data_NA7 # _chem_comp.id NA7 _chem_comp.name "[(2R,3R,4R,5R)-5-(6-AMINO-9H-PURIN-9-YL)-3-HYDROXY-4-(PHOSPHONOOXY)TETRAHYDROFURAN-2-YL]METHYL [(2R,3S,4S)-3,4-DIHYDROXYTETRAHYDROFURAN-2-YL]METHYL DIHYDROGEN DIPHOSPHATE" _chem_comp.type NON-POLYMER _chem_comp.pdbx_type HETAIN _chem_comp.formula "C15 H24 N5 O16 P3" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2006-11-15 _chem_comp.pdbx_modified_date 2024-09-27 _chem_comp.pdbx_ambiguous_flag ? _chem_comp.pdbx_release_status REL _chem_comp.pdbx_replaced_by ? _chem_comp.pdbx_replaces ? _chem_comp.formula_weight 623.296 _chem_comp.one_letter_code ? _chem_comp.three_letter_code NA7 _chem_comp.pdbx_model_coordinates_details ? _chem_comp.pdbx_model_coordinates_missing_flag N _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 _chem_comp.pdbx_pcm Y # 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.pdbx_backbone_atom_flag _chem_comp_atom.pdbx_n_terminal_atom_flag _chem_comp_atom.pdbx_c_terminal_atom_flag _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 NA7 PA AP P 0 1 N N R N N N 111.616 18.660 51.152 -2.914 4.065 1.678 PA NA7 1 NA7 O1A AO1 O 0 1 N N N N N N 112.536 19.544 51.932 -1.952 5.365 1.701 O1A NA7 2 NA7 O2A AO2 O 0 1 N N N N N N 110.550 19.446 50.482 -3.532 3.757 0.345 O2A NA7 3 NA7 O5B AO5* O 0 1 N N N N N N 112.494 17.883 50.046 -2.015 2.891 2.334 O5B NA7 4 NA7 C5B AC5* C 0 1 N N N N N N 113.296 16.764 50.361 -0.881 2.428 1.621 C5B NA7 5 NA7 C4B AC4* C 0 1 N N R N N N 113.861 16.195 49.064 -0.199 1.333 2.429 C4B NA7 6 NA7 O4B AO4* O 0 1 N N N N N N 114.637 15.038 49.320 -1.128 0.236 2.584 O4B NA7 7 NA7 C3B AC3* C 0 1 N N R N N N 112.764 15.778 48.099 1.032 0.761 1.734 C3B NA7 8 NA7 O3B AO3* O 0 1 N N N N N N 113.148 16.189 46.804 1.918 0.238 2.725 O3B NA7 9 NA7 C2B AC2* C 0 1 N N R N N N 112.702 14.267 48.230 0.447 -0.380 0.926 C2B NA7 10 NA7 O2B AO2* O 0 1 N N N N N N 112.428 13.612 47.015 1.399 -1.370 0.596 O2B NA7 11 NA7 C1B AC1* C 0 1 N N R N N N 114.092 13.889 48.692 -0.616 -0.910 1.877 C1B NA7 12 NA7 N9A AN9 N 0 1 Y N N N N N 114.067 12.762 49.638 -1.713 -1.611 1.213 N9A NA7 13 NA7 C8A AC8 C 0 1 Y N N N N N 113.194 12.557 50.679 -1.798 -2.963 1.003 C8A NA7 14 NA7 N7A AN7 N 0 1 Y N N N N N 113.533 11.403 51.304 -2.906 -3.300 0.376 N7A NA7 15 NA7 C5A AC5 C 0 1 Y N N N N N 114.612 10.878 50.677 -3.568 -2.116 0.171 C5A NA7 16 NA7 C6A AC6 C 0 1 Y N N N N N 115.362 9.729 50.911 -4.784 -1.814 -0.435 C6A NA7 17 NA7 N6A AN6 N 0 1 N N N N N N 115.303 9.166 52.116 -5.586 -2.830 -0.982 N6A NA7 18 NA7 N1A AN1 N 0 1 Y N N N N N 116.437 9.449 50.083 -5.189 -0.522 -0.490 N1A NA7 19 NA7 C2A AC2 C 0 1 Y N N N N N 116.767 10.299 49.040 -4.374 0.414 0.054 C2A NA7 20 NA7 N3A AN3 N 0 1 Y N N N N N 116.021 11.442 48.820 -3.181 0.246 0.664 N3A NA7 21 NA7 C4A AC4 C 0 1 Y N N N N N 114.959 11.722 49.626 -2.843 -1.052 0.684 C4A NA7 22 NA7 O3 O3 O 0 1 N N N N N N 111.010 17.443 52.043 -3.966 4.355 2.870 O3 NA7 23 NA7 PN NP P 0 1 N N R N N N 109.697 17.491 52.997 -5.130 3.431 3.507 PN NA7 24 NA7 O1N NO1 O 0 1 N N N N N N 109.265 16.090 53.241 -4.637 2.144 4.103 O1N NA7 25 NA7 O2N NO2 O 0 1 N N N N N N 109.975 18.367 54.165 -5.854 4.421 4.562 O2N NA7 26 NA7 O5D NO5* O 0 1 N N N N N N 108.558 18.174 52.080 -6.208 3.255 2.313 O5D NA7 27 NA7 C5D NC5* C 0 1 N N N N N N 107.227 18.325 52.543 -6.747 4.398 1.671 C5D NA7 28 NA7 C4D NC4* C 0 1 N N R N N N 106.244 18.108 51.393 -7.725 3.949 0.599 C4D NA7 29 NA7 O4D NO4* O 0 1 N N N N N N 106.653 18.820 50.230 -7.050 3.102 -0.347 O4D NA7 30 NA7 C3D NC3* C 0 1 N N S N N N 106.137 16.631 51.024 -8.880 3.124 1.147 C3D NA7 31 NA7 O3D NO3* O 0 1 N N N N N N 104.868 16.127 51.390 -9.939 3.935 1.606 O3D NA7 32 NA7 C2D NC2* C 0 1 N N S N N N 106.370 16.570 49.522 -9.251 2.268 -0.045 C2D NA7 33 NA7 O2D NO2* O 0 1 N N N N N N 105.170 16.290 48.836 -10.030 2.996 -0.989 O2D NA7 34 NA7 C1D NC1* C 0 1 N N N N N N 106.861 17.957 49.121 -7.886 1.962 -0.631 C1D NA7 35 NA7 P2B AP2* P 0 1 N N N N N N 110.998 12.933 46.732 2.690 -0.942 -0.286 P2B NA7 36 NA7 O1X AOP1 O 0 1 N N N N N N 110.132 12.876 47.965 3.317 0.303 0.532 O1X NA7 37 NA7 O2X AOP2 O 0 1 N N N N N N 111.241 11.517 46.283 2.029 -0.240 -1.584 O2X NA7 38 NA7 O3X AOP3 O 0 1 N N N N N N 110.310 13.729 45.654 3.647 -2.058 -0.588 O3X NA7 39 NA7 HAO1 HAO1 H 0 0 N N N N N N 113.310 19.731 51.414 -2.275 6.202 1.304 HAO1 NA7 40 NA7 "H5'1" 1H5* H 0 0 N N N N N N 112.688 16.001 50.869 -1.208 2.042 0.651 "H5'1" NA7 41 NA7 "H5'2" 2H5* H 0 0 N N N N N N 114.116 17.064 51.030 -0.199 3.269 1.460 "H5'2" NA7 42 NA7 "HC4'" HC4* H 0 0 N N N N N N 114.470 16.997 48.621 0.033 1.713 3.429 "HC4'" NA7 43 NA7 "HC3'" HC3* H 0 0 N N N N N N 111.778 16.223 48.301 1.592 1.484 1.136 "HC3'" NA7 44 NA7 "HO3'" HO3* H 0 0 N N N N N N 113.234 17.135 46.784 1.363 -0.036 3.471 "HO3'" NA7 45 NA7 "HC2'" HC2* H 0 0 N N N N N N 111.892 13.970 48.912 -0.005 0.000 0.002 "HC2'" NA7 46 NA7 "HC1'" HC1* H 0 0 N N N N N N 114.699 13.565 47.834 -0.213 -1.625 2.603 "HC1'" NA7 47 NA7 HC8 HC8 H 0 1 N N N N N N 112.375 13.206 50.953 -1.026 -3.647 1.327 HC8 NA7 48 NA7 HN61 1HN6 H 0 0 N N N N N N 115.288 8.171 52.019 -6.410 -3.125 -0.494 HN61 NA7 49 NA7 HN62 2HN6 H 0 0 N N N N N N 116.104 9.437 52.650 -5.275 -3.313 -1.804 HN62 NA7 50 NA7 HC2 HC2 H 0 1 N N N N N N 117.606 10.069 48.400 -4.729 1.437 -0.009 HC2 NA7 51 NA7 HNO2 HNO2 H 0 0 N N N N N N 110.034 17.838 54.952 -6.517 4.050 5.182 HNO2 NA7 52 NA7 "H51'" H51* H 0 0 N N N N N N 107.096 19.340 52.946 -7.254 5.016 2.418 "H51'" NA7 53 NA7 "H52'" H52* H 0 0 N N N N N N 107.032 17.581 53.329 -5.928 4.972 1.227 "H52'" NA7 54 NA7 "HN4'" HN4* H 0 0 N N N N N N 105.268 18.478 51.740 -8.087 4.834 0.063 "HN4'" NA7 55 NA7 "HN3'" HN3* H 0 0 N N N N N N 106.872 16.008 51.555 -8.540 2.485 1.971 "HN3'" NA7 56 NA7 "HN5'" HN5* H 0 0 N N N N N N 104.831 16.014 52.333 -10.144 3.637 2.505 "HN5'" NA7 57 NA7 "HN6'" HN6* H 0 0 N N N N N N 107.090 15.777 49.271 -9.815 1.370 0.223 "HN6'" NA7 58 NA7 "HN7'" HN7* H 0 0 N N N N N N 104.456 16.227 49.459 -10.550 3.653 -0.492 "HN7'" NA7 59 NA7 "H1'1" 1H1* H 0 0 N N N N N N 107.930 17.921 48.864 -7.427 1.096 -0.143 "H1'1" NA7 60 NA7 "H1'2" 2H1* H 0 0 N N N N N N 106.313 18.321 48.239 -7.904 1.802 -1.713 "H1'2" NA7 61 NA7 HOP1 HOP1 H 0 0 N N N N N N 110.683 12.864 48.739 4.162 0.696 0.225 HOP1 NA7 62 NA7 HOP2 HOP2 H 0 0 N N N N N N 111.292 11.489 45.335 2.611 0.030 -2.326 HOP2 NA7 63 # 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 NA7 PA O5B SING N N 1 NA7 PA O2A DOUB N N 2 NA7 PA O1A SING N N 3 NA7 PA O3 SING N N 4 NA7 O1A HAO1 SING N N 5 NA7 O5B C5B SING N N 6 NA7 C5B C4B SING N N 7 NA7 C5B "H5'1" SING N N 8 NA7 C5B "H5'2" SING N N 9 NA7 C4B C3B SING N N 10 NA7 C4B O4B SING N N 11 NA7 C4B "HC4'" SING N N 12 NA7 O4B C1B SING N N 13 NA7 C3B O3B SING N N 14 NA7 C3B C2B SING N N 15 NA7 C3B "HC3'" SING N N 16 NA7 O3B "HO3'" SING N N 17 NA7 C2B O2B SING N N 18 NA7 C2B C1B SING N N 19 NA7 C2B "HC2'" SING N N 20 NA7 O2B P2B SING N N 21 NA7 C1B N9A SING N N 22 NA7 C1B "HC1'" SING N N 23 NA7 N9A C4A SING Y N 24 NA7 N9A C8A SING Y N 25 NA7 C8A N7A DOUB Y N 26 NA7 C8A HC8 SING N N 27 NA7 N7A C5A SING Y N 28 NA7 C5A C4A DOUB Y N 29 NA7 C5A C6A SING Y N 30 NA7 C6A N1A DOUB Y N 31 NA7 C6A N6A SING N N 32 NA7 N6A HN61 SING N N 33 NA7 N6A HN62 SING N N 34 NA7 N1A C2A SING Y N 35 NA7 C2A N3A DOUB Y N 36 NA7 C2A HC2 SING N N 37 NA7 N3A C4A SING Y N 38 NA7 O3 PN SING N N 39 NA7 PN O5D SING N N 40 NA7 PN O1N DOUB N N 41 NA7 PN O2N SING N N 42 NA7 O2N HNO2 SING N N 43 NA7 O5D C5D SING N N 44 NA7 C5D C4D SING N N 45 NA7 C5D "H51'" SING N N 46 NA7 C5D "H52'" SING N N 47 NA7 C4D O4D SING N N 48 NA7 C4D C3D SING N N 49 NA7 C4D "HN4'" SING N N 50 NA7 O4D C1D SING N N 51 NA7 C3D C2D SING N N 52 NA7 C3D O3D SING N N 53 NA7 C3D "HN3'" SING N N 54 NA7 O3D "HN5'" SING N N 55 NA7 C2D O2D SING N N 56 NA7 C2D C1D SING N N 57 NA7 C2D "HN6'" SING N N 58 NA7 O2D "HN7'" SING N N 59 NA7 C1D "H1'1" SING N N 60 NA7 C1D "H1'2" SING N N 61 NA7 P2B O3X DOUB N N 62 NA7 P2B O2X SING N N 63 NA7 P2B O1X SING N N 64 NA7 O1X HOP1 SING N N 65 NA7 O2X HOP2 SING N N 66 # 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 NA7 SMILES ACDLabs 10.04 "O=P(O)(OCC1OCC(O)C1O)OP(=O)(O)OCC4OC(n3cnc2c(ncnc23)N)C(OP(=O)(O)O)C4O" NA7 SMILES_CANONICAL CACTVS 3.341 "Nc1ncnc2n(cnc12)[C@@H]3O[C@H](CO[P@@](O)(=O)O[P@](O)(=O)OC[C@H]4OC[C@H](O)[C@@H]4O)[C@@H](O)[C@H]3O[P](O)(O)=O" NA7 SMILES CACTVS 3.341 "Nc1ncnc2n(cnc12)[CH]3O[CH](CO[P](O)(=O)O[P](O)(=O)OC[CH]4OC[CH](O)[CH]4O)[CH](O)[CH]3O[P](O)(O)=O" NA7 SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 "c1nc(c2c(n1)n(cn2)[C@H]3[C@@H]([C@@H]([C@H](O3)CO[P@](=O)(O)O[P@@](=O)(O)OC[C@@H]4[C@H]([C@H](CO4)O)O)O)OP(=O)(O)O)N" NA7 SMILES "OpenEye OEToolkits" 1.5.0 "c1nc(c2c(n1)n(cn2)C3C(C(C(O3)COP(=O)(O)OP(=O)(O)OCC4C(C(CO4)O)O)O)OP(=O)(O)O)N" NA7 InChI InChI 1.03 "InChI=1S/C15H24N5O16P3/c16-13-9-14(18-4-17-13)20(5-19-9)15-12(35-37(24,25)26)11(23)8(34-15)3-33-39(29,30)36-38(27,28)32-2-7-10(22)6(21)1-31-7/h4-8,10-12,15,21-23H,1-3H2,(H,27,28)(H,29,30)(H2,16,17,18)(H2,24,25,26)/t6-,7+,8+,10-,11+,12+,15+/m0/s1" NA7 InChIKey InChI 1.03 XDDBFIXGEVGCEU-AOOZFPJJSA-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 NA7 "SYSTEMATIC NAME" ACDLabs 10.04 "[(2R,3R,4R,5R)-5-(6-amino-9H-purin-9-yl)-3-hydroxy-4-(phosphonooxy)tetrahydrofuran-2-yl]methyl [(2R,3S,4S)-3,4-dihydroxytetrahydrofuran-2-yl]methyl dihydrogen diphosphate (non-preferred name)" NA7 "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "[(2R,3R,4R,5R)-5-(6-aminopurin-9-yl)-3-hydroxy-4-phosphonooxy-oxolan-2-yl]methyl [[(2R,3S,4S)-3,4-dihydroxyoxolan-2-yl]methoxy-hydroxy-phosphoryl] hydrogen 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 NA7 "Create component" 2006-11-15 RCSB NA7 "Modify descriptor" 2011-06-04 RCSB NA7 "Modify PCM" 2024-09-27 PDBE # _pdbx_chem_comp_pcm.pcm_id 1 _pdbx_chem_comp_pcm.comp_id NA7 _pdbx_chem_comp_pcm.modified_residue_id GLN _pdbx_chem_comp_pcm.type None _pdbx_chem_comp_pcm.category "Covalent chemical modification" _pdbx_chem_comp_pcm.position "Amino-acid side chain" _pdbx_chem_comp_pcm.polypeptide_position "Any position" _pdbx_chem_comp_pcm.comp_id_linking_atom C1D _pdbx_chem_comp_pcm.modified_residue_id_linking_atom NE2 _pdbx_chem_comp_pcm.uniprot_specific_ptm_accession ? _pdbx_chem_comp_pcm.uniprot_generic_ptm_accession ? #