data_DNB # _chem_comp.id DNB _chem_comp.name "(2S,3S,4R,5R)-2-(3,4-diaminophenyl)-5-(hydroxymethyl)pyrrolidine-3,4-diol" _chem_comp.type NON-POLYMER _chem_comp.pdbx_type HETAIN _chem_comp.formula "C11 H17 N3 O3" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms "Diaminophenyl iminoribitol" _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2009-02-12 _chem_comp.pdbx_modified_date 2021-03-01 _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 239.271 _chem_comp.one_letter_code ? _chem_comp.three_letter_code DNB _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 3G5I _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 DNB "O2'" "O2'" O 0 1 N N N 44.435 -15.765 67.848 -0.900 2.510 -0.698 "O2'" DNB 1 DNB "C2'" "C2'" C 0 1 N N S 45.812 -15.521 68.290 -1.205 1.114 -0.718 "C2'" DNB 2 DNB "C3'" "C3'" C 0 1 N N R 46.062 -14.012 68.350 -2.721 0.883 -0.522 "C3'" DNB 3 DNB "O3'" "O3'" O 0 1 N N N 45.002 -13.318 67.677 -3.319 2.020 0.104 "O3'" DNB 4 DNB "C1'" "C1'" C 0 1 N N S 46.848 -16.069 67.299 -0.584 0.399 0.508 "C1'" DNB 5 DNB "N4'" "N4'" N 0 1 N N N 47.498 -14.875 66.785 -1.444 -0.801 0.673 "N4'" DNB 6 DNB "C4'" "C4'" C 0 1 N N R 47.395 -13.715 67.651 -2.825 -0.349 0.396 "C4'" DNB 7 DNB "C5'" "C5'" C 0 1 N N N 48.621 -13.568 68.603 -3.605 -1.460 -0.309 "C5'" DNB 8 DNB "O5'" "O5'" O 0 1 N N N 49.868 -13.688 67.871 -3.796 -2.553 0.592 "O5'" DNB 9 DNB C1 C1 C 0 1 Y N N 47.971 -16.857 67.868 0.841 -0.002 0.225 C1 DNB 10 DNB C6 C6 C 0 1 Y N N 48.020 -17.267 69.203 1.102 -1.142 -0.512 C6 DNB 11 DNB C5 C5 C 0 1 Y N N 49.120 -18.004 69.684 2.407 -1.516 -0.776 C5 DNB 12 DNB C4 C4 C 0 1 Y N N 50.174 -18.314 68.821 3.458 -0.746 -0.302 C4 DNB 13 DNB C3 C3 C 0 1 Y N N 50.123 -17.887 67.483 3.194 0.405 0.441 C3 DNB 14 DNB N3 N3 N 0 1 N N N 51.149 -18.165 66.641 4.251 1.188 0.923 N3 DNB 15 DNB C2 C2 C 0 1 Y N N 49.035 -17.170 67.004 1.883 0.775 0.697 C2 DNB 16 DNB "HO2'" "HO2'" H 0 0 N N N 43.864 -15.818 68.605 -1.329 3.017 -1.401 "HO2'" DNB 17 DNB "H2'" "H2'" H 0 1 N N N 45.920 -16.018 69.265 -0.863 0.659 -1.648 "H2'" DNB 18 DNB "H3'" "H3'" H 0 1 N N N 46.098 -13.677 69.397 -3.200 0.683 -1.481 "H3'" DNB 19 DNB "HO3'" "HO3'" H 0 0 N N N 44.288 -13.165 68.284 -3.246 2.836 -0.410 "HO3'" DNB 20 DNB "H1'" "H1'" H 0 1 N N N 46.307 -16.732 66.608 -0.637 1.035 1.392 "H1'" DNB 21 DNB "HN4'" "HN4'" H 0 0 N N N 48.469 -15.082 66.665 -1.168 -1.533 0.036 "HN4'" DNB 22 DNB "H4'" "H4'" H 0 1 N N N 47.408 -12.740 67.142 -3.320 -0.077 1.328 "H4'" DNB 23 DNB "H5'" "H5'" H 0 1 N N N 48.583 -12.579 69.084 -4.575 -1.077 -0.626 "H5'" DNB 24 DNB "H5'A" "H5'A" H 0 0 N N N 48.578 -14.369 69.356 -3.046 -1.801 -1.180 "H5'A" DNB 25 DNB "HO5'" "HO5'" H 0 0 N N N 49.687 -13.714 66.939 -4.285 -3.296 0.212 "HO5'" DNB 26 DNB H6 H6 H 0 1 N N N 47.209 -17.017 69.871 0.285 -1.744 -0.881 H6 DNB 27 DNB H5 H5 H 0 1 N N N 49.148 -18.328 70.714 2.608 -2.408 -1.351 H5 DNB 28 DNB HN3 HN3 H 0 1 N N N 50.804 -18.233 65.705 5.168 0.930 0.740 HN3 DNB 29 DNB HN3A HN3A H 0 0 N N N 51.830 -17.434 66.692 4.066 1.988 1.439 HN3A DNB 30 DNB H2 H2 H 0 1 N N N 49.006 -16.854 65.972 1.675 1.668 1.268 H2 DNB 31 DNB N4 N4 N 0 1 N N N 51.213 -19.353 68.821 4.780 -1.122 -0.567 N4 DNB 32 DNB HN4 HN4 H 0 1 N N N 51.449 -19.589 67.878 4.962 -1.923 -1.084 HN4 DNB 33 DNB HN4A HN4A H 0 0 N N N 52.026 -19.011 69.292 5.514 -0.582 -0.235 HN4A DNB 34 # # 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 DNB "O2'" "C2'" SING N N 1 DNB "O2'" "HO2'" SING N N 2 DNB "C2'" "C3'" SING N N 3 DNB "C2'" "C1'" SING N N 4 DNB "C2'" "H2'" SING N N 5 DNB "C3'" "O3'" SING N N 6 DNB "C3'" "C4'" SING N N 7 DNB "C3'" "H3'" SING N N 8 DNB "O3'" "HO3'" SING N N 9 DNB "C1'" "N4'" SING N N 10 DNB "C1'" C1 SING N N 11 DNB "C1'" "H1'" SING N N 12 DNB "N4'" "C4'" SING N N 13 DNB "N4'" "HN4'" SING N N 14 DNB "C4'" "C5'" SING N N 15 DNB "C4'" "H4'" SING N N 16 DNB "C5'" "O5'" SING N N 17 DNB "C5'" "H5'" SING N N 18 DNB "C5'" "H5'A" SING N N 19 DNB "O5'" "HO5'" SING N N 20 DNB C1 C6 DOUB Y N 21 DNB C1 C2 SING Y N 22 DNB C6 C5 SING Y N 23 DNB C6 H6 SING N N 24 DNB C5 C4 DOUB Y N 25 DNB C5 H5 SING N N 26 DNB C4 C3 SING Y N 27 DNB C3 N3 SING N N 28 DNB C3 C2 DOUB Y N 29 DNB N3 HN3 SING N N 30 DNB N3 HN3A SING N N 31 DNB C2 H2 SING N N 32 DNB C4 N4 SING N N 33 DNB N4 HN4 SING N N 34 DNB N4 HN4A SING N N 35 # # 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 DNB SMILES ACDLabs 10.04 "OC2C(c1ccc(N)c(N)c1)NC(CO)C2O" DNB SMILES_CANONICAL CACTVS 3.341 "Nc1ccc(cc1N)[C@@H]2N[C@H](CO)[C@@H](O)[C@H]2O" DNB SMILES CACTVS 3.341 "Nc1ccc(cc1N)[CH]2N[CH](CO)[CH](O)[CH]2O" DNB SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 "c1cc(c(cc1[C@H]2[C@@H]([C@@H]([C@H](N2)CO)O)O)N)N" DNB SMILES "OpenEye OEToolkits" 1.5.0 "c1cc(c(cc1C2C(C(C(N2)CO)O)O)N)N" DNB InChI InChI 1.03 "InChI=1S/C11H17N3O3/c12-6-2-1-5(3-7(6)13)9-11(17)10(16)8(4-15)14-9/h1-3,8-11,14-17H,4,12-13H2/t8-,9+,10-,11+/m1/s1" DNB InChIKey InChI 1.03 YAYMFJWCRXEXGZ-YTWAJWBKSA-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 DNB "SYSTEMATIC NAME" ACDLabs 10.04 "(2S,3S,4R,5R)-2-(3,4-diaminophenyl)-5-(hydroxymethyl)pyrrolidine-3,4-diol" DNB "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "(2S,3S,4R,5R)-2-(3,4-diaminophenyl)-5-(hydroxymethyl)pyrrolidine-3,4-diol" # # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site DNB "Create component" 2009-02-12 PDBJ DNB "Modify aromatic_flag" 2011-06-04 RCSB DNB "Modify descriptor" 2011-06-04 RCSB DNB "Modify synonyms" 2021-03-01 PDBE # _pdbx_chem_comp_synonyms.ordinal 1 _pdbx_chem_comp_synonyms.comp_id DNB _pdbx_chem_comp_synonyms.name "Diaminophenyl iminoribitol" _pdbx_chem_comp_synonyms.provenance ? _pdbx_chem_comp_synonyms.type ? ##