data_ODP # _chem_comp.id ODP _chem_comp.name "4-OXO-NICOTINAMIDE-ADENINE DINUCLEOTIDE PHOSPHATE" _chem_comp.type "RNA LINKING" _chem_comp.pdbx_type ATOMN _chem_comp.formula "C21 H29 N7 O18 P3" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 1 _chem_comp.pdbx_initial_date 2002-05-17 _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 760.412 _chem_comp.one_letter_code N _chem_comp.three_letter_code ODP _chem_comp.pdbx_model_coordinates_details ? _chem_comp.pdbx_model_coordinates_missing_flag N _chem_comp.pdbx_ideal_coordinates_details "OpenEye/OEToolkits V1.4.2" _chem_comp.pdbx_ideal_coordinates_missing_flag N _chem_comp.pdbx_model_coordinates_db_code 1LQT _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 ODP O1X AOP1 O 0 1 N N N -7.940 3.570 2.700 -5.632 4.022 -0.990 O1X ODP 1 ODP P2B AP2* P 0 1 N N N -6.925 2.840 3.525 -5.315 5.479 -0.816 P2B ODP 2 ODP O2X AOP2 O 0 1 N N N -5.526 2.858 2.945 -4.467 6.151 -2.018 O2X ODP 3 ODP O3X AOP3 O 0 1 N N N -6.926 3.263 4.985 -6.603 6.447 -0.684 O3X ODP 4 ODP O2B AO2* O 0 1 N N N -7.444 1.314 3.459 -4.451 5.836 0.509 O2B ODP 5 ODP C2B AC2* C 0 1 N N R -7.028 0.321 4.392 -3.173 5.254 0.661 C2B ODP 6 ODP C3B AC3* C 0 1 N N R -6.039 -0.689 3.858 -3.210 3.739 0.693 C3B ODP 7 ODP O3B AO3* O 0 1 N N N -6.365 -1.035 2.520 -4.311 3.306 1.492 O3B ODP 8 ODP C1B AC1* C 0 1 N N R -8.187 -0.542 4.734 -2.563 5.570 2.018 C1B ODP 9 ODP N9A AN9 N 0 1 Y N N -9.203 0.026 5.584 -1.880 6.860 2.078 N9A ODP 10 ODP C8A AC8 C 0 1 Y N N -9.067 0.541 6.849 -0.577 7.101 1.727 C8A ODP 11 ODP N7A AN7 N 0 1 Y N N -10.227 0.915 7.356 -0.243 8.365 1.890 N7A ODP 12 ODP C5A AC5 C 0 1 Y N N -11.173 0.636 6.398 -1.379 8.969 2.368 C5A ODP 13 ODP C4A AC4 C 0 1 Y N N -10.527 0.089 5.287 -2.409 8.051 2.492 C4A ODP 14 ODP N3A AN3 N 0 1 Y N N -11.143 -0.326 4.152 -3.657 8.284 2.925 N3A ODP 15 ODP C2A AC2 C 0 1 Y N N -12.476 -0.149 4.159 -3.809 9.587 3.246 C2A ODP 16 ODP N1A AN1 N 0 1 Y N N -13.190 0.364 5.200 -2.902 10.591 3.178 N1A ODP 17 ODP C6A AC6 C 0 1 Y N N -12.542 0.763 6.335 -1.661 10.283 2.731 C6A ODP 18 ODP N6A AN6 N 0 1 N N N -13.299 1.197 7.352 -0.675 11.280 2.638 N6A ODP 19 ODP O4B AO4* O 0 1 N N N -7.587 -1.643 5.391 -1.626 4.511 2.293 O4B ODP 20 ODP C4B AC4* C 0 1 N N R -6.327 -1.896 4.752 -1.912 3.396 1.416 C4B ODP 21 ODP C5B AC5* C 0 1 N N N -5.280 -2.122 5.803 -0.734 3.217 0.469 C5B ODP 22 ODP O5B AO5* O 0 1 N N N -4.104 -2.545 5.153 0.425 2.914 1.226 O5B ODP 23 ODP PA AP P 0 1 N N R -2.740 -2.620 5.978 1.820 2.676 0.441 PA ODP 24 ODP O1A AO1 O 0 1 N N N -1.678 -2.981 5.042 2.311 3.834 -0.378 O1A ODP 25 ODP O2A AO2 O 0 1 N N N -2.553 -1.414 6.810 2.836 2.177 1.596 O2A ODP 26 ODP O3 O3 O 0 1 N N N -3.045 -3.788 7.023 1.537 1.327 -0.403 O3 ODP 27 ODP PN NP P 0 1 N N R -3.030 -5.412 6.902 2.519 0.416 -1.307 PN ODP 28 ODP O1N NO1 O 0 1 N N N -3.516 -5.852 5.576 3.689 -0.167 -0.569 O1N ODP 29 ODP O2N NO2 O 0 1 N N N -3.713 -5.850 8.137 2.922 1.391 -2.534 O2N ODP 30 ODP O5D NO5* O 0 1 N N N -1.493 -5.758 6.952 1.509 -0.668 -1.959 O5D ODP 31 ODP C5D NC5* C 0 1 N N N -0.750 -5.454 8.161 0.370 -0.232 -2.679 C5D ODP 32 ODP C4D NC4* C 0 1 N N R 0.724 -5.417 7.819 -0.392 -1.455 -3.173 C4D ODP 33 ODP O4D NO4* O 0 1 N N N 1.261 -6.720 7.625 -0.840 -2.204 -2.023 O4D ODP 34 ODP C1D NC1* C 0 1 N N R 1.916 -6.775 6.356 -2.264 -2.051 -1.879 C1D ODP 35 ODP C2D NC2* C 0 1 N N R 1.314 -5.687 5.571 -2.679 -0.956 -2.854 C2D ODP 36 ODP O2D NO2* O 0 1 N N N 1.965 -5.370 4.394 -3.998 -1.119 -3.340 O2D ODP 37 ODP C3D NC3* C 0 1 N N S 1.016 -4.618 6.555 -1.650 -1.105 -3.956 C3D ODP 38 ODP O3D NO3* O 0 1 N N N 2.178 -3.832 6.718 -1.996 -2.213 -4.787 O3D ODP 39 ODP N1N NN1 N 1 1 N N N 1.973 -8.096 5.837 -2.751 -1.701 -0.537 N1N ODP 40 ODP C2N NC2 C 0 1 N N N 2.993 -8.382 4.901 -2.076 -1.016 0.326 C2N ODP 41 ODP C3N NC3 C 0 1 N N S 2.845 -9.467 4.103 -2.614 -0.693 1.692 C3N ODP 42 ODP C7N NC7 C 0 1 N N N 3.994 -9.649 3.101 -1.636 -1.093 2.760 C7N ODP 43 ODP N7N NN7 N 0 1 N N N 3.883 -10.676 2.299 -0.669 -0.147 3.008 N7N ODP 44 ODP O7N NO7 O 0 1 N N N 4.920 -8.808 3.112 -1.721 -2.164 3.356 O7N ODP 45 ODP C4N NC4 C 0 1 N N N 1.724 -10.310 4.119 -4.008 -1.188 1.994 C4N ODP 46 ODP O99 O99 O 0 1 N N N 1.556 -11.287 3.327 -4.577 -0.963 3.060 O99 ODP 47 ODP C5N NC5 C 0 1 N N N 0.669 -9.974 5.085 -4.687 -1.978 0.953 C5N ODP 48 ODP C6N NC6 C 0 1 N N N 0.814 -8.845 5.921 -4.045 -2.173 -0.201 C6N ODP 49 ODP HOP2 2HOP H 0 0 N N N -5.354 3.324 2.103 -4.760 6.007 -2.943 HOP2 ODP 50 ODP HOP3 3HOP H 0 0 N N N -7.554 3.954 5.297 -7.335 6.354 -1.330 HOP3 ODP 51 ODP H2B AH2* H 0 1 N N N -6.633 0.775 5.300 -2.525 5.602 -0.153 H2B ODP 52 ODP H3B AH3* H 0 1 N N N -5.012 -0.342 3.971 -3.314 3.278 -0.293 H3B ODP 53 ODP HO3A AHO3 H 0 0 N N N -7.162 -0.534 2.242 -4.783 4.108 1.765 HO3A ODP 54 ODP H1B AH1* H 0 1 N N N -8.641 -0.884 3.805 -3.311 5.601 2.819 H1B ODP 55 ODP H8A AH8 H 0 1 N N N -8.115 0.636 7.370 0.076 6.320 1.362 H8A ODP 56 ODP H2A AH2 H 0 1 N N N -13.029 -0.450 3.272 -4.792 9.869 3.609 H2A ODP 57 ODP H62A AH62 H 0 0 N N N -14.302 1.266 7.239 -0.628 11.851 1.815 H62A ODP 58 ODP H61A AH61 H 0 0 N N N -12.862 1.442 8.231 0.027 11.347 3.350 H61A ODP 59 ODP H4B AH4* H 0 1 N N N -6.398 -2.787 4.130 -2.014 2.503 2.040 H4B ODP 60 ODP H51A AH51 H 0 0 N N N -5.614 -2.884 6.507 -0.554 4.135 -0.098 H51A ODP 61 ODP H52A AH52 H 0 0 N N N -5.097 -1.199 6.352 -0.924 2.396 -0.229 H52A ODP 62 ODP HOA2 2HOA H 0 0 N N N -3.236 -0.702 6.804 3.235 2.840 2.198 HOA2 ODP 63 ODP H51N NH51 H 0 0 N N N -0.938 -6.216 8.917 -0.264 0.363 -2.020 H51N ODP 64 ODP H52N NH52 H 0 0 N N N -1.062 -4.489 8.559 0.692 0.377 -3.525 H52N ODP 65 ODP H4D NH4* H 0 1 N N N 1.248 -4.939 8.646 0.284 -2.098 -3.746 H4D ODP 66 ODP H1D NH1* H 0 1 N N N 2.957 -6.469 6.535 -2.734 -3.009 -2.125 H1D ODP 67 ODP H2D NH2* H 0 1 N N N 0.333 -6.052 5.257 -2.594 0.041 -2.402 H2D ODP 68 ODP HO2N NHO2 H 0 0 N N N 2.823 -5.862 4.376 -3.928 -1.393 -4.271 HO2N ODP 69 ODP H3D NH3* H 0 1 N N N 0.154 -4.027 6.250 -1.555 -0.224 -4.596 H3D ODP 70 ODP HO3N NHO3 H 0 0 N N N 2.889 -4.193 6.125 -1.181 -2.483 -5.237 HO3N ODP 71 ODP H2N NH2 H 0 1 N N N 3.906 -7.764 4.868 -1.061 -0.683 0.055 H2N ODP 72 ODP H3N NH3 H 0 1 N N N 2.268 -10.269 4.619 -2.662 0.404 1.733 H3N ODP 73 ODP H72N NH72 H 0 0 N N N 3.083 -11.307 2.317 0.030 -0.340 3.719 H72N ODP 74 ODP H71N NH71 H 0 0 N N N 4.623 -10.818 1.624 -0.625 0.735 2.510 H71N ODP 75 ODP H5N NH5 H 0 1 N N N -0.238 -10.595 5.149 -5.679 -2.369 1.141 H5N ODP 76 ODP H6N NH6 H 0 1 N N N -0.062 -8.449 6.454 -4.551 -2.750 -0.971 H6N ODP 77 ODP HO1 HO1 H 0 1 N N N -3.076 -5.944 8.835 3.615 2.071 -2.391 HO1 ODP 78 # 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 ODP O1X P2B DOUB N N 1 ODP P2B O2X SING N N 2 ODP P2B O3X SING N N 3 ODP P2B O2B SING N N 4 ODP O2X HOP2 SING N N 5 ODP O3X HOP3 SING N N 6 ODP O2B C2B SING N N 7 ODP C2B C3B SING N N 8 ODP C2B C1B SING N N 9 ODP C2B H2B SING N N 10 ODP C3B O3B SING N N 11 ODP C3B C4B SING N N 12 ODP C3B H3B SING N N 13 ODP O3B HO3A SING N N 14 ODP C1B N9A SING N N 15 ODP C1B O4B SING N N 16 ODP C1B H1B SING N N 17 ODP N9A C8A SING Y N 18 ODP N9A C4A SING Y N 19 ODP C8A N7A DOUB Y N 20 ODP C8A H8A SING N N 21 ODP N7A C5A SING Y N 22 ODP C5A C4A DOUB Y N 23 ODP C5A C6A SING Y N 24 ODP C4A N3A SING Y N 25 ODP N3A C2A DOUB Y N 26 ODP C2A N1A SING Y N 27 ODP C2A H2A SING N N 28 ODP N1A C6A DOUB Y N 29 ODP C6A N6A SING N N 30 ODP N6A H62A SING N N 31 ODP N6A H61A SING N N 32 ODP O4B C4B SING N N 33 ODP C4B C5B SING N N 34 ODP C4B H4B SING N N 35 ODP C5B O5B SING N N 36 ODP C5B H51A SING N N 37 ODP C5B H52A SING N N 38 ODP O5B PA SING N N 39 ODP PA O1A DOUB N N 40 ODP PA O2A SING N N 41 ODP PA O3 SING N N 42 ODP O2A HOA2 SING N N 43 ODP O3 PN SING N N 44 ODP PN O1N DOUB N N 45 ODP PN O2N SING N N 46 ODP PN O5D SING N N 47 ODP O5D C5D SING N N 48 ODP C5D C4D SING N N 49 ODP C5D H51N SING N N 50 ODP C5D H52N SING N N 51 ODP C4D O4D SING N N 52 ODP C4D C3D SING N N 53 ODP C4D H4D SING N N 54 ODP O4D C1D SING N N 55 ODP C1D C2D SING N N 56 ODP C1D N1N SING N N 57 ODP C1D H1D SING N N 58 ODP C2D O2D SING N N 59 ODP C2D C3D SING N N 60 ODP C2D H2D SING N N 61 ODP O2D HO2N SING N N 62 ODP C3D O3D SING N N 63 ODP C3D H3D SING N N 64 ODP O3D HO3N SING N N 65 ODP N1N C2N DOUB N N 66 ODP N1N C6N SING N N 67 ODP C2N C3N SING N N 68 ODP C2N H2N SING N N 69 ODP C3N C7N SING N N 70 ODP C3N C4N SING N N 71 ODP C3N H3N SING N N 72 ODP C7N N7N SING N N 73 ODP C7N O7N DOUB N N 74 ODP N7N H72N SING N N 75 ODP N7N H71N SING N N 76 ODP C4N O99 DOUB N N 77 ODP C4N C5N SING N N 78 ODP C5N C6N DOUB N N 79 ODP C5N H5N SING N N 80 ODP C6N H6N SING N N 81 ODP HO1 O2N SING N N 82 # 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 ODP SMILES_CANONICAL CACTVS 3.341 "NC(=O)[C@H]1C=[N+](C=CC1=O)[C@@H]2O[C@H](CO[P@](O)(=O)O[P@@](O)(=O)OC[C@H]3O[C@H]([C@H](O[P](O)(O)=O)[C@@H]3O)n4cnc5c(N)ncnc45)[C@@H](O)[C@H]2O" ODP SMILES CACTVS 3.341 "NC(=O)[CH]1C=[N+](C=CC1=O)[CH]2O[CH](CO[P](O)(=O)O[P](O)(=O)OC[CH]3O[CH]([CH](O[P](O)(O)=O)[CH]3O)n4cnc5c(N)ncnc45)[CH](O)[CH]2O" ODP 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]([C@@H](O4)[N+]5=CC(C(=O)C=C5)C(=O)N)O)O)O)OP(=O)(O)O)N" ODP SMILES "OpenEye OEToolkits" 1.5.0 "c1nc(c2c(n1)n(cn2)C3C(C(C(O3)COP(=O)(O)OP(=O)(O)OCC4C(C(C(O4)[N+]5=CC(C(=O)C=C5)C(=O)N)O)O)O)OP(=O)(O)O)N" ODP InChI InChI 1.03 ;InChI=1S/C21H28N7O18P3/c22-17-12-19(25-6-24-17)28(7-26-12)21-16(45-47(34,35)36)14(31)11(44-21)5-42-49(39,40)46-48(37,38)41-4-10-13(30)15(32)20(43-10)27-2-1-9(29)8(3-27)18(23)33/h1-3,6-8,10-11,13-16,20-21,30-32H,4-5H2,(H7-,22,23,24,25,33,34,35,36,37,38,39,40)/p+1/t8-,10+,11+,13+,14+,15+,16+,20+,21+/m0/s1 ; ODP InChIKey InChI 1.03 PIXSDSMVQQICPA-BYJCYCELSA-O # 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 ODP "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "[[(2R,3S,4R,5R)-5-(3-aminocarbonyl-4-oxo-3H-pyridin-1-ium-1-yl)-3,4-dihydroxy-oxolan-2-yl]methoxy-hydroxy-phosphoryl] [(2R,3R,4R,5R)-5-(6-aminopurin-9-yl)-3-hydroxy-4-phosphonooxy-oxolan-2-yl]methyl 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 ODP "Create component" 2002-05-17 RCSB ODP "Modify descriptor" 2011-06-04 RCSB #