data_CXR # _chem_comp.id CXR _chem_comp.name "CYCLIC ADENOSINE DIPHOSPHATE-RIBOSE" _chem_comp.type NON-POLYMER _chem_comp.pdbx_type HETAIN _chem_comp.formula "C15 H21 N5 O13 P2" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms "CYCLIC ADP-RIBOSE" _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2005-10-05 _chem_comp.pdbx_modified_date 2020-06-17 _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 541.300 _chem_comp.one_letter_code ? _chem_comp.three_letter_code CXR _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 2O3S _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 CXR O2B O2B O 0 1 N N N 4.779 2.971 3.817 -1.815 3.973 0.133 O2B CXR 1 CXR PB PB P 0 1 N N N 5.523 1.657 3.361 -1.198 2.914 -0.696 PB CXR 2 CXR O3A O3A O 0 1 N N N 5.780 0.737 4.649 0.233 2.516 -0.083 O3A CXR 3 CXR O1B O1B O 0 1 N N N 6.806 1.706 2.546 -1.009 3.450 -2.203 O1B CXR 4 CXR O5D O5D O 0 1 N N N 4.499 0.712 2.554 -2.149 1.610 -0.701 O5D CXR 5 CXR C5D C5D C 0 1 N N N 3.648 1.199 1.488 -3.572 1.697 -0.587 C5D CXR 6 CXR C4D C4D C 0 1 N N R 2.229 0.682 1.678 -4.179 0.293 -0.607 C4D CXR 7 CXR C3D C3D C 0 1 N N S 1.678 0.872 3.092 -4.196 -0.276 0.824 C3D CXR 8 CXR O3D O3D O 0 1 N N N 1.069 2.193 3.311 -5.477 -0.087 1.429 O3D CXR 9 CXR C2D C2D C 0 1 N N R 0.676 -0.229 3.163 -3.913 -1.774 0.600 C2D CXR 10 CXR O2D O2D O 0 1 N N N -0.474 0.185 2.344 -5.135 -2.513 0.569 O2D CXR 11 CXR O4D O4D O 0 1 N N N 2.200 -0.763 1.485 -3.389 -0.576 -1.410 O4D CXR 12 CXR C1D C1D C 0 1 N N R 1.304 -1.377 2.408 -3.215 -1.832 -0.770 C1D CXR 13 CXR N1 N1 N 0 1 N N S 2.142 -2.369 3.176 -1.788 -2.107 -0.562 N1 CXR 14 CXR C6 C6 C 0 1 N N N 1.519 -3.203 4.109 -1.397 -3.362 -0.105 C6 CXR 15 CXR N6 N6 N 0 1 N N N 0.202 -3.416 4.061 -2.231 -4.367 0.031 N6 CXR 16 CXR C5 C5 C 0 1 Y N N 2.373 -3.948 5.042 0.034 -3.460 0.212 C5 CXR 17 CXR N7 N7 N 0 1 Y N N 2.098 -4.884 6.000 0.789 -4.447 0.706 N7 CXR 18 CXR C8 C8 C 0 1 Y N N 3.276 -5.203 6.612 2.018 -4.034 0.852 C8 CXR 19 CXR C2 C2 C 0 1 N N N 3.569 -2.137 3.292 -0.873 -1.140 -0.815 C2 CXR 20 CXR N3 N3 N 0 1 N N N 4.352 -2.806 4.151 0.408 -1.235 -0.567 N3 CXR 21 CXR C4 C4 C 0 1 Y N N 3.792 -3.701 5.063 0.887 -2.364 -0.012 C4 CXR 22 CXR N9 N9 N 0 1 Y N N 4.310 -4.506 6.029 2.107 -2.726 0.456 N9 CXR 23 CXR "C1'" "C1'" C 0 1 N N R 5.722 -4.583 6.472 3.293 -1.883 0.568 "C1'" CXR 24 CXR "O4'" "O4'" O 0 1 N N N 6.064 -3.216 6.895 2.926 -0.547 0.942 "O4'" CXR 25 CXR "C2'" "C2'" C 0 1 N N R 6.686 -4.993 5.406 4.017 -1.787 -0.787 "C2'" CXR 26 CXR "O2'" "O2'" O 0 1 N N N 7.086 -6.311 5.670 5.111 -2.705 -0.840 "O2'" CXR 27 CXR "C3'" "C3'" C 0 1 N N S 7.895 -4.115 5.636 4.528 -0.333 -0.827 "C3'" CXR 28 CXR "C4'" "C4'" C 0 1 N N R 7.383 -2.839 6.338 3.847 0.375 0.353 "C4'" CXR 29 CXR "C5'" "C5'" C 0 1 N N N 7.309 -1.591 5.459 3.114 1.617 -0.156 "C5'" CXR 30 CXR "O5'" "O5'" O 0 1 N N N 7.107 -0.473 6.334 2.650 2.390 0.949 "O5'" CXR 31 CXR PA PA P 0 1 N N N 6.931 1.040 5.798 1.281 3.238 0.902 PA CXR 32 CXR O2A O2A O 0 1 N N N 6.257 1.856 6.932 0.703 3.317 2.262 O2A CXR 33 CXR O1A O1A O 0 1 N N N 8.230 1.526 5.178 1.588 4.723 0.363 O1A CXR 34 CXR HN6 HN6 H 0 1 N N N -0.089 -4.114 4.715 -1.910 -5.223 0.354 HN6 CXR 35 CXR "O3'" "O3'" O 0 1 N N N 8.595 -5.235 6.184 5.948 -0.303 -0.670 "O3'" CXR 36 CXR H1B H1B H 0 1 N N N 7.044 2.611 2.384 -0.444 4.232 -2.274 H1B CXR 37 CXR H11 H11 H 0 1 N N N 3.639 2.299 1.503 -3.832 2.190 0.350 H11 CXR 38 CXR H12 H12 H 0 1 N N N 4.037 0.846 0.522 -3.968 2.275 -1.422 H12 CXR 39 CXR "H4'" "H4'" H 0 1 N N N 1.630 1.254 0.954 -5.210 0.333 -0.961 "H4'" CXR 40 CXR "H3'" "H3'" H 0 1 N N N 2.454 0.835 3.870 -3.413 0.180 1.431 "H3'" CXR 41 CXR H2 H2 H 0 1 N N N 0.747 2.250 4.203 -5.539 -0.429 2.332 H2 CXR 42 CXR H1 H1 H 0 1 N N N 0.389 -0.473 4.197 -3.256 -2.158 1.380 H1 CXR 43 CXR "H2'" "H2'" H 0 1 N N N -1.138 -0.494 2.364 -5.644 -2.467 1.390 "H2'" CXR 44 CXR "H1'" "H1'" H 0 1 N N N 0.461 -1.962 2.012 -3.662 -2.635 -1.362 "H1'" CXR 45 CXR H8 H8 H 0 1 N N N 3.381 -5.899 7.431 2.837 -4.630 1.226 H8 CXR 46 CXR H3 H3 H 0 1 N N N 4.022 -1.390 2.657 -1.228 -0.220 -1.255 H3 CXR 47 CXR H4 H4 H 0 1 N N N 5.804 -5.349 7.257 3.980 -2.290 1.309 H4 CXR 48 CXR H9 H9 H 0 1 N N N 6.263 -4.912 4.394 3.323 -1.972 -1.607 H9 CXR 49 CXR H10 H10 H 0 1 N N N 7.701 -6.595 5.004 5.602 -2.685 -1.673 H10 CXR 50 CXR H6 H6 H 0 1 N N N 8.547 -3.569 4.939 4.244 0.141 -1.766 H6 CXR 51 CXR H5 H5 H 0 1 N N N 8.101 -2.526 7.110 4.586 0.677 1.100 H5 CXR 52 CXR "H5'1" "H5'1" H 0 0 N N N 8.243 -1.468 4.892 3.795 2.218 -0.759 "H5'1" CXR 53 CXR "H5'2" "H5'2" H 0 0 N N N 6.474 -1.674 4.747 2.265 1.311 -0.767 "H5'2" CXR 54 CXR H1A H1A H 0 1 N N N 8.495 2.338 5.593 0.808 5.292 0.310 H1A CXR 55 CXR H7 H7 H 0 1 N N N 9.469 -4.967 6.444 6.430 -0.766 -1.368 H7 CXR 56 # # 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 CXR O2B PB DOUB N N 1 CXR PB O3A SING N N 2 CXR PB O1B SING N N 3 CXR PB O5D SING N N 4 CXR O3A PA SING N N 5 CXR O5D C5D SING N N 6 CXR C5D C4D SING N N 7 CXR C4D C3D SING N N 8 CXR C4D O4D SING N N 9 CXR C3D O3D SING N N 10 CXR C3D C2D SING N N 11 CXR C2D O2D SING N N 12 CXR C2D C1D SING N N 13 CXR O4D C1D SING N N 14 CXR C1D N1 SING N N 15 CXR N1 C6 SING N N 16 CXR N1 C2 SING N N 17 CXR C6 N6 DOUB N N 18 CXR C6 C5 SING N N 19 CXR N6 HN6 SING N N 20 CXR C5 N7 SING Y N 21 CXR C5 C4 DOUB Y N 22 CXR N7 C8 DOUB Y N 23 CXR C8 N9 SING Y N 24 CXR C2 N3 DOUB N N 25 CXR N3 C4 SING N N 26 CXR C4 N9 SING Y N 27 CXR N9 "C1'" SING N N 28 CXR "C1'" "O4'" SING N N 29 CXR "C1'" "C2'" SING N N 30 CXR "O4'" "C4'" SING N N 31 CXR "C2'" "O2'" SING N N 32 CXR "C2'" "C3'" SING N N 33 CXR "C3'" "C4'" SING N N 34 CXR "C4'" "C5'" SING N N 35 CXR "C5'" "O5'" SING N N 36 CXR "O5'" PA SING N N 37 CXR PA O2A DOUB N N 38 CXR PA O1A SING N N 39 CXR "C3'" "O3'" SING N N 40 CXR O1B H1B SING N N 41 CXR C5D H11 SING N N 42 CXR C5D H12 SING N N 43 CXR C4D "H4'" SING N N 44 CXR C3D "H3'" SING N N 45 CXR O3D H2 SING N N 46 CXR C2D H1 SING N N 47 CXR O2D "H2'" SING N N 48 CXR C1D "H1'" SING N N 49 CXR C8 H8 SING N N 50 CXR C2 H3 SING N N 51 CXR "C1'" H4 SING N N 52 CXR "C2'" H9 SING N N 53 CXR "O2'" H10 SING N N 54 CXR "C3'" H6 SING N N 55 CXR "C4'" H5 SING N N 56 CXR "C5'" "H5'1" SING N N 57 CXR "C5'" "H5'2" SING N N 58 CXR O1A H1A SING N N 59 CXR "O3'" H7 SING N N 60 # # 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 CXR SMILES ACDLabs 12.01 "O=P4(OCC5OC(n1c2N=CN(C(=[N@H])c2nc1)C3OC(C(O)C3O)COP(=O)(O)O4)C(O)C5O)O" CXR InChI InChI 1.03 "InChI=1S/C15H21N5O13P2/c16-12-7-13-18-4-19(12)14-10(23)8(21)5(31-14)1-29-34(25,26)33-35(27,28)30-2-6-9(22)11(24)15(32-6)20(13)3-17-7/h3-6,8-11,14-16,21-24H,1-2H2,(H,25,26)(H,27,28)/b16-12+/t5-,6-,8-,9-,10-,11-,14-,15-/m1/s1" CXR InChIKey InChI 1.03 BQOHYSXSASDCEA-JDDYZZJWSA-N CXR SMILES_CANONICAL CACTVS 3.370 "O[C@H]1[C@@H](O)[C@H]2O[C@@H]1CO[P](O)(=O)O[P](O)(=O)OC[C@H]3O[C@H]([C@H](O)[C@@H]3O)n4cnc5C(=N)[N@]2C=Nc45" CXR SMILES CACTVS 3.370 "O[CH]1[CH](O)[CH]2O[CH]1CO[P](O)(=O)O[P](O)(=O)OC[CH]3O[CH]([CH](O)[CH]3O)n4cnc5C(=N)[N]2C=Nc45" CXR SMILES_CANONICAL "OpenEye OEToolkits" 1.7.2 "[H]/N=C/1\c2c3n(cn2)C4C(C(C(O4)COP(=O)(OP(=O)(OCC5C(C(C(N1C=N3)O5)O)O)O)O)O)O" CXR SMILES "OpenEye OEToolkits" 1.7.2 "c1nc2c3n1C4C(C(C(O4)COP(=O)(OP(=O)(OCC5C(C(C(O5)N(C2=N)C=N3)O)O)O)O)O)O" # _pdbx_chem_comp_identifier.comp_id CXR _pdbx_chem_comp_identifier.type "SYSTEMATIC NAME" _pdbx_chem_comp_identifier.program ACDLabs _pdbx_chem_comp_identifier.program_version 12.01 _pdbx_chem_comp_identifier.identifier "(2R,3R,4S,5R,8S,10R,13R,14S,15R,16R,24E)-24-imino-7,9,11,25,26-pentaoxa-1,17,19,22-tetraaza-8,10-diphosphapentacyclo[18.3.1.1~2,5~.1~13,16~.0~17,21~]hexacosa-18,20,22-triene-3,4,8,10,14,15-hexol 8,10-dioxide (non-preferred name)" # # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site CXR "Create component" 2005-10-05 RCSB CXR "Modify descriptor" 2011-06-04 RCSB CXR "Other modification" 2011-11-14 RCSB CXR "Modify synonyms" 2020-06-05 PDBE # _pdbx_chem_comp_synonyms.ordinal 1 _pdbx_chem_comp_synonyms.comp_id CXR _pdbx_chem_comp_synonyms.name "CYCLIC ADP-RIBOSE" _pdbx_chem_comp_synonyms.provenance ? _pdbx_chem_comp_synonyms.type ? ##