data_KIT
# 
_chem_comp.id                                    KIT 
_chem_comp.name                                  "(1~{R},23~{R},24~{S},25~{R})-14-[[(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methyl]-7-azanyl-24,25-bis(oxidanyl)-26-oxa-2,4,6,9,14,17,21-heptazatetracyclo[21.2.1.0^{2,10}.0^{3,8}]hexacosa-3(8),4,6,9-tetraen-11-yne-16,20-dione" 
_chem_comp.type                                  non-polymer 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C28 H33 N13 O8" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2022-05-25 
_chem_comp.pdbx_modified_date                    2023-01-06 
_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                        679.644 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     KIT 
_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        7ZZJ 
_chem_comp.pdbx_subcomponent_list                ? 
_chem_comp.pdbx_processing_site                  PDBE 
# 
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 
KIT N1  N1  N 0 1 Y N N 19.870 3.989  7.995  9.988  -1.072 -1.579 N1  KIT 1  
KIT C7  C1  C 0 1 N N N 14.333 9.873  10.667 1.781  0.511  0.991  C7  KIT 2  
KIT C8  C2  C 0 1 N N N 14.777 10.242 13.071 0.194  -0.282 -0.653 C8  KIT 3  
KIT N2  N2  N 0 1 Y N N 19.353 6.157  8.898  7.906  -1.831 -0.924 N2  KIT 4  
KIT C9  C3  C 0 1 N N N 16.180 10.662 12.914 -1.032 -0.301 0.178  C9  KIT 5  
KIT O1  O1  O 0 1 N N N 19.616 8.135  13.044 -4.345 1.059  -0.271 O1  KIT 6  
KIT C1  C4  C 0 1 Y N N 20.145 5.111  8.661  9.139  -2.052 -1.327 C1  KIT 7  
KIT O5  O2  O 0 1 N N N 19.097 9.649  16.224 -6.294 -0.260 -2.886 O5  KIT 8  
KIT C5  C5  C 0 1 N N R 17.054 8.178  8.985  5.056  -0.762 0.020  C5  KIT 9  
KIT C6  C6  C 0 1 N N R 15.672 9.664  10.000 2.870  -0.516 0.675  C6  KIT 10 
KIT N3  N3  N 0 1 Y N N 16.386 5.031  7.256  7.633  1.623  -0.758 N3  KIT 11 
KIT C4  C7  C 0 1 Y N N 16.065 6.217  7.719  6.426  1.319  -0.375 C4  KIT 12 
KIT O4  O3  O 0 1 N N N 19.656 6.988  15.750 -6.859 2.165  -2.394 O4  KIT 13 
KIT C3  C8  C 0 1 Y N N 17.702 4.868  7.663  8.326  0.487  -1.007 C3  KIT 14 
KIT O3  O4  O 0 1 N N N 11.889 6.709  12.631 0.747  1.726  2.223  O3  KIT 15 
KIT C2  C9  C 0 1 Y N N 18.139 5.974  8.371  7.461  -0.591 -0.752 C2  KIT 16 
KIT N4  N4  N 0 1 Y N N 17.075 6.842  8.400  6.271  -0.035 -0.356 N4  KIT 17 
KIT N   N5  N 0 1 N N N 18.368 2.711  6.798  10.530 1.220  -1.701 N   KIT 18 
KIT C   C10 C 0 1 Y N N 18.634 3.830  7.471  9.633  0.200  -1.435 C   KIT 19 
KIT O   O5  O 0 1 N N N 16.018 8.267  9.949  3.893  0.076  -0.154 O   KIT 20 
KIT C10 C11 C 0 1 N N N 17.356 10.891 12.839 -2.114 -0.729 0.500  C10 KIT 21 
KIT C11 C12 C 0 1 Y N N 18.754 11.263 12.697 -3.236 -1.613 0.319  C11 KIT 22 
KIT C12 C13 C 0 1 Y N N 20.573 12.281 12.187 -4.494 -3.381 0.404  C12 KIT 23 
KIT C13 C14 C 0 1 Y N N 21.596 13.122 11.711 -5.099 -4.638 0.598  C13 KIT 24 
KIT C14 C15 C 0 1 Y N N 23.102 11.673 12.702 -6.847 -3.957 -0.744 C14 KIT 25 
KIT C15 C16 C 0 1 Y N N 20.965 11.159 12.898 -5.159 -2.435 -0.399 C15 KIT 26 
KIT C16 C17 C 0 1 N N R 19.762 9.222  13.943 -4.631 -0.061 -1.114 C16 KIT 27 
KIT C17 C18 C 0 1 N N R 18.718 7.152  13.606 -5.272 2.112  -0.549 C17 KIT 28 
KIT C18 C19 C 0 1 N N N 17.518 7.260  12.686 -5.652 2.821  0.751  C18 KIT 29 
KIT C19 C20 C 0 1 N N N 16.191 5.323  11.994 -3.740 4.293  0.664  C19 KIT 30 
KIT C20 C21 C 0 1 N N N 14.827 4.706  12.154 -2.502 4.901  1.274  C20 KIT 31 
KIT C21 C22 C 0 1 N N N 13.829 5.322  11.185 -1.257 4.219  0.701  C21 KIT 32 
KIT C22 C23 C 0 1 N N N 12.807 7.336  12.121 0.168  2.401  1.399  C22 KIT 33 
KIT C23 C24 C 0 1 N N N 12.939 8.837  12.313 0.257  2.065  -0.068 C23 KIT 34 
KIT C24 C25 C 0 1 N N S 18.549 7.561  15.063 -6.516 1.479  -1.188 C24 KIT 35 
KIT C25 C26 C 0 1 N N R 18.665 9.079  14.993 -6.120 0.021  -1.496 C25 KIT 36 
KIT C26 C27 C 0 1 N N S 15.611 10.053 8.529  3.603  -0.937 1.967  C26 KIT 37 
KIT C27 C28 C 0 1 N N R 16.801 9.283  7.942  5.075  -1.103 1.527  C27 KIT 38 
KIT N10 N6  N 0 1 Y N N 19.806 10.482 13.223 -4.354 -1.319 -0.420 N10 KIT 39 
KIT N11 N7  N 0 1 N N N 16.503 6.243  12.902 -4.430 3.361  1.381  N11 KIT 40 
KIT N12 N8  N 0 1 N N N 13.737 6.764  11.361 -0.576 3.478  1.783  N12 KIT 41 
KIT N5  N9  N 0 1 N N N 14.284 9.338  12.032 1.044  0.838  -0.237 N5  KIT 42 
KIT N6  N10 N 0 1 Y N N 19.181 12.346 12.073 -3.336 -2.820 0.816  N6  KIT 43 
KIT N7  N11 N 0 1 N N N 21.382 14.241 11.016 -4.496 -5.601 1.388  N7  KIT 44 
KIT N8  N12 N 0 1 Y N N 22.875 12.778 11.987 -6.263 -4.875 0.005  N8  KIT 45 
KIT N9  N13 N 0 1 Y N N 22.220 10.803 13.198 -6.321 -2.767 -0.945 N9  KIT 46 
KIT O2  O6  O 0 1 N N N 16.917 5.040  11.042 -4.114 4.626  -0.440 O2  KIT 47 
KIT O6  O7  O 0 1 N N N 15.731 11.452 8.295  3.082  -2.174 2.459  O6  KIT 48 
KIT O7  O8  O 0 1 N N N 17.941 10.124 7.837  5.510  -2.449 1.731  O7  KIT 49 
KIT H13 H1  H 0 1 N N N 14.125 10.952 10.706 1.093  0.096  1.728  H13 KIT 50 
KIT H12 H2  H 0 1 N N N 13.560 9.372  10.066 2.239  1.416  1.391  H12 KIT 51 
KIT H15 H3  H 0 1 N N N 14.148 11.144 13.065 0.736  -1.219 -0.524 H15 KIT 52 
KIT H14 H4  H 0 1 N N N 14.679 9.733  14.041 -0.079 -0.162 -1.702 H14 KIT 53 
KIT H10 H5  H 0 1 N N N 21.145 5.182  9.063  9.469  -3.072 -1.457 H10 KIT 54 
KIT H30 H6  H 0 1 N N N 18.410 9.557  16.874 -7.214 -0.222 -3.183 H30 KIT 55 
KIT H   H7  H 0 1 N N N 18.024 8.377  9.464  4.961  -1.672 -0.573 H   KIT 56 
KIT H1  H8  H 0 1 N N N 16.449 10.249 10.514 2.438  -1.386 0.181  H1  KIT 57 
KIT H11 H9  H 0 1 N N N 15.091 6.660  7.575  5.661  2.035  -0.112 H11 KIT 58 
KIT H29 H10 H 0 1 N N N 19.606 7.210  16.672 -7.638 1.808  -2.842 H29 KIT 59 
KIT H9  H11 H 0 1 N N N 19.180 2.127  6.787  10.259 2.145  -1.592 H9  KIT 60 
KIT H8  H12 H 0 1 N N N 17.615 2.226  7.242  11.430 1.010  -1.996 H8  KIT 61 
KIT H18 H13 H 0 1 N N N 24.140 11.454 12.906 -7.793 -4.193 -1.210 H18 KIT 62 
KIT H2  H14 H 0 1 N N N 20.721 9.104  14.468 -4.021 0.001  -2.017 H2  KIT 63 
KIT H3  H15 H 0 1 N N N 19.149 6.142  13.547 -4.823 2.826  -1.239 H3  KIT 64 
KIT H20 H16 H 0 1 N N N 17.872 7.178  11.648 -6.341 3.637  0.534  H20 KIT 65 
KIT H19 H17 H 0 1 N N N 17.055 8.246  12.839 -6.128 2.110  1.428  H19 KIT 66 
KIT H22 H18 H 0 1 N N N 14.477 4.871  13.184 -2.470 5.966  1.043  H22 KIT 67 
KIT H23 H19 H 0 1 N N N 14.897 3.626  11.959 -2.525 4.765  2.355  H23 KIT 68 
KIT H24 H20 H 0 1 N N N 12.839 4.876  11.360 -1.552 3.525  -0.087 H24 KIT 69 
KIT H25 H21 H 0 1 N N N 14.151 5.107  10.155 -0.582 4.971  0.294  H25 KIT 70 
KIT H27 H22 H 0 1 N N N 12.686 9.080  13.356 -0.745 1.913  -0.468 H27 KIT 71 
KIT H28 H23 H 0 1 N N N 12.231 9.339  11.638 0.741  2.884  -0.600 H28 KIT 72 
KIT H4  H24 H 0 1 N N N 17.575 7.245  15.465 -7.353 1.502  -0.490 H4  KIT 73 
KIT H5  H25 H 0 1 N N N 17.725 9.524  14.636 -6.707 -0.669 -0.891 H5  KIT 74 
KIT H6  H26 H 0 1 N N N 14.680 9.665  8.090  3.517  -0.159 2.726  H6  KIT 75 
KIT H7  H27 H 0 1 N N N 16.527 8.837  6.974  5.716  -0.407 2.068  H7  KIT 76 
KIT H21 H28 H 0 1 N N N 16.016 6.235  13.775 -4.135 3.068  2.258  H21 KIT 77 
KIT H26 H29 H 0 1 N N N 14.399 7.348  10.892 -0.654 3.742  2.713  H26 KIT 78 
KIT H17 H31 H 0 1 N N N 22.258 14.671 10.798 -4.924 -6.463 1.513  H17 KIT 79 
KIT H16 H32 H 0 1 N N N 20.899 14.020 10.169 -3.645 -5.415 1.815  H16 KIT 80 
KIT H31 H33 H 0 1 N N N 14.982 11.901 8.669  3.507  -2.485 3.270  H31 KIT 81 
KIT H32 H34 H 0 1 N N N 18.666 9.631  7.472  5.484  -2.735 2.654  H32 KIT 82 
# 
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 
KIT N   C   SING N N 1  
KIT N3  C3  SING Y N 2  
KIT N3  C4  DOUB Y N 3  
KIT C   C3  DOUB Y N 4  
KIT C   N1  SING Y N 5  
KIT C3  C2  SING Y N 6  
KIT C4  N4  SING Y N 7  
KIT O7  C27 SING N N 8  
KIT C27 C26 SING N N 9  
KIT C27 C5  SING N N 10 
KIT N1  C1  DOUB Y N 11 
KIT O6  C26 SING N N 12 
KIT C2  N4  SING Y N 13 
KIT C2  N2  DOUB Y N 14 
KIT N4  C5  SING N N 15 
KIT C26 C6  SING N N 16 
KIT C1  N2  SING Y N 17 
KIT C5  O   SING N N 18 
KIT O   C6  SING N N 19 
KIT C6  C7  SING N N 20 
KIT C7  N5  SING N N 21 
KIT N7  C13 SING N N 22 
KIT O2  C19 DOUB N N 23 
KIT C21 N12 SING N N 24 
KIT C21 C20 SING N N 25 
KIT N12 C22 SING N N 26 
KIT C13 N8  DOUB Y N 27 
KIT C13 C12 SING Y N 28 
KIT N8  C14 SING Y N 29 
KIT C19 C20 SING N N 30 
KIT C19 N11 SING N N 31 
KIT N5  C23 SING N N 32 
KIT N5  C8  SING N N 33 
KIT N6  C12 SING Y N 34 
KIT N6  C11 DOUB Y N 35 
KIT C22 C23 SING N N 36 
KIT C22 O3  DOUB N N 37 
KIT C12 C15 DOUB Y N 38 
KIT C18 N11 SING N N 39 
KIT C18 C17 SING N N 40 
KIT C11 C10 SING N N 41 
KIT C11 N10 SING Y N 42 
KIT C14 N9  DOUB Y N 43 
KIT C10 C9  TRIP N N 44 
KIT C15 N9  SING Y N 45 
KIT C15 N10 SING Y N 46 
KIT C9  C8  SING N N 47 
KIT O1  C17 SING N N 48 
KIT O1  C16 SING N N 49 
KIT N10 C16 SING N N 50 
KIT C17 C24 SING N N 51 
KIT C16 C25 SING N N 52 
KIT C25 C24 SING N N 53 
KIT C25 O5  SING N N 54 
KIT C24 O4  SING N N 55 
KIT C7  H13 SING N N 56 
KIT C7  H12 SING N N 57 
KIT C8  H15 SING N N 58 
KIT C8  H14 SING N N 59 
KIT C1  H10 SING N N 60 
KIT O5  H30 SING N N 61 
KIT C5  H   SING N N 62 
KIT C6  H1  SING N N 63 
KIT C4  H11 SING N N 64 
KIT O4  H29 SING N N 65 
KIT N   H9  SING N N 66 
KIT N   H8  SING N N 67 
KIT C14 H18 SING N N 68 
KIT C16 H2  SING N N 69 
KIT C17 H3  SING N N 70 
KIT C18 H20 SING N N 71 
KIT C18 H19 SING N N 72 
KIT C20 H22 SING N N 73 
KIT C20 H23 SING N N 74 
KIT C21 H24 SING N N 75 
KIT C21 H25 SING N N 76 
KIT C23 H27 SING N N 77 
KIT C23 H28 SING N N 78 
KIT C24 H4  SING N N 79 
KIT C25 H5  SING N N 80 
KIT C26 H6  SING N N 81 
KIT C27 H7  SING N N 82 
KIT N11 H21 SING N N 83 
KIT N12 H26 SING N N 84 
KIT N7  H17 SING N N 85 
KIT N7  H16 SING N N 86 
KIT O6  H31 SING N N 87 
KIT O7  H32 SING N N 88 
# 
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 
KIT InChI            InChI                1.06  "InChI=1S/C28H33N13O8/c29-23-17-25(35-9-33-23)40(11-37-17)27-21(46)20(45)13(49-27)7-39-5-1-2-14-38-18-24(30)34-10-36-26(18)41(14)28-22(47)19(44)12(48-28)6-32-15(42)3-4-31-16(43)8-39/h9-13,19-22,27-28,44-47H,3-8H2,(H,31,43)(H,32,42)(H2,29,33,35)(H2,30,34,36)/t12-,13-,19-,20-,21-,22-,27-,28-/m1/s1" 
KIT InChIKey         InChI                1.06  VNLJLUGLNRIXOB-QJYUSYPVSA-N                                                                                                                                                                                                                                                                               
KIT SMILES_CANONICAL CACTVS               3.385 "Nc1ncnc2n(cnc12)[C@@H]3O[C@H](CN4CC#Cc5nc6c(N)ncnc6n5[C@@H]7O[C@H](CNC(=O)CCNC(=O)C4)[C@@H](O)[C@H]7O)[C@@H](O)[C@H]3O"                                                                                                                                                                                  
KIT SMILES           CACTVS               3.385 "Nc1ncnc2n(cnc12)[CH]3O[CH](CN4CC#Cc5nc6c(N)ncnc6n5[CH]7O[CH](CNC(=O)CCNC(=O)C4)[CH](O)[CH]7O)[CH](O)[CH]3O"                                                                                                                                                                                              
KIT SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "c1nc(c2c(n1)n(cn2)[C@H]3[C@@H]([C@@H]([C@H](O3)CN4CC#Cc5nc6c(ncnc6n5[C@H]7[C@@H]([C@@H]([C@H](O7)CNC(=O)CCNC(=O)C4)O)O)N)O)O)N"                                                                                                                                                                          
KIT SMILES           "OpenEye OEToolkits" 2.0.7 "c1nc(c2c(n1)n(cn2)C3C(C(C(O3)CN4CC#Cc5nc6c(ncnc6n5C7C(C(C(O7)CNC(=O)CCNC(=O)C4)O)O)N)O)O)N"                                                                                                                                                                                                              
# 
_pdbx_chem_comp_identifier.comp_id           KIT 
_pdbx_chem_comp_identifier.type              "SYSTEMATIC NAME" 
_pdbx_chem_comp_identifier.program           "OpenEye OEToolkits" 
_pdbx_chem_comp_identifier.program_version   3.1.0.0 
_pdbx_chem_comp_identifier.identifier        "(1~{R},23~{R},24~{S},25~{R})-14-[[(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methyl]-7-azanyl-24,25-bis(oxidanyl)-26-oxa-2,4,6,9,14,17,21-heptazatetracyclo[21.2.1.0^{2,10}.0^{3,8}]hexacosa-3(8),4,6,9-tetraen-11-yne-16,20-dione" 
# 
loop_
_pdbx_chem_comp_audit.comp_id 
_pdbx_chem_comp_audit.action_type 
_pdbx_chem_comp_audit.date 
_pdbx_chem_comp_audit.processing_site 
KIT "Create component"  2022-05-25 PDBE 
KIT "Modify descriptor" 2022-08-22 RCSB 
KIT "Initial release"   2023-01-11 RCSB 
# 
