data_T3P
# 
_chem_comp.id                                    T3P 
_chem_comp.name                                  "THYMIDINE-3'-PHOSPHATE" 
_chem_comp.type                                  "DNA LINKING" 
_chem_comp.pdbx_type                             ATOMN 
_chem_comp.formula                               "C10 H15 N2 O8 P" 
_chem_comp.mon_nstd_parent_comp_id               DT 
_chem_comp.pdbx_synonyms                         
;ALPHA-ANOMERIC THYMIDINE-3'-PHOSPHATE
;
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     1999-08-26 
_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                        322.208 
_chem_comp.one_letter_code                       T 
_chem_comp.three_letter_code                     T3P 
_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        1CY8 
_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 
T3P P      P    P 0 1 N N N 37.583 17.167 43.526 -1.040 -0.030 -3.573 P      T3P 1  
T3P OP1    O1P  O 0 1 N N N 37.873 16.366 42.288 -0.250 1.195  -3.822 OP1    T3P 2  
T3P OP2    O2P  O 0 1 N N N 36.288 17.752 43.827 -1.427 -0.713 -4.979 OP2    T3P 3  
T3P OP3    O3P  O 0 1 N Y N 38.739 17.816 44.176 -2.385 0.350  -2.774 OP3    T3P 4  
T3P "O5'"  O5*  O 0 1 N N N 37.440 22.789 41.920 3.742  0.759  -1.645 "O5'"  T3P 5  
T3P "C5'"  C5*  C 0 1 N N N 37.968 21.662 42.566 2.336  0.786  -1.900 "C5'"  T3P 6  
T3P "C4'"  C4*  C 0 1 N N R 38.057 20.549 41.522 1.669  -0.404 -1.209 "C4'"  T3P 7  
T3P "O4'"  O4*  O 0 1 N N N 38.971 20.970 40.466 1.769  -0.284 0.228  "O4'"  T3P 8  
T3P "C3'"  C3*  C 0 1 N N S 38.617 19.276 42.111 0.141  -0.400 -1.469 "C3'"  T3P 9  
T3P "O3'"  O3*  O 0 1 N N N 37.569 18.310 42.355 -0.168 -1.062 -2.697 "O3'"  T3P 10 
T3P "C2'"  C2*  C 0 1 N N N 39.627 18.752 41.132 -0.395 -1.203 -0.259 "C2'"  T3P 11 
T3P "C1'"  C1*  C 0 1 N N R 40.030 20.003 40.352 0.731  -1.105 0.788  "C1'"  T3P 12 
T3P N1     N1   N 0 1 N N N 41.384 20.434 40.868 0.218  -0.491 2.015  N1     T3P 13 
T3P C2     C2   C 0 1 N N N 42.496 19.752 40.315 -0.299 0.749  1.973  C2     T3P 14 
T3P O2     O2   O 0 1 N N N 42.420 18.862 39.474 -0.335 1.348  0.916  O2     T3P 15 
T3P N3     N3   N 0 1 N N N 43.735 20.127 40.763 -0.777 1.337  3.085  N3     T3P 16 
T3P C4     C4   C 0 1 N N N 43.999 21.105 41.701 -0.748 0.685  4.265  C4     T3P 17 
T3P O4     O4   O 0 1 N N N 45.170 21.310 41.983 -1.181 1.216  5.272  O4     T3P 18 
T3P C5     C5   C 0 1 N N N 42.838 21.798 42.264 -0.202 -0.619 4.324  C5     T3P 19 
T3P C5M    C5M  C 0 1 N N N 43.056 22.907 43.320 -0.154 -1.368 5.631  C5M    T3P 20 
T3P C6     C6   C 0 1 N N N 41.580 21.451 41.839 0.270  -1.185 3.193  C6     T3P 21 
T3P HOP2   2HOP H 0 0 N N N 36.104 18.258 44.609 -1.947 -0.064 -5.472 HOP2   T3P 22 
T3P HOP3   3HOP H 0 0 N N N 38.555 18.322 44.958 -2.869 -0.474 -2.632 HOP3   T3P 23 
T3P "H5'"  H5*  H 0 1 N N N 37.384 23.480 42.568 4.123  1.524  -2.097 "H5'"  T3P 24 
T3P "H5'1" 1H5* H 0 0 N N N 38.939 21.863 43.075 2.161  0.727  -2.974 "H5'1" T3P 25 
T3P "H5''" 2H5* H 0 0 N N N 37.390 21.366 43.473 1.915  1.714  -1.513 "H5''" T3P 26 
T3P "H4'"  H4*  H 0 1 N N N 37.027 20.358 41.139 2.114  -1.340 -1.546 "H4'"  T3P 27 
T3P "H3'"  H3*  H 0 1 N N N 39.095 19.473 43.098 -0.250 0.616  -1.467 "H3'"  T3P 28 
T3P "H2'"  1H2* H 0 1 N N N 40.477 18.196 41.592 -0.568 -2.242 -0.536 "H2'"  T3P 29 
T3P "H2''" 2H2* H 0 0 N N N 39.268 17.905 40.501 -1.310 -0.751 0.122  "H2''" T3P 30 
T3P "H1'"  H1*  H 0 1 N N N 40.152 19.839 39.255 1.121  -2.099 1.006  "H1'"  T3P 31 
T3P H3     H3   H 0 1 N N N 44.532 19.633 40.362 -1.147 2.233  3.038  H3     T3P 32 
T3P H51    1H5  H 0 1 N N N 42.172 23.434 43.748 -0.579 -0.749 6.421  H51    T3P 33 
T3P H52    2H5  H 0 1 N N N 43.662 22.488 44.157 -0.729 -2.290 5.543  H52    T3P 34 
T3P H53    3H5  H 0 1 N N N 43.756 23.666 42.900 0.880  -1.608 5.874  H53    T3P 35 
T3P H6     H6   H 0 1 N N N 40.724 21.990 42.278 0.687  -2.181 3.218  H6     T3P 36 
# 
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 
T3P P     OP1    DOUB N N 1  
T3P P     OP2    SING N N 2  
T3P P     OP3    SING N N 3  
T3P P     "O3'"  SING N N 4  
T3P OP2   HOP2   SING N N 5  
T3P OP3   HOP3   SING N N 6  
T3P "O5'" "C5'"  SING N N 7  
T3P "O5'" "H5'"  SING N N 8  
T3P "C5'" "C4'"  SING N N 9  
T3P "C5'" "H5'1" SING N N 10 
T3P "C5'" "H5''" SING N N 11 
T3P "C4'" "O4'"  SING N N 12 
T3P "C4'" "C3'"  SING N N 13 
T3P "C4'" "H4'"  SING N N 14 
T3P "O4'" "C1'"  SING N N 15 
T3P "C3'" "O3'"  SING N N 16 
T3P "C3'" "C2'"  SING N N 17 
T3P "C3'" "H3'"  SING N N 18 
T3P "C2'" "C1'"  SING N N 19 
T3P "C2'" "H2'"  SING N N 20 
T3P "C2'" "H2''" SING N N 21 
T3P "C1'" N1     SING N N 22 
T3P "C1'" "H1'"  SING N N 23 
T3P N1    C2     SING N N 24 
T3P N1    C6     SING N N 25 
T3P C2    O2     DOUB N N 26 
T3P C2    N3     SING N N 27 
T3P N3    C4     SING N N 28 
T3P N3    H3     SING N N 29 
T3P C4    O4     DOUB N N 30 
T3P C4    C5     SING N N 31 
T3P C5    C5M    SING N N 32 
T3P C5    C6     DOUB N N 33 
T3P C5M   H51    SING N N 34 
T3P C5M   H52    SING N N 35 
T3P C5M   H53    SING N N 36 
T3P C6    H6     SING N N 37 
# 
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 
T3P SMILES           ACDLabs              10.04 "O=C1NC(=O)N(C=C1C)C2OC(C(OP(=O)(O)O)C2)CO"                                                                                                      
T3P SMILES_CANONICAL CACTVS               3.341 "CC1=CN([C@H]2C[C@H](O[P](O)(O)=O)[C@@H](CO)O2)C(=O)NC1=O"                                                                                       
T3P SMILES           CACTVS               3.341 "CC1=CN([CH]2C[CH](O[P](O)(O)=O)[CH](CO)O2)C(=O)NC1=O"                                                                                           
T3P SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 "CC1=CN(C(=O)NC1=O)[C@H]2C[C@@H]([C@H](O2)CO)OP(=O)(O)O"                                                                                         
T3P SMILES           "OpenEye OEToolkits" 1.5.0 "CC1=CN(C(=O)NC1=O)C2CC(C(O2)CO)OP(=O)(O)O"                                                                                                      
T3P InChI            InChI                1.03  "InChI=1S/C10H15N2O8P/c1-5-3-12(10(15)11-9(5)14)8-2-6(7(4-13)19-8)20-21(16,17)18/h3,6-8,13H,2,4H2,1H3,(H,11,14,15)(H2,16,17,18)/t6-,7+,8+/m0/s1" 
T3P InChIKey         InChI                1.03  XXYIANZGUOSQHY-XLPZGREQSA-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 
T3P "SYSTEMATIC NAME" ACDLabs              10.04 
;3'-thymidylic acid
;
T3P "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "[(2R,3S,5R)-2-(hydroxymethyl)-5-(5-methyl-2,4-dioxo-pyrimidin-1-yl)oxolan-3-yl] dihydrogen phosphate" 
# 
_pdbx_chem_comp_synonyms.ordinal      1 
_pdbx_chem_comp_synonyms.comp_id      T3P 
_pdbx_chem_comp_synonyms.name         
;ALPHA-ANOMERIC THYMIDINE-3'-PHOSPHATE
;
_pdbx_chem_comp_synonyms.provenance   ? 
_pdbx_chem_comp_synonyms.type         ? 
# 
loop_
_pdbx_chem_comp_audit.comp_id 
_pdbx_chem_comp_audit.action_type 
_pdbx_chem_comp_audit.date 
_pdbx_chem_comp_audit.processing_site 
T3P "Create component"  1999-08-26 RCSB 
T3P "Modify descriptor" 2011-06-04 RCSB 
T3P "Modify synonyms"   2020-06-05 PDBE 
# 
