data_6L5
# 
_chem_comp.id                                    6L5 
_chem_comp.name                                  "(3R)-4-amino-3-{[6-({[(2S,3S,4R,5R)-5-(6-amino-9H-purin-9-yl)-3,4-dihydroxytetrahydrofuran-2-yl]carbonyl}amino)hexanoyl]amino}-4-oxobutanoic acid (non-preferred name)" 
_chem_comp.type                                  NON-POLYMER 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C20 H28 N8 O8" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2016-04-27 
_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                        508.485 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     6L5 
_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        5HTB 
_chem_comp.pdbx_subcomponent_list                ? 
_chem_comp.pdbx_processing_site                  EBI 
_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 
6L5 N1  N1  N 0 1 Y N N N N N 31.055 32.438 5.523  8.478   -0.756 -1.081 N1  6L5 1  
6L5 C2  C1  C 0 1 Y N N N N N 32.452 30.380 6.874  10.027  0.558  0.721  C2  6L5 2  
6L5 N3  N2  N 0 1 Y N N N N N 29.736 32.510 7.558  6.558   0.372  0.043  N3  6L5 3  
6L5 C4  C2  C 0 1 Y N N N N N 29.818 31.786 8.717  6.554   1.237  1.097  C4  6L5 4  
6L5 C5  C3  C 0 1 N N R N N N 28.811 33.608 7.230  5.384   -0.105 -0.691 C5  6L5 5  
6L5 C6  C4  C 0 1 N N R N N N 27.593 33.200 6.394  4.861   -1.421 -0.074 C6  6L5 6  
6L5 C8  C5  C 0 1 N N S N N N 26.893 33.887 8.550  3.100   0.068  -0.858 C8  6L5 7  
6L5 C11 C6  C 0 1 N N N N N N 26.410 33.907 13.105 -1.775  0.077  -0.299 C11 6L5 8  
6L5 C12 C7  C 0 1 N N N N N N 25.988 33.305 14.429 -3.011  0.762  0.288  C12 6L5 9  
6L5 C14 C8  C 0 1 N N N N N N 26.510 33.016 16.892 -5.498  0.652  0.498  C14 6L5 10 
6L5 C15 C9  C 0 1 N N N N N N 25.040 32.987 17.243 -6.731  -0.131 0.127  C15 6L5 11 
6L5 C16 C10 C 0 1 N N R N N N 23.033 31.606 17.412 -9.143  -0.474 0.176  C16 6L5 12 
6L5 C17 C11 C 0 1 N N N N N N 22.713 30.119 17.291 -10.359 0.454  0.189  C17 6L5 13 
6L5 C18 C12 C 0 1 N N N N N N 21.425 29.653 17.900 -10.208 1.495  -0.891 C18 6L5 14 
6L5 C7  C13 C 0 1 N N S N N N 26.616 32.800 7.494  3.325   -1.305 -0.186 C7  6L5 15 
6L5 N2  N3  N 0 1 N N N N N N 33.111 29.365 7.430  10.835  1.218  1.630  N2  6L5 16 
6L5 C9  C14 C 0 1 N N N N N N 26.597 33.380 9.945  1.883   0.742  -0.280 C9  6L5 17 
6L5 C10 C15 C 0 1 N N N N N N 25.373 33.678 12.019 -0.524  0.872  0.078  C10 6L5 18 
6L5 C13 C16 C 0 1 N N N N N N 26.768 33.839 15.631 -4.262  -0.033 -0.089 C13 6L5 19 
6L5 N4  N4  N 0 1 Y N N N N N 30.770 30.890 8.724  7.771   1.444  1.507  N4  6L5 20 
6L5 O13 O1  O 0 1 N N N N N N 24.457 33.993 17.635 -6.631  -1.138 -0.542 O13 6L5 21 
6L5 N5  N5  N 0 1 N N N N N N 25.811 34.134 10.709 0.660   0.216  -0.484 N5  6L5 22 
6L5 O1  O2  O 0 1 N N N N N N 27.111 32.341 10.347 2.005   1.759  0.370  O1  6L5 23 
6L5 O   O3  O 0 1 N N N N N N 28.297 34.183 8.426  4.290   0.827  -0.552 O   6L5 24 
6L5 O14 O4  O 0 1 N N N N N N 25.251 32.784 7.056  2.801   -2.354 -1.003 O14 6L5 25 
6L5 O15 O5  O 0 1 N N N N N N 27.120 34.311 5.639  5.334   -2.546 -0.818 O15 6L5 26 
6L5 C1  C17 C 0 1 Y N N N N N 31.365 31.033 7.483  8.632   0.727  0.745  C1  6L5 27 
6L5 C   C18 C 0 1 Y N N N N N 30.739 32.031 6.753  7.864   0.030  -0.203 C   6L5 28 
6L5 C3  C19 C 0 1 Y N N N N N 32.099 31.747 5.048  9.788   -0.883 -1.066 C3  6L5 29 
6L5 N   N6  N 0 1 Y N N N N N 32.806 30.776 5.644  10.552  -0.249 -0.194 N   6L5 30 
6L5 N6  N7  N 0 1 N N N N N N 24.417 31.827 17.040 -7.944  0.287  0.538  N6  6L5 31 
6L5 C52 C20 C 0 1 N N N N N N 22.092 32.458 16.563 -9.349  -1.587 1.171  C52 6L5 32 
6L5 N21 N8  N 0 1 N N N N N N 21.072 33.041 17.191 -10.398 -2.423 1.039  N21 6L5 33 
6L5 O12 O6  O 0 1 N N N N N N 22.316 32.609 15.363 -8.572  -1.730 2.092  O12 6L5 34 
6L5 O11 O7  O 0 1 N N N N N N 20.917 30.239 18.861 -9.228  1.494  -1.597 O11 6L5 35 
6L5 H1  H1  H 0 1 N N N N N N 29.153 31.942 9.554  5.670   1.685  1.527  H1  6L5 36 
6L5 H2  H2  H 0 1 N N N N N N 29.363 34.375 6.668  5.628   -0.249 -1.744 H2  6L5 37 
6L5 H3  H3  H 0 1 N N N N N N 27.834 32.337 5.756  5.163   -1.499 0.971  H3  6L5 38 
6L5 H4  H4  H 0 1 N N N N N N 26.281 34.776 8.335  2.991   -0.051 -1.936 H4  6L5 39 
6L5 H5  H5  H 0 1 N N N N N N 27.359 33.447 12.792 -1.697  -0.935 0.099  H5  6L5 40 
6L5 H6  H6  H 0 1 N N N N N N 26.553 34.990 13.237 -1.865  0.034  -1.385 H6  6L5 41 
6L5 H7  H7  H 0 1 N N N N N N 24.921 33.523 14.584 -2.921  0.805  1.373  H7  6L5 42 
6L5 H8  H8  H 0 1 N N N N N N 26.136 32.216 14.377 -3.089  1.773  -0.111 H8  6L5 43 
6L5 H9  H9  H 0 1 N N N N N N 26.858 31.986 16.724 -5.576  1.663  0.100  H9  6L5 44 
6L5 H10 H10 H 0 1 N N N N N N 27.069 33.460 17.729 -5.408  0.695  1.584  H10 6L5 45 
6L5 H11 H11 H 0 1 N N N N N N 22.896 31.897 18.464 -9.018  -0.897 -0.821 H11 6L5 46 
6L5 H12 H12 H 0 1 N N N N N N 22.683 29.871 16.220 -11.262 -0.129 0.007  H12 6L5 47 
6L5 H13 H13 H 0 1 N N N N N N 23.530 29.562 17.774 -10.432 0.944  1.159  H13 6L5 48 
6L5 H15 H15 H 0 1 N N N N N N 26.905 31.819 7.900  2.867   -1.325 0.803  H15 6L5 49 
6L5 H16 H16 H 0 1 N N N N N N 33.813 29.037 6.798  10.440  1.805  2.294  H16 6L5 50 
6L5 H17 H17 H 0 1 N N N N N N 33.543 29.673 8.278  11.796  1.094  1.604  H17 6L5 51 
6L5 H18 H18 H 0 1 N N N N N N 24.456 34.221 12.290 -0.602  1.883  -0.321 H18 6L5 52 
6L5 H19 H19 H 0 1 N N N N N N 25.158 32.601 11.961 -0.434  0.915  1.163  H19 6L5 53 
6L5 H20 H20 H 0 1 N N N N N N 27.843 33.807 15.400 -4.352  -0.076 -1.175 H20 6L5 54 
6L5 H21 H21 H 0 1 N N N N N N 26.464 34.880 15.818 -4.184  -1.045 0.309  H21 6L5 55 
6L5 H22 H22 H 0 1 N N N N N N 25.516 35.030 10.377 0.562   -0.597 -1.004 H22 6L5 56 
6L5 H23 H23 H 0 1 N N N N N N 24.689 32.529 7.778  1.840   -2.329 -1.107 H23 6L5 57 
6L5 H24 H24 H 0 1 N N N N N N 26.366 34.047 5.125  5.036   -3.399 -0.473 H24 6L5 58 
6L5 H25 H25 H 0 1 N N N N N N 32.415 32.007 4.048  10.256  -1.530 -1.793 H25 6L5 59 
6L5 H26 H26 H 0 1 N N N N N N 24.925 31.078 16.614 -8.024  1.092  1.072  H26 6L5 60 
6L5 H27 H27 H 0 1 N N N N N N 20.446 33.633 16.684 -11.020 -2.309 0.303  H27 6L5 61 
6L5 H28 H28 H 0 1 N N N N N N 20.933 32.886 18.169 -10.531 -3.139 1.679  H28 6L5 62 
6L5 O2  O8  O 0 1 N Y N N N N 20.897 28.574 17.339 -11.162 2.422  -1.067 O2  6L5 63 
6L5 H14 H14 H 0 1 N N N N N N 20.093 28.343 17.790 -11.021 3.069  -1.772 H14 6L5 64 
# 
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 
6L5 C3  N1  DOUB Y N 1  
6L5 C3  N   SING Y N 2  
6L5 N1  C   SING Y N 3  
6L5 O15 C6  SING N N 4  
6L5 N   C2  DOUB Y N 5  
6L5 C6  C5  SING N N 6  
6L5 C6  C7  SING N N 7  
6L5 C   C1  DOUB Y N 8  
6L5 C   N3  SING Y N 9  
6L5 C2  N2  SING N N 10 
6L5 C2  C1  SING Y N 11 
6L5 O14 C7  SING N N 12 
6L5 C5  N3  SING N N 13 
6L5 C5  O   SING N N 14 
6L5 C1  N4  SING Y N 15 
6L5 C7  C8  SING N N 16 
6L5 N3  C4  SING Y N 17 
6L5 O   C8  SING N N 18 
6L5 C8  C9  SING N N 19 
6L5 C4  N4  DOUB Y N 20 
6L5 C9  O1  DOUB N N 21 
6L5 C9  N5  SING N N 22 
6L5 N5  C10 SING N N 23 
6L5 C10 C11 SING N N 24 
6L5 C11 C12 SING N N 25 
6L5 C12 C13 SING N N 26 
6L5 O12 C52 DOUB N N 27 
6L5 C13 C14 SING N N 28 
6L5 C52 N21 SING N N 29 
6L5 C52 C16 SING N N 30 
6L5 C14 C15 SING N N 31 
6L5 N6  C15 SING N N 32 
6L5 N6  C16 SING N N 33 
6L5 C15 O13 DOUB N N 34 
6L5 C17 C16 SING N N 35 
6L5 C17 C18 SING N N 36 
6L5 C18 O11 DOUB N N 37 
6L5 C4  H1  SING N N 38 
6L5 C5  H2  SING N N 39 
6L5 C6  H3  SING N N 40 
6L5 C8  H4  SING N N 41 
6L5 C11 H5  SING N N 42 
6L5 C11 H6  SING N N 43 
6L5 C12 H7  SING N N 44 
6L5 C12 H8  SING N N 45 
6L5 C14 H9  SING N N 46 
6L5 C14 H10 SING N N 47 
6L5 C16 H11 SING N N 48 
6L5 C17 H12 SING N N 49 
6L5 C17 H13 SING N N 50 
6L5 C7  H15 SING N N 51 
6L5 N2  H16 SING N N 52 
6L5 N2  H17 SING N N 53 
6L5 C10 H18 SING N N 54 
6L5 C10 H19 SING N N 55 
6L5 C13 H20 SING N N 56 
6L5 C13 H21 SING N N 57 
6L5 N5  H22 SING N N 58 
6L5 O14 H23 SING N N 59 
6L5 O15 H24 SING N N 60 
6L5 C3  H25 SING N N 61 
6L5 N6  H26 SING N N 62 
6L5 N21 H27 SING N N 63 
6L5 N21 H28 SING N N 64 
6L5 C18 O2  SING N N 65 
6L5 O2  H14 SING N N 66 
# 
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 
6L5 SMILES           ACDLabs              12.01 "n1c2n(cnc2c(N)nc1)C3OC(C(=O)NCCCCCC(=O)NC(CC(=O)O)C(N)=O)C(C3O)O"                                                                                                                                                                         
6L5 InChI            InChI                1.03  "InChI=1S/C20H28N8O8/c21-16-12-18(25-7-24-16)28(8-26-12)20-14(33)13(32)15(36-20)19(35)23-5-3-1-2-4-10(29)27-9(17(22)34)6-11(30)31/h7-9,13-15,20,32-33H,1-6H2,(H2,22,34)(H,23,35)(H,27,29)(H,30,31)(H2,21,24,25)/t9-,13+,14-,15+,20-/m1/s1" 
6L5 InChIKey         InChI                1.03  WWJTVYJOLVMSCT-BRLJYLSVSA-N                                                                                                                                                                                                                
6L5 SMILES_CANONICAL CACTVS               3.385 "NC(=O)[C@@H](CC(O)=O)NC(=O)CCCCCNC(=O)[C@H]1O[C@H]([C@H](O)[C@@H]1O)n2cnc3c(N)ncnc23"                                                                                                                                                     
6L5 SMILES           CACTVS               3.385 "NC(=O)[CH](CC(O)=O)NC(=O)CCCCCNC(=O)[CH]1O[CH]([CH](O)[CH]1O)n2cnc3c(N)ncnc23"                                                                                                                                                            
6L5 SMILES_CANONICAL "OpenEye OEToolkits" 2.0.4 "c1nc(c2c(n1)n(cn2)[C@H]3[C@@H]([C@@H]([C@H](O3)C(=O)NCCCCCC(=O)N[C@H](CC(=O)O)C(=O)N)O)O)N"                                                                                                                                               
6L5 SMILES           "OpenEye OEToolkits" 2.0.4 "c1nc(c2c(n1)n(cn2)C3C(C(C(O3)C(=O)NCCCCCC(=O)NC(CC(=O)O)C(=O)N)O)O)N"                                                                                                                                                                     
# 
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 
6L5 "SYSTEMATIC NAME" ACDLabs              12.01 "(3R)-4-amino-3-{[6-({[(2S,3S,4R,5R)-5-(6-amino-9H-purin-9-yl)-3,4-dihydroxytetrahydrofuran-2-yl]carbonyl}amino)hexanoyl]amino}-4-oxobutanoic acid (non-preferred name)" 
6L5 "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.4 "(3~{R})-3-[6-[[(2~{S},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]carbonylamino]hexanoylamino]-4-azanyl-4-oxidanylidene-butanoic acid"        
# 
loop_
_pdbx_chem_comp_audit.comp_id 
_pdbx_chem_comp_audit.action_type 
_pdbx_chem_comp_audit.date 
_pdbx_chem_comp_audit.processing_site 
6L5 "Create component" 2016-04-27 EBI  
6L5 "Initial release"  2016-05-11 RCSB 
6L5 "Modify PCM"       2024-09-27 PDBE 
# 
_pdbx_chem_comp_pcm.pcm_id                             1 
_pdbx_chem_comp_pcm.comp_id                            6L5 
_pdbx_chem_comp_pcm.modified_residue_id                LYS 
_pdbx_chem_comp_pcm.type                               None 
_pdbx_chem_comp_pcm.category                           "Covalent chemical modification" 
_pdbx_chem_comp_pcm.position                           "Amino-acid side chain" 
_pdbx_chem_comp_pcm.polypeptide_position               "Any position" 
_pdbx_chem_comp_pcm.comp_id_linking_atom               C18 
_pdbx_chem_comp_pcm.modified_residue_id_linking_atom   NZ 
_pdbx_chem_comp_pcm.uniprot_specific_ptm_accession     ? 
_pdbx_chem_comp_pcm.uniprot_generic_ptm_accession      ? 
# 
