data_ZIV
# 
_chem_comp.id                                    ZIV 
_chem_comp.name                                  "(2~{S})-4-[[(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methyl-[2-[2-azanyl-9-[(2~{R},3~{R},4~{R},5~{R})-5-[bis(oxidanyl)phosphanyloxymethyl]-3,4-bis(oxidanyl)oxolan-2-yl]-6-oxidanylidene-3~{H}-purin-7-yl]ethyl]amino]-2-azanyl-butanoic acid" 
_chem_comp.type                                  non-polymer 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C26 H39 N12 O12 P" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    -1 
_chem_comp.pdbx_initial_date                     2023-03-13 
_chem_comp.pdbx_modified_date                    2023-04-07 
_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                        742.635 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     ZIV 
_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   Y 
_chem_comp.pdbx_model_coordinates_db_code        8GHU 
_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 
ZIV C02   C1  C 0  1 N N N 179.738 166.341 119.044 ? ? ? C02   ZIV 1  
ZIV C03   C2  C 0  1 N N N 178.309 166.031 118.769 ? ? ? C03   ZIV 2  
ZIV C05   C3  C 0  1 N N N 178.211 164.593 116.559 ? ? ? C05   ZIV 3  
ZIV C06   C4  C 0  1 N N N 177.124 164.709 115.471 ? ? ? C06   ZIV 4  
ZIV C08   C5  C 0  1 N N N 176.880 167.313 115.170 ? ? ? C08   ZIV 5  
ZIV C09   C6  C 0  1 N N N 177.431 168.396 114.214 ? ? ? C09   ZIV 6  
ZIV C10   C7  C 0  1 N N S 178.212 169.554 114.854 ? ? ? C10   ZIV 7  
ZIV C12   C8  C 0  1 N N N 179.602 169.839 114.287 ? ? ? C12   ZIV 8  
ZIV C15   C9  C 0  1 N N N 177.711 165.830 113.406 ? ? ? C15   ZIV 9  
ZIV C16   C10 C 0  1 N N R 176.964 165.398 112.146 ? ? ? C16   ZIV 10 
ZIV C17   C11 C 0  1 N N S 175.345 165.510 112.223 ? ? ? C17   ZIV 11 
ZIV C19   C12 C 0  1 N N R 174.876 164.692 111.358 ? ? ? C19   ZIV 12 
ZIV C21   C13 C 0  1 N N R 176.070 163.762 110.971 ? ? ? C21   ZIV 13 
ZIV C23   C14 C 0  1 Y N N 176.282 161.445 110.281 ? ? ? C23   ZIV 14 
ZIV C25   C15 C 0  1 Y N N 177.297 160.470 108.439 ? ? ? C25   ZIV 15 
ZIV C27   C16 C 0  1 Y N N 176.278 159.101 109.987 ? ? ? C27   ZIV 16 
ZIV C29   C17 C 0  1 Y N N 175.908 160.235 110.757 ? ? ? C29   ZIV 17 
ZIV C31   C18 C 0  1 Y N N 175.194 161.750 112.166 ? ? ? C31   ZIV 18 
ZIV C33   C19 C 0  1 N N N 176.226 165.320 118.013 ? ? ? C33   ZIV 19 
ZIV C35   C20 C 0  1 N N R 174.613 166.287 119.749 ? ? ? C35   ZIV 20 
ZIV C37   C21 C 0  1 N N R 173.157 166.337 121.414 ? ? ? C37   ZIV 21 
ZIV C38   C22 C 0  1 N N N 172.421 166.893 122.612 ? ? ? C38   ZIV 22 
ZIV C43   C23 C 0  1 N N R 173.949 164.994 121.618 ? ? ? C43   ZIV 23 
ZIV C45   C24 C 0  1 N N R 174.490 164.992 120.184 ? ? ? C45   ZIV 24 
ZIV C47   C25 C 0  1 N N N 177.279 166.545 119.677 ? ? ? C47   ZIV 25 
ZIV C49   C26 C 0  1 N N N 179.156 167.650 121.091 ? ? ? C49   ZIV 26 
ZIV N04   N1  N 0  1 N N N 177.645 165.263 117.733 ? ? ? N04   ZIV 27 
ZIV N07   N2  N 0  1 N N N 176.916 165.929 114.607 ? ? ? N07   ZIV 28 
ZIV N11   N3  N 0  1 N N N 177.512 170.784 114.644 ? ? ? N11   ZIV 29 
ZIV N22   N4  N 0  1 Y N N 175.818 162.360 111.156 ? ? ? N22   ZIV 30 
ZIV N24   N5  N 0  1 Y N N 176.975 161.557 109.115 ? ? ? N24   ZIV 31 
ZIV N26   N6  N 0  1 Y N N 176.957 159.267 108.864 ? ? ? N26   ZIV 32 
ZIV N28   N7  N 0  1 N N N 175.908 157.778 110.443 ? ? ? N28   ZIV 33 
ZIV N30   N8  N 0  1 Y N N 175.235 160.431 111.921 ? ? ? N30   ZIV 34 
ZIV N34   N9  N 0  1 N N N 175.967 166.094 119.211 ? ? ? N34   ZIV 35 
ZIV N48   N10 N 0  1 N N N 177.743 167.360 120.783 ? ? ? N48   ZIV 36 
ZIV N50   N11 N 0  1 N N N 179.521 168.455 122.245 ? ? ? N50   ZIV 37 
ZIV N51   N12 N 0  1 N N N 180.176 167.135 120.173 ? ? ? N51   ZIV 38 
ZIV O01   O1  O 0  1 N N N 180.539 165.916 118.314 ? ? ? O01   ZIV 39 
ZIV O13   O2  O 0  1 N N N 180.185 170.910 114.568 ? ? ? O13   ZIV 40 
ZIV O14   O3  O 0  1 N N N 180.196 169.027 113.550 ? ? ? O14   ZIV 41 
ZIV O18   O4  O 0  1 N N N 174.928 166.808 111.919 ? ? ? O18   ZIV 42 
ZIV O20   O5  O 0  1 N N N 174.500 165.456 110.250 ? ? ? O20   ZIV 43 
ZIV "O3'" O6  O 0  1 N N N 175.048 165.007 122.647 ? ? ? "O3'" ZIV 44 
ZIV O32   O7  O 0  1 N N N 177.290 164.208 111.777 ? ? ? O32   ZIV 45 
ZIV O36   O8  O 0  1 N N N 174.045 167.164 120.961 ? ? ? O36   ZIV 46 
ZIV O39   O9  O 0  1 N N N 173.009 168.137 122.823 ? ? ? O39   ZIV 47 
ZIV O41   O10 O 0  1 N N N 172.231 168.813 125.044 ? ? ? O41   ZIV 48 
ZIV O42   O11 O -1 1 N N N 173.589 166.858 124.847 ? ? ? O42   ZIV 49 
ZIV O46   O12 O 0  1 N N N 173.519 164.337 119.414 ? ? ? O46   ZIV 50 
ZIV P     P1  P 0  1 N N N 173.489 168.302 124.372 ? ? ? P     ZIV 51 
ZIV H1    H1  H 0  1 N N N 178.424 163.537 116.782 ? ? ? H1    ZIV 52 
ZIV H2    H2  H 0  1 N N N 179.136 165.094 116.237 ? ? ? H2    ZIV 53 
ZIV H3    H3  H 0  1 N N N 176.167 164.544 115.988 ? ? ? H3    ZIV 54 
ZIV H4    H4  H 0  1 N N N 177.312 163.879 114.774 ? ? ? H4    ZIV 55 
ZIV H5    H5  H 0  1 N N N 177.481 167.327 116.091 ? ? ? H5    ZIV 56 
ZIV H6    H6  H 0  1 N N N 175.836 167.562 115.409 ? ? ? H6    ZIV 57 
ZIV H7    H7  H 0  1 N N N 176.576 168.830 113.675 ? ? ? H7    ZIV 58 
ZIV H8    H8  H 0  1 N N N 178.102 167.898 113.498 ? ? ? H8    ZIV 59 
ZIV H9    H9  H 0  1 N N N 178.307 169.357 115.932 ? ? ? H9    ZIV 60 
ZIV H10   H10 H 0  1 N N N 178.511 165.098 113.591 ? ? ? H10   ZIV 61 
ZIV H11   H11 H 0  1 N N N 178.155 166.818 113.213 ? ? ? H11   ZIV 62 
ZIV H12   H12 H 0  1 N N N 177.260 166.109 111.361 ? ? ? H12   ZIV 63 
ZIV H13   H13 H 0  1 N N N 175.047 165.245 113.248 ? ? ? H13   ZIV 64 
ZIV H14   H14 H 0  1 N N N 174.043 164.079 111.732 ? ? ? H14   ZIV 65 
ZIV H15   H15 H 0  1 N N N 176.291 163.943 109.909 ? ? ? H15   ZIV 66 
ZIV H16   H16 H 0  1 N N N 177.851 160.567 107.517 ? ? ? H16   ZIV 67 
ZIV H17   H17 H 0  1 N N N 174.740 162.229 113.021 ? ? ? H17   ZIV 68 
ZIV H18   H18 H 0  1 N N N 175.709 165.789 117.162 ? ? ? H18   ZIV 69 
ZIV H19   H19 H 0  1 N N N 173.932 166.451 118.901 ? ? ? H19   ZIV 70 
ZIV H20   H20 H 0  1 N N N 172.403 166.136 120.639 ? ? ? H20   ZIV 71 
ZIV H21   H21 H 0  1 N N N 171.348 167.000 122.396 ? ? ? H21   ZIV 72 
ZIV H22   H22 H 0  1 N N N 172.556 166.243 123.489 ? ? ? H22   ZIV 73 
ZIV H23   H23 H 0  1 N N N 173.254 164.157 121.780 ? ? ? H23   ZIV 74 
ZIV H24   H24 H 0  1 N N N 175.451 164.458 120.156 ? ? ? H24   ZIV 75 
ZIV H26   H26 H 0  1 N N N 178.024 171.535 115.062 ? ? ? H26   ZIV 76 
ZIV H27   H27 H 0  1 N N N 177.418 170.951 113.662 ? ? ? H27   ZIV 77 
ZIV H29   H29 H 0  1 N N N 176.242 157.095 109.793 ? ? ? H29   ZIV 78 
ZIV H30   H30 H 0  1 N N N 176.314 157.610 111.341 ? ? ? H30   ZIV 79 
ZIV H31   H31 H 0  1 N N N 177.050 167.757 121.385 ? ? ? H31   ZIV 80 
ZIV H32   H32 H 0  1 N N N 180.482 168.666 122.424 ? ? ? H32   ZIV 81 
ZIV H33   H33 H 0  1 N N N 178.811 168.798 122.860 ? ? ? H33   ZIV 82 
ZIV H34   H34 H 0  1 N N N 181.036 170.928 114.147 ? ? ? H34   ZIV 83 
ZIV H35   H35 H 0  1 N N N 175.278 167.412 112.563 ? ? ? H35   ZIV 84 
ZIV H36   H36 H 0  1 N N N 173.774 166.021 110.486 ? ? ? H36   ZIV 85 
ZIV H37   H37 H 0  1 N N N 174.667 165.008 123.517 ? ? ? H37   ZIV 86 
ZIV H39   H39 H 0  1 N N N 173.867 166.841 125.755 ? ? ? H39   ZIV 87 
ZIV H40   H40 H 0  1 N N N 173.430 163.439 119.712 ? ? ? H40   ZIV 88 
ZIV H25   H25 H 0  1 N N N 175.845 164.298 118.155 ? ? ? H25   ZIV 89 
ZIV H28   H28 H 0  1 N N N 174.655 169.095 124.539 ? ? ? H28   ZIV 90 
# 
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 
ZIV C25   N26   DOUB Y N 1  
ZIV C25   N24   SING Y N 2  
ZIV N26   C27   SING Y N 3  
ZIV N24   C23   DOUB Y N 4  
ZIV C27   N28   SING N N 5  
ZIV C27   C29   DOUB Y N 6  
ZIV O20   C19   SING N N 7  
ZIV C23   C29   SING Y N 8  
ZIV C23   N22   SING Y N 9  
ZIV C29   N30   SING Y N 10 
ZIV C21   N22   SING N N 11 
ZIV C21   C19   SING N N 12 
ZIV C21   O32   SING N N 13 
ZIV N22   C31   SING Y N 14 
ZIV C19   C17   SING N N 15 
ZIV O32   C16   SING N N 16 
ZIV O18   C17   SING N N 17 
ZIV N30   C31   DOUB Y N 18 
ZIV C16   C17   SING N N 19 
ZIV C16   C15   SING N N 20 
ZIV C15   N07   SING N N 21 
ZIV O14   C12   DOUB N N 22 
ZIV C09   C10   SING N N 23 
ZIV C09   C08   SING N N 24 
ZIV C12   O13   SING N N 25 
ZIV C12   C10   SING N N 26 
ZIV N07   C08   SING N N 27 
ZIV N07   C06   SING N N 28 
ZIV N11   C10   SING N N 29 
ZIV C06   C05   SING N N 30 
ZIV C05   N04   SING N N 31 
ZIV N04   C33   SING N N 32 
ZIV N04   C03   SING N N 33 
ZIV C33   N34   SING N N 34 
ZIV O01   C02   DOUB N N 35 
ZIV C03   C02   SING N N 36 
ZIV C03   C47   DOUB N N 37 
ZIV C02   N51   SING N N 38 
ZIV N34   C47   SING N N 39 
ZIV N34   C35   SING N N 40 
ZIV O46   C45   SING N N 41 
ZIV C47   N48   SING N N 42 
ZIV C35   C45   SING N N 43 
ZIV C35   O36   SING N N 44 
ZIV N51   C49   DOUB N N 45 
ZIV C45   C43   SING N N 46 
ZIV N48   C49   SING N N 47 
ZIV O36   C37   SING N N 48 
ZIV C49   N50   SING N N 49 
ZIV C37   C43   SING N N 50 
ZIV C37   C38   SING N N 51 
ZIV C43   "O3'" SING N N 52 
ZIV C38   O39   SING N N 53 
ZIV O39   P     SING N N 54 
ZIV P     O42   SING N N 55 
ZIV P     O41   DOUB N N 56 
ZIV C05   H1    SING N N 57 
ZIV C05   H2    SING N N 58 
ZIV C06   H3    SING N N 59 
ZIV C06   H4    SING N N 60 
ZIV C08   H5    SING N N 61 
ZIV C08   H6    SING N N 62 
ZIV C09   H7    SING N N 63 
ZIV C09   H8    SING N N 64 
ZIV C10   H9    SING N N 65 
ZIV C15   H10   SING N N 66 
ZIV C15   H11   SING N N 67 
ZIV C16   H12   SING N N 68 
ZIV C17   H13   SING N N 69 
ZIV C19   H14   SING N N 70 
ZIV C21   H15   SING N N 71 
ZIV C25   H16   SING N N 72 
ZIV C31   H17   SING N N 73 
ZIV C33   H18   SING N N 74 
ZIV C35   H19   SING N N 75 
ZIV C37   H20   SING N N 76 
ZIV C38   H21   SING N N 77 
ZIV C38   H22   SING N N 78 
ZIV C43   H23   SING N N 79 
ZIV C45   H24   SING N N 80 
ZIV N11   H26   SING N N 81 
ZIV N11   H27   SING N N 82 
ZIV N28   H29   SING N N 83 
ZIV N28   H30   SING N N 84 
ZIV N48   H31   SING N N 85 
ZIV N50   H32   SING N N 86 
ZIV N50   H33   SING N N 87 
ZIV O13   H34   SING N N 88 
ZIV O18   H35   SING N N 89 
ZIV O20   H36   SING N N 90 
ZIV "O3'" H37   SING N N 91 
ZIV O42   H39   SING N N 92 
ZIV O46   H40   SING N N 93 
ZIV C33   H25   SING N N 94 
ZIV P     H28   SING N N 95 
# 
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 
ZIV SMILES           ACDLabs              12.01 "O=C(O)C(N)CCN(CC1OC(n2cnc3c(N)ncnc32)C(O)C1O)CCN1CN(C2OC(COP(O)O)C(O)C2O)C=2NC(N)=NC(=O)C1=2"                                                                                                                                                                                                                                   
ZIV InChI            InChI                1.06  "InChI=1S/C26H39N12O12P/c27-10(25(44)45)1-2-35(5-11-15(39)17(41)23(49-11)37-8-32-13-19(28)30-7-31-20(13)37)3-4-36-9-38(21-14(36)22(43)34-26(29)33-21)24-18(42)16(40)12(50-24)6-48-51(46)47/h7-8,10-12,15-18,23-24,39-42,46,51H,1-6,9,27H2,(H,44,45)(H2,28,30,31)(H3,29,33,34,43)/q-1/t10-,11+,12+,15+,16-,17+,18+,23+,24+/m0/s1" 
ZIV InChIKey         InChI                1.06  QKJZWHZELYFDJK-PBBDAFOISA-N                                                                                                                                                                                                                                                                                                      
ZIV SMILES_CANONICAL CACTVS               3.385 "N[C@@H](CCN(CCN1CN([C@@H]2O[C@H](CO[PH]([OH-])=O)[C@H](O)[C@H]2O)C3=C1C(=O)N=C(N)N3)C[C@H]4O[C@H]([C@H](O)[C@@H]4O)n5cnc6c(N)ncnc56)C(O)=O"                                                                                                                                                                                     
ZIV SMILES           CACTVS               3.385 "N[CH](CCN(CCN1CN([CH]2O[CH](CO[PH]([OH-])=O)[CH](O)[CH]2O)C3=C1C(=O)N=C(N)N3)C[CH]4O[CH]([CH](O)[CH]4O)n5cnc6c(N)ncnc56)C(O)=O"                                                                                                                                                                                                 
ZIV SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "c1nc(c2c(n1)n(cn2)[C@H]3[C@@H]([C@@H]([C@H](O3)CN(CC[C@@H](C(=O)O)N)CCN4CN(C5=C4C(=O)N=C(N5)N)[C@H]6[C@@H]([C@H]([C@H](O6)COP(=O)[OH-])O)O)O)O)N"                                                                                                                                                                               
ZIV SMILES           "OpenEye OEToolkits" 2.0.7 "c1nc(c2c(n1)n(cn2)C3C(C(C(O3)CN(CCC(C(=O)O)N)CCN4CN(C5=C4C(=O)N=C(N5)N)C6C(C(C(O6)COP(=O)[OH-])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 
ZIV "SYSTEMATIC NAME" ACDLabs              12.01 "(2S)-2-amino-4-[(2-{2-amino-9-[(2R,3R,4R,5R)-5-{[(dihydroxyphosphanyl)oxy]methyl}-3,4-dihydroxyoxolan-2-yl]-6-oxo-3,6,8,9-tetrahydro-7H-purin-7-yl}ethyl){[(2R,3S,4R,5R)-5-(6-amino-9H-purin-9-yl)-3,4-dihydroxyoxolan-2-yl]methyl}amino]butanoic acid (non-preferred name)"            
ZIV "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "(2~{S})-4-[[(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methyl-[2-[2-azanyl-9-[(2~{R},3~{R},4~{R},5~{R})-5-[bis(oxidanyl)phosphanyloxymethyl]-3,4-bis(oxidanyl)oxolan-2-yl]-6-oxidanylidene-3,8-dihydropurin-7-yl]ethyl]amino]-2-azanyl-butanoic 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 
ZIV "Create component" 2023-03-13 RCSB 
ZIV "Initial release"  2023-04-12 RCSB 
# 
