data_D00
# 
_chem_comp.id                                    D00 
_chem_comp.name                                  
;2'-deoxy-N-ethylcytidine 5'-(dihydrogen phosphate)
;
_chem_comp.type                                  "DNA LINKING" 
_chem_comp.pdbx_type                             ATOMN 
_chem_comp.formula                               "C11 H18 N3 O7 P" 
_chem_comp.mon_nstd_parent_comp_id               DC 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2014-06-06 
_chem_comp.pdbx_modified_date                    2014-06-20 
_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                        335.250 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     D00 
_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        1N4B 
_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 
D00 P      P      P 0 1 N N N 0.549  -8.842  16.532 4.341  1.409  0.091  P      D00 1  
D00 OP1    OP1    O 0 1 N N N -0.455 -9.916  16.358 5.631  0.707  -0.567 OP1    D00 2  
D00 OP2    OP2    O 0 1 N N N 1.771  -8.830  15.697 3.762  2.376  -0.869 OP2    D00 3  
D00 "O5'"  "O5'"  O 0 1 N N N -0.194 -7.430  16.344 3.243  0.287  0.450  "O5'"  D00 4  
D00 "C5'"  "C5'"  C 0 1 N N N -1.378 -7.220  17.103 2.581  -0.499 -0.542 "C5'"  D00 5  
D00 "C4'"  "C4'"  C 0 1 N N R -1.745 -5.752  17.178 1.607  -1.463 0.138  "C4'"  D00 6  
D00 "O4'"  "O4'"  O 0 1 N N N -0.638 -4.983  17.635 0.530  -0.737 0.769  "O4'"  D00 7  
D00 "C3'"  "C3'"  C 0 1 N N S -2.228 -5.031  15.951 0.882  -2.340 -0.915 "C3'"  D00 8  
D00 "O3'"  "O3'"  O 0 1 N N N -3.510 -4.437  16.080 1.655  -3.500 -1.230 "O3'"  D00 9  
D00 "C2'"  "C2'"  C 0 1 N N N -1.129 -4.019  15.769 -0.420 -2.728 -0.173 "C2'"  D00 10 
D00 "C1'"  "C1'"  C 0 1 N N R -0.785 -3.634  17.183 -0.562 -1.657 0.926  "C1'"  D00 11 
D00 N1     N1     N 0 1 N N N 0.591  -3.131  17.356 -1.836 -0.950 0.770  N1     D00 12 
D00 C2     C2     C 0 1 N N N 0.851  -2.004  18.107 -2.054 -0.197 -0.324 C2     D00 13 
D00 O2     O2     O 0 1 N N N -0.054 -1.350  18.620 -1.185 -0.112 -1.176 O2     D00 14 
D00 N3     N3     N 0 1 N N N 2.154  -1.635  18.254 -3.202 0.456  -0.492 N3     D00 15 
D00 C4     C4     C 0 1 N N N 3.199  -2.298  17.713 -4.163 0.381  0.420  C4     D00 16 
D00 N4     N4     N 0 1 N N N 4.479  -2.164  18.213 -5.346 1.059  0.236  N4     D00 17 
D00 C5     C5     C 0 1 N N N 2.888  -3.464  16.929 -3.967 -0.400 1.577  C5     D00 18 
D00 C6     C6     C 0 1 N N N 1.600  -3.830  16.786 -2.796 -1.062 1.730  C6     D00 19 
D00 C10    C10    C 0 1 N N N 5.345  -0.046  19.346 -6.934 2.512  -0.927 C10    D00 20 
D00 C11    C11    C 0 1 N N N 5.193  -0.881  18.290 -5.546 1.868  -0.969 C11    D00 21 
D00 OP3    OP3    O 0 1 N Y N 1.004  -8.818  18.080 4.777  2.183  1.434  OP3    D00 22 
D00 H1     H1     H 0 1 N N N -0.167 -10.512 15.677 6.062  0.059  0.008  H1     D00 23 
D00 "H5''" "H5''" H 0 0 N N N -2.206 -7.770  16.631 2.032  0.156  -1.218 "H5''" D00 24 
D00 "H5'"  "H5'"  H 0 1 N N N -1.219 -7.600  18.123 3.320  -1.068 -1.107 "H5'"  D00 25 
D00 "H4'"  "H4'"  H 0 1 N N N -2.544 -5.667  17.930 2.128  -2.085 0.866  "H4'"  D00 26 
D00 "H3'"  "H3'"  H 0 1 N N N -2.217 -5.727  15.099 0.662  -1.765 -1.814 "H3'"  D00 27 
D00 "HO3'" "HO3'" H 0 0 N Y N -4.164 -5.116  16.192 1.243  -4.081 -1.885 "HO3'" D00 28 
D00 "H2''" "H2''" H 0 0 N N N -0.262 -4.464  15.259 -1.271 -2.693 -0.853 "H2''" D00 29 
D00 "H2'"  "H2'"  H 0 1 N N N -1.484 -3.149  15.198 -0.325 -3.720 0.271  "H2'"  D00 30 
D00 "H1'"  "H1'"  H 0 1 N N N -1.560 -3.043  17.692 -0.517 -2.126 1.909  "H1'"  D00 31 
D00 H41    H41    H 0 1 N N N 4.946  -2.985  18.541 -6.047 1.002  0.904  H41    D00 32 
D00 H5     H5     H 0 1 N N N 3.676  -4.037  16.462 -4.739 -0.471 2.329  H5     D00 33 
D00 H6     H6     H 0 1 N N N 1.366  -4.706  16.200 -2.621 -1.667 2.608  H6     D00 34 
D00 H12    H12    H 0 1 N N N 5.942  0.827   19.041 -7.695 1.732  -0.881 H12    D00 35 
D00 H11    H11    H 0 1 N N N 4.357  0.289   19.694 -7.012 3.148  -0.045 H11    D00 36 
D00 H8     H8     H 0 1 N N N 5.860  -0.576  20.161 -7.083 3.114  -1.823 H8     D00 37 
D00 H13    H13    H 0 1 N N N 6.222  -1.123  17.985 -4.786 2.648  -1.014 H13    D00 38 
D00 H14    H14    H 0 1 N N N 4.718  -0.259  17.517 -5.468 1.232  -1.851 H14    D00 39 
D00 H9     H9     H 0 1 N N N 1.952  -8.801  18.132 5.438  2.875  1.293  H9     D00 40 
# 
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 
D00 OP2   P      DOUB N N 1  
D00 "C2'" "C3'"  SING N N 2  
D00 "C2'" "C1'"  SING N N 3  
D00 "C3'" "O3'"  SING N N 4  
D00 "C3'" "C4'"  SING N N 5  
D00 "O5'" P      SING N N 6  
D00 "O5'" "C5'"  SING N N 7  
D00 OP1   P      SING N N 8  
D00 C6    C5     DOUB N N 9  
D00 C6    N1     SING N N 10 
D00 C5    C4     SING N N 11 
D00 "C5'" "C4'"  SING N N 12 
D00 "C4'" "O4'"  SING N N 13 
D00 "C1'" N1     SING N N 14 
D00 "C1'" "O4'"  SING N N 15 
D00 N1    C2     SING N N 16 
D00 C4    N4     SING N N 17 
D00 C4    N3     DOUB N N 18 
D00 C2    N3     SING N N 19 
D00 C2    O2     DOUB N N 20 
D00 N4    C11    SING N N 21 
D00 C11   C10    SING N N 22 
D00 P     OP3    SING N N 23 
D00 OP1   H1     SING N N 24 
D00 "C5'" "H5''" SING N N 25 
D00 "C5'" "H5'"  SING N N 26 
D00 "C4'" "H4'"  SING N N 27 
D00 "C3'" "H3'"  SING N N 28 
D00 "O3'" "HO3'" SING N N 29 
D00 "C2'" "H2''" SING N N 30 
D00 "C2'" "H2'"  SING N N 31 
D00 "C1'" "H1'"  SING N N 32 
D00 N4    H41    SING N N 33 
D00 C5    H5     SING N N 34 
D00 C6    H6     SING N N 35 
D00 C10   H12    SING N N 36 
D00 C10   H11    SING N N 37 
D00 C10   H8     SING N N 38 
D00 C11   H13    SING N N 39 
D00 C11   H14    SING N N 40 
D00 OP3   H9     SING N N 41 
# 
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 
D00 SMILES           ACDLabs              12.01 "O=P(O)(O)OCC2OC(N1C(=O)N=C(NCC)C=C1)CC2O"                                                                                                                   
D00 InChI            InChI                1.03  "InChI=1S/C11H18N3O7P/c1-2-12-9-3-4-14(11(16)13-9)10-5-7(15)8(21-10)6-20-22(17,18)19/h3-4,7-8,10,15H,2,5-6H2,1H3,(H,12,13,16)(H2,17,18,19)/t7-,8+,10+/m0/s1" 
D00 InChIKey         InChI                1.03  CLGIJIDGLSCEMM-QXFUBDJGSA-N                                                                                                                                  
D00 SMILES_CANONICAL CACTVS               3.385 "CCNC1=NC(=O)N(C=C1)[C@H]2C[C@H](O)[C@@H](CO[P](O)(O)=O)O2"                                                                                                  
D00 SMILES           CACTVS               3.385 "CCNC1=NC(=O)N(C=C1)[CH]2C[CH](O)[CH](CO[P](O)(O)=O)O2"                                                                                                      
D00 SMILES_CANONICAL "OpenEye OEToolkits" 1.7.6 "CCNC1=NC(=O)N(C=C1)[C@H]2C[C@@H]([C@H](O2)COP(=O)(O)O)O"                                                                                                    
D00 SMILES           "OpenEye OEToolkits" 1.7.6 "CCNC1=NC(=O)N(C=C1)C2CC(C(O2)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 
D00 "SYSTEMATIC NAME" ACDLabs              12.01 
;2'-deoxy-N-ethylcytidine 5'-(dihydrogen phosphate)
;
D00 "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.7.6 "[(2R,3S,5R)-5-[4-(ethylamino)-2-oxidanylidene-pyrimidin-1-yl]-3-oxidanyl-oxolan-2-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 
D00 "Create component"      2014-06-06 PDBJ 
D00 "Modify linking type"   2014-06-10 PDBJ 
D00 "Modify parent residue" 2014-06-10 PDBJ 
D00 "Modify value order"    2014-06-10 PDBJ 
D00 "Modify name"           2014-06-10 PDBJ 
D00 "Modify formula"        2014-06-10 PDBJ 
D00 "Modify atom id"        2014-06-10 PDBJ 
D00 "Initial release"       2014-06-25 RCSB 
# 
