0.027500 0.015877 0.000000 0.000000 0.031754 0.000000 0.000000 0.000000 0.014467 0.000000 0.000000 0.000000 Declercq, R. Van Meervelt, L. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 12 90.00 90.00 120.00 36.364 36.364 69.121 C11 H16 N5 O6 P 345.248 n 1',5'-ANHYDRO-2',3'-DIDEOXY-2'-(ADENIN-9-YL)-6'-O-PHOSPHORYL-D-ARABINO-HEXITOL DNA linking C10 H16 N3 O7 P 321.224 n 1',5'-ANHYDRO-2',3'-DIDEOXY-2'-(CYTOSIN-1-YL)-6'-O-PHOSPHORYL-D-ARABINO-HEXITOL DNA linking C11 H16 N5 O7 P 361.248 n 1',5'-ANHYDRO-2',3'-DIDEOXY-2'-(GUANIN-9-YL)-6'-O-PHOSPHORYL-D-ARABINO-HEXITOL DNA linking C11 H17 N2 O8 P 336.235 n 1',5'-ANHYDRO-2',3'-DIDEOXY-2'-(THYMIN-1-YL)-6'-O-PHOSPHORYL-D-ARABINO-HEXITOL DNA linking H2 O 18.015 WATER non-polymer N 1 N P N 2 N O N 3 N O N 4 N O N 5 N O N 6 N C N 7 R C N 8 N O N 9 S C N 10 N O N 11 N C N 12 S C N 13 N C Y 14 N N Y 15 N C Y 16 N N Y 17 N C Y 18 N C N 19 N N Y 20 N N Y 21 N C Y 22 N N Y 23 N C N 24 N H N 25 N H N 26 N H N 27 N H N 28 N H N 29 N H N 30 N H N 31 N H N 32 N H N 33 N H N 34 N H N 35 N H N 36 N H N 37 N H N 38 N H N 39 N H N 40 N P N 41 N O N 42 N O N 43 N O N 44 N O N 45 N C N 46 R C N 47 N O N 48 S C N 49 N O N 50 N C N 51 S C N 52 N C N 53 N N N 54 N C N 55 N O N 56 N N N 57 N C N 58 N N N 59 N C N 60 N C N 61 N H N 62 N H N 63 N H N 64 N H N 65 N H N 66 N H N 67 N H N 68 N H N 69 N H N 70 N H N 71 N H N 72 N H N 73 N H N 74 N H N 75 N H N 76 N H N 77 N P N 78 N O N 79 N O N 80 N O N 81 N O N 82 N C N 83 R C N 84 N O N 85 S C N 86 N O N 87 N C N 88 S C N 89 N C Y 90 N N Y 91 N C Y 92 N N Y 93 N C N 94 N C N 95 N O N 96 N N N 97 N C N 98 N N N 99 N N Y 100 N C N 101 N H N 102 N H N 103 N H N 104 N H N 105 N H N 106 N H N 107 N H N 108 N H N 109 N H N 110 N H N 111 N H N 112 N H N 113 N H N 114 N H N 115 N H N 116 N H N 117 N P N 118 N O N 119 N O N 120 N O N 121 N O N 122 N C N 123 R C N 124 N O N 125 S C N 126 N O N 127 N C N 128 S C N 129 N C N 130 N N N 131 N C N 132 N O N 133 N N N 134 N C N 135 N O N 136 N C N 137 N C N 138 N C N 139 N H N 140 N H N 141 N H N 142 N H N 143 N H N 144 N H N 145 N H N 146 N H N 147 N H N 148 N H N 149 N H N 150 N H N 151 N H N 152 N H N 153 N H N 154 N H N 155 N H N 156 N O N 157 N H N 158 N H N 1 N doub N 2 N sing N 3 N sing N 4 N sing N 5 N sing N 6 N sing N 7 N sing N 8 N sing N 9 N sing N 10 N sing N 11 N sing N 12 N sing N 13 N sing N 14 N sing N 15 N sing N 16 N sing N 17 N sing N 18 N sing N 19 N sing N 20 N sing N 21 N sing N 22 N sing N 23 N sing N 24 N sing N 25 N sing N 26 N sing Y 27 N sing Y 28 N sing Y 29 N doub N 30 N sing Y 31 N sing Y 32 N sing Y 33 N doub N 34 N sing Y 35 N doub N 36 N sing N 37 N sing Y 38 N sing Y 39 N doub N 40 N sing Y 41 N sing N 42 N doub N 43 N sing N 44 N sing N 45 N sing N 46 N sing N 47 N sing N 48 N sing N 49 N sing N 50 N sing N 51 N sing N 52 N sing N 53 N sing N 54 N sing N 55 N sing N 56 N sing N 57 N sing N 58 N sing N 59 N sing N 60 N sing N 61 N sing N 62 N sing N 63 N sing N 64 N sing N 65 N sing N 66 N sing N 67 N sing N 68 N sing N 69 N sing N 70 N doub N 71 N sing N 72 N doub N 73 N sing N 74 N sing N 75 N sing N 76 N sing N 77 N doub N 78 N sing N 79 N sing N 80 N doub N 81 N sing N 82 N sing N 83 N sing N 84 N sing N 85 N sing N 86 N sing N 87 N sing N 88 N sing N 89 N sing N 90 N sing N 91 N sing N 92 N sing N 93 N sing N 94 N sing N 95 N sing N 96 N sing N 97 N sing N 98 N sing N 99 N sing N 100 N sing N 101 N sing N 102 N sing N 103 N sing N 104 N sing N 105 N sing Y 106 N sing Y 107 N sing Y 108 N doub N 109 N sing Y 110 N sing N 111 N sing Y 112 N doub N 113 N doub N 114 N sing N 115 N sing N 116 N sing N 117 N sing N 118 N doub N 119 N sing N 120 N sing N 121 N sing N 122 N doub N 123 N sing N 124 N sing N 125 N sing N 126 N sing N 127 N sing N 128 N sing N 129 N sing N 130 N sing N 131 N sing N 132 N sing N 133 N sing N 134 N sing N 135 N sing N 136 N sing N 137 N sing N 138 N sing N 139 N sing N 140 N sing N 141 N sing N 142 N sing N 143 N sing N 144 N sing N 145 N sing N 146 N sing N 147 N sing N 148 N sing N 149 N sing N 150 N doub N 151 N sing N 152 N sing N 153 N sing N 154 N doub N 155 N sing N 156 N sing N 157 N doub N 158 N sing N 159 N sing N 160 N sing N 161 N sing N 162 N sing N 163 N sing US J.Am.Chem.Soc. JACSAT 0004 0002-7863 124 928 933 10.1021/ja016570w 11829600 Crystal structure of double helical hexitol nucleic acids. 2002 GE Angew.Chem.Int.Ed.Engl. ACIEAY 0179 0570-0833 34 1338 1339 10.1002/anie.199513381 1',5'-Anhydrohexitol nucleic acids, a new promising antisense construct 1995 DK Acta Crystallogr.,Sect.D ABCRE6 0766 0907-4449 52 1213 1215 1',5'-anhydro-2',3'-dideoxy-2'-(guanin-9-yl)-D-arabino-hexitol 1995 DK Acta Crystallogr.,Sect.D ABCRE6 0766 0907-4449 55 279 280 Oligonucleotides with 1',5'-anhydrohexitol nucleoside building blocks: Crystallization and preliminary X-ray studies of H(GTGTACAC) 1999 10.2210/pdb1d7z/pdb pdb_00001d7z 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 100 1 IMAGE PLATE 1999-04-11 MARRESEARCH SINGLE WAVELENGTH M x-ray 1 0.9116 1.0 X11 EMBL/DESY, HAMBURG 0.9116 SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE X11 THE SUGAR MOIETIES ARE NOT DEOXYRIBOSE BUT D-ARABINO-HEXITOL 2538.831 5'-H(*(6HG)P*(6HT)P*(6HG)P*(6HT)P*(6HA)P*(6HC)P*(6HA)P*(6HC))-3' 1 syn polymer 18.015 water 38 nat water no yes (6HG)(6HT)(6HG)(6HT)(6HA)(6HC)(6HA)(6HC) GTGTACAC A polydeoxyribonucleotide n n n n n n n n 1 2.60 52.66 VAPOR DIFFUSION, HANGING DROP 7.0 CACODYLATE BUFFER, KCL, BACL2, SPERMINE TETRACHLORIDE AND MPD, pH 7.0, VAPOR DIFFUSION, HANGING DROP at 277K 277 CACODYLATE BUFFER 1 SPERMINE 1 KCL 1 BACL2 1 MPD 1 MPD 2 -1.986 1 A 1 A 8 13.752 A_6HG1:6HC8_A 1 6.416 0.680 -0.868 0.159 11.222 1 20 A 2 A 7 10.403 A_6HT2:6HA7_A 2 -0.257 0.425 -0.387 -0.245 -6.500 1 19 A 3 A 6 1.084 A_6HG3:6HC6_A 3 -1.143 -0.322 -0.318 -0.336 2.521 1 20 A 4 A 5 11.828 A_6HT4:6HA5_A 4 1.691 -1.002 0.022 -0.203 -2.521 1 20 A 5 A 4 11.828 A_6HA5:6HT4_A 5 1.691 1.002 0.022 -0.203 6.500 1 19 A 6 A 3 1.084 A_6HC6:6HG3_A 6 -1.143 0.322 -0.318 -0.336 -11.222 1 20 A 7 A 2 10.403 A_6HA7:6HT2_A 7 -0.257 -0.425 -0.387 -0.245 1.986 1 A 8 A 1 13.752 A_6HC8:6HG1_A 8 6.416 -0.680 -0.868 0.159 2.219 33.359 A A 1 2 20.893 A A 8 7 3.162 11.687 -0.732 -2.423 AA_6HG16HT2:6HA76HC8_AA 1 -5.954 10.644 30.740 -5.887 0.426 3.221 24.637 A A 2 3 14.819 A A 7 6 3.796 6.240 -0.728 -2.062 AA_6HT26HG3:6HC66HA7_AA 2 -3.060 7.268 23.651 -6.927 0.678 2.539 26.002 A A 3 4 11.752 A A 6 5 3.151 5.252 0.563 -2.701 AA_6HG36HT4:6HA56HC6_AA 3 -0.526 1.178 25.469 -7.273 -1.379 2.044 48.141 A A 4 5 28.690 A A 5 4 2.881 22.583 0.000 -1.194 AA_6HT46HA5:6HT46HA5_AA 4 0.000 0.000 42.797 -2.888 0.000 2.539 26.002 A A 5 6 11.752 A A 4 3 3.151 5.252 -0.563 -2.701 AA_6HA56HC6:6HG36HT4_AA 5 0.526 -1.178 25.469 -7.273 1.379 3.221 24.637 A A 6 7 14.819 A A 3 2 3.796 6.240 0.728 -2.062 AA_6HC66HA7:6HT26HG3_AA 6 3.060 -7.268 23.651 -6.927 -0.678 2.219 33.359 A A 7 8 20.893 A A 2 1 3.162 11.687 0.732 -2.423 AA_6HA76HC8:6HG16HT2_AA 7 5.954 -10.644 30.740 -5.887 -0.426 chem_comp_atom chem_comp_bond citation_author database_2 diffrn_source struct_conn repository Initial release Version format compliance Version format compliance Data collection Database references Derived calculations 1 0 2002-06-28 1 1 2008-04-27 1 2 2011-07-13 1 3 2024-02-07 _citation_author.name _database_2.pdbx_DOI _database_2.pdbx_database_accession _diffrn_source.pdbx_synchrotron_site _struct_conn.pdbx_leaving_atom_flag HD0001 CONTAINS THE SAME MOLECULE CRYSTALLIZED IN P 32 1 2 AND SOLVED AT 1.6 A RESOLUTION NDB Y NDB 1999-10-21 REL REL HOH water THE MOLECULE WAS CHEMICALLY SYNTESISED (SEE REFERENCE 1) sample HOH 10 2 HOH HOH 10 A HOH 12 2 HOH HOH 12 A HOH 13 2 HOH HOH 13 A HOH 16 2 HOH HOH 16 A HOH 18 2 HOH HOH 18 A HOH 19 2 HOH HOH 19 A HOH 20 2 HOH HOH 20 A HOH 21 2 HOH HOH 21 A HOH 24 2 HOH HOH 24 A HOH 25 2 HOH HOH 25 A HOH 26 2 HOH HOH 26 A HOH 28 2 HOH HOH 28 A HOH 30 2 HOH HOH 30 A HOH 32 2 HOH HOH 32 A HOH 33 2 HOH HOH 33 A HOH 34 2 HOH HOH 34 A HOH 37 2 HOH HOH 37 A HOH 38 2 HOH HOH 38 A HOH 39 2 HOH HOH 39 A HOH 40 2 HOH HOH 40 A HOH 42 2 HOH HOH 42 A HOH 45 2 HOH HOH 45 A HOH 48 2 HOH HOH 48 A HOH 49 2 HOH HOH 49 A HOH 50 2 HOH HOH 50 A HOH 53 2 HOH HOH 53 A HOH 55 2 HOH HOH 55 A HOH 56 2 HOH HOH 56 A HOH 58 2 HOH HOH 58 A HOH 60 2 HOH HOH 60 A HOH 62 2 HOH HOH 62 A HOH 64 2 HOH HOH 64 A HOH 65 2 HOH HOH 65 A HOH 66 2 HOH HOH 66 A HOH 68 2 HOH HOH 68 A HOH 69 2 HOH HOH 69 A HOH 70 2 HOH HOH 70 A HOH 71 2 HOH HOH 71 A 6HG 1 n 1 6HG 1 A 6HT 2 n 2 6HT 2 A 6HG 3 n 3 6HG 3 A 6HT 4 n 4 6HT 4 A 6HA 5 n 5 6HA 5 A 6HC 6 n 6 6HC 6 A 6HA 7 n 7 6HA 7 A 6HC 8 n 8 6HC 8 A author_defined_assembly 2 dimeric A 6HG 1 A 6HG 1 DG A 6HT 2 A 6HT 2 DT A 6HG 3 A 6HG 3 DG A 6HT 4 A 6HT 4 DT A 6HA 5 A 6HA 5 DA A 6HC 6 A 6HC 6 DC A 6HA 7 A 6HA 7 DA A 6HC 8 A 6HC 8 DC 1.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 1_555 x,y,z identity operation 0.0000000000 0.0000000000 0.0000000000 0.5000000000 -0.8660254038 0.0000000000 -0.8660254038 -0.5000000000 0.0000000000 0.0000000000 0.0000000000 -1.0000000000 10_665 -y+1,-x+1,-z+2/3 crystal symmetry operation 18.1820000000 31.4921477832 46.0806666667 1 A HOH 21 B HOH 1 A HOH 56 B HOH 1 34.00 1.20 119.70 153.70 A A A C3' O3' P 6HG 6HG 6HT 1 1 2 Y 1 8.27 1.20 119.70 127.97 A A A C3' O3' P 6HG 6HG 6HT 3 3 4 Y 1 20.50 1.20 119.70 140.20 A A A C3' O3' P 6HA 6HA 6HC 7 7 8 Y 1 A A O3' P 6HC 6HA 6 7 0.112 0.012 1.607 1.719 Y 0.2330000 0.2330000 0.2330000 2.21 20.0 1329 1329 83.8 1 NONE USED 0 0 BASES: TAYLOR AND KENNARD VALUES; THE REST: VALUES BASED ON SINGLE CRYSTAL STRUCTURE OF HNA BUILDING BLOCKS 2.21 20.0 38 207 0 169 0 0.018 0.022 50.8 2.21 20.0 1D7Z 1344 1344 0 0.0510000 1 38.8 16.8 83.8 0.1680000 2.21 2.25 74.1 phasing GLRF refinement SHELXL-97 data reduction DENZO data scaling SCALEPACK CRYSTAL STRUCTURE OF A HEXITOL NUCLEIC ACID (HNA) DUPLEX AT 2.2 A RESOLUTION 1 N N 2 N N covale 1.615 both A 6HG 1 A O3' 6HG 1 1_555 A 6HT 2 A P 6HT 2 1_555 covale 1.647 both A 6HT 2 A O3' 6HT 2 1_555 A 6HG 3 A P 6HG 3 1_555 covale 1.570 both A 6HG 3 A O3' 6HG 3 1_555 A 6HT 4 A P 6HT 4 1_555 covale 1.617 both A 6HT 4 A O3' 6HT 4 1_555 A 6HA 5 A P 6HA 5 1_555 covale 1.602 both A 6HA 5 A O3' 6HA 5 1_555 A 6HC 6 A P 6HC 6 1_555 covale 1.719 both A 6HC 6 A O3' 6HC 6 1_555 A 6HA 7 A P 6HA 7 1_555 covale 1.629 both A 6HA 7 A O3' 6HA 7 1_555 A 6HC 8 A P 6HC 8 1_555 hydrog 6HG-6HC PAIR A 6HG 1 A N1 6HG 1 1_555 A 6HC 8 A N3 6HC 8 10_665 hydrog WATSON-CRICK A 6HT 2 A N3 6HT 2 1_555 A 6HA 7 A N1 6HA 7 10_665 hydrog WATSON-CRICK A 6HT 2 A O4 6HT 2 1_555 A 6HA 7 A N6 6HA 7 10_665 hydrog WATSON-CRICK A 6HG 3 A N1 6HG 3 1_555 A 6HC 6 A N3 6HC 6 10_665 hydrog WATSON-CRICK A 6HG 3 A N2 6HG 3 1_555 A 6HC 6 A O2 6HC 6 10_665 hydrog WATSON-CRICK A 6HG 3 A O6 6HG 3 1_555 A 6HC 6 A N4 6HC 6 10_665 hydrog WATSON-CRICK A 6HT 4 A N3 6HT 4 1_555 A 6HA 5 A N1 6HA 5 10_665 hydrog WATSON-CRICK A 6HT 4 A O4 6HT 4 1_555 A 6HA 5 A N6 6HA 5 10_665 hydrog WATSON-CRICK A 6HA 5 A N1 6HA 5 1_555 A 6HT 4 A N3 6HT 4 10_665 hydrog WATSON-CRICK A 6HA 5 A N6 6HA 5 1_555 A 6HT 4 A O4 6HT 4 10_665 hydrog WATSON-CRICK A 6HC 6 A N3 6HC 6 1_555 A 6HG 3 A N1 6HG 3 10_665 hydrog WATSON-CRICK A 6HC 6 A N4 6HC 6 1_555 A 6HG 3 A O6 6HG 3 10_665 hydrog WATSON-CRICK A 6HC 6 A O2 6HC 6 1_555 A 6HG 3 A N2 6HG 3 10_665 hydrog WATSON-CRICK A 6HA 7 A N1 6HA 7 1_555 A 6HT 2 A N3 6HT 2 10_665 hydrog WATSON-CRICK A 6HA 7 A N6 6HA 7 1_555 A 6HT 2 A O4 6HT 2 10_665 hydrog 6HC-6HG PAIR A 6HC 8 A O2 6HC 8 1_555 A 6HG 1 A N2 6HG 1 10_665 DNA HEXITOL NUCLEIC ACID, DNA ANALOGUE, DOUBLE HELIX, DNA 1D7Z PDB 1 1D7Z 1 8 1D7Z 1 8 1D7Z A 1 1 8 180 hexagonal P 62 2 2