data_A6G
# 
_chem_comp.id                                    A6G 
_chem_comp.name                                  "2-(2-amino-6-oxo-1,6-dihydro-9H-purin-9-yl)-1,5-anhydro-2-deoxy-6-O-phosphono-D-altritol" 
_chem_comp.type                                  "RNA linking" 
_chem_comp.pdbx_type                             ATOMN 
_chem_comp.formula                               "C11 H16 N5 O8 P" 
_chem_comp.mon_nstd_parent_comp_id               G 
_chem_comp.pdbx_synonyms                         "((2R,3S,4S,5R)-5-(2-amino-6-oxo-1H-purin-9(6H)-yl)-3,4-dihydroxytetrahydro-2H-pyran-2-yl)methyl dihydrogen phosphate" 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2010-08-26 
_chem_comp.pdbx_modified_date                    2020-06-17 
_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                        377.247 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     A6G 
_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        3OK2 
_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 
A6G P      P      P 0 1 N N N -4.643 -4.905 -31.532 5.073  -0.898 -0.193 P      A6G 1  
A6G N1     N1     N 0 1 N N N -0.291 1.752  -27.972 -5.522 -1.178 0.034  N1     A6G 2  
A6G C2     C2     C 0 1 N N N -1.353 2.569  -28.313 -5.356 0.086  -0.449 C2     A6G 3  
A6G N2     N2     N 0 1 N N N -1.205 3.911  -28.176 -6.463 0.805  -0.826 N2     A6G 4  
A6G N3     N3     N 0 1 N N N -2.518 2.088  -28.708 -4.168 0.635  -0.565 N3     A6G 5  
A6G C4     C4     C 0 1 Y N N -2.584 0.721  -28.817 -3.062 -0.029 -0.211 C4     A6G 6  
A6G C5     C5     C 0 1 Y N N -1.576 -0.180 -28.613 -3.165 -1.331 0.293  C5     A6G 7  
A6G C6     C6     C 0 1 N N N -0.329 0.325  -28.145 -4.451 -1.908 0.418  C6     A6G 8  
A6G O6     O6     O 0 1 N N N 0.685  -0.362 -27.941 -4.589 -3.039 0.852  O6     A6G 9  
A6G N7     N7     N 0 1 Y N N -2.005 -1.492 -28.858 -1.909 -1.758 0.567  N7     A6G 10 
A6G C8     C8     C 0 1 Y N N -3.261 -1.358 -29.245 -1.060 -0.818 0.268  C8     A6G 11 
A6G N9     N9     N 0 1 Y N N -3.669 -0.031 -29.285 -1.726 0.270  -0.216 N9     A6G 12 
A6G "C1'"  "C1'"  C 0 1 N N R -4.986 0.543  -29.691 -1.122 1.529  -0.661 "C1'"  A6G 13 
A6G "C2'"  "C2'"  C 0 1 N N S -4.946 0.854  -31.201 -0.499 2.249  0.538  "C2'"  A6G 14 
A6G "O2'"  "O2'"  O 0 1 N N N -6.061 1.744  -31.444 0.031  3.508  0.117  "O2'"  A6G 15 
A6G "C3'"  "C3'"  C 0 1 N N S -5.085 -0.392 -32.037 0.627  1.383  1.112  "C3'"  A6G 16 
A6G "O3'"  "O3'"  O 0 1 N N N -5.316 -0.132 -33.396 1.263  2.078  2.186  "O3'"  A6G 17 
A6G "C4'"  "C4'"  C 0 1 N N R -6.210 -1.319 -31.569 1.651  1.095  0.011  "C4'"  A6G 18 
A6G "O4'"  "O4'"  O 0 1 N N N -6.192 -1.490 -30.166 0.999  0.453  -1.087 "O4'"  A6G 19 
A6G "C5'"  "C5'"  C 0 1 N N N -6.078 -2.709 -32.214 2.747  0.181  0.560  "C5'"  A6G 20 
A6G "O5'"  "O5'"  O 0 1 N N N -4.897 -3.302 -31.657 3.763  0.007  -0.431 "O5'"  A6G 21 
A6G "C6'"  "C6'"  C 0 1 N N N -6.210 -0.284 -29.360 -0.031 1.235  -1.694 "C6'"  A6G 22 
A6G OP1    OP1    O 0 1 N N N -5.028 -5.559 -32.793 5.775  -0.440 1.026  OP1    A6G 23 
A6G OP2    OP2    O 0 1 N N N -3.213 -5.045 -31.177 4.637  -2.438 -0.015 OP2    A6G 24 
A6G OP3    OP3    O 0 1 N Y N -5.650 -5.318 -30.375 6.056  -0.763 -1.461 OP3    A6G 25 
A6G HN1    HN1    H 0 1 N N N 0.534  2.169  -27.591 -6.413 -1.554 0.108  HN1    A6G 26 
A6G HN2    HN2    H 0 1 N N N -1.972 4.521  -28.373 -7.346 0.413  -0.746 HN2    A6G 27 
A6G HN2A   HN2A   H 0 0 N N N -0.329 4.290  -27.878 -6.361 1.706  -1.172 HN2A   A6G 28 
A6G H8     H8     H 0 1 N N N -3.901 -2.189 -29.502 0.011  -0.888 0.386  H8     A6G 29 
A6G "H1'"  "H1'"  H 0 1 N N N -5.110 1.451  -29.083 -1.888 2.161  -1.110 "H1'"  A6G 30 
A6G "H2'"  "H2'"  H 0 1 N N N -3.981 1.303  -31.479 -1.260 2.411  1.302  "H2'"  A6G 31 
A6G "HO2'" "HO2'" H 0 0 N N N -6.089 1.973  -32.366 0.442  4.019  0.827  "HO2'" A6G 32 
A6G "H3'"  "H3'"  H 0 1 N N N -4.110 -0.883 -31.906 0.213  0.444  1.479  "H3'"  A6G 33 
A6G "HO3'" "HO3'" H 0 0 N Y N -5.394 -0.953 -33.867 1.988  1.587  2.598  "HO3'" A6G 34 
A6G "H4'"  "H4'"  H 0 1 N N N -7.155 -0.844 -31.872 2.094  2.032  -0.327 "H4'"  A6G 35 
A6G "H5'"  "H5'"  H 0 1 N N N -6.962 -3.324 -31.989 3.183  0.631  1.452  "H5'"  A6G 36 
A6G "H5'A" "H5'A" H 0 0 N N N -5.986 -2.620 -33.307 2.318  -0.788 0.815  "H5'A" A6G 37 
A6G "H6'"  "H6'"  H 0 1 N N N -6.199 -0.551 -28.293 -0.461 0.684  -2.530 "H6'"  A6G 38 
A6G "H6'A" "H6'A" H 0 0 N N N -7.119 0.295  -29.580 0.390  2.174  -2.054 "H6'A" A6G 39 
A6G HOP2   HOP2   H 0 0 N N N -2.768 -5.551 -31.846 4.170  -2.806 -0.778 HOP2   A6G 40 
A6G HOP3   HOP3   H 0 0 N Y N -6.307 -5.909 -30.723 6.868  -1.282 -1.387 HOP3   A6G 41 
# 
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 
A6G OP1   P      DOUB N N 1  
A6G "O5'" P      SING N N 2  
A6G P     OP2    SING N N 3  
A6G P     OP3    SING N N 4  
A6G C2    N1     SING N N 5  
A6G C6    N1     SING N N 6  
A6G N1    HN1    SING N N 7  
A6G N3    C2     DOUB N N 8  
A6G C2    N2     SING N N 9  
A6G N2    HN2    SING N N 10 
A6G N2    HN2A   SING N N 11 
A6G C4    N3     SING N N 12 
A6G N9    C4     SING Y N 13 
A6G C4    C5     DOUB Y N 14 
A6G N7    C5     SING Y N 15 
A6G C5    C6     SING N N 16 
A6G C6    O6     DOUB N N 17 
A6G C8    N7     DOUB Y N 18 
A6G N9    C8     SING Y N 19 
A6G C8    H8     SING N N 20 
A6G "C1'" N9     SING N N 21 
A6G "C2'" "C1'"  SING N N 22 
A6G "C1'" "C6'"  SING N N 23 
A6G "C1'" "H1'"  SING N N 24 
A6G "C3'" "C2'"  SING N N 25 
A6G "O2'" "C2'"  SING N N 26 
A6G "C2'" "H2'"  SING N N 27 
A6G "O2'" "HO2'" SING N N 28 
A6G "O3'" "C3'"  SING N N 29 
A6G "C3'" "C4'"  SING N N 30 
A6G "C3'" "H3'"  SING N N 31 
A6G "O3'" "HO3'" SING N N 32 
A6G "C5'" "C4'"  SING N N 33 
A6G "C4'" "O4'"  SING N N 34 
A6G "C4'" "H4'"  SING N N 35 
A6G "O4'" "C6'"  SING N N 36 
A6G "C5'" "O5'"  SING N N 37 
A6G "C5'" "H5'"  SING N N 38 
A6G "C5'" "H5'A" SING N N 39 
A6G "C6'" "H6'"  SING N N 40 
A6G "C6'" "H6'A" SING N N 41 
A6G OP2   HOP2   SING N N 42 
A6G OP3   HOP3   SING N N 43 
# 
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 
A6G SMILES           ACDLabs              12.01 "O=P(O)(O)OCC3OCC(n2cnc1c2N=C(N)NC1=O)C(O)C3O"                                                                                                                          
A6G SMILES_CANONICAL CACTVS               3.370 "NC1=Nc2n(cnc2C(=O)N1)[C@@H]3CO[C@H](CO[P](O)(O)=O)[C@@H](O)[C@H]3O"                                                                                                    
A6G SMILES           CACTVS               3.370 "NC1=Nc2n(cnc2C(=O)N1)[CH]3CO[CH](CO[P](O)(O)=O)[CH](O)[CH]3O"                                                                                                          
A6G SMILES_CANONICAL "OpenEye OEToolkits" 1.7.0 "c1nc2c(n1[C@@H]3CO[C@@H]([C@H]([C@H]3O)O)COP(=O)(O)O)N=C(NC2=O)N"                                                                                                      
A6G SMILES           "OpenEye OEToolkits" 1.7.0 "c1nc2c(n1C3COC(C(C3O)O)COP(=O)(O)O)N=C(NC2=O)N"                                                                                                                        
A6G InChI            InChI                1.03  "InChI=1S/C11H16N5O8P/c12-11-14-9-6(10(19)15-11)13-3-16(9)4-1-23-5(8(18)7(4)17)2-24-25(20,21)22/h3-5,7-8,17-18H,1-2H2,(H2,20,21,22)(H3,12,14,15,19)/t4-,5-,7+,8-/m1/s1" 
A6G InChIKey         InChI                1.03  SFDKINXNYLIXHS-HXOWADHMSA-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 
A6G "SYSTEMATIC NAME" ACDLabs              12.01 "2-(2-amino-6-oxo-1,6-dihydro-9H-purin-9-yl)-1,5-anhydro-2-deoxy-6-O-phosphono-D-altritol"            
A6G "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.7.0 "[(2R,3S,4S,5R)-5-(2-azanyl-6-oxo-1H-purin-9-yl)-3,4-dihydroxy-oxan-2-yl]methyl dihydrogen phosphate" 
# 
_pdbx_chem_comp_synonyms.ordinal      1 
_pdbx_chem_comp_synonyms.comp_id      A6G 
_pdbx_chem_comp_synonyms.name         "((2R,3S,4S,5R)-5-(2-amino-6-oxo-1H-purin-9(6H)-yl)-3,4-dihydroxytetrahydro-2H-pyran-2-yl)methyl dihydrogen phosphate" 
_pdbx_chem_comp_synonyms.provenance   ? 
_pdbx_chem_comp_synonyms.type         ? 
# 
loop_
_pdbx_chem_comp_audit.comp_id 
_pdbx_chem_comp_audit.action_type 
_pdbx_chem_comp_audit.date 
_pdbx_chem_comp_audit.processing_site 
A6G "Create component"     2010-08-26 RCSB 
A6G "Modify aromatic_flag" 2011-06-04 RCSB 
A6G "Modify descriptor"    2011-06-04 RCSB 
A6G "Modify synonyms"      2020-06-05 PDBE 
# 
