data_QMK
# 
_chem_comp.id                                    QMK 
_chem_comp.name                                  "~{N}-[2-[1-[(2~{R},3~{R},4~{S},5~{R})-3,4-bis(oxidanyl)-5-[[tris(oxidanyl)-$l^{5}-phosphanyl]oxymethyl]oxolan-2-yl]-1,2,3-triazol-4-yl]ethyl]ethanamide" 
_chem_comp.type                                  non-polymer 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C11 H19 N4 O8 P" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2020-07-03 
_chem_comp.pdbx_modified_date                    2024-09-27 
_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                        366.264 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     QMK 
_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        6ZMD 
_chem_comp.pdbx_subcomponent_list                ? 
_chem_comp.pdbx_processing_site                  PDBE 
_chem_comp.pdbx_pcm                              Y 
# 
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_backbone_atom_flag 
_chem_comp_atom.pdbx_n_terminal_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 
QMK C4  C1  C 0 1 N N N N N N 33.315 -11.736 27.107 4.550  0.865  0.350  C4  QMK 1  
QMK C5  C2  C 0 1 Y N N N N N 33.512 -13.200 27.337 3.095  1.008  -0.016 C5  QMK 2  
QMK C6  C3  C 0 1 Y N N N N N 32.890 -14.282 26.787 2.083  1.359  0.812  C6  QMK 3  
QMK C11 C4  C 0 1 N N R N N N 31.862 -17.034 26.350 -1.002 2.811  -0.334 C11 QMK 4  
QMK C7  C5  C 0 1 N N R N N N 33.154 -16.761 27.118 -0.390 1.681  0.524  C7  QMK 5  
QMK C8  C6  C 0 1 N N R N N N 33.641 -18.460 25.610 -2.605 1.105  0.342  C8  QMK 6  
QMK C9  C7  C 0 1 N N N N N N 34.026 -18.336 24.156 -3.583 0.149  -0.343 C9  QMK 7  
QMK C10 C8  C 0 1 N N S N N N 32.134 -18.480 25.918 -2.493 2.423  -0.457 C10 QMK 8  
QMK N1  N1  N 0 1 N N N N N N 33.978 -9.766  25.777 6.455  -0.668 0.305  N1  QMK 9  
QMK N2  N2  N 0 1 Y N N N N N 33.457 -15.360 27.366 0.961  1.360  0.055  N2  QMK 10 
QMK C3  C9  C 0 1 N N N N N N 34.194 -11.186 25.997 5.041  -0.528 -0.050 C3  QMK 11 
QMK N3  N3  N 0 1 Y N N N N N 34.414 -14.972 28.242 1.284  1.031  -1.146 N3  QMK 12 
QMK C1  C10 C 0 1 N N N N N N 33.842 -7.438  26.374 8.560  -1.964 0.410  C1  QMK 13 
QMK C2  C11 C 0 1 N N N N N N 34.324 -8.825  26.660 7.105  -1.820 0.045  C2  QMK 14 
QMK N4  N4  N 0 1 Y N N N N N 34.437 -13.657 28.221 2.550  0.820  -1.223 N4  QMK 15 
QMK O1  O1  O 0 1 N N N N N N 35.011 -9.083  27.646 6.518  -2.740 -0.484 O1  QMK 16 
QMK O2  O2  O 0 1 N N N N N N 34.172 -17.313 26.321 -1.270 0.553  0.331  O2  QMK 17 
QMK O3  O3  O 0 1 N N N N N N 35.440 -18.025 24.069 -3.761 -1.013 0.469  O3  QMK 18 
QMK O4  O4  O 0 1 N N N N N N 37.551 -17.431 22.881 -4.784 -3.303 1.257  O4  QMK 19 
QMK O5  O5  O 0 1 N N N N N N 35.986 -19.166 21.918 -6.087 -1.717 -0.213 O5  QMK 20 
QMK O7  O6  O 0 1 N N N N N N 31.882 -19.351 27.012 -3.322 3.432  0.123  O7  QMK 21 
QMK O8  O7  O 0 1 N N N N N N 30.754 -16.876 27.214 -0.865 4.071  0.325  O8  QMK 22 
QMK P1  P1  P 0 1 N N N N N N 36.110 -17.825 22.615 -4.726 -2.234 0.055  P1  QMK 23 
QMK H1  H1  H 0 1 N N N N N N 33.550 -11.200 28.038 5.133  1.621  -0.176 H1  QMK 24 
QMK H2  H2  H 0 1 N N N N N N 32.262 -11.562 26.839 4.669  0.997  1.425  H2  QMK 25 
QMK H3  H3  H 0 1 N N N N N N 32.107 -14.277 26.043 2.156  1.591  1.864  H3  QMK 26 
QMK H4  H4  H 0 1 N N N N N N 31.795 -16.379 25.469 -0.531 2.842  -1.317 H4  QMK 27 
QMK H5  H5  H 0 1 N N N N N N 33.102 -17.294 28.079 -0.367 1.972  1.574  H5  QMK 28 
QMK H6  H6  H 0 1 N N N N N N 34.088 -19.380 26.015 -2.924 1.307  1.364  H6  QMK 29 
QMK H7  H7  H 0 1 N N N N N N 33.441 -17.531 23.687 -4.542 0.647  -0.480 H7  QMK 30 
QMK H8  H8  H 0 1 N N N N N N 33.824 -19.285 23.638 -3.184 -0.145 -1.314 H8  QMK 31 
QMK H9  H9  H 0 1 N N N N N N 31.552 -18.741 25.022 -2.761 2.261  -1.501 H9  QMK 32 
QMK H10 H10 H 0 1 N N N N N N 33.548 -9.478  24.921 6.924  0.068  0.728  H10 QMK 33 
QMK H11 H11 H 0 1 N N N N N N 33.969 -11.727 25.066 4.458  -1.284 0.475  H11 QMK 34 
QMK H12 H12 H 0 1 N N N N N N 35.248 -11.346 26.268 4.922  -0.660 -1.126 H12 QMK 35 
QMK H13 H13 H 0 1 N N N N N N 34.198 -6.756  27.160 8.642  -2.358 1.423  H13 QMK 36 
QMK H14 H14 H 0 1 N N N N N N 34.231 -7.109  25.399 9.044  -2.647 -0.287 H14 QMK 37 
QMK H15 H15 H 0 1 N N N N N N 32.742 -7.429  26.352 9.045  -0.989 0.359  H15 QMK 38 
QMK H16 H16 H 0 1 N N N N N N 38.131 -18.110 22.556 -5.349 -4.067 1.076  H16 QMK 39 
QMK H18 H18 H 0 1 N N N N N N 30.951 -19.362 27.201 -3.290 4.281  -0.339 H18 QMK 40 
QMK H19 H19 H 0 1 N N N N N N 30.652 -15.958 27.435 -1.233 4.816  -0.170 H19 QMK 41 
QMK O6  O8  O 0 1 N Y N N N N 35.226 -16.624 22.164 -4.152 -2.946 -1.270 O6  QMK 42 
QMK H21 H21 H 0 1 N N N N N N 34.666 -16.894 21.446 -3.261 -3.309 -1.167 H21 QMK 43 
# 
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 
QMK O5  P1  DOUB N N 1  
QMK P1  O4  SING N N 2  
QMK P1  O3  SING N N 3  
QMK O3  C9  SING N N 4  
QMK C9  C8  SING N N 5  
QMK C8  C10 SING N N 6  
QMK C8  O2  SING N N 7  
QMK N1  C3  SING N N 8  
QMK N1  C2  SING N N 9  
QMK C10 C11 SING N N 10 
QMK C10 O7  SING N N 11 
QMK C3  C4  SING N N 12 
QMK O2  C7  SING N N 13 
QMK C11 C7  SING N N 14 
QMK C11 O8  SING N N 15 
QMK C1  C2  SING N N 16 
QMK C2  O1  DOUB N N 17 
QMK C6  C5  DOUB Y N 18 
QMK C6  N2  SING Y N 19 
QMK C4  C5  SING N N 20 
QMK C7  N2  SING N N 21 
QMK C5  N4  SING Y N 22 
QMK N2  N3  SING Y N 23 
QMK N4  N3  DOUB Y N 24 
QMK C4  H1  SING N N 25 
QMK C4  H2  SING N N 26 
QMK C6  H3  SING N N 27 
QMK C11 H4  SING N N 28 
QMK C7  H5  SING N N 29 
QMK C8  H6  SING N N 30 
QMK C9  H7  SING N N 31 
QMK C9  H8  SING N N 32 
QMK C10 H9  SING N N 33 
QMK N1  H10 SING N N 34 
QMK C3  H11 SING N N 35 
QMK C3  H12 SING N N 36 
QMK C1  H13 SING N N 37 
QMK C1  H14 SING N N 38 
QMK C1  H15 SING N N 39 
QMK O4  H16 SING N N 40 
QMK O7  H18 SING N N 41 
QMK O8  H19 SING N N 42 
QMK P1  O6  SING N N 43 
QMK O6  H21 SING N N 44 
# 
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 
QMK InChI            InChI                1.03  "InChI=1S/C11H19N4O8P/c1-6(16)12-3-2-7-4-15(14-13-7)11-10(18)9(17)8(23-11)5-22-24(19,20)21/h4,8-11,17-18H,2-3,5H2,1H3,(H,12,16)(H2,19,20,21)/t8-,9-,10-,11-/m1/s1" 
QMK InChIKey         InChI                1.03  KBIJUYSCKWPFAX-GWOFURMSSA-N                                                                                                                                        
QMK SMILES_CANONICAL CACTVS               3.385 "CC(=O)NCCc1cn(nn1)[C@@H]2O[C@H](CO[P](O)(O)=O)[C@@H](O)[C@H]2O"                                                                                                   
QMK SMILES           CACTVS               3.385 "CC(=O)NCCc1cn(nn1)[CH]2O[CH](CO[P](O)(O)=O)[CH](O)[CH]2O"                                                                                                         
QMK SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "CC(=O)NCCc1cn(nn1)[C@H]2[C@@H]([C@@H]([C@H](O2)COP(=O)(O)O)O)O"                                                                                                   
QMK SMILES           "OpenEye OEToolkits" 2.0.7 "CC(=O)NCCc1cn(nn1)C2C(C(C(O2)COP(=O)(O)O)O)O"                                                                                                                     
# 
_pdbx_chem_comp_identifier.comp_id           QMK 
_pdbx_chem_comp_identifier.type              "SYSTEMATIC NAME" 
_pdbx_chem_comp_identifier.program           "OpenEye OEToolkits" 
_pdbx_chem_comp_identifier.program_version   2.0.7 
_pdbx_chem_comp_identifier.identifier        "[(2~{R},3~{S},4~{R},5~{R})-5-[4-(2-acetamidoethyl)-1,2,3-triazol-1-yl]-3,4-bis(oxidanyl)oxolan-2-yl]methyl dihydrogen 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 
QMK "Create component" 2020-07-03 PDBE 
QMK "Initial release"  2021-04-14 RCSB 
QMK "Modify PCM"       2024-09-27 PDBE 
# 
loop_
_pdbx_chem_comp_pcm.pcm_id 
_pdbx_chem_comp_pcm.comp_id 
_pdbx_chem_comp_pcm.modified_residue_id 
_pdbx_chem_comp_pcm.type 
_pdbx_chem_comp_pcm.category 
_pdbx_chem_comp_pcm.position 
_pdbx_chem_comp_pcm.polypeptide_position 
_pdbx_chem_comp_pcm.comp_id_linking_atom 
_pdbx_chem_comp_pcm.modified_residue_id_linking_atom 
_pdbx_chem_comp_pcm.uniprot_specific_ptm_accession 
_pdbx_chem_comp_pcm.uniprot_generic_ptm_accession 
1 QMK CYS None Crosslinker "Amino-acid side chain" "Any position" C1 SG  ? ? 
2 QMK THR None Crosslinker "Amino-acid side chain" "Any position" P1 OG1 ? ? 
# 
