data_XLR
# 
_chem_comp.id                                    XLR 
_chem_comp.name                                  "1,5,6-trideoxy-6,6-difluoro-1-(N-hydroxyformamido)-6-phosphono-D-ribo-hexitol" 
_chem_comp.type                                  non-polymer 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C7 H14 F2 N O8 P" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2022-11-29 
_chem_comp.pdbx_modified_date                    2023-12-01 
_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                        309.159 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     XLR 
_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        8FAP 
_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.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 
XLR N   N1  N 0 1 N N N N N N 6.257  -4.112 -1.415 -4.876 0.450  0.067  N   XLR 1  
XLR C   C1  C 0 1 N N N N N N 6.143  -4.560 -0.051 -5.377 -0.737 0.461  C   XLR 2  
XLR O   O1  O 0 1 N N N N N N 14.962 -2.502 -2.596 5.201  -0.473 -0.541 O   XLR 3  
XLR C01 C2  C 0 1 N N N N N N 12.828 -4.026 -3.323 2.500  -0.378 -0.447 C01 XLR 4  
XLR C02 C3  C 0 1 N N N N N N 11.442 -4.533 -2.902 1.368  0.310  0.318  C02 XLR 5  
XLR C03 C4  C 0 1 N N R N N N 10.449 -4.494 -4.082 0.021  -0.169 -0.225 C03 XLR 6  
XLR C04 C5  C 0 1 N N R N N N 9.114  -5.105 -3.720 -1.108 0.610  0.452  C04 XLR 7  
XLR C05 C6  C 0 1 N N S N N N 8.422  -4.298 -2.614 -2.456 0.130  -0.090 C05 XLR 8  
XLR C06 C7  C 0 1 N N N N N N 7.021  -4.863 -2.413 -3.585 0.909  0.587  C06 XLR 9  
XLR F   F1  F 0 1 N N N N N N 12.698 -3.139 -4.300 2.398  -1.764 -0.284 F   XLR 10 
XLR F01 F2  F 0 1 N N N N N N 13.577 -5.062 -3.727 2.405  -0.060 -1.806 F01 XLR 11 
XLR O01 O2  O 0 1 N N N N N N 14.156 -4.173 -0.977 4.216  -0.173 1.764  O01 XLR 12 
XLR O02 O3  O 0 1 N N N N N N 5.486  -3.881 0.729  -6.445 -1.117 0.031  O02 XLR 13 
XLR O03 O4  O 0 1 N N N N N N 5.585  -2.951 -1.733 -5.593 1.252  -0.853 O03 XLR 14 
XLR O04 O5  O 0 1 N N N N N N 8.358  -2.953 -2.973 -2.610 -1.264 0.181  O04 XLR 15 
XLR O05 O6  O 0 1 N N N N N N 9.281  -6.423 -3.280 -0.954 2.004  0.181  O05 XLR 16 
XLR O06 O7  O 0 1 N N N N N N 10.992 -5.161 -5.194 -0.133 -1.564 0.046  O06 XLR 17 
XLR O07 O8  O 0 1 N N N N N N 12.846 -2.133 -1.340 4.224  1.788  0.012  O07 XLR 18 
XLR P   P1  P 0 1 N N N N N N 13.743 -3.157 -2.001 4.106  0.193  0.199  P   XLR 19 
XLR H1  H1  H 0 1 N N N N N N 6.624  -5.470 0.276  -4.827 -1.350 1.160  H1  XLR 20 
XLR H2  H2  H 0 1 N N N N N N 11.059 -3.897 -2.090 1.442  0.062  1.377  H2  XLR 21 
XLR H3  H3  H 0 1 N N N N N N 11.533 -5.569 -2.544 1.448  1.390  0.191  H3  XLR 22 
XLR H4  H4  H 0 1 N N N N N N 10.279 -3.438 -4.338 -0.018 -0.002 -1.302 H4  XLR 23 
XLR H5  H5  H 0 1 N N N N N N 8.470  -5.086 -4.612 -1.070 0.442  1.529  H5  XLR 24 
XLR H6  H6  H 0 1 N N N N N N 8.991  -4.422 -1.681 -2.494 0.298  -1.167 H6  XLR 25 
XLR H7  H7  H 0 1 N N N N N N 6.483  -4.825 -3.372 -3.468 1.973  0.380  H7  XLR 26 
XLR H8  H8  H 0 1 N N N N N N 7.105  -5.908 -2.081 -3.547 0.742  1.664  H8  XLR 27 
XLR H9  H9  H 0 1 N N N N N N 15.104 -4.194 -0.915 3.528  0.230  2.311  H9  XLR 28 
XLR H10 H10 H 0 1 N N N N N N 5.143  -2.619 -0.960 -5.155 2.084  -1.076 H10 XLR 29 
XLR H11 H11 H 0 1 N N N N N N 7.928  -2.461 -2.283 -2.586 -1.487 1.121  H11 XLR 30 
XLR H12 H12 H 0 1 N N N N N N 8.435  -6.792 -3.057 -0.979 2.227  -0.759 H12 XLR 31 
XLR H13 H13 H 0 1 N N N N N N 11.830 -4.774 -5.418 -0.109 -1.787 0.987  H13 XLR 32 
XLR H14 H14 H 0 1 N N N N N N 13.231 -1.269 -1.430 5.055  2.161  0.335  H14 XLR 33 
# 
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 
XLR O06 C03 SING N N 1  
XLR F   C01 SING N N 2  
XLR C03 C04 SING N N 3  
XLR C03 C02 SING N N 4  
XLR F01 C01 SING N N 5  
XLR C04 O05 SING N N 6  
XLR C04 C05 SING N N 7  
XLR C01 C02 SING N N 8  
XLR C01 P   SING N N 9  
XLR O04 C05 SING N N 10 
XLR C05 C06 SING N N 11 
XLR O   P   DOUB N N 12 
XLR C06 N   SING N N 13 
XLR P   O07 SING N N 14 
XLR P   O01 SING N N 15 
XLR O03 N   SING N N 16 
XLR N   C   SING N N 17 
XLR C   O02 DOUB N N 18 
XLR C   H1  SING N N 19 
XLR C02 H2  SING N N 20 
XLR C02 H3  SING N N 21 
XLR C03 H4  SING N N 22 
XLR C04 H5  SING N N 23 
XLR C05 H6  SING N N 24 
XLR C06 H7  SING N N 25 
XLR C06 H8  SING N N 26 
XLR O01 H9  SING N N 27 
XLR O03 H10 SING N N 28 
XLR O04 H11 SING N N 29 
XLR O05 H12 SING N N 30 
XLR O06 H13 SING N N 31 
XLR O07 H14 SING N N 32 
# 
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 
XLR SMILES           ACDLabs              12.01 "FC(F)(CC(O)C(O)C(O)CN(O)C=O)P(=O)(O)O"                                                                                 
XLR InChI            InChI                1.06  "InChI=1S/C7H14F2NO8P/c8-7(9,19(16,17)18)1-4(12)6(14)5(13)2-10(15)3-11/h3-6,12-15H,1-2H2,(H2,16,17,18)/t4-,5+,6-/m1/s1" 
XLR InChIKey         InChI                1.06  JNDAAKGDFVOUBF-NGJCXOISSA-N                                                                                             
XLR SMILES_CANONICAL CACTVS               3.385 "O[C@@H](CN(O)C=O)[C@H](O)[C@H](O)CC(F)(F)[P](O)(O)=O"                                                                  
XLR SMILES           CACTVS               3.385 "O[CH](CN(O)C=O)[CH](O)[CH](O)CC(F)(F)[P](O)(O)=O"                                                                      
XLR SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "C([C@H]([C@H]([C@H](CN(C=O)O)O)O)O)C(F)(F)P(=O)(O)O"                                                                   
XLR SMILES           "OpenEye OEToolkits" 2.0.7 "C(C(C(C(CN(C=O)O)O)O)O)C(F)(F)P(=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 
XLR "SYSTEMATIC NAME" ACDLabs              12.01 "1,5,6-trideoxy-6,6-difluoro-1-(N-hydroxyformamido)-6-phosphono-D-ribo-hexitol"                                  
XLR "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "[(3~{R},4~{R},5~{S})-1,1-bis(fluoranyl)-6-[methanoyl(oxidanyl)amino]-3,4,5-tris(oxidanyl)hexyl]phosphonic 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 
XLR "Create component" 2022-11-29 RCSB 
XLR "Initial release"  2023-12-06 RCSB 
# 
