data_9YM
# 
_chem_comp.id                                    9YM 
_chem_comp.name                                  "[4-({[(1R,2S,3S,4R,5S)-5-amino-2,3,4-trihydroxycyclohexyl]amino}methyl)-5-hydroxy-6-methylpyridin-3-yl]methyl dihydrogen phosphate" 
_chem_comp.type                                  NON-POLYMER 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C14 H24 N3 O8 P" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2017-06-26 
_chem_comp.pdbx_modified_date                    2017-07-07 
_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                        393.329 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     9YM 
_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        5W71 
_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 
9YM O2P O1  O 0 1 N N N -11.966 -3.523 17.845 -5.437 -2.659 -0.348 O2P 9YM 1  
9YM P   P1  P 0 1 N N N -11.820 -3.125 16.495 -3.948 -2.435 0.222  P   9YM 2  
9YM O3P O2  O 0 1 N N N -11.164 -1.872 16.513 -3.908 -2.825 1.784  O3P 9YM 3  
9YM O1P O3  O 0 1 N N N -13.015 -3.173 15.716 -3.000 -3.291 -0.525 O1P 9YM 4  
9YM O4P O4  O 0 1 N N N -10.959 -4.209 15.816 -3.532 -0.890 0.044  O4P 9YM 5  
9YM C5A C1  C 0 1 N N N -9.660  -4.523 16.228 -2.230 -0.394 0.358  C5A 9YM 6  
9YM C5  C2  C 0 1 Y N N -8.662  -4.909 15.137 -2.175 1.086  0.078  C5  9YM 7  
9YM C4  C3  C 0 1 Y N N -8.211  -4.030 14.172 -1.008 1.799  0.299  C4  9YM 8  
9YM C4A C4  C 0 1 N N N -8.651  -2.643 14.086 0.225  1.115  0.830  C4A 9YM 9  
9YM C3  C5  C 0 1 Y N N -7.209  -4.429 13.146 -1.003 3.162  0.021  C3  9YM 10 
9YM O3  O5  O 0 1 N N N -6.807  -3.645 12.293 0.119  3.902  0.222  O3  9YM 11 
9YM C2  C6  C 0 1 Y N N -6.772  -5.839 13.289 -2.158 3.755  -0.466 C2  9YM 12 
9YM C2A C7  C 0 1 N N N -5.751  -6.391 12.358 -2.168 5.230  -0.773 C2A 9YM 13 
9YM N1  N1  N 0 1 Y N N -7.290  -6.605 14.262 -3.249 3.040  -0.664 N1  9YM 14 
9YM C6  C8  C 0 1 Y N N -8.174  -6.202 15.144 -3.287 1.747  -0.410 C6  9YM 15 
9YM OD4 O6  O 0 1 N N N -7.378  3.747  15.037 6.267  -1.369 0.349  OD4 9YM 16 
9YM CD4 C9  C 0 1 N N R -7.368  2.338  15.010 5.086  -0.713 -0.118 CD4 9YM 17 
9YM CD5 C10 C 0 1 N N S -8.782  1.782  15.006 3.991  -1.751 -0.370 CD5 9YM 18 
9YM OD5 O7  O 0 1 N N N -9.434  2.219  16.132 4.438  -2.685 -1.355 OD5 9YM 19 
9YM CD6 C11 C 0 1 N N S -8.828  0.270  15.002 2.727  -1.049 -0.869 CD6 9YM 20 
9YM OD6 O8  O 0 1 N N N -10.151 -0.037 14.668 1.705  -2.019 -1.105 OD6 9YM 21 
9YM CD3 C12 C 0 1 N N S -6.713  1.816  13.741 4.608  0.287  0.937  CD3 9YM 22 
9YM ND3 N2  N 0 1 N N N -5.383  2.312  13.582 5.659  1.285  1.179  ND3 9YM 23 
9YM CD2 C13 C 0 1 N N N -6.620  0.315  13.699 3.344  0.990  0.437  CD2 9YM 24 
9YM CD1 C14 C 0 1 N N R -7.935  -0.382 13.938 2.249  -0.049 0.185  CD1 9YM 25 
9YM ND1 N3  N 0 1 N N N -7.741  -1.822 14.075 1.035  0.626  -0.294 ND1 9YM 26 
9YM H1  H1  H 0 1 N N N -12.870 -3.764 18.009 -5.754 -3.570 -0.273 H1  9YM 27 
9YM H2  H2  H 0 1 N N N -11.650 -1.252 15.982 -4.506 -2.303 2.335  H2  9YM 28 
9YM H3  H3  H 0 1 N N N -9.729  -5.368 16.929 -2.018 -0.571 1.413  H3  9YM 29 
9YM H4  H4  H 0 1 N N N -9.256  -3.644 16.752 -1.488 -0.907 -0.253 H4  9YM 30 
9YM H5  H5  H 0 1 N N N -9.294  -2.432 14.953 0.809  1.822  1.417  H5  9YM 31 
9YM H6  H6  H 0 1 N N N -9.233  -2.524 13.160 -0.068 0.274  1.459  H6  9YM 32 
9YM H8  H8  H 0 1 N N N -5.545  -7.440 12.619 -1.866 5.388  -1.809 H8  9YM 33 
9YM H9  H9  H 0 1 N N N -6.129  -6.337 11.326 -3.172 5.626  -0.623 H9  9YM 34 
9YM H10 H10 H 0 1 N N N -4.824  -5.804 12.440 -1.472 5.743  -0.110 H10 9YM 35 
9YM H11 H11 H 0 1 N N N -8.528  -6.896 15.892 -4.199 1.196  -0.589 H11 9YM 36 
9YM H12 H12 H 0 1 N N N -7.792  4.046  15.838 6.627  -2.018 -0.270 H12 9YM 37 
9YM H13 H13 H 0 1 N N N -6.829  1.939  15.882 5.307  -0.185 -1.045 H13 9YM 38 
9YM H14 H14 H 0 1 N N N -9.293  2.147  14.103 3.771  -2.279 0.558  H14 9YM 39 
9YM H15 H15 H 0 1 N N N -9.419  3.169  16.159 5.238  -3.168 -1.104 H15 9YM 40 
9YM H16 H16 H 0 1 N N N -8.560  -0.116 15.997 2.948  -0.521 -1.797 H16 9YM 41 
9YM H17 H17 H 0 1 N N N -10.738 0.351  15.307 1.940  -2.686 -1.764 H17 9YM 42 
9YM H18 H18 H 0 1 N N N -7.323  2.144  12.887 4.387  -0.241 1.865  H18 9YM 43 
9YM H19 H19 H 0 1 N N N -5.395  3.312  13.604 6.505  0.845  1.510  H19 9YM 44 
9YM H20 H20 H 0 1 N N N -4.809  1.969  14.325 5.836  1.832  0.350  H20 9YM 45 
9YM H22 H22 H 0 1 N N N -6.245  0.018  12.708 3.003  1.702  1.189  H22 9YM 46 
9YM H23 H23 H 0 1 N N N -5.909  -0.010 14.473 3.564  1.518  -0.491 H23 9YM 47 
9YM H24 H24 H 0 1 N N N -8.492  -0.255 12.998 2.029  -0.577 1.113  H24 9YM 48 
9YM H25 H25 H 0 1 N N N -7.147  -2.088 13.316 1.265  1.377  -0.928 H25 9YM 49 
9YM H27 H27 H 0 1 N N N -7.235  -2.804 12.408 0.183  4.287  1.107  H27 9YM 50 
# 
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 
9YM O3  C3  SING N N 1  
9YM C2A C2  SING N N 2  
9YM C3  C2  DOUB Y N 3  
9YM C3  C4  SING Y N 4  
9YM C2  N1  SING Y N 5  
9YM ND3 CD3 SING N N 6  
9YM CD2 CD3 SING N N 7  
9YM CD2 CD1 SING N N 8  
9YM CD3 CD4 SING N N 9  
9YM CD1 ND1 SING N N 10 
9YM CD1 CD6 SING N N 11 
9YM ND1 C4A SING N N 12 
9YM C4A C4  SING N N 13 
9YM C4  C5  DOUB Y N 14 
9YM N1  C6  DOUB Y N 15 
9YM OD6 CD6 SING N N 16 
9YM CD6 CD5 SING N N 17 
9YM CD5 CD4 SING N N 18 
9YM CD5 OD5 SING N N 19 
9YM CD4 OD4 SING N N 20 
9YM C5  C6  SING Y N 21 
9YM C5  C5A SING N N 22 
9YM O1P P   DOUB N N 23 
9YM O4P C5A SING N N 24 
9YM O4P P   SING N N 25 
9YM P   O3P SING N N 26 
9YM P   O2P SING N N 27 
9YM O2P H1  SING N N 28 
9YM O3P H2  SING N N 29 
9YM C5A H3  SING N N 30 
9YM C5A H4  SING N N 31 
9YM C4A H5  SING N N 32 
9YM C4A H6  SING N N 33 
9YM C2A H8  SING N N 34 
9YM C2A H9  SING N N 35 
9YM C2A H10 SING N N 36 
9YM C6  H11 SING N N 37 
9YM OD4 H12 SING N N 38 
9YM CD4 H13 SING N N 39 
9YM CD5 H14 SING N N 40 
9YM OD5 H15 SING N N 41 
9YM CD6 H16 SING N N 42 
9YM OD6 H17 SING N N 43 
9YM CD3 H18 SING N N 44 
9YM ND3 H19 SING N N 45 
9YM ND3 H20 SING N N 46 
9YM CD2 H22 SING N N 47 
9YM CD2 H23 SING N N 48 
9YM CD1 H24 SING N N 49 
9YM ND1 H25 SING N N 50 
9YM O3  H27 SING N N 51 
# 
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 
9YM SMILES           ACDLabs              12.01 "OP(O)(=O)OCc1cnc(c(c1CNC2C(C(C(O)C(N)C2)O)O)O)C"                                                                                                                             
9YM InChI            InChI                1.03  "InChI=1S/C14H24N3O8P/c1-6-11(18)8(7(3-16-6)5-25-26(22,23)24)4-17-10-2-9(15)12(19)14(21)13(10)20/h3,9-10,12-14,17-21H,2,4-5,15H2,1H3,(H2,22,23,24)/t9-,10+,12+,13-,14-/m0/s1" 
9YM InChIKey         InChI                1.03  QHLVFXGQUJCQEL-MYALOSSISA-N                                                                                                                                                   
9YM SMILES_CANONICAL CACTVS               3.385 "Cc1ncc(CO[P](O)(O)=O)c(CN[C@@H]2C[C@H](N)[C@@H](O)[C@H](O)[C@H]2O)c1O"                                                                                                       
9YM SMILES           CACTVS               3.385 "Cc1ncc(CO[P](O)(O)=O)c(CN[CH]2C[CH](N)[CH](O)[CH](O)[CH]2O)c1O"                                                                                                              
9YM SMILES_CANONICAL "OpenEye OEToolkits" 2.0.6 "Cc1c(c(c(cn1)COP(=O)(O)O)CN[C@@H]2C[C@@H]([C@H]([C@@H]([C@H]2O)O)O)N)O"                                                                                                      
9YM SMILES           "OpenEye OEToolkits" 2.0.6 "Cc1c(c(c(cn1)COP(=O)(O)O)CNC2CC(C(C(C2O)O)O)N)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 
9YM "SYSTEMATIC NAME" ACDLabs              12.01 "[4-({[(1R,2S,3S,4R,5S)-5-amino-2,3,4-trihydroxycyclohexyl]amino}methyl)-5-hydroxy-6-methylpyridin-3-yl]methyl dihydrogen phosphate"                       
9YM "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.6 "[4-[[[(1~{R},2~{S},3~{S},4~{R},5~{S})-5-azanyl-2,3,4-tris(oxidanyl)cyclohexyl]amino]methyl]-6-methyl-5-oxidanyl-pyridin-3-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 
9YM "Create component"   2017-06-26 RCSB 
9YM "Other modification" 2017-06-27 RCSB 
9YM "Initial release"    2017-07-12 RCSB 
# 
