data_MKX
# 
_chem_comp.id                                    MKX 
_chem_comp.name                                  "[(2~{R},3~{S},4~{R},5~{R})-3,4-bis(oxidanyl)-5-[6-[(4~{S})-4-[(1~{R})-1-oxidanylethyl]-2,5-bis(oxidanylidene)imidazolidin-1-yl]purin-9-yl]oxolan-2-yl]methyl dihydrogen phosphate" 
_chem_comp.type                                  non-polymer 
_chem_comp.pdbx_type                             ATOMN 
_chem_comp.formula                               "C15 H19 N6 O10 P" 
_chem_comp.mon_nstd_parent_comp_id               A 
_chem_comp.pdbx_synonyms                         
;cyclic N6-threonylcarbamoyladenosine 5'-monophosphate
;
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2022-12-26 
_chem_comp.pdbx_modified_date                    2024-03-29 
_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                        474.319 
_chem_comp.one_letter_code                       A 
_chem_comp.three_letter_code                     MKX 
_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        8HU1 
_chem_comp.pdbx_subcomponent_list                ? 
_chem_comp.pdbx_processing_site                  PDBJ 
# 
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 
MKX C10   C1  C 0 1 N N N N N N 178.108 195.738 260.956 -5.626 -0.472 0.002  C10   MKX 1  
MKX C13   C2  C 0 1 N N N N N N 177.273 194.931 258.917 -4.166 1.057  -0.681 C13   MKX 2  
MKX C14   C3  C 0 1 N N R N N N 175.127 196.051 259.241 -5.827 2.864  -0.187 C14   MKX 3  
MKX C15   C4  C 0 1 N N N N N N 173.698 195.584 259.547 -7.281 3.294  -0.390 C15   MKX 4  
MKX "C1'" C5  C 0 1 N N R N N N 184.455 195.128 259.900 1.589  -1.458 0.324  "C1'" MKX 5  
MKX C12   C6  C 0 1 N N S N N N 176.106 195.074 259.833 -5.563 1.572  -0.963 C12   MKX 6  
MKX C2    C7  C 0 1 Y N N N N N 181.027 195.288 257.048 -2.539 -2.886 1.355  C2    MKX 7  
MKX "C2'" C8  C 0 1 N N R N N N 184.994 196.314 259.090 1.999  -2.411 -0.822 "C2'" MKX 8  
MKX "C3'" C9  C 0 1 N N S N N N 185.636 197.176 260.174 3.507  -2.137 -1.016 "C3'" MKX 9  
MKX C4    C10 C 0 1 Y N N N N N 182.051 195.230 259.009 -0.937 -1.495 0.476  C4    MKX 10 
MKX "C4'" C11 C 0 1 N N R N N N 186.125 196.144 261.175 3.830  -1.052 0.034  "C4'" MKX 11 
MKX C5    C12 C 0 1 Y N N N N N 180.835 195.261 259.626 -1.952 -0.627 0.031  C5    MKX 12 
MKX "C5'" C13 C 0 1 N N N N N N 186.333 196.640 262.582 4.845  -0.054 -0.527 "C5'" MKX 13 
MKX C6    C14 C 0 1 Y N N N N N 179.706 195.311 259.006 -3.284 -0.975 0.299  C6    MKX 14 
MKX C8    C15 C 0 1 Y N N N N N 182.391 195.191 261.298 -0.054 0.238  -0.564 C8    MKX 15 
MKX N1    N1  N 0 1 Y N N N N N 179.735 195.328 257.676 -3.525 -2.103 0.957  N1    MKX 16 
MKX N11   N2  N 0 1 N N N N N N 176.631 195.588 261.134 -6.436 0.493  -0.469 N11   MKX 17 
MKX N3    N3  N 0 1 Y N N N N N 182.271 195.238 257.738 -1.274 -2.602 1.127  N3    MKX 18 
MKX N6    N4  N 0 1 N N N N N N 178.381 195.337 259.637 -4.332 -0.155 -0.116 N6    MKX 19 
MKX N7    N5  N 0 1 Y N N N N N 181.159 195.228 260.972 -1.344 0.409  -0.595 N7    MKX 20 
MKX N9    N6  N 0 1 Y N N N N N 182.992 195.187 260.091 0.247  -0.922 0.086  N9    MKX 21 
MKX O10   O1  O 0 1 N N N N N N 178.846 196.128 261.792 -6.026 -1.512 0.487  O10   MKX 22 
MKX O13   O2  O 0 1 N N N N N N 177.209 194.543 257.798 -3.117 1.618  -0.916 O13   MKX 23 
MKX O14   O3  O 0 1 N N N N N N 175.336 197.331 259.792 -5.587 2.642  1.204  O14   MKX 24 
MKX "O2'" O4  O 0 1 N N N N N N 185.978 195.826 258.192 1.781  -3.772 -0.443 "O2'" MKX 25 
MKX "O3'" O5  O 0 1 N N N N N N 186.674 198.011 259.693 4.267  -3.321 -0.764 "O3'" MKX 26 
MKX "O4'" O6  O 0 1 N N N N N N 185.084 195.141 261.162 2.568  -0.397 0.289  "O4'" MKX 27 
MKX "O5'" O7  O 0 1 N N N N N N 185.110 197.066 263.160 5.218  0.872  0.496  "O5'" MKX 28 
MKX OP3   O8  O 0 1 N Y N N N N 183.528 197.586 265.039 6.352  2.983  1.577  OP3   MKX 29 
MKX OP2   O9  O 0 1 N N N N N N 186.100 198.007 265.254 7.724  1.444  -0.054 OP2   MKX 30 
MKX P     P1  P 0 1 N N N N N N 184.950 197.180 264.739 6.272  2.065  0.257  P     MKX 31 
MKX H1    H1  H 0 1 N N N N N N 175.262 196.077 258.150 -5.163 3.648  -0.549 H1    MKX 32 
MKX H2    H2  H 0 1 N N N N N N 173.538 194.585 259.116 -7.469 4.214  0.163  H2    MKX 33 
MKX H3    H3  H 0 1 N N N N N N 173.552 195.541 260.636 -7.465 3.463  -1.451 H3    MKX 34 
MKX H4    H4  H 0 1 N N N N N N 172.979 196.292 259.109 -7.946 2.510  -0.027 H4    MKX 35 
MKX H5    H5  H 0 1 N N N N N N 184.709 194.201 259.364 1.626  -1.977 1.282  H5    MKX 36 
MKX H6    H6  H 0 1 N N N N N N 175.619 194.099 259.981 -5.705 1.733  -2.032 H6    MKX 37 
MKX H7    H7  H 0 1 N N N N N N 181.056 195.297 255.968 -2.780 -3.792 1.892  H7    MKX 38 
MKX H8    H8  H 0 1 N N N N N N 184.179 196.852 258.583 1.447  -2.174 -1.731 H8    MKX 39 
MKX H9    H9  H 0 1 N N N N N N 184.852 197.784 260.649 3.700  -1.765 -2.023 H9    MKX 40 
MKX H10   H10 H 0 1 N N N N N N 187.066 195.710 260.806 4.213  -1.509 0.946  H10   MKX 41 
MKX H11   H11 H 0 1 N N N N N N 186.754 195.826 263.191 5.729  -0.589 -0.872 H11   MKX 42 
MKX H12   H12 H 0 1 N N N N N N 187.036 197.486 262.564 4.399  0.488  -1.361 H12   MKX 43 
MKX H13   H13 H 0 1 N N N N N N 182.836 195.169 262.282 0.671  0.916  -0.990 H13   MKX 44 
MKX H14   H14 H 0 1 N N N N N N 176.101 195.791 261.958 -7.406 0.481  -0.482 H14   MKX 45 
MKX H15   H15 H 0 1 N N N N N N 176.221 197.618 259.601 -6.144 1.955  1.595  H15   MKX 46 
MKX H16   H16 H 0 1 N N N N N N 186.325 196.547 257.680 2.022  -4.413 -1.125 H16   MKX 47 
MKX H17   H17 H 0 1 N N N N N N 187.031 198.519 260.412 4.060  -4.056 -1.358 H17   MKX 48 
MKX H18   H18 H 0 1 N N N N N N 183.076 196.867 265.466 6.970  3.724  1.505  H18   MKX 49 
MKX H19   H19 H 0 1 N N N N N N 186.682 197.457 265.765 8.076  0.891  0.657  H19   MKX 50 
MKX OP1   OP1 O 0 1 N N N N N N 185.158 195.675 265.260 5.832  2.890  -0.891 OP1   MKX 51 
# 
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 
MKX C2    N1    DOUB Y N 1  
MKX C2    N3    SING Y N 2  
MKX N1    C6    SING Y N 3  
MKX N3    C4    DOUB Y N 4  
MKX O13   C13   DOUB N N 5  
MKX "O2'" "C2'" SING N N 6  
MKX C13   N6    SING N N 7  
MKX C13   C12   SING N N 8  
MKX C6    C5    DOUB Y N 9  
MKX C6    N6    SING N N 10 
MKX C4    C5    SING Y N 11 
MKX C4    N9    SING Y N 12 
MKX "C2'" "C1'" SING N N 13 
MKX "C2'" "C3'" SING N N 14 
MKX C14   C15   SING N N 15 
MKX C14   O14   SING N N 16 
MKX C14   C12   SING N N 17 
MKX C5    N7    SING Y N 18 
MKX N6    C10   SING N N 19 
MKX "O3'" "C3'" SING N N 20 
MKX C12   N11   SING N N 21 
MKX "C1'" N9    SING N N 22 
MKX "C1'" "O4'" SING N N 23 
MKX N9    C8    SING Y N 24 
MKX "C3'" "C4'" SING N N 25 
MKX C10   N11   SING N N 26 
MKX C10   O10   DOUB N N 27 
MKX N7    C8    DOUB Y N 28 
MKX "O4'" "C4'" SING N N 29 
MKX "C4'" "C5'" SING N N 30 
MKX "C5'" "O5'" SING N N 31 
MKX "O5'" P     SING N N 32 
MKX P     OP3   SING N N 33 
MKX P     OP2   SING N N 34 
MKX C14   H1    SING N N 35 
MKX C15   H2    SING N N 36 
MKX C15   H3    SING N N 37 
MKX C15   H4    SING N N 38 
MKX "C1'" H5    SING N N 39 
MKX C12   H6    SING N N 40 
MKX C2    H7    SING N N 41 
MKX "C2'" H8    SING N N 42 
MKX "C3'" H9    SING N N 43 
MKX "C4'" H10   SING N N 44 
MKX "C5'" H11   SING N N 45 
MKX "C5'" H12   SING N N 46 
MKX C8    H13   SING N N 47 
MKX N11   H14   SING N N 48 
MKX O14   H15   SING N N 49 
MKX "O2'" H16   SING N N 50 
MKX "O3'" H17   SING N N 51 
MKX OP3   H18   SING N N 52 
MKX OP2   H19   SING N N 53 
MKX P     OP1   DOUB N N 54 
# 
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 
MKX InChI            InChI                1.06  "InChI=1S/C15H19N6O10P/c1-5(22)7-13(25)21(15(26)19-7)12-8-11(16-3-17-12)20(4-18-8)14-10(24)9(23)6(31-14)2-30-32(27,28)29/h3-7,9-10,14,22-24H,2H2,1H3,(H,19,26)(H2,27,28,29)/t5-,6-,7+,9-,10-,14-/m1/s1" 
MKX InChIKey         InChI                1.06  XJXCKRLKTAHJMN-CKTDUXNWSA-N                                                                                                                                                                             
MKX SMILES_CANONICAL CACTVS               3.385 "C[C@@H](O)[C@@H]1NC(=O)N(C1=O)c2ncnc3n(cnc23)[C@@H]4O[C@H](CO[P](O)(O)=O)[C@@H](O)[C@H]4O"                                                                                                             
MKX SMILES           CACTVS               3.385 "C[CH](O)[CH]1NC(=O)N(C1=O)c2ncnc3n(cnc23)[CH]4O[CH](CO[P](O)(O)=O)[CH](O)[CH]4O"                                                                                                                       
MKX SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "C[C@H]([C@H]1C(=O)N(C(=O)N1)c2c3c(ncn2)n(cn3)[C@H]4[C@@H]([C@@H]([C@H](O4)COP(=O)(O)O)O)O)O"                                                                                                           
MKX SMILES           "OpenEye OEToolkits" 2.0.7 "CC(C1C(=O)N(C(=O)N1)c2c3c(ncn2)n(cn3)C4C(C(C(O4)COP(=O)(O)O)O)O)O"                                                                                                                                     
# 
_pdbx_chem_comp_identifier.comp_id           MKX 
_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})-3,4-bis(oxidanyl)-5-[6-[(4~{S})-4-[(1~{R})-1-oxidanylethyl]-2,5-bis(oxidanylidene)imidazolidin-1-yl]purin-9-yl]oxolan-2-yl]methyl dihydrogen phosphate" 
# 
_pdbx_chem_comp_synonyms.ordinal      1 
_pdbx_chem_comp_synonyms.comp_id      MKX 
_pdbx_chem_comp_synonyms.name         
;cyclic N6-threonylcarbamoyladenosine 5'-monophosphate
;
_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 
MKX "Create component" 2022-12-26 PDBJ 
MKX "Modify synonyms"  2023-01-30 PDBJ 
MKX "Initial release"  2024-04-03 RCSB 
# 
