data_1W5
# 
_chem_comp.id                                    1W5 
_chem_comp.name                                  "(1R)-1-(6-amino-2-hydroxy-5-nitropyridin-3-yl)-1,4-anhydro-2-deoxy-5-O-phosphono-D-erythro-pentitol" 
_chem_comp.type                                  "DNA linking" 
_chem_comp.pdbx_type                             ATOMN 
_chem_comp.formula                               "C10 H14 N3 O9 P" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2013-06-28 
_chem_comp.pdbx_modified_date                    2016-05-12 
_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                        351.207 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     1W5 
_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        4XNO 
_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 
1W5 N     N1  N 1  1 N N N 43.245 36.212 -15.673 3.288  -2.437 -0.666 N     1W5 1  
1W5 P     P1  P 0  1 N N N 47.159 39.308 -14.891 -4.484 -1.156 0.327  P     1W5 2  
1W5 C1    C1  C 0  1 Y N N 46.308 34.145 -15.721 1.946  0.914  0.341  C1    1W5 3  
1W5 C2    C2  C 0  1 Y N N 45.827 32.878 -16.231 3.115  1.500  0.807  C2    1W5 4  
1W5 O2    O1  O 0  1 N N N 46.470 31.891 -16.434 3.084  2.768  1.286  O2    1W5 5  
1W5 N3    N2  N 0  1 Y N N 44.447 32.856 -16.521 4.259  0.834  0.789  N3    1W5 6  
1W5 C4    C3  C 0  1 Y N N 43.560 33.869 -16.368 4.332  -0.406 0.328  C4    1W5 7  
1W5 N4    N3  N 0  1 N N N 42.290 33.603 -16.696 5.554  -1.068 0.327  N4    1W5 8  
1W5 C5    C4  C 0  1 Y N N 44.058 35.066 -15.875 3.199  -1.051 -0.154 C5    1W5 9  
1W5 C6    C5  C 0  1 Y N N 45.453 35.158 -15.561 1.986  -0.383 -0.148 C6    1W5 10 
1W5 "C1'" C6  C 0  1 N N R 47.706 34.199 -15.380 0.647  1.677  0.371  "C1'" 1W5 11 
1W5 "C2'" C7  C 0  1 N N N 48.473 34.458 -16.656 0.473  2.494  -0.928 "C2'" 1W5 12 
1W5 "C3'" C8  C 0  1 N N S 49.030 35.885 -16.662 -1.040 2.400  -1.230 "C3'" 1W5 13 
1W5 "O3'" O2  O 0  1 N N N 50.278 35.942 -17.382 -1.635 3.699  -1.218 "O3'" 1W5 14 
1W5 "C4'" C9  C 0  1 N N R 49.197 36.087 -15.176 -1.600 1.537  -0.079 "C4'" 1W5 15 
1W5 "O4'" O3  O 0  1 N N N 48.120 35.326 -14.557 -0.472 0.763  0.386  "O4'" 1W5 16 
1W5 "C5'" C10 C 0  1 N N N 49.080 37.573 -14.871 -2.704 0.611  -0.595 "C5'" 1W5 17 
1W5 "O5'" O4  O 0  1 N N N 47.772 37.887 -15.319 -3.287 -0.093 0.504  "O5'" 1W5 18 
1W5 ON1   O5  O 0  1 N N N 42.071 36.165 -15.943 4.016  -3.244 -0.117 ON1   1W5 19 
1W5 ON2   O6  O -1 1 N N N 43.774 37.199 -15.271 2.629  -2.771 -1.635 ON2   1W5 20 
1W5 OP1   O7  O 0  1 N N N 48.207 40.332 -14.839 -5.800 -0.398 -0.206 OP1   1W5 21 
1W5 OP2   O8  O 0  1 N N N 45.933 39.735 -15.651 -4.082 -2.194 -0.648 OP2   1W5 22 
1W5 OP3   O9  O 0  1 N Y N 46.973 39.410 -13.318 -4.800 -1.847 1.747  O1    1W5 23 
1W5 H1    H1  H 0  1 N N N 42.218 32.657 -17.011 6.319  -0.674 0.774  H1    1W5 24 
1W5 H2    H2  H 0  1 N N N 41.705 33.733 -15.896 5.641  -1.924 -0.120 H2    1W5 25 
1W5 H4    H4  H 0  1 N N N 45.832 36.093 -15.176 1.090  -0.863 -0.512 H4    1W5 26 
1W5 H5    H5  H 0  1 N N N 48.037 33.250 -14.932 0.613  2.332  1.242  H5    1W5 27 
1W5 H6    H6  H 0  1 N N N 47.800 34.328 -17.516 0.766  3.532  -0.768 H6    1W5 28 
1W5 H7    H7  H 0  1 N N N 49.306 33.743 -16.730 1.054  2.053  -1.737 H7    1W5 29 
1W5 H8    H8  H 0  1 N N N 48.288 36.587 -17.072 -1.207 1.911  -2.190 H8    1W5 30 
1W5 H9    H9  H 0  1 N N N 50.608 36.833 -17.375 -1.276 4.302  -1.883 H9    1W5 31 
1W5 H10   H10 H 0  1 N N N 50.179 35.713 -14.851 -1.981 2.172  0.721  H10   1W5 32 
1W5 H11   H11 H 0  1 N N N 49.836 38.151 -15.422 -3.470 1.203  -1.095 H11   1W5 33 
1W5 H12   H12 H 0  1 N N N 49.186 37.765 -13.793 -2.279 -0.103 -1.300 H12   1W5 34 
1W5 HOP1  H13 H 0  0 N N N 47.918 41.106 -15.308 -6.121 0.297  0.384  H13   1W5 35 
1W5 HOP3  H14 H 0  0 N Y N 46.100 39.730 -13.122 -5.512 -2.501 1.715  H14   1W5 36 
1W5 H15   H15 H 0  1 N N N 45.905 31.210 -16.780 2.908  2.826  2.235  H15   1W5 37 
# 
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 
1W5 "O3'" "C3'" SING N N 1  
1W5 N4    C4    SING N N 2  
1W5 "C3'" "C2'" SING N N 3  
1W5 "C3'" "C4'" SING N N 4  
1W5 "C2'" "C1'" SING N N 5  
1W5 N3    C4    DOUB Y N 6  
1W5 N3    C2    SING Y N 7  
1W5 O2    C2    SING N N 8  
1W5 C4    C5    SING Y N 9  
1W5 C2    C1    DOUB Y N 10 
1W5 ON1   N     DOUB N N 11 
1W5 C5    N     SING N N 12 
1W5 C5    C6    DOUB Y N 13 
1W5 C1    C6    SING Y N 14 
1W5 C1    "C1'" SING N N 15 
1W5 N     ON2   SING N N 16 
1W5 OP2   P     DOUB N N 17 
1W5 "C1'" "O4'" SING N N 18 
1W5 "O5'" P     SING N N 19 
1W5 "O5'" "C5'" SING N N 20 
1W5 "C4'" "C5'" SING N N 21 
1W5 "C4'" "O4'" SING N N 22 
1W5 P     OP1   SING N N 23 
1W5 P     OP3   SING N N 24 
1W5 N4    H1    SING N N 25 
1W5 N4    H2    SING N N 26 
1W5 C6    H4    SING N N 27 
1W5 "C1'" H5    SING N N 28 
1W5 "C2'" H6    SING N N 29 
1W5 "C2'" H7    SING N N 30 
1W5 "C3'" H8    SING N N 31 
1W5 "O3'" H9    SING N N 32 
1W5 "C4'" H10   SING N N 33 
1W5 "C5'" H11   SING N N 34 
1W5 "C5'" H12   SING N N 35 
1W5 OP1   HOP1  SING N N 36 
1W5 OP3   HOP3  SING N N 37 
1W5 O2    H15   SING N N 38 
# 
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 
1W5 SMILES           ACDLabs              12.01 "[N+]([O-])(c1c(nc(c(c1)C2OC(C(C2)O)COP(O)(O)=O)O)N)=O"                                                                                             
1W5 InChI            InChI                1.03  "InChI=1S/C10H14N3O9P/c11-9-5(13(16)17)1-4(10(15)12-9)7-2-6(14)8(22-7)3-21-23(18,19)20/h1,6-8,14H,2-3H2,(H3,11,12,15)(H2,18,19,20)/t6-,7+,8+/m0/s1" 
1W5 InChIKey         InChI                1.03  IUUXEDXPTYNSEU-XLPZGREQSA-N                                                                                                                         
1W5 SMILES_CANONICAL CACTVS               3.385 "Nc1nc(O)c(cc1[N+]([O-])=O)[C@H]2C[C@H](O)[C@@H](CO[P](O)(O)=O)O2"                                                                                  
1W5 SMILES           CACTVS               3.385 "Nc1nc(O)c(cc1[N+]([O-])=O)[CH]2C[CH](O)[CH](CO[P](O)(O)=O)O2"                                                                                      
1W5 SMILES_CANONICAL "OpenEye OEToolkits" 2.0.4 "c1c(c(nc(c1[N+](=O)[O-])N)O)[C@H]2C[C@@H]([C@H](O2)COP(=O)(O)O)O"                                                                                  
1W5 SMILES           "OpenEye OEToolkits" 2.0.4 "c1c(c(nc(c1[N+](=O)[O-])N)O)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 
1W5 "SYSTEMATIC NAME" ACDLabs              12.01 "(1R)-1-(6-amino-2-hydroxy-5-nitropyridin-3-yl)-1,4-anhydro-2-deoxy-5-O-phosphono-D-erythro-pentitol"                  
1W5 "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.4 "[(2~{R},3~{S},5~{R})-5-(6-azanyl-5-nitro-2-oxidanyl-pyridin-3-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 
1W5 "Create component"         2013-06-28 RCSB 
1W5 "Modify leaving atom flag" 2014-10-17 RCSB 
1W5 "Other modification"       2014-10-29 RCSB 
1W5 "Initial release"          2015-05-27 RCSB 
1W5 "Modify formal charge"     2016-05-09 RCSB 
1W5 "Modify formula"           2016-05-12 RCSB 
# 
