data_NB8 # _chem_comp.id NB8 _chem_comp.name "5'-O-[(R)-{[(2S)-2-amino-4-(hydroxyamino)-4-oxobutanoyl]oxy}(hydroxy)phosphoryl]adenosine" _chem_comp.type "L-PEPTIDE LINKING" _chem_comp.pdbx_type ATOMP _chem_comp.formula "C14 H20 N7 O10 P" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2010-10-10 _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 477.323 _chem_comp.one_letter_code N _chem_comp.three_letter_code NB8 _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 2XTI _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 NB8 O2P O2P O 0 1 N N N 6.521 -12.893 49.557 -2.290 -1.298 2.182 O2P NB8 1 NB8 P P P 0 1 N N N 7.878 -13.531 49.420 -2.384 -1.724 0.632 P NB8 2 NB8 O1P O1P O 0 1 N N N 7.892 -15.028 49.284 -2.837 -3.129 0.533 O1P NB8 3 NB8 O3P O3P O 0 1 N N N 8.709 -13.012 48.110 -3.434 -0.766 -0.125 O3P NB8 4 NB8 C C C 0 1 N N N 8.982 -11.594 47.815 -4.718 -0.847 0.258 C NB8 5 NB8 O O O 0 1 N N N 8.459 -10.715 48.507 -5.040 -1.613 1.135 O NB8 6 NB8 CA CA C 0 1 N N S 9.901 -11.256 46.658 -5.758 0.019 -0.405 CA NB8 7 NB8 N N N 0 1 N N N 9.689 -9.912 46.164 -7.090 -0.559 -0.184 N NB8 8 NB8 CB CB C 0 1 N N N 11.349 -11.417 47.082 -5.707 1.426 0.192 CB NB8 9 NB8 CG CG C 0 1 N N N 12.290 -10.773 46.064 -6.661 2.324 -0.554 CG NB8 10 NB8 OD1 OD1 O 0 1 N N N 12.497 -11.287 44.972 -7.316 1.881 -1.473 OD1 NB8 11 NB8 ND2 ND2 N 0 1 N N N 12.889 -9.643 46.431 -6.785 3.618 -0.199 ND2 NB8 12 NB8 OAJ OAJ O 0 1 N N N 13.760 -9.005 45.555 -7.681 4.461 -0.900 OAJ NB8 13 NB8 "O5'" "O5'" O 0 1 N N N 8.811 -12.901 50.558 -0.934 -1.577 -0.053 "O5'" NB8 14 NB8 "C5'" "C5'" C 0 1 N N N 10.165 -13.304 50.679 0.189 -2.376 0.325 "C5'" NB8 15 NB8 "C4'" "C4'" C 0 1 N N R 10.430 -13.886 52.058 1.402 -1.981 -0.520 "C4'" NB8 16 NB8 "C3'" "C3'" C 0 1 N N S 9.737 -15.205 52.285 2.595 -2.915 -0.217 "C3'" NB8 17 NB8 "O3'" "O3'" O 0 1 N N N 10.532 -16.278 51.794 2.693 -3.940 -1.208 "O3'" NB8 18 NB8 "C2'" "C2'" C 0 1 N N R 9.667 -15.242 53.773 3.826 -1.983 -0.278 "C2'" NB8 19 NB8 "O2'" "O2'" O 0 1 N N N 10.918 -15.711 54.261 4.722 -2.405 -1.309 "O2'" NB8 20 NB8 "C1'" "C1'" C 0 1 N N R 9.510 -13.803 54.191 3.231 -0.597 -0.611 "C1'" NB8 21 NB8 "O4'" "O4'" O 0 1 N N N 9.954 -13.038 53.092 1.863 -0.663 -0.153 "O4'" NB8 22 NB8 N9 N9 N 0 1 Y N N 8.095 -13.506 54.477 3.958 0.455 0.104 N9 NB8 23 NB8 C4 C4 C 0 1 Y N N 7.613 -13.270 55.692 5.115 1.066 -0.308 C4 NB8 24 NB8 N3 N3 N 0 1 Y N N 8.183 -13.219 56.926 5.910 0.954 -1.368 N3 NB8 25 NB8 C2 C2 C 0 1 Y N N 7.438 -12.953 58.013 6.984 1.706 -1.484 C2 NB8 26 NB8 N1 N1 N 0 1 Y N N 6.134 -12.721 57.931 7.327 2.596 -0.571 N1 NB8 27 NB8 C6 C6 C 0 1 Y N N 5.504 -12.734 56.772 6.595 2.779 0.522 C6 NB8 28 NB8 N6 N6 N 0 1 N N N 4.176 -12.507 56.713 6.963 3.715 1.473 N6 NB8 29 NB8 C5 C5 C 0 1 Y N N 6.266 -13.047 55.556 5.437 2.000 0.691 C5 NB8 30 NB8 N7 N7 N 0 1 Y N N 5.948 -13.159 54.259 4.478 1.912 1.643 N7 NB8 31 NB8 C8 C8 C 0 1 Y N N 7.100 -13.458 53.599 3.606 1.010 1.298 C8 NB8 32 NB8 H2P H2P H 0 1 N N N 6.325 -12.759 50.477 -1.999 -0.386 2.322 H2P NB8 33 NB8 HA HA H 0 1 N N N 9.666 -11.954 45.841 -5.558 0.071 -1.476 HA NB8 34 NB8 HN1 HN1 H 0 1 N N N 9.640 -9.277 46.935 -7.299 -0.619 0.802 HN1 NB8 35 NB8 HN2 HN2 H 0 1 N N N 10.448 -9.653 45.567 -7.799 -0.033 -0.673 HN2 NB8 36 NB8 HB1C HB1C H 0 0 N N N 11.492 -10.932 48.059 -5.994 1.385 1.243 HB1C NB8 37 NB8 HB2C HB2C H 0 0 N N N 11.580 -12.491 47.146 -4.695 1.821 0.107 HB2C NB8 38 NB8 HD2 HD2 H 0 1 N N N 12.713 -9.253 47.335 -6.261 3.972 0.536 HD2 NB8 39 NB8 HAJ HAJ H 0 1 N N N 13.324 -8.859 44.724 -7.701 5.372 -0.575 HAJ NB8 40 NB8 "H5'1" "H5'1" H 0 0 N N N 10.382 -14.068 49.918 0.412 -2.213 1.379 "H5'1" NB8 41 NB8 "H5'2" "H5'2" H 0 0 N N N 10.811 -12.425 50.535 -0.041 -3.428 0.161 "H5'2" NB8 42 NB8 "H4'" "H4'" H 0 1 N N N 11.523 -14.005 52.090 1.153 -2.017 -1.581 "H4'" NB8 43 NB8 "H3'" "H3'" H 0 1 N N N 8.764 -15.301 51.781 2.494 -3.353 0.776 "H3'" NB8 44 NB8 HB HB H 0 1 N N N 10.709 -16.145 50.870 3.425 -4.555 -1.066 HB NB8 45 NB8 "H2'" "H2'" H 0 1 N N N 8.855 -15.884 54.146 4.336 -1.961 0.685 "H2'" NB8 46 NB8 HC HC H 0 1 N N N 11.522 -15.816 53.536 5.078 -3.294 -1.181 HC NB8 47 NB8 "H1'" "H1'" H 0 1 N N N 10.082 -13.579 55.103 3.264 -0.418 -1.686 "H1'" NB8 48 NB8 H8 H8 H 0 1 N N N 7.190 -13.628 52.536 2.734 0.738 1.875 H8 NB8 49 NB8 H2 H2 H 0 1 N N N 7.915 -12.927 58.982 7.608 1.589 -2.357 H2 NB8 50 NB8 H61N H61N H 0 0 N N N 3.805 -12.451 57.640 7.764 4.247 1.345 H61N NB8 51 NB8 H62N H62N H 0 0 N N N 4.006 -11.646 56.234 6.419 3.839 2.267 H62N NB8 52 # 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 NB8 O2P P SING N N 1 NB8 P O1P DOUB N N 2 NB8 P O3P SING N N 3 NB8 P "O5'" SING N N 4 NB8 O3P C SING N N 5 NB8 C O DOUB N N 6 NB8 C CA SING N N 7 NB8 CA N SING N N 8 NB8 CA CB SING N N 9 NB8 CB CG SING N N 10 NB8 CG OD1 DOUB N N 11 NB8 CG ND2 SING N N 12 NB8 ND2 OAJ SING N N 13 NB8 "O5'" "C5'" SING N N 14 NB8 "C5'" "C4'" SING N N 15 NB8 "C4'" "C3'" SING N N 16 NB8 "C4'" "O4'" SING N N 17 NB8 "C3'" "O3'" SING N N 18 NB8 "C3'" "C2'" SING N N 19 NB8 "C2'" "O2'" SING N N 20 NB8 "C2'" "C1'" SING N N 21 NB8 "C1'" "O4'" SING N N 22 NB8 "C1'" N9 SING N N 23 NB8 N9 C4 SING Y N 24 NB8 N9 C8 SING Y N 25 NB8 C4 N3 SING Y N 26 NB8 C4 C5 DOUB Y N 27 NB8 N3 C2 DOUB Y N 28 NB8 C2 N1 SING Y N 29 NB8 N1 C6 DOUB Y N 30 NB8 C6 N6 SING N N 31 NB8 C6 C5 SING Y N 32 NB8 C5 N7 SING Y N 33 NB8 O2P H2P SING N N 34 NB8 CA HA SING N N 35 NB8 N HN1 SING N N 36 NB8 N HN2 SING N N 37 NB8 CB HB1C SING N N 38 NB8 CB HB2C SING N N 39 NB8 ND2 HD2 SING N N 40 NB8 OAJ HAJ SING N N 41 NB8 "C5'" "H5'1" SING N N 42 NB8 "C5'" "H5'2" SING N N 43 NB8 "C4'" "H4'" SING N N 44 NB8 "C3'" "H3'" SING N N 45 NB8 "O3'" HB SING N N 46 NB8 "C2'" "H2'" SING N N 47 NB8 "O2'" HC SING N N 48 NB8 "C1'" "H1'" SING N N 49 NB8 C8 H8 SING N N 50 NB8 C2 H2 SING N N 51 NB8 N6 H61N SING N N 52 NB8 N6 H62N SING N N 53 NB8 N7 C8 DOUB Y N 54 # 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 NB8 SMILES ACDLabs 10.04 "O=C(NO)CC(N)C(=O)OP(=O)(O)OCC3OC(n2cnc1c(ncnc12)N)C(O)C3O" NB8 SMILES_CANONICAL CACTVS 3.352 "N[C@@H](CC(=O)NO)C(=O)O[P](O)(=O)OC[C@H]1O[C@H]([C@H](O)[C@@H]1O)n2cnc3c(N)ncnc23" NB8 SMILES CACTVS 3.352 "N[CH](CC(=O)NO)C(=O)O[P](O)(=O)OC[CH]1O[CH]([CH](O)[CH]1O)n2cnc3c(N)ncnc23" NB8 SMILES_CANONICAL "OpenEye OEToolkits" 1.6.1 "c1nc(c2c(n1)n(cn2)[C@H]3[C@@H]([C@@H]([C@H](O3)CO[P@@](=O)(O)OC(=O)[C@H](CC(=O)NO)N)O)O)N" NB8 SMILES "OpenEye OEToolkits" 1.6.1 "c1nc(c2c(n1)n(cn2)C3C(C(C(O3)COP(=O)(O)OC(=O)C(CC(=O)NO)N)O)O)N" NB8 InChI InChI 1.03 "InChI=1S/C14H20N7O10P/c15-5(1-7(22)20-26)14(25)31-32(27,28)29-2-6-9(23)10(24)13(30-6)21-4-19-8-11(16)17-3-18-12(8)21/h3-6,9-10,13,23-24,26H,1-2,15H2,(H,20,22)(H,27,28)(H2,16,17,18)/t5-,6+,9+,10+,13+/m0/s1" NB8 InChIKey InChI 1.03 LNQDDLRGTAFRLA-VWJPMABRSA-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 NB8 "SYSTEMATIC NAME" ACDLabs 10.04 "5'-O-[(R)-{[(2S)-2-amino-4-(hydroxyamino)-4-oxobutanoyl]oxy}(hydroxy)phosphoryl]adenosine" NB8 "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.6.1 "[[(2R,3S,4R,5R)-5-(6-aminopurin-9-yl)-3,4-dihydroxy-oxolan-2-yl]methoxy-hydroxy-phosphoryl] (2S)-2-amino-4-(hydroxyamino)-4-oxo-butanoate" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site NB8 "Create component" 2010-10-10 EBI NB8 "Modify aromatic_flag" 2011-06-04 RCSB NB8 "Modify descriptor" 2011-06-04 RCSB #