data_KXG
#
_chem_comp.id KXG
_chem_comp.name "[[(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-oxidanyl-phosphoryl] [(3~{S},4~{R},5~{R})-3,4-bis(oxidanyl)-5-sulfanyl-oxolan-2-yl]methyl hydrogen phosphate"
_chem_comp.type NON-POLYMER
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C15 H23 N5 O13 P2 S"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2019-01-23
_chem_comp.pdbx_modified_date 2020-01-17
_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 575.381
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code KXG
_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 6NR0
_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
KXG C1B C1 C 0 1 N N R 18.358 -21.443 -7.840 -4.405 -0.232 0.835 C1B KXG 1
KXG C1D C2 C 0 1 N N R 24.478 -31.787 -6.759 6.961 1.862 1.603 C1D KXG 2
KXG C2A C3 C 0 1 Y N N 16.028 -19.404 -10.825 -7.552 2.968 0.908 C2A KXG 3
KXG C2B C4 C 0 1 N N R 18.421 -21.707 -6.334 -5.276 -1.480 0.541 C2B KXG 4
KXG C2D C5 C 0 1 N N R 24.923 -32.229 -8.138 7.576 2.498 0.342 C2D KXG 5
KXG C3B C6 C 0 1 N N S 19.832 -22.174 -6.132 -4.390 -2.628 1.083 C3B KXG 6
KXG C3D C7 C 0 1 N N S 25.256 -30.960 -8.794 6.959 1.695 -0.828 C3D KXG 7
KXG C4A C8 C 0 1 Y N N 16.514 -21.104 -9.351 -5.764 1.773 0.098 C4A KXG 8
KXG C4B C9 C 0 1 N N R 20.315 -22.758 -7.506 -2.971 -2.029 1.111 C4B KXG 9
KXG C4D C10 C 0 1 N N R 25.400 -29.922 -7.740 5.693 1.087 -0.173 C4D KXG 10
KXG C5A C11 C 0 1 Y N N 15.285 -21.767 -9.726 -5.713 2.626 -1.017 C5A KXG 11
KXG C5B C12 C 0 1 N N N 20.573 -24.291 -7.576 -2.034 -2.869 0.242 C5B KXG 12
KXG C5D C13 C 0 1 N N N 25.746 -28.542 -8.137 5.263 -0.184 -0.909 C5D KXG 13
KXG C6A C14 C 0 1 Y N N 14.511 -21.133 -10.688 -6.653 3.667 -1.100 C6A KXG 14
KXG C8A C15 C 0 1 Y N N 16.482 -22.926 -8.119 -4.126 1.167 -1.247 C8A KXG 15
KXG N1A N1 N 0 1 Y N N 14.910 -19.982 -11.192 -7.543 3.795 -0.121 N1A KXG 16
KXG N3A N2 N 0 1 Y N N 16.811 -19.947 -9.920 -6.692 1.979 1.027 N3A KXG 17
KXG N6A N3 N 0 1 N N N 13.266 -21.731 -11.134 -6.652 4.539 -2.174 N6A KXG 18
KXG N7A N4 N 0 1 Y N N 15.328 -23.015 -8.848 -4.691 2.201 -1.798 N7A KXG 19
KXG N9A N5 N 0 1 Y N N 17.065 -21.821 -8.464 -4.751 0.863 -0.075 N9A KXG 20
KXG O1A O1 O 0 1 N N N 20.402 -26.546 -5.562 0.268 -3.052 -1.865 O1A KXG 21
KXG O1N O2 O 0 1 N N N 24.443 -26.198 -7.208 3.057 -1.862 -2.353 O1N KXG 22
KXG O2A O3 O 0 1 N N N 22.494 -26.163 -4.861 0.795 -4.524 0.116 O2A KXG 23
KXG O2B O4 O 0 1 N N N 18.003 -20.615 -5.481 -6.516 -1.415 1.250 O2B KXG 24
KXG O2D O5 O 0 1 N N N 26.046 -33.041 -7.996 7.212 3.877 0.249 O2D KXG 25
KXG O2N O6 O 0 1 N N N 23.155 -26.130 -9.012 4.200 -3.271 -0.598 O2N KXG 26
KXG O3 O7 O 0 1 N N N 22.266 -27.434 -7.064 1.870 -2.139 -0.142 O3 KXG 27
KXG O3B O8 O 0 1 N N N 20.640 -21.121 -5.548 -4.803 -3.000 2.399 O3B KXG 28
KXG O3D O9 O 0 1 N N N 26.301 -31.109 -9.848 6.609 2.559 -1.911 O3D KXG 29
KXG O4B O10 O 0 1 N N N 19.265 -22.373 -8.431 -3.060 -0.694 0.586 O4B KXG 30
KXG O4D O11 O 0 1 N N N 24.925 -30.394 -6.479 6.124 0.776 1.169 O4D KXG 31
KXG O5B O12 O 0 1 N N N 21.676 -24.708 -6.794 -0.698 -2.375 0.366 O5B KXG 32
KXG O5D O13 O 0 1 N N N 24.497 -28.225 -8.686 4.031 -0.658 -0.360 O5D KXG 33
KXG PA P1 P 0 1 N N N 21.718 -26.208 -6.098 0.552 -3.023 -0.413 PA KXG 34
KXG PN P2 P 0 1 N N N 23.570 -27.077 -7.981 3.284 -1.980 -0.895 PN KXG 35
KXG S1D S1 S 0 1 N N N 25.335 -32.584 -5.450 5.964 3.091 2.491 S1D KXG 36
KXG H1B H1 H 0 1 N N N 18.623 -20.399 -8.065 -4.521 0.081 1.872 H1B KXG 37
KXG H1N H2 H 0 1 N N N 23.396 -31.920 -6.611 7.751 1.484 2.252 H1N KXG 38
KXG H2A H3 H 0 1 N N N 16.311 -18.464 -11.275 -8.291 3.111 1.683 H2A KXG 39
KXG H2B H4 H 0 1 N N N 17.762 -22.564 -6.132 -5.447 -1.592 -0.529 H2B KXG 40
KXG H2D H5 H 0 1 N N N 24.101 -32.741 -8.660 8.661 2.389 0.350 H2D KXG 41
KXG H3B H6 H 0 1 N N N 19.803 -23.015 -5.424 -4.428 -3.488 0.413 H3B KXG 42
KXG H3D H7 H 0 1 N N N 24.345 -30.677 -9.342 7.639 0.911 -1.163 H3D KXG 43
KXG H4B H8 H 0 1 N N N 21.248 -22.244 -7.781 -2.601 -2.002 2.136 H4B KXG 44
KXG H4D H9 H 0 1 N N N 26.444 -30.192 -7.525 4.881 1.814 -0.159 H4D KXG 45
KXG H52A H10 H 0 0 N N N 19.674 -24.813 -7.218 -2.069 -3.908 0.568 H52A KXG 46
KXG H51A H11 H 0 0 N N N 20.764 -24.566 -8.624 -2.349 -2.804 -0.800 H51A KXG 47
KXG H51N H12 H 0 0 N N N 26.005 -27.906 -7.278 5.127 0.038 -1.967 H51N KXG 48
KXG H52N H13 H 0 0 N N N 26.557 -28.505 -8.879 6.031 -0.948 -0.793 H52N KXG 49
KXG H8A H14 H 0 1 N N N 16.840 -23.641 -7.393 -3.284 0.628 -1.658 H8A KXG 50
KXG H61A H15 H 0 0 N N N 12.840 -21.142 -11.821 -5.997 4.435 -2.882 H61A KXG 51
KXG H62A H16 H 0 0 N N N 13.452 -22.629 -11.533 -7.306 5.254 -2.220 H62A KXG 52
KXG H1 H17 H 0 1 N N N 21.927 -26.359 -4.124 0.987 -4.582 1.062 H1 KXG 53
KXG HO2A H18 H 0 0 N N N 18.078 -20.877 -4.571 -7.095 -2.174 1.099 HO2A KXG 54
KXG H2 H19 H 0 1 N N N 26.340 -33.328 -8.852 7.523 4.417 0.989 H2 KXG 55
KXG H3 H20 H 0 1 N N N 23.567 -25.289 -8.854 4.390 -3.411 0.340 H3 KXG 56
KXG HO3A H21 H 0 0 N N N 21.529 -21.433 -5.427 -5.710 -3.330 2.449 HO3A KXG 57
KXG HO3N H22 H 0 0 N N N 26.479 -30.262 -10.240 7.359 3.032 -2.296 HO3N KXG 58
KXG H1S H23 H 0 1 N N N 24.786 -32.047 -4.401 5.502 2.399 3.548 H1S KXG 59
# #
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
KXG C1B C2B SING N N 1
KXG C1B N9A SING N N 2
KXG C1B O4B SING N N 3
KXG C1D C2D SING N N 4
KXG C1D O4D SING N N 5
KXG C1D S1D SING N N 6
KXG C2A N1A DOUB Y N 7
KXG C2A N3A SING Y N 8
KXG C2B C3B SING N N 9
KXG C2B O2B SING N N 10
KXG C2D C3D SING N N 11
KXG C2D O2D SING N N 12
KXG C3B C4B SING N N 13
KXG C3B O3B SING N N 14
KXG C3D C4D SING N N 15
KXG C3D O3D SING N N 16
KXG C4A C5A SING Y N 17
KXG C4A N3A DOUB Y N 18
KXG C4A N9A SING Y N 19
KXG C4B C5B SING N N 20
KXG C4B O4B SING N N 21
KXG C4D C5D SING N N 22
KXG C4D O4D SING N N 23
KXG C5A C6A DOUB Y N 24
KXG C5A N7A SING Y N 25
KXG C5B O5B SING N N 26
KXG C5D O5D SING N N 27
KXG C6A N1A SING Y N 28
KXG C6A N6A SING N N 29
KXG C8A N7A DOUB Y N 30
KXG C8A N9A SING Y N 31
KXG O1A PA DOUB N N 32
KXG O1N PN DOUB N N 33
KXG O2A PA SING N N 34
KXG O2N PN SING N N 35
KXG O3 PA SING N N 36
KXG O3 PN SING N N 37
KXG O5B PA SING N N 38
KXG O5D PN SING N N 39
KXG C1B H1B SING N N 40
KXG C1D H1N SING N N 41
KXG C2A H2A SING N N 42
KXG C2B H2B SING N N 43
KXG C2D H2D SING N N 44
KXG C3B H3B SING N N 45
KXG C3D H3D SING N N 46
KXG C4B H4B SING N N 47
KXG C4D H4D SING N N 48
KXG C5B H52A SING N N 49
KXG C5B H51A SING N N 50
KXG C5D H51N SING N N 51
KXG C5D H52N SING N N 52
KXG C8A H8A SING N N 53
KXG N6A H61A SING N N 54
KXG N6A H62A SING N N 55
KXG O2A H1 SING N N 56
KXG O2B HO2A SING N N 57
KXG O2D H2 SING N N 58
KXG O2N H3 SING N N 59
KXG O3B HO3A SING N N 60
KXG O3D HO3N SING N N 61
KXG S1D H1S SING N N 62
# #
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
KXG SMILES ACDLabs 12.01 "C2(C(C(C(COP(=O)(O)OP(=O)(O)OCC1C(C(C(O1)S)O)O)O2)O)O)n4c3c(c(ncn3)N)nc4"
KXG InChI InChI 1.03 "InChI=1S/C15H23N5O13P2S/c16-12-7-13(18-3-17-12)20(4-19-7)14-10(23)8(21)5(31-14)1-29-34(25,26)33-35(27,28)30-2-6-9(22)11(24)15(36)32-6/h3-6,8-11,14-15,21-24,36H,1-2H2,(H,25,26)(H,27,28)(H2,16,17,18)/t5-,6-,8-,9-,10-,11-,14-,15-/m1/s1"
KXG InChIKey InChI 1.03 AIFODOLMLYAQQN-KEOHHSTQSA-N
KXG SMILES_CANONICAL CACTVS 3.385 "Nc1ncnc2n(cnc12)[C@@H]3O[C@H](CO[P](O)(=O)O[P](O)(=O)OC[C@H]4O[C@H](S)[C@H](O)[C@@H]4O)[C@@H](O)[C@H]3O"
KXG SMILES CACTVS 3.385 "Nc1ncnc2n(cnc12)[CH]3O[CH](CO[P](O)(=O)O[P](O)(=O)OC[CH]4O[CH](S)[CH](O)[CH]4O)[CH](O)[CH]3O"
KXG SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "c1nc(c2c(n1)n(cn2)[C@H]3[C@@H]([C@@H]([C@H](O3)COP(=O)(O)OP(=O)(O)OCC4[C@H]([C@H]([C@H](O4)S)O)O)O)O)N"
KXG SMILES "OpenEye OEToolkits" 2.0.7 "c1nc(c2c(n1)n(cn2)C3C(C(C(O3)COP(=O)(O)OP(=O)(O)OCC4C(C(C(O4)S)O)O)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
KXG "SYSTEMATIC NAME" ACDLabs 12.01 "[(2R,3S,4R,5R)-5-(6-amino-9H-purin-9-yl)-3,4-dihydroxytetrahydrofuran-2-yl]methyl [(2R,3S,4R,5R)-3,4-dihydroxy-5-sulfanyltetrahydrofuran-2-yl]methyl dihydrogen diphosphate (non-preferred name)"
KXG "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "[[(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-oxidanyl-phosphoryl] [(3~{S},4~{R},5~{R})-3,4-bis(oxidanyl)-5-sulfanyl-oxolan-2-yl]methyl hydrogen 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
KXG "Create component" 2019-01-23 RCSB
KXG "Initial release" 2020-01-22 RCSB
##