data_VRT # _chem_comp.id VRT _chem_comp.name "2'-(L-NORVALYL)AMINO-2'-DEOXYADENOSINE" _chem_comp.type NON-POLYMER _chem_comp.pdbx_type HETAIN _chem_comp.formula "C15 H23 N7 O4" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2015-11-23 _chem_comp.pdbx_modified_date 2016-07-29 _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 365.388 _chem_comp.one_letter_code ? _chem_comp.three_letter_code VRT _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 5FOG _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site EBI # 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 VRT C C C 0 1 N N N 1.565 25.234 18.948 -1.994 0.535 -0.916 C VRT 1 VRT N N N 0 1 N N N 2.214 23.621 21.005 -3.260 2.439 -1.739 N VRT 2 VRT O O O 0 1 N N N 1.447 26.379 18.499 -1.967 0.140 -2.062 O VRT 3 VRT N1 N1 N 0 1 Y N N 5.407 19.834 14.041 2.905 3.490 0.710 N1 VRT 4 VRT C2 C2 C 0 1 Y N N 4.767 19.548 15.213 1.790 3.062 1.273 C2 VRT 5 VRT N3 N3 N 0 1 Y N N 3.728 20.327 15.690 1.382 1.814 1.172 N3 VRT 6 VRT C4 C4 C 0 1 Y N N 3.258 21.480 15.031 2.090 0.923 0.486 C4 VRT 7 VRT C5 C5 C 0 1 Y N N 3.878 21.851 13.815 3.284 1.330 -0.133 C5 VRT 8 VRT C6 C6 C 0 1 Y N N 5.020 20.963 13.343 3.678 2.672 0.004 C6 VRT 9 VRT N6 N6 N 0 1 N N N 5.606 21.360 12.208 4.845 3.131 -0.583 N6 VRT 10 VRT N7 N7 N 0 1 Y N N 3.267 23.000 13.316 3.801 0.244 -0.756 N7 VRT 11 VRT C8 C8 C 0 1 Y N N 2.309 23.338 14.212 3.019 -0.779 -0.564 C8 VRT 12 VRT N9 N9 N 0 1 Y N N 2.286 22.430 15.253 1.949 -0.410 0.197 N9 VRT 13 VRT CA CA C 0 1 N N S 1.931 24.987 20.425 -2.898 1.680 -0.535 CA VRT 14 VRT CB CB C 0 1 N N N 2.221 26.217 21.316 -4.166 1.131 0.123 CB VRT 15 VRT CD CD C 0 1 N N N -0.218 26.398 22.100 -6.294 1.746 1.279 CD VRT 16 VRT CG CG C 0 1 N N N 0.957 27.096 21.439 -5.026 2.295 0.621 CG VRT 17 VRT "C1'" "C1'" C 0 1 N N R 1.378 22.460 16.474 0.851 -1.280 0.626 "C1'" VRT 18 VRT N10 N10 N 0 1 N N N 1.295 24.104 18.281 -1.221 -0.052 0.018 N10 VRT 19 VRT "C2'" "C2'" C 0 1 N N R 0.848 23.872 16.903 -0.347 -1.169 -0.351 "C2'" VRT 20 VRT "C3'" "C3'" C 0 1 N N S -0.714 23.790 16.841 -1.064 -2.525 -0.140 "C3'" VRT 21 VRT "O3'" "O3'" O 0 1 N N N -1.467 24.259 18.028 -2.157 -2.377 0.769 "O3'" VRT 22 VRT "C4'" "C4'" C 0 1 N N R -1.001 22.302 16.497 0.022 -3.436 0.466 "C4'" VRT 23 VRT "O4'" "O4'" O 0 1 N N N 0.235 21.581 16.400 1.235 -2.668 0.532 "O4'" VRT 24 VRT "C5'" "C5'" C 0 1 N N N -1.605 21.894 15.153 0.229 -4.661 -0.427 "C5'" VRT 25 VRT "O5'" "O5'" O 0 1 N N N -1.783 20.467 15.118 1.151 -5.556 0.200 "O5'" VRT 26 VRT HN HN H 0 1 N N N 2.428 23.709 21.978 -2.446 2.866 -2.156 HN VRT 27 VRT HNA HNA H 0 1 N N N 1.410 23.038 20.892 -3.743 1.854 -2.405 HNA VRT 28 VRT H2 H2 H 0 1 N N N 5.082 18.688 15.785 1.191 3.761 1.839 H2 VRT 29 VRT HN6 HN6 H 0 1 N N N 6.338 20.722 11.970 5.106 4.059 -0.482 HN6 VRT 30 VRT HN6A HN6A H 0 0 N N N 4.929 21.380 11.473 5.401 2.523 -1.096 HN6A VRT 31 VRT H8 H8 H 0 1 N N N 1.657 24.194 14.125 3.192 -1.772 -0.950 H8 VRT 32 VRT HA HA H 0 1 N N N 0.875 24.953 20.732 -2.379 2.335 0.165 HA VRT 33 VRT HB HB H 0 1 N N N 2.526 25.877 22.317 -4.730 0.549 -0.605 HB VRT 34 VRT HBA HBA H 0 1 N N N 3.032 26.808 20.866 -3.892 0.495 0.964 HBA VRT 35 VRT HD HD H 0 1 N N N -1.074 27.087 22.149 -6.858 1.163 0.551 HD VRT 36 VRT HDA HDA H 0 1 N N N -0.495 25.511 21.512 -6.020 1.110 2.121 HDA VRT 37 VRT HDB HDB H 0 1 N N N 0.064 26.090 23.118 -6.906 2.575 1.634 HDB VRT 38 VRT HG HG H 0 1 N N N 1.211 27.985 22.034 -4.462 2.877 1.349 HG VRT 39 VRT HGA HGA H 0 1 N N N 0.652 27.406 20.429 -5.299 2.931 -0.220 HGA VRT 40 VRT "H1'" "H1'" H 0 1 N N N 1.994 22.110 17.316 0.542 -1.032 1.642 "H1'" VRT 41 VRT HN10 HN10 H 0 0 N N N 1.421 23.270 18.818 -1.243 0.264 0.935 HN10 VRT 42 VRT "H2'" "H2'" H 0 1 N N N 1.220 24.646 16.216 -0.002 -1.067 -1.379 "H2'" VRT 43 VRT "H3'" "H3'" H 0 1 N N N -1.034 24.390 15.976 -1.413 -2.924 -1.092 "H3'" VRT 44 VRT "HO3'" "HO3'" H 0 0 N N N -2.399 24.160 17.872 -2.642 -3.196 0.938 "HO3'" VRT 45 VRT "H4'" "H4'" H 0 1 N N N -1.619 21.876 17.301 -0.274 -3.750 1.467 "H4'" VRT 46 VRT "H5'" "H5'" H 0 1 N N N -2.579 22.388 15.024 -0.724 -5.168 -0.576 "H5'" VRT 47 VRT "H5'A" "H5'A" H 0 0 N N N -0.929 22.199 14.340 0.628 -4.345 -1.391 "H5'A" VRT 48 VRT "HO5'" "HO5'" H 0 0 N N N -2.158 20.215 14.283 1.331 -6.357 -0.311 "HO5'" VRT 49 # 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 VRT C O DOUB N N 1 VRT C CA SING N N 2 VRT C N10 SING N N 3 VRT N CA SING N N 4 VRT N1 C2 DOUB Y N 5 VRT N1 C6 SING Y N 6 VRT C2 N3 SING Y N 7 VRT N3 C4 DOUB Y N 8 VRT C4 C5 SING Y N 9 VRT C4 N9 SING Y N 10 VRT C5 C6 DOUB Y N 11 VRT C5 N7 SING Y N 12 VRT C6 N6 SING N N 13 VRT N7 C8 DOUB Y N 14 VRT C8 N9 SING Y N 15 VRT N9 "C1'" SING N N 16 VRT CA CB SING N N 17 VRT CB CG SING N N 18 VRT CD CG SING N N 19 VRT "C1'" "C2'" SING N N 20 VRT "C1'" "O4'" SING N N 21 VRT N10 "C2'" SING N N 22 VRT "C2'" "C3'" SING N N 23 VRT "C3'" "O3'" SING N N 24 VRT "C3'" "C4'" SING N N 25 VRT "C4'" "O4'" SING N N 26 VRT "C4'" "C5'" SING N N 27 VRT "C5'" "O5'" SING N N 28 VRT N HN SING N N 29 VRT N HNA SING N N 30 VRT C2 H2 SING N N 31 VRT N6 HN6 SING N N 32 VRT N6 HN6A SING N N 33 VRT C8 H8 SING N N 34 VRT CA HA SING N N 35 VRT CB HB SING N N 36 VRT CB HBA SING N N 37 VRT CD HD SING N N 38 VRT CD HDA SING N N 39 VRT CD HDB SING N N 40 VRT CG HG SING N N 41 VRT CG HGA SING N N 42 VRT "C1'" "H1'" SING N N 43 VRT N10 HN10 SING N N 44 VRT "C2'" "H2'" SING N N 45 VRT "C3'" "H3'" SING N N 46 VRT "O3'" "HO3'" SING N N 47 VRT "C4'" "H4'" SING N N 48 VRT "C5'" "H5'" SING N N 49 VRT "C5'" "H5'A" SING N N 50 VRT "O5'" "HO5'" SING N N 51 # 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 VRT InChI InChI 1.03 "InChI=1S/C15H23N7O4/c1-2-3-7(16)14(25)21-9-11(24)8(4-23)26-15(9)22-6-20-10-12(17)18-5-19-13(10)22/h5-9,11,15,23-24H,2-4,16H2,1H3,(H,21,25)(H2,17,18,19)/t7-,8+,9+,11+,15+/m0/s1" VRT InChIKey InChI 1.03 NWKNSTYARDJRIZ-IEUWZBGXSA-N VRT SMILES_CANONICAL CACTVS 3.385 "CCC[C@H](N)C(=O)N[C@@H]1[C@H](O)[C@@H](CO)O[C@H]1n2cnc3c(N)ncnc23" VRT SMILES CACTVS 3.385 "CCC[CH](N)C(=O)N[CH]1[CH](O)[CH](CO)O[CH]1n2cnc3c(N)ncnc23" VRT SMILES_CANONICAL "OpenEye OEToolkits" 1.7.6 "CCCC(C(=O)N[C@@H]1[C@@H]([C@H](O[C@H]1n2cnc3c2ncnc3N)CO)O)N" VRT SMILES "OpenEye OEToolkits" 1.7.6 "CCCC(C(=O)NC1C(C(OC1n2cnc3c2ncnc3N)CO)O)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 VRT "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.7.6 "N-[(2R,3R,4S,5R)-2-(6-aminopurin-9-yl)-5-(hydroxymethyl)-4-oxidanyl-oxolan-3-yl]-2-azanyl-pentanamide" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site VRT "Create component" 2015-11-23 EBI VRT "Initial release" 2016-08-03 RCSB #