data_4PE # _chem_comp.id 4PE _chem_comp.name "3-(2-DEOXY-5-O-PHOSPHONO-BETA-D-ERYTHRO-PENTOFURANOSYL)-6-METHYL-3H-PYRROLO[2,3-D]PYRIMIDIN-2-OL" _chem_comp.type "DNA LINKING" _chem_comp.pdbx_type ATOMN _chem_comp.formula "C12 H16 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 2006-04-18 _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 345.245 _chem_comp.one_letter_code C _chem_comp.three_letter_code 4PE _chem_comp.pdbx_model_coordinates_details ? _chem_comp.pdbx_model_coordinates_missing_flag Y _chem_comp.pdbx_ideal_coordinates_details ? _chem_comp.pdbx_ideal_coordinates_missing_flag N _chem_comp.pdbx_model_coordinates_db_code ? _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 4PE P P P 0 1 N N N 2.195 1.583 -9.575 -3.967 -1.666 3.119 P 4PE 1 4PE OP1 O1P O 0 1 N N N 2.293 3.087 -9.497 -4.406 -2.599 4.209 OP1 4PE 2 4PE OP2 O2P O 0 1 N N N 2.270 0.865 -10.900 -3.912 -2.311 1.637 OP2 4PE 3 4PE "O5'" O5* O 0 1 N N N 0.857 1.117 -8.770 -2.493 -1.028 3.315 "O5'" 4PE 4 4PE "C5'" C5* C 0 1 N N N 0.391 -0.206 -8.998 -2.005 -0.136 2.327 "C5'" 4PE 5 4PE "C4'" C4* C 0 1 N N R -0.781 -0.610 -8.082 -0.611 0.328 2.728 "C4'" 4PE 6 4PE "O4'" O4* O 0 1 N N N -0.331 -0.567 -6.701 0.247 -0.829 2.764 "O4'" 4PE 7 4PE "C3'" C3* C 0 1 N N S -2.041 0.263 -8.176 0.008 1.286 1.720 "C3'" 4PE 8 4PE "O3'" O3* O 0 1 N N N -3.197 -0.542 -7.899 0.965 2.121 2.368 "O3'" 4PE 9 4PE "C2'" C2* C 0 1 N N N -1.876 1.206 -7.008 0.710 0.360 0.754 "C2'" 4PE 10 4PE "C1'" C1* C 0 1 N N R -1.249 0.280 -5.977 1.157 -0.778 1.657 "C1'" 4PE 11 4PE N1 N1 N 0 1 Y N N -0.569 1.017 -4.908 1.164 -2.047 0.989 N1 4PE 12 4PE C2 C2 C 0 1 Y N N -1.139 1.148 -3.652 2.300 -2.578 0.367 C2 4PE 13 4PE O2 O2 O 0 1 N N N -2.364 0.623 -3.500 3.435 -1.828 0.419 O2 4PE 14 4PE N3 N3 N 0 1 Y N N -0.647 1.726 -2.605 2.387 -3.719 -0.259 N3 4PE 15 4PE C5 C5 C 0 1 Y N N 1.264 2.256 -4.095 -0.003 -3.989 0.324 C5 4PE 16 4PE C6 C6 C 0 1 Y N N 0.672 1.622 -5.104 0.004 -2.810 0.941 C6 4PE 17 4PE C14 C14 C 0 1 Y N N 2.470 2.972 -3.867 -0.942 -5.023 0.066 C14 4PE 18 4PE C15 C15 C 0 1 Y N N 2.435 3.308 -2.561 -0.254 -5.951 -0.630 C15 4PE 19 4PE C16 C16 C 0 1 N N N 3.475 4.088 -1.832 -0.797 -7.238 -1.142 C16 4PE 20 4PE N17 N17 N 0 1 Y N N 1.291 2.888 -1.870 1.087 -5.637 -0.872 N17 4PE 21 4PE C4 C4 C 0 1 Y N N 0.585 2.277 -2.788 1.241 -4.469 -0.306 C4 4PE 22 4PE OP3 O3P O 0 1 N Y N ? ? ? -4.901 -0.360 2.920 OP3 4PE 23 4PE HOP2 2HOP H 0 0 N N N 1.392 0.714 -11.229 -4.684 -2.823 1.313 HOP2 4PE 24 4PE "H5'" 1H5* H 0 1 N N N 1.226 -0.888 -8.780 -1.970 -0.654 1.366 "H5'" 4PE 25 4PE "H5''" 2H5* H 0 0 N N N 0.050 -0.274 -10.042 -2.682 0.718 2.254 "H5''" 4PE 26 4PE "H4'" H4* H 0 1 N N N -1.072 -1.613 -8.426 -0.644 0.754 3.736 "H4'" 4PE 27 4PE "H3'" H3* H 0 1 N N N -2.160 0.745 -9.158 -0.723 1.941 1.237 "H3'" 4PE 28 4PE "HO3'" H3T H 0 0 N Y N -2.941 -1.455 -7.838 0.479 2.685 2.995 "HO3'" 4PE 29 4PE "H2'" 1H2* H 0 1 N N N -2.811 1.682 -6.677 -0.002 -0.001 0.002 "H2'" 4PE 30 4PE "H2''" 2H2* H 0 0 N N N -1.231 2.064 -7.249 1.556 0.819 0.233 "H2''" 4PE 31 4PE "H1'" H1* H 0 1 N N N -2.025 -0.312 -5.469 2.154 -0.576 2.064 "H1'" 4PE 32 4PE H2 H2 H 0 1 N N N -2.301 -0.324 -3.464 3.224 -0.882 0.417 H2 4PE 33 4PE H6 H6 H 0 1 N N N 1.151 1.576 -6.071 -0.868 -2.390 1.426 H6 4PE 34 4PE H14 H14 H 0 1 N N N 3.246 3.198 -4.583 -1.975 -5.051 0.365 H14 4PE 35 4PE H161 1H16 H 0 0 N N N 4.393 4.129 -2.436 -1.217 -7.821 -0.321 H161 4PE 36 4PE H162 2H16 H 0 0 N N N 3.690 3.601 -0.869 -0.003 -7.817 -1.619 H162 4PE 37 4PE H163 3H16 H 0 0 N N N 3.109 5.110 -1.652 -1.579 -7.048 -1.880 H163 4PE 38 4PE HOP3 3HOP H 0 0 N N N -0.062 -0.947 -0.049 -5.874 -0.475 2.871 HOP3 4PE 39 # 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 4PE P OP1 DOUB N N 1 4PE P OP2 SING N N 2 4PE P "O5'" SING N N 3 4PE P OP3 SING N N 4 4PE OP2 HOP2 SING N N 5 4PE "O5'" "C5'" SING N N 6 4PE "C5'" "C4'" SING N N 7 4PE "C5'" "H5'" SING N N 8 4PE "C5'" "H5''" SING N N 9 4PE "C4'" "O4'" SING N N 10 4PE "C4'" "C3'" SING N N 11 4PE "C4'" "H4'" SING N N 12 4PE "O4'" "C1'" SING N N 13 4PE "C3'" "O3'" SING N N 14 4PE "C3'" "C2'" SING N N 15 4PE "C3'" "H3'" SING N N 16 4PE "O3'" "HO3'" SING N N 17 4PE "C2'" "C1'" SING N N 18 4PE "C2'" "H2'" SING N N 19 4PE "C2'" "H2''" SING N N 20 4PE "C1'" N1 SING N N 21 4PE "C1'" "H1'" SING N N 22 4PE N1 C2 SING Y N 23 4PE N1 C6 SING Y N 24 4PE C2 O2 SING N N 25 4PE C2 N3 DOUB Y N 26 4PE O2 H2 SING N N 27 4PE N3 C4 SING Y N 28 4PE C5 C6 DOUB Y N 29 4PE C5 C14 SING Y N 30 4PE C5 C4 SING Y N 31 4PE C6 H6 SING N N 32 4PE C14 C15 DOUB Y N 33 4PE C14 H14 SING N N 34 4PE C15 C16 SING N N 35 4PE C15 N17 SING Y N 36 4PE C16 H161 SING N N 37 4PE C16 H162 SING N N 38 4PE C16 H163 SING N N 39 4PE N17 C4 DOUB Y N 40 4PE OP3 HOP3 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 4PE SMILES ACDLabs 10.04 "O=P(O)(O)OCC3OC(N2C(=NC1=NC(=CC1=C2)C)O)CC3O" 4PE SMILES_CANONICAL CACTVS 3.341 "Cc1cc2cn([C@H]3C[C@H](O)[C@@H](CO[P](O)(O)=O)O3)c(O)nc2n1" 4PE SMILES CACTVS 3.341 "Cc1cc2cn([CH]3C[CH](O)[CH](CO[P](O)(O)=O)O3)c(O)nc2n1" 4PE SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 "Cc1cc-2cn(c(nc2n1)O)[C@H]3C[C@@H]([C@H](O3)COP(=O)(O)O)O" 4PE SMILES "OpenEye OEToolkits" 1.5.0 "Cc1cc-2cn(c(nc2n1)O)C3CC(C(O3)COP(=O)(O)O)O" 4PE InChI InChI 1.03 "InChI=1S/C12H16N3O7P/c1-6-2-7-4-15(12(17)14-11(7)13-6)10-3-8(16)9(22-10)5-21-23(18,19)20/h2,4,8-10,16H,3,5H2,1H3,(H,13,14,17)(H2,18,19,20)/t8-,9+,10+/m0/s1" 4PE InChIKey InChI 1.03 VOKZMFPBFFRNPZ-IVZWLZJFSA-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 4PE "SYSTEMATIC NAME" ACDLabs 10.04 "3-(2-deoxy-5-O-phosphono-beta-D-erythro-pentofuranosyl)-6-methyl-3H-pyrrolo[2,3-d]pyrimidin-2-ol" 4PE "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "[(2R,3S,5R)-3-hydroxy-5-(2-hydroxy-6-methyl-pyrrolo[2,3-d]pyrimidin-3-yl)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 4PE "Create component" 2006-04-18 RCSB 4PE "Modify descriptor" 2011-06-04 RCSB #