data_6VQ # _chem_comp.id 6VQ _chem_comp.name ;[[(2~{R},3~{S},4~{R},5~{R})-5-(2-azanyl-7-methyl-6-oxidanylidene-3~{H}-purin-7-ium-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-sulfanyl-phosphoryl] [[[(2~{R},3~{S},4~{R},5~{R})-5-(2-azanyl-7-methyl-6-oxidanylidene-3~{H}-purin-7-ium-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-sulfanyl-phosphoryl]oxy-oxidanyl-phosphoryl] hydrogen phosphate ; _chem_comp.type NON-POLYMER _chem_comp.pdbx_type HETAIN _chem_comp.formula "C22 H34 N10 O19 P4 S2" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 2 _chem_comp.pdbx_initial_date 2016-07-06 _chem_comp.pdbx_modified_date 2016-09-30 _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 930.586 _chem_comp.one_letter_code ? _chem_comp.three_letter_code 6VQ _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 5KQ4 _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 6VQ P10 P1 P 0 1 N N R -3.930 -12.880 -43.210 3.702 -2.831 -1.942 P10 6VQ 1 6VQ P14 P2 P 0 1 N N N -4.298 -12.317 -40.139 1.090 -3.876 -1.008 P14 6VQ 2 6VQ P18 P3 P 0 1 N N N -6.577 -13.769 -38.796 -1.123 -3.888 0.964 P18 6VQ 3 6VQ P22 P4 P 0 1 N N R -8.095 -11.421 -37.411 -3.733 -2.852 1.912 P22 6VQ 4 6VQ C01 C1 C 0 1 N N N -1.602 -8.462 -46.040 8.542 0.484 3.537 C01 6VQ 5 6VQ N02 N1 N 1 1 Y N N -1.264 -9.722 -46.761 8.334 1.278 2.323 N02 6VQ 6 6VQ C03 C2 C 0 1 Y N N -0.830 -10.908 -46.184 7.687 0.883 1.265 C03 6VQ 7 6VQ N04 N2 N 0 1 Y N N -0.610 -11.879 -47.196 7.690 1.876 0.331 N04 6VQ 8 6VQ C05 C3 C 0 1 N N R -0.092 -13.341 -46.751 7.067 1.821 -0.994 C05 6VQ 9 6VQ O06 O1 O 0 1 N N N -0.689 -14.209 -45.817 6.075 0.774 -1.047 O06 6VQ 10 6VQ C07 C4 C 0 1 N N R -0.151 -14.041 -44.465 5.887 0.442 -2.433 C07 6VQ 11 6VQ C08 C5 C 0 1 N N N -1.236 -13.568 -43.403 5.594 -1.053 -2.575 C08 6VQ 12 6VQ O09 O2 O 0 1 N N N -2.416 -13.399 -44.009 4.330 -1.349 -1.976 O09 6VQ 13 6VQ O11 O3 O 0 1 N N N -4.151 -11.622 -43.980 3.631 -3.369 -3.319 O11 6VQ 14 6VQ S12 S1 S 0 1 N N N -5.264 -14.258 -43.495 4.925 -4.090 -0.753 S12 6VQ 15 6VQ O13 O4 O 0 1 N N N -3.474 -12.659 -41.741 2.221 -2.771 -1.312 O13 6VQ 16 6VQ O15 O5 O 0 1 N N N -5.390 -11.460 -40.684 1.712 -5.058 -0.371 O15 6VQ 17 6VQ O16 O6 O 0 1 N N N -3.217 -11.687 -39.334 0.387 -4.318 -2.388 O16 6VQ 18 6VQ O17 O7 O 0 1 N N N -5.036 -13.576 -39.381 -0.016 -3.253 -0.018 O17 6VQ 19 6VQ O19 O8 O 0 1 N N N -7.583 -13.598 -39.887 -1.748 -5.060 0.310 O19 6VQ 20 6VQ O20 O9 O 0 1 N N N -6.781 -14.950 -37.898 -0.421 -4.351 2.336 O20 6VQ 21 6VQ O21 O10 O 0 1 N N N -6.846 -12.272 -37.788 -2.253 -2.786 1.283 O21 6VQ 22 6VQ O23 O11 O 0 1 N N N -7.670 -10.078 -36.945 -3.663 -3.410 3.281 O23 6VQ 23 6VQ S24 S2 S 0 1 N N N -9.394 -12.288 -36.258 -4.959 -4.091 0.706 S24 6VQ 24 6VQ O25 O12 O 0 1 N N N -8.997 -10.863 -38.923 -4.359 -1.370 1.968 O25 6VQ 25 6VQ C26 C6 C 0 1 N N N -10.096 -11.463 -39.452 -5.622 -1.080 2.571 C26 6VQ 26 6VQ C27 C7 C 0 1 N N R -11.002 -10.472 -40.350 -5.913 0.417 2.451 C27 6VQ 27 6VQ O28 O13 O 0 1 N N N -11.335 -9.229 -39.684 -6.100 0.769 1.070 O28 6VQ 28 6VQ C29 C8 C 0 1 N N R -10.525 -8.161 -40.116 -7.090 1.820 1.033 C29 6VQ 29 6VQ N30 N3 N 0 1 Y N N -9.805 -7.340 -39.003 -7.713 1.895 -0.291 N30 6VQ 30 6VQ C31 C9 C 0 1 Y N N -8.532 -7.554 -38.484 -7.786 0.887 -1.206 C31 6VQ 31 6VQ N32 N4 N 1 1 Y N N -8.230 -6.611 -37.511 -8.408 1.308 -2.270 N32 6VQ 32 6VQ C33 C10 C 0 1 N N N -6.963 -6.526 -36.733 -8.681 0.508 -3.467 C33 6VQ 33 6VQ C34 C11 C 0 1 Y N N -9.360 -5.771 -37.415 -8.764 2.601 -2.093 C34 6VQ 34 6VQ C35 C12 C 0 1 N N N -9.650 -4.602 -36.572 -9.467 3.595 -2.910 C35 6VQ 35 6VQ O36 O14 O 0 1 N N N -8.868 -4.156 -35.757 -9.875 3.309 -4.025 O36 6VQ 36 6VQ N37 N5 N 0 1 N N N -10.925 -4.009 -36.771 -9.654 4.825 -2.407 N37 6VQ 37 6VQ C38 C13 C 0 1 N N N -11.831 -4.488 -37.683 -9.220 5.146 -1.207 C38 6VQ 38 6VQ N39 N6 N 0 1 N N N -13.091 -3.822 -37.809 -9.440 6.417 -0.746 N39 6VQ 39 6VQ N40 N7 N 0 1 N N N -11.593 -5.603 -38.509 -8.564 4.266 -0.407 N40 6VQ 40 6VQ C41 C14 C 0 1 Y N N -10.355 -6.190 -38.327 -8.328 2.983 -0.830 C41 6VQ 41 6VQ C42 C15 C 0 1 N N R -9.454 -8.742 -41.081 -8.125 1.378 2.099 C42 6VQ 42 6VQ O43 O15 O 0 1 N N N -9.170 -7.895 -42.157 -8.843 2.504 2.609 O43 6VQ 43 6VQ C44 C16 C 0 1 N N S -10.219 -9.952 -41.615 -7.221 0.758 3.191 C44 6VQ 44 6VQ O45 O16 O 0 1 N N N -11.053 -9.406 -42.592 -6.974 1.704 4.233 O45 6VQ 45 6VQ C46 C17 C 0 1 N N S 0.974 -12.967 -44.584 7.196 0.790 -3.168 C46 6VQ 46 6VQ O47 O17 O 0 1 N N N 2.102 -13.338 -43.864 6.951 1.752 -4.196 O47 6VQ 47 6VQ C48 C18 C 0 1 N N R 1.262 -12.957 -46.084 8.101 1.394 -2.066 C48 6VQ 48 6VQ O49 O18 O 0 1 N N N 2.261 -13.870 -46.445 8.821 2.525 -2.560 O49 6VQ 49 6VQ C50 C19 C 0 1 Y N N -0.912 -11.289 -48.447 8.376 2.929 0.854 C50 6VQ 50 6VQ N51 N8 N 0 1 N N N -0.833 -11.881 -49.677 8.707 4.183 0.408 N51 6VQ 51 6VQ C52 C20 C 0 1 N N N -1.201 -11.046 -50.750 9.415 5.031 1.198 C52 6VQ 52 6VQ N53 N9 N 0 1 N N N -1.149 -11.580 -52.063 9.725 6.275 0.716 N53 6VQ 53 6VQ N54 N10 N 0 1 N N N -1.608 -9.736 -50.589 9.816 4.704 2.407 N54 6VQ 54 6VQ C55 C21 C 0 1 N N N -1.691 -9.116 -49.313 9.541 3.499 2.932 C55 6VQ 55 6VQ O56 O19 O 0 1 N N N -2.052 -7.963 -49.203 9.918 3.208 4.056 O56 6VQ 56 6VQ C57 C22 C 0 1 Y N N -1.317 -9.954 -48.158 8.779 2.541 2.126 C57 6VQ 57 6VQ H1 H1 H 0 1 N N N -1.457 -8.607 -44.959 9.467 -0.086 3.444 H1 6VQ 58 6VQ H2 H2 H 0 1 N N N -0.947 -7.651 -46.392 8.611 1.149 4.398 H2 6VQ 59 6VQ H3 H3 H 0 1 N N N -2.651 -8.197 -46.237 7.705 -0.200 3.671 H3 6VQ 60 6VQ H4 H4 H 0 1 N N N -0.682 -11.068 -45.126 7.219 -0.084 1.145 H4 6VQ 61 6VQ H5 H5 H 0 1 N N N 0.137 -13.895 -47.673 6.625 2.784 -1.250 H5 6VQ 62 6VQ H6 H6 H 0 1 N N N 0.293 -14.984 -44.114 5.062 1.022 -2.845 H6 6VQ 63 6VQ H7 H7 H 0 1 N N N -1.335 -14.331 -42.617 5.566 -1.319 -3.631 H7 6VQ 64 6VQ H8 H8 H 0 1 N N N -0.917 -12.617 -42.953 6.375 -1.626 -2.076 H8 6VQ 65 6VQ H9 H9 H 0 1 N N N -6.065 -13.687 -44.346 4.899 -3.489 0.450 H9 6VQ 66 6VQ H10 H10 H 0 1 N N N -3.375 -10.753 -39.267 -0.043 -3.592 -2.860 H10 6VQ 67 6VQ H11 H11 H 0 1 N N N -7.554 -15.429 -38.174 0.010 -3.633 2.820 H11 6VQ 68 6VQ H12 H12 H 0 1 N N N -9.557 -11.402 -35.321 -4.932 -3.473 -0.488 H12 6VQ 69 6VQ H13 H13 H 0 1 N N N -10.714 -11.848 -38.627 -6.404 -1.644 2.064 H13 6VQ 70 6VQ H14 H14 H 0 1 N N N -9.765 -12.301 -40.084 -5.595 -1.362 3.624 H14 6VQ 71 6VQ H15 H15 H 0 1 N N N -11.907 -11.007 -40.673 -5.087 0.990 2.871 H15 6VQ 72 6VQ H16 H16 H 0 1 N N N -11.138 -7.455 -40.696 -6.644 2.777 1.301 H16 6VQ 73 6VQ H17 H17 H 0 1 N N N -7.868 -8.347 -38.796 -7.389 -0.108 -1.070 H17 6VQ 74 6VQ H18 H18 H 0 1 N N N -7.016 -5.676 -36.037 -9.643 0.009 -3.359 H18 6VQ 75 6VQ H19 H19 H 0 1 N N N -6.819 -7.457 -36.165 -8.705 1.159 -4.341 H19 6VQ 76 6VQ H20 H20 H 0 1 N N N -6.118 -6.383 -37.423 -7.896 -0.238 -3.592 H20 6VQ 77 6VQ H21 H21 H 0 1 N N N -13.295 -3.026 -37.239 -9.908 7.060 -1.302 H21 6VQ 78 6VQ H22 H22 H 0 1 N N N -13.768 -4.153 -38.467 -9.128 6.674 0.135 H22 6VQ 79 6VQ H23 H23 H 0 1 N N N -12.262 -5.941 -39.171 -8.253 4.549 0.467 H23 6VQ 80 6VQ H24 H24 H 0 1 N N N -8.557 -9.053 -40.526 -8.810 0.635 1.691 H24 6VQ 81 6VQ H25 H25 H 0 1 N N N -8.693 -7.135 -41.845 -9.503 2.279 3.279 H25 6VQ 82 6VQ H26 H26 H 0 1 N N N -9.536 -10.725 -41.998 -7.677 -0.146 3.595 H26 6VQ 83 6VQ H27 H27 H 0 1 N N N -11.575 -10.096 -42.985 -7.772 1.998 4.695 H27 6VQ 84 6VQ H28 H28 H 0 1 N N N 0.584 -11.988 -44.269 7.649 -0.108 -3.587 H28 6VQ 85 6VQ H29 H29 H 0 1 N N N 1.900 -13.337 -42.936 7.741 2.008 -4.692 H29 6VQ 86 6VQ H30 H30 H 0 1 N N N 1.532 -11.936 -46.393 8.785 0.643 -1.670 H30 6VQ 87 6VQ H31 H31 H 0 1 N N N 3.080 -13.624 -46.032 9.480 2.309 -3.234 H31 6VQ 88 6VQ H32 H32 H 0 1 N N N -0.538 -12.828 -49.804 8.432 4.466 -0.478 H32 6VQ 89 6VQ H33 H33 H 0 1 N N N -1.404 -11.011 -52.845 10.230 6.896 1.264 H33 6VQ 90 6VQ H34 H34 H 0 1 N N N -0.858 -12.526 -52.207 9.439 6.536 -0.174 H34 6VQ 91 # 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 6VQ N53 C52 SING N N 1 6VQ C52 N54 DOUB N N 2 6VQ C52 N51 SING N N 3 6VQ N54 C55 SING N N 4 6VQ N51 C50 SING N N 5 6VQ C55 O56 DOUB N N 6 6VQ C55 C57 SING N N 7 6VQ C50 C57 DOUB Y N 8 6VQ C50 N04 SING Y N 9 6VQ C57 N02 SING Y N 10 6VQ N04 C05 SING N N 11 6VQ N04 C03 SING Y N 12 6VQ N02 C03 DOUB Y N 13 6VQ N02 C01 SING N N 14 6VQ C05 C48 SING N N 15 6VQ C05 O06 SING N N 16 6VQ O49 C48 SING N N 17 6VQ C48 C46 SING N N 18 6VQ O06 C07 SING N N 19 6VQ C46 C07 SING N N 20 6VQ C46 O47 SING N N 21 6VQ C07 C08 SING N N 22 6VQ O09 C08 SING N N 23 6VQ O09 P10 SING N N 24 6VQ O11 P10 DOUB N N 25 6VQ S12 P10 SING N N 26 6VQ P10 O13 SING N N 27 6VQ O45 C44 SING N N 28 6VQ O43 C42 SING N N 29 6VQ O13 P14 SING N N 30 6VQ C44 C42 SING N N 31 6VQ C44 C27 SING N N 32 6VQ C42 C29 SING N N 33 6VQ O15 P14 DOUB N N 34 6VQ C27 O28 SING N N 35 6VQ C27 C26 SING N N 36 6VQ P14 O17 SING N N 37 6VQ P14 O16 SING N N 38 6VQ C29 O28 SING N N 39 6VQ C29 N30 SING N N 40 6VQ O19 P18 DOUB N N 41 6VQ C26 O25 SING N N 42 6VQ O17 P18 SING N N 43 6VQ N30 C31 SING Y N 44 6VQ N30 C41 SING Y N 45 6VQ O25 P22 SING N N 46 6VQ P18 O20 SING N N 47 6VQ P18 O21 SING N N 48 6VQ N40 C41 SING N N 49 6VQ N40 C38 SING N N 50 6VQ C31 N32 DOUB Y N 51 6VQ C41 C34 DOUB Y N 52 6VQ N39 C38 SING N N 53 6VQ O21 P22 SING N N 54 6VQ C38 N37 DOUB N N 55 6VQ N32 C34 SING Y N 56 6VQ N32 C33 SING N N 57 6VQ C34 C35 SING N N 58 6VQ P22 O23 DOUB N N 59 6VQ P22 S24 SING N N 60 6VQ N37 C35 SING N N 61 6VQ C35 O36 DOUB N N 62 6VQ C01 H1 SING N N 63 6VQ C01 H2 SING N N 64 6VQ C01 H3 SING N N 65 6VQ C03 H4 SING N N 66 6VQ C05 H5 SING N N 67 6VQ C07 H6 SING N N 68 6VQ C08 H7 SING N N 69 6VQ C08 H8 SING N N 70 6VQ S12 H9 SING N N 71 6VQ O16 H10 SING N N 72 6VQ O20 H11 SING N N 73 6VQ S24 H12 SING N N 74 6VQ C26 H13 SING N N 75 6VQ C26 H14 SING N N 76 6VQ C27 H15 SING N N 77 6VQ C29 H16 SING N N 78 6VQ C31 H17 SING N N 79 6VQ C33 H18 SING N N 80 6VQ C33 H19 SING N N 81 6VQ C33 H20 SING N N 82 6VQ N39 H21 SING N N 83 6VQ N39 H22 SING N N 84 6VQ N40 H23 SING N N 85 6VQ C42 H24 SING N N 86 6VQ O43 H25 SING N N 87 6VQ C44 H26 SING N N 88 6VQ O45 H27 SING N N 89 6VQ C46 H28 SING N N 90 6VQ O47 H29 SING N N 91 6VQ C48 H30 SING N N 92 6VQ O49 H31 SING N N 93 6VQ N51 H32 SING N N 94 6VQ N53 H33 SING N N 95 6VQ N53 H34 SING N N 96 # 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 6VQ InChI InChI 1.03 ;InChI=1S/C22H32N10O19P4S2/c1-29-5-31(15-9(29)17(37)27-21(23)25-15)19-13(35)11(33)7(47-19)3-45-54(43,56)50-52(39,40)49-53(41,42)51-55(44,57)46-4-8-12(34)14(36)20(48-8)32-6-30(2)10-16(32)26-22(24)28-18(10)38/h5-8,11-14,19-20,33-36H,3-4H2,1-2H3,(H8-2,23,24,25,26,27,28,37,38,39,40,41,42,43,44,56,57)/p+2/t7-,8-,11-,12-,13-,14-,19-,20-,54-,55-/m1/s1 ; 6VQ InChIKey InChI 1.03 SZQMTBAJCPCVLP-BZDQESSTSA-P 6VQ SMILES_CANONICAL CACTVS 3.385 "C[n+]1cn([C@@H]2O[C@H](CO[P@](S)(=O)O[P](O)(=O)O[P](O)(=O)O[P@@](S)(=O)OC[C@H]3O[C@H]([C@H](O)[C@@H]3O)n4c[n+](C)c5C(=O)N=C(N)Nc45)[C@@H](O)[C@H]2O)c6NC(=NC(=O)c16)N" 6VQ SMILES CACTVS 3.385 "C[n+]1cn([CH]2O[CH](CO[P](S)(=O)O[P](O)(=O)O[P](O)(=O)O[P](S)(=O)OC[CH]3O[CH]([CH](O)[CH]3O)n4c[n+](C)c5C(=O)N=C(N)Nc45)[CH](O)[CH]2O)c6NC(=NC(=O)c16)N" 6VQ SMILES_CANONICAL "OpenEye OEToolkits" 2.0.5 "C[n+]1cn(c2c1C(=O)N=C(N2)N)[C@H]3[C@@H]([C@@H]([C@H](O3)CO[P@](=O)(OP(=O)(O)OP(=O)(O)O[P@@](=O)(OC[C@@H]4[C@H]([C@H]([C@@H](O4)n5c[n+](c6c5NC(=NC6=O)N)C)O)O)S)S)O)O" 6VQ SMILES "OpenEye OEToolkits" 2.0.5 "C[n+]1cn(c2c1C(=O)N=C(N2)N)C3C(C(C(O3)COP(=O)(OP(=O)(O)OP(=O)(O)OP(=O)(OCC4C(C(C(O4)n5c[n+](c6c5NC(=NC6=O)N)C)O)O)S)S)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 6VQ "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.5 ;[[(2~{R},3~{S},4~{R},5~{R})-5-(2-azanyl-7-methyl-6-oxidanylidene-3~{H}-purin-7-ium-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-sulfanyl-phosphoryl] [[[(2~{R},3~{S},4~{R},5~{R})-5-(2-azanyl-7-methyl-6-oxidanylidene-3~{H}-purin-7-ium-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-sulfanyl-phosphoryl]oxy-oxidanyl-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 6VQ "Create component" 2016-07-06 RCSB 6VQ "Initial release" 2016-10-05 RCSB #