                                                                                                     
NTT SMILES           CACTVS               3.385 "CN1C[C]2(CO[P](O)(O)=O)O[CH]([CH](O1)[CH]2O)N3C=C(C)C(=O)NC3=O"                                                                                                          
NTT SMILES_CANONICAL "OpenEye OEToolkits" 1.9.2 "CC1=CN(C(=O)NC1=O)[C@H]2[C@H]3[C@@H]([C@@](O2)(CN(O3)C)COP(=O)(O)O)O"                                                                                                    
NTT SMILES           "OpenEye OEToolkits" 1.9.2 "CC1=CN(C(=O)NC1=O)C2C3C(C(O2)(CN(O3)C)COP(=O)(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 
NTT "SYSTEMATIC NAME" ACDLabs              12.01 "[(1R,5R,7R,8S)-8-hydroxy-3-methyl-7-(5-methyl-2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)-2,6-dioxa-3-azabicyclo[3.2.1]oct-5-yl]methyl dihydrogen phosphate" 
NTT "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.9.2 "[(1R,5R,7R,8S)-3-methyl-7-[5-methyl-2,4-bis(oxidanylidene)pyrimidin-1-yl]-8-oxidanyl-2,6-dioxa-3-azabicyclo[3.2.1]octan-5-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 
NTT "Create component"  2014-08-05 PDBJ 
NTT "Modify descriptor" 2014-09-05 RCSB 
NTT "Initial release"   2015-08-19 RCSB 
# 
