data_A1A6R # _chem_comp.id A1A6R _chem_comp.name "2-chloro-7-{(4xi)-2-deoxy-4-ethynyl-5-O-[(R)-hydroxy{[(R)-hydroxy(phosphonooxy)phosphoryl]oxy}phosphoryl]-beta-D-erythro-pentofuranosyl}-7H-pyrrolo[2,3-d]pyrimidin-4-amine" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C13 H16 Cl N4 O12 P3" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2024-09-16 _chem_comp.pdbx_modified_date 2025-09-12 _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 548.660 _chem_comp.one_letter_code ? _chem_comp.three_letter_code A1A6R _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 9DM9 _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site RCSB _chem_comp.pdbx_pcm ? # 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_n_terminal_atom_flag _chem_comp_atom.pdbx_backbone_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 A1A6R N1 N1 N 0 1 Y N N N N N -37.919 -3.118 -27.934 6.015 0.308 -0.668 N1 A1A6R 1 A1A6R N3 N2 N 0 1 N N N N N N -39.636 -3.748 -31.639 6.834 3.720 1.456 N3 A1A6R 2 A1A6R C4 C1 C 0 1 N N S N N N -40.878 -1.061 -24.840 2.282 -3.009 0.367 C4 A1A6R 3 A1A6R C5 C2 C 0 1 N N N N N N -39.517 -1.600 -25.280 3.482 -2.078 0.663 C5 A1A6R 4 A1A6R C6 C3 C 0 1 N N R N N N -39.849 -3.037 -25.629 3.118 -0.810 -0.151 C6 A1A6R 5 A1A6R C7 C4 C 0 1 Y N N N N N -39.240 -3.279 -28.059 5.049 0.776 0.121 C7 A1A6R 6 A1A6R C8 C5 C 0 1 Y N N N N N -37.306 -3.203 -29.102 7.174 0.926 -0.749 C8 A1A6R 7 A1A6R C10 C6 C 0 1 Y N N N N N -39.930 -3.510 -29.253 5.294 1.944 0.865 C10 A1A6R 8 A1A6R N N3 N 0 1 Y N N N N N -40.150 -3.262 -27.035 3.775 0.372 0.413 N A1A6R 9 A1A6R C C7 C 0 1 N N N N N N -40.472 -2.644 -21.662 0.480 -2.595 -2.588 C A1A6R 10 A1A6R O O1 O 0 1 N N N N N N -43.595 -2.371 -25.231 -1.123 -1.393 0.326 O A1A6R 11 A1A6R C1 C8 C 0 1 N N N N N N -40.886 -2.469 -22.750 0.784 -2.354 -1.480 C1 A1A6R 12 A1A6R C11 C9 C 0 1 Y N N N N N -41.315 -3.652 -28.914 4.073 2.209 1.624 C11 A1A6R 13 A1A6R C12 C10 C 0 1 Y N N N N N -41.412 -3.494 -27.577 3.203 1.236 1.311 C12 A1A6R 14 A1A6R C2 C11 C 0 1 N N R N N N -41.478 -2.279 -24.079 1.164 -2.052 -0.091 C2 A1A6R 15 A1A6R C3 C12 C 0 1 N N N N N N -43.003 -2.356 -23.926 -0.052 -2.197 0.825 C3 A1A6R 16 A1A6R C9 C13 C 0 1 Y N N N N N -39.130 -3.547 -30.417 6.545 2.569 0.745 C9 A1A6R 17 A1A6R N2 N4 N 0 1 Y N N N N N -37.798 -3.382 -30.318 7.446 2.026 -0.068 N2 A1A6R 18 A1A6R O1 O2 O 0 1 N N N N N N -45.716 -1.254 -24.581 -2.397 -0.621 2.493 O1 A1A6R 19 A1A6R O10 O3 O 0 1 N N N N N N -40.764 0.133 -24.053 2.609 -3.930 -0.676 O10 A1A6R 20 A1A6R O11 O4 O 0 1 N N N N N N -41.012 -3.377 -24.883 1.685 -0.715 -0.004 O11 A1A6R 21 A1A6R O2 O5 O 0 1 N N N N N N -43.940 0.150 -25.707 -3.557 -0.416 0.142 O2 A1A6R 22 A1A6R O3 O6 O 0 1 N N N N N N -44.166 0.722 -23.257 -5.861 -1.489 -0.529 O3 A1A6R 23 A1A6R O4 O7 O 0 1 N N N N N N -44.902 2.334 -25.053 -5.504 1.106 -0.756 O4 A1A6R 24 A1A6R O5 O8 O 0 1 N N N N N N -47.070 1.239 -24.277 -6.374 3.428 -1.628 O5 A1A6R 25 A1A6R O6 O9 O 0 1 N N N N N N -46.907 3.615 -24.299 -7.969 1.339 -1.640 O6 A1A6R 26 A1A6R O7 O10 O 0 1 N N N N N N -46.995 2.452 -26.552 -7.239 2.423 0.520 O7 A1A6R 27 A1A6R O8 O11 O 0 1 N N N N N N -42.423 1.932 -24.680 -5.643 -0.010 1.504 O8 A1A6R 28 A1A6R O9 O12 O 0 1 N N N N N N -45.071 -1.598 -27.100 -3.120 -2.665 1.200 O9 A1A6R 29 A1A6R P P1 P 0 1 N N N N N N -44.658 -1.273 -25.711 -2.561 -1.304 1.044 P A1A6R 30 A1A6R P1 P2 P 0 1 N N N N N N -43.766 1.303 -24.623 -5.152 -0.198 0.121 P1 A1A6R 31 A1A6R P2 P3 P 0 1 N N N N N N -46.496 2.400 -25.109 -6.782 2.081 -0.846 P2 A1A6R 32 A1A6R CL CL1 CL 0 0 N N N N N N -35.571 -3.153 -29.014 8.396 0.270 -1.793 CL A1A6R 33 A1A6R H1 H1 H 0 1 N N N N N N -38.896 -3.741 -32.312 7.703 4.141 1.365 H1 A1A6R 34 A1A6R H2 H2 H 0 1 N N N N N N -40.102 -4.632 -31.665 6.168 4.105 2.046 H2 A1A6R 35 A1A6R H3 H3 H 0 1 N N N N N N -41.491 -0.870 -25.733 1.980 -3.545 1.267 H3 A1A6R 36 A1A6R H4 H4 H 0 1 N N N N N N -38.782 -1.546 -24.463 3.545 -1.851 1.727 H4 A1A6R 37 A1A6R H5 H5 H 0 1 N N N N N N -39.134 -1.054 -26.155 4.413 -2.517 0.305 H5 A1A6R 38 A1A6R H6 H6 H 0 1 N N N N N N -39.007 -3.677 -25.326 3.389 -0.937 -1.199 H6 A1A6R 39 A1A6R H7 H7 H 0 1 N N N N N N -40.099 -2.802 -20.682 0.209 -2.811 -3.579 H7 A1A6R 40 A1A6R H8 H8 H 0 1 N N N N N N -42.127 -3.848 -29.598 3.903 3.031 2.304 H8 A1A6R 41 A1A6R H9 H9 H 0 1 N N N N N N -42.331 -3.541 -27.012 2.202 1.146 1.708 H9 A1A6R 42 A1A6R H10 H10 H 0 1 N N N N N N -43.364 -1.481 -23.366 0.209 -1.869 1.831 H10 A1A6R 43 A1A6R H11 H11 H 0 1 N N N N N N -43.275 -3.275 -23.385 -0.364 -3.241 0.852 H11 A1A6R 44 A1A6R H12 H12 H 0 1 N N N N N N -46.568 -1.469 -24.941 -2.035 0.275 2.467 H12 A1A6R 45 A1A6R H13 H13 H 0 1 N N N N N N -41.413 0.765 -24.339 3.307 -4.557 -0.442 H13 A1A6R 46 A1A6R H14 H14 H 0 1 N N N N N N -43.462 0.861 -22.635 -5.586 -1.673 -1.438 H14 A1A6R 47 A1A6R H15 H15 H 0 1 N N N N N N -47.662 0.726 -24.815 -7.097 4.064 -1.719 H15 A1A6R 48 A1A6R H16 H16 H 0 1 N N N N N N -47.413 4.205 -24.846 -7.739 1.085 -2.544 H16 A1A6R 49 # 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 A1A6R N3 C9 SING N N 1 A1A6R C9 N2 DOUB Y N 2 A1A6R C9 C10 SING Y N 3 A1A6R N2 C8 SING Y N 4 A1A6R C10 C11 SING Y N 5 A1A6R C10 C7 DOUB Y N 6 A1A6R C8 CL SING N N 7 A1A6R C8 N1 DOUB Y N 8 A1A6R C11 C12 DOUB Y N 9 A1A6R C7 N1 SING Y N 10 A1A6R C7 N SING Y N 11 A1A6R C12 N SING Y N 12 A1A6R O9 P DOUB N N 13 A1A6R N C6 SING N N 14 A1A6R O7 P2 DOUB N N 15 A1A6R P O2 SING N N 16 A1A6R P O SING N N 17 A1A6R P O1 SING N N 18 A1A6R O2 P1 SING N N 19 A1A6R C6 C5 SING N N 20 A1A6R C6 O11 SING N N 21 A1A6R C5 C4 SING N N 22 A1A6R O C3 SING N N 23 A1A6R P2 O4 SING N N 24 A1A6R P2 O6 SING N N 25 A1A6R P2 O5 SING N N 26 A1A6R O4 P1 SING N N 27 A1A6R O11 C2 SING N N 28 A1A6R C4 C2 SING N N 29 A1A6R C4 O10 SING N N 30 A1A6R O8 P1 DOUB N N 31 A1A6R P1 O3 SING N N 32 A1A6R C2 C3 SING N N 33 A1A6R C2 C1 SING N N 34 A1A6R C1 C TRIP N N 35 A1A6R N3 H1 SING N N 36 A1A6R N3 H2 SING N N 37 A1A6R C4 H3 SING N N 38 A1A6R C5 H4 SING N N 39 A1A6R C5 H5 SING N N 40 A1A6R C6 H6 SING N N 41 A1A6R C H7 SING N N 42 A1A6R C11 H8 SING N N 43 A1A6R C12 H9 SING N N 44 A1A6R C3 H10 SING N N 45 A1A6R C3 H11 SING N N 46 A1A6R O1 H12 SING N N 47 A1A6R O10 H13 SING N N 48 A1A6R O3 H14 SING N N 49 A1A6R O5 H15 SING N N 50 A1A6R O6 H16 SING N N 51 # 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 A1A6R SMILES ACDLabs 14.52 "O=P(O)(O)OP(=O)(O)OP(=O)(O)OCC1(C#C)OC(CC1O)n1ccc2c(N)nc(Cl)nc21" A1A6R InChI InChI 1.06 "InChI=1S/C13H16ClN4O12P3/c1-2-13(6-27-32(23,24)30-33(25,26)29-31(20,21)22)8(19)5-9(28-13)18-4-3-7-10(15)16-12(14)17-11(7)18/h1,3-4,8-9,19H,5-6H2,(H,23,24)(H,25,26)(H2,15,16,17)(H2,20,21,22)/t8-,9+,13+/m0/s1" A1A6R InChIKey InChI 1.06 NQMWULQTTWGPJA-IGJMFERPSA-N A1A6R SMILES_CANONICAL CACTVS 3.385 "Nc1nc(Cl)nc2n(ccc12)[C@H]3C[C@H](O)[C@@](CO[P](O)(=O)O[P](O)(=O)O[P](O)(O)=O)(O3)C#C" A1A6R SMILES CACTVS 3.385 "Nc1nc(Cl)nc2n(ccc12)[CH]3C[CH](O)[C](CO[P](O)(=O)O[P](O)(=O)O[P](O)(O)=O)(O3)C#C" A1A6R SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "C#C[C@]1([C@H](C[C@@H](O1)n2ccc3c2nc(nc3N)Cl)O)COP(=O)(O)OP(=O)(O)OP(=O)(O)O" A1A6R SMILES "OpenEye OEToolkits" 2.0.7 "C#CC1(C(CC(O1)n2ccc3c2nc(nc3N)Cl)O)COP(=O)(O)OP(=O)(O)OP(=O)(O)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 A1A6R "SYSTEMATIC NAME" ACDLabs 14.52 "2-chloro-7-{(4xi)-2-deoxy-4-ethynyl-5-O-[(R)-hydroxy{[(R)-hydroxy(phosphonooxy)phosphoryl]oxy}phosphoryl]-beta-D-erythro-pentofuranosyl}-7H-pyrrolo[2,3-d]pyrimidin-4-amine" A1A6R "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "[[(2~{R},3~{S},5~{R})-5-(4-azanyl-2-chloranyl-pyrrolo[2,3-d]pyrimidin-7-yl)-2-ethynyl-3-oxidanyl-oxolan-2-yl]methoxy-oxidanyl-phosphoryl] phosphono 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 A1A6R "Create component" 2024-09-16 RCSB A1A6R "Initial release" 2025-09-17 RCSB #