0.037552 0.000000 0.000000 0.000000 0.022104 0.000000 0.000000 0.000000 0.020838 0.00000 0.00000 0.00000 Ban, C. Ramakrishnan, B. Sundaralingam, M. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 8 90.00 90.00 90.00 26.630 45.240 47.990 C9 H14 N3 O7 P 307.197 y 2'-DEOXYCYTIDINE-5'-MONOPHOSPHATE DNA linking C10 H14 N5 O7 P 347.221 y 2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE DNA linking C10 H14 N5 O8 P 363.221 y GUANOSINE-5'-MONOPHOSPHATE RNA linking H2 O 18.015 WATER non-polymer N 1 N O N 2 N P 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 R C N 13 N N N 14 N C N 15 N O N 16 N N N 17 N C N 18 N N N 19 N C N 20 N C N 21 N H N 22 N H N 23 N H 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 O N 36 N P N 37 N O N 38 N O N 39 N O N 40 N C N 41 R C N 42 N O N 43 S C N 44 N O N 45 N C N 46 R C Y 47 N N Y 48 N C Y 49 N N Y 50 N C N 51 N C N 52 N O N 53 N N N 54 N C N 55 N N N 56 N N Y 57 N C N 58 N H N 59 N H N 60 N H 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 O N 73 N P N 74 N O N 75 N O N 76 N O N 77 N C N 78 R C N 79 N O N 80 S C N 81 N O N 82 R C N 83 N O N 84 R C Y 85 N N Y 86 N C Y 87 N N Y 88 N C N 89 N C N 90 N O N 91 N N N 92 N C N 93 N N N 94 N N Y 95 N C N 96 N H N 97 N H N 98 N H N 99 N H N 100 N H 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 O N 111 N H N 112 N H N 1 N sing N 2 N sing N 3 N doub 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 doub N 27 N sing N 28 N doub N 29 N sing N 30 N sing N 31 N sing N 32 N sing N 33 N doub N 34 N sing N 35 N sing N 36 N sing N 37 N sing N 38 N doub N 39 N sing N 40 N sing N 41 N sing N 42 N sing 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 Y 59 N sing Y 60 N sing Y 61 N doub N 62 N sing Y 63 N sing N 64 N sing Y 65 N doub N 66 N doub N 67 N sing N 68 N sing N 69 N sing N 70 N sing N 71 N doub N 72 N sing 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 sing 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 Y 99 N sing Y 100 N sing Y 101 N doub N 102 N sing Y 103 N sing N 104 N sing Y 105 N doub N 106 N doub N 107 N sing N 108 N sing N 109 N sing N 110 N sing N 111 N doub N 112 N sing N 113 N sing N 114 N sing N 115 N sing N 116 N sing UK J.Mol.Biol. JMOBAK 0070 0022-2836 236 275 285 10.1006/jmbi.1994.1134 7508984 A single 2'-hydroxyl group converts B-DNA to A-DNA. Crystal structure of the DNA-RNA chimeric decamer duplex d(CCGGC)r(G)d(CCGG) with a novel intermolecular G-C base-paired quadruplet. 1994 10.2210/pdb161d/pdb pdb_0000161d 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 ROOM TEMPERATURE 1 AREA DETECTOR SIEMENS-NICOLET x-ray 1 1.0 ROTATING ANODE MACSCIENCE 3062.980 DNA/RNA (5'-D(*CP*CP*GP*GP*CP*)-R(*GP*)-D(*CP*CP*GP*G)-3') 2 syn polymer 18.015 water 61 nat water no no (DC)(DC)(DG)(DG)(DC)G(DC)(DC)(DG)(DG) CCGGCGCCGG A,B polydeoxyribonucleotide/polyribonucleotide hybrid n n n n n n n n n n 2.36 47.87 VAPOR DIFFUSION, HANGING DROP 7.00 pH 7.00, VAPOR DIFFUSION, HANGING DROP WATER 1 NA CACODYLATE 1 SPERMINE_HCL 1 WATER 2 MPD 2 0.449 1 19 A 1 B 20 -2.541 A_DC1:DG20_B 1 -6.738 0.410 0.175 -0.045 8.090 1 19 A 2 B 19 1.040 A_DC2:DG19_B 2 -10.335 0.041 -0.125 -0.047 -4.990 1 19 A 3 B 18 0.561 A_DG3:DC18_B 3 -11.364 -0.149 0.072 -0.169 -8.077 1 19 A 4 B 17 -3.747 A_DG4:DC17_B 4 -11.626 -0.382 -0.202 -0.234 -2.196 1 19 A 5 B 16 2.482 A_DC5:G16_B 5 -11.490 0.446 -0.065 -0.123 -3.933 1 19 A 6 B 15 -3.519 A_G6:DC15_B 6 -13.506 0.022 -0.212 -0.147 3.721 1 19 A 7 B 14 2.750 A_DC7:DG14_B 7 -5.941 0.317 -0.015 0.119 1.243 1 19 A 8 B 13 -0.406 A_DC8:DG13_B 8 -7.385 0.386 -0.090 -0.248 -9.823 1 19 A 9 B 12 2.372 A_DG9:DC12_B 9 -8.985 -0.540 -0.170 -0.018 5.107 1 19 A 10 B 11 -1.088 A_DG10:DC11_B 10 4.386 0.342 0.131 -0.106 3.164 32.155 A A 1 2 2.118 B B 20 19 3.195 1.172 0.690 -1.876 AA_DC1DC2:DG19DG20_BB 1 2.104 -3.802 32.067 -3.591 -0.879 2.970 30.325 A A 2 3 16.613 B B 19 18 3.699 8.568 -0.152 -2.115 AA_DC2DG3:DC18DG19_BB 2 -2.499 4.846 29.012 -5.843 -0.234 3.139 33.258 A A 3 4 10.883 B B 18 17 3.406 6.190 -1.521 -1.641 AA_DG3DG4:DC17DC18_BB 3 -2.103 3.697 32.626 -3.911 2.302 2.768 31.288 A A 4 5 18.303 B B 17 16 3.327 9.710 1.088 -1.516 AA_DG4DC5:G16DC17_BB 4 1.858 -3.502 29.722 -4.567 -1.682 2.199 34.278 A A 5 6 30.809 B B 16 15 3.438 17.362 -0.707 -1.587 AA_DC5G6:DC15G16_BB 5 0.158 -0.281 29.670 -5.226 1.222 2.896 30.133 A A 6 7 10.194 B B 15 14 3.233 5.270 0.904 -1.356 AA_G6DC7:DG14DC15_BB 6 -1.764 3.413 29.627 -3.624 -2.079 3.201 28.792 A A 7 8 7.239 B B 14 13 3.492 3.590 -0.051 -2.142 AA_DC7DC8:DG13DG14_BB 7 0.835 -1.684 28.560 -5.133 0.295 3.035 27.269 A A 8 9 15.595 B B 13 12 3.738 7.265 -0.069 -2.166 AA_DC8DG9:DC12DG13_BB 8 1.017 -2.184 26.281 -6.509 0.415 2.995 34.264 A A 9 10 1.798 B B 12 11 3.059 1.059 -0.085 -1.925 AA_DG9DG10:DC11DC12_BB 9 1.220 -2.071 34.227 -3.421 0.322 chem_comp_atom chem_comp_bond database_2 repository Initial release Version format compliance Version format compliance Data collection Database references 1 0 1994-05-18 1 1 2008-05-22 1 2 2011-07-13 1 3 2024-02-07 _database_2.pdbx_DOI _database_2.pdbx_database_accession BNL Y NDB 1994-02-10 REL REL HOH water HOH 21 2 HOH HOH 21 A HOH 22 2 HOH HOH 22 A HOH 23 2 HOH HOH 23 A HOH 24 2 HOH HOH 24 A HOH 26 2 HOH HOH 26 A HOH 27 2 HOH HOH 27 A HOH 30 2 HOH HOH 30 A HOH 31 2 HOH HOH 31 A HOH 33 2 HOH HOH 33 A HOH 35 2 HOH HOH 35 A HOH 36 2 HOH HOH 36 A HOH 37 2 HOH HOH 37 A HOH 38 2 HOH HOH 38 A HOH 39 2 HOH HOH 39 A HOH 41 2 HOH HOH 41 A HOH 44 2 HOH HOH 44 A HOH 47 2 HOH HOH 47 A HOH 48 2 HOH HOH 48 A HOH 49 2 HOH HOH 49 A HOH 50 2 HOH HOH 50 A HOH 51 2 HOH HOH 51 A HOH 55 2 HOH HOH 55 A HOH 58 2 HOH HOH 58 A HOH 66 2 HOH HOH 66 A HOH 68 2 HOH HOH 68 A HOH 75 2 HOH HOH 75 A HOH 76 2 HOH HOH 76 A HOH 78 2 HOH HOH 78 A HOH 79 2 HOH HOH 79 A HOH 81 2 HOH HOH 81 A HOH 25 2 HOH HOH 25 B HOH 28 2 HOH HOH 28 B HOH 29 2 HOH HOH 29 B HOH 32 2 HOH HOH 32 B HOH 34 2 HOH HOH 34 B HOH 40 2 HOH HOH 40 B HOH 42 2 HOH HOH 42 B HOH 43 2 HOH HOH 43 B HOH 45 2 HOH HOH 45 B HOH 46 2 HOH HOH 46 B HOH 52 2 HOH HOH 52 B HOH 53 2 HOH HOH 53 B HOH 54 2 HOH HOH 54 B HOH 56 2 HOH HOH 56 B HOH 57 2 HOH HOH 57 B HOH 59 2 HOH HOH 59 B HOH 60 2 HOH HOH 60 B HOH 61 2 HOH HOH 61 B HOH 62 2 HOH HOH 62 B HOH 63 2 HOH HOH 63 B HOH 64 2 HOH HOH 64 B HOH 65 2 HOH HOH 65 B HOH 67 2 HOH HOH 67 B HOH 69 2 HOH HOH 69 B HOH 70 2 HOH HOH 70 B HOH 71 2 HOH HOH 71 B HOH 72 2 HOH HOH 72 B HOH 73 2 HOH HOH 73 B HOH 74 2 HOH HOH 74 B HOH 77 2 HOH HOH 77 B HOH 80 2 HOH HOH 80 B C 1 n 1 DC 1 A C 2 n 2 DC 2 A G 3 n 3 DG 3 A G 4 n 4 DG 4 A C 5 n 5 DC 5 A G 6 n 6 G 6 A C 7 n 7 DC 7 A C 8 n 8 DC 8 A G 9 n 9 DG 9 A G 10 n 10 DG 10 A C 11 n 1 DC 11 B C 12 n 2 DC 12 B G 13 n 3 DG 13 B G 14 n 4 DG 14 B C 15 n 5 DC 15 B G 16 n 6 G 16 B C 17 n 7 DC 17 B C 18 n 8 DC 18 B G 19 n 9 DG 19 B G 20 n 10 DG 20 B author_defined_assembly 2 dimeric 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 1 A DG 3 0.081 SIDE CHAIN 1 B DG 19 0.065 SIDE CHAIN 1 3.63 0.30 108.30 111.93 A A A O4' C1' N1 DC DC DC 1 1 1 N 1 3.23 0.50 119.90 123.13 A A A C2 N3 C4 DC DC DC 1 1 1 N 1 12.36 1.90 104.00 116.36 A A A O3' P O5' DC DC DC 1 2 2 Y 1 4.36 0.30 108.30 112.66 A A A O4' C1' N1 DC DC DC 2 2 2 N 1 4.01 0.60 118.90 122.91 A A A N1 C2 O2 DC DC DC 2 2 2 N 1 -4.37 0.70 121.90 117.53 A A A N3 C2 O2 DC DC DC 2 2 2 N 1 19.09 1.90 104.00 123.09 A A A O3' P O5' DC DG DG 2 3 3 Y 1 -7.91 0.70 102.20 94.29 A A A C4' C3' C2' DG DG DG 3 3 3 N 1 15.22 1.10 110.50 125.72 A A A O3' P OP2 DG DC DC 4 5 5 Y 1 -17.09 2.20 105.20 88.11 A A A O3' P OP1 DG DC DC 4 5 5 Y 1 2.62 0.30 108.30 110.92 A A A O4' C1' N1 DC DC DC 5 5 5 N 1 11.50 1.10 110.50 122.00 A A A O3' P OP2 DC G G 5 6 6 Y 1 -17.32 2.20 105.20 87.88 A A A O3' P OP1 DC G G 5 6 6 Y 1 5.60 0.30 108.30 113.90 A A A O4' C1' N1 DC DC DC 7 7 7 N 1 10.85 1.10 110.50 121.35 A A A O3' P OP2 DC DC DC 7 8 8 Y 1 -7.39 0.70 102.20 94.81 A A A C4' C3' C2' DC DC DC 8 8 8 N 1 3.89 0.30 108.30 112.19 A A A O4' C1' N1 DC DC DC 8 8 8 N 1 -5.13 0.70 102.20 97.07 A A A C4' C3' C2' DG DG DG 9 9 9 N 1 3.21 0.30 108.30 111.51 A A A O4' C1' N9 DG DG DG 9 9 9 N 1 10.44 1.10 110.50 120.94 A A A O3' P OP2 DG DG DG 9 10 10 Y 1 -15.60 2.20 105.20 89.60 A A A O3' P OP1 DG DG DG 9 10 10 Y 1 2.21 0.30 108.30 110.51 B B B O4' C1' N1 DC DC DC 11 11 11 N 1 -18.12 2.20 105.20 87.08 B B B O3' P OP2 DC DC DC 11 12 12 Y 1 11.01 1.10 110.50 121.51 B B B O3' P OP1 DC DC DC 11 12 12 Y 1 2.98 0.30 108.30 111.28 B B B O4' C1' N1 DC DC DC 12 12 12 N 1 5.16 0.60 118.90 124.06 B B B N1 C2 O2 DC DC DC 12 12 12 N 1 -4.47 0.70 121.90 117.43 B B B N3 C2 O2 DC DC DC 12 12 12 N 1 -2.89 0.40 104.50 101.61 B B B O4' C4' C3' DG DG DG 13 13 13 N 1 -6.54 0.70 102.20 95.66 B B B C4' C3' C2' DG DG DG 13 13 13 N 1 4.39 0.30 108.30 112.69 B B B O4' C1' N9 DG DG DG 13 13 13 N 1 -15.71 2.20 105.20 89.49 B B B O3' P OP1 DG DG DG 13 14 14 Y 1 4.65 0.30 108.30 112.95 B B B O4' C1' N1 DC DC DC 15 15 15 N 1 21.50 1.10 110.50 132.00 B B B O3' P OP2 DC G G 15 16 16 Y 1 -28.17 2.20 105.20 77.03 B B B O3' P OP1 DC G G 15 16 16 Y 1 21.80 1.10 110.50 132.30 B B B O3' P OP2 G DC DC 16 17 17 Y 1 -21.44 2.20 105.20 83.76 B B B O3' P OP1 G DC DC 16 17 17 Y 1 3.22 0.30 108.30 111.52 B B B O4' C1' N1 DC DC DC 17 17 17 N 1 8.10 1.10 110.50 118.60 B B B O3' P OP2 DC DC DC 17 18 18 Y 1 -13.86 2.20 105.20 91.34 B B B O3' P OP1 DC DC DC 17 18 18 Y 1 -4.66 0.70 102.20 97.54 B B B C4' C3' C2' DC DC DC 18 18 18 N 1 7.43 0.30 108.30 115.73 B B B O4' C1' N1 DC DC DC 18 18 18 N 1 -5.49 0.70 102.20 96.71 B B B C4' C3' C2' DG DG DG 19 19 19 N 1 2.68 0.30 108.30 110.98 B B B O4' C1' N9 DG DG DG 19 19 19 N 1 4.54 0.30 108.30 112.84 B B B O4' C1' N9 DG DG DG 20 20 20 N 1 A A C3' C2' DC DC 7 7 -0.050 0.008 1.516 1.466 N 1 A A P O5' DC DC 8 8 0.068 0.010 1.593 1.661 N 0.1360000 0.1360000 1.900 8.000 2753 1 1.000 TR isotropic TR isotropic 1.900 8.000 61 467 0 406 0 fix fix 1.900 161D 8769 2837 1.000 1 refinement X-PLOR A SINGLE 2'-HYDROXYL GROUP CONVERTS B-DNA TO A-DNA: CRYSTAL STRUCTURE OF THE DNA-RNA CHIMERIC DECAMER DUPLEX D(CCGGC)R(G)D(CCGG) WITH A NOVEL INTERMOLECULAR G.C BASE-PAIRED QUADRUPLET 1 N N 1 N N 2 N N 2 N N hydrog WATSON-CRICK A DC 1 A N3 DC 1 1_555 B DG 20 B N1 DG 10 1_555 hydrog WATSON-CRICK A DC 1 A N4 DC 1 1_555 B DG 20 B O6 DG 10 1_555 hydrog WATSON-CRICK A DC 1 A O2 DC 1 1_555 B DG 20 B N2 DG 10 1_555 hydrog WATSON-CRICK A DC 2 A N3 DC 2 1_555 B DG 19 B N1 DG 9 1_555 hydrog WATSON-CRICK A DC 2 A N4 DC 2 1_555 B DG 19 B O6 DG 9 1_555 hydrog WATSON-CRICK A DC 2 A O2 DC 2 1_555 B DG 19 B N2 DG 9 1_555 hydrog WATSON-CRICK A DG 3 A N1 DG 3 1_555 B DC 18 B N3 DC 8 1_555 hydrog WATSON-CRICK A DG 3 A N2 DG 3 1_555 B DC 18 B O2 DC 8 1_555 hydrog WATSON-CRICK A DG 3 A O6 DG 3 1_555 B DC 18 B N4 DC 8 1_555 hydrog WATSON-CRICK A DG 4 A N1 DG 4 1_555 B DC 17 B N3 DC 7 1_555 hydrog WATSON-CRICK A DG 4 A N2 DG 4 1_555 B DC 17 B O2 DC 7 1_555 hydrog WATSON-CRICK A DG 4 A O6 DG 4 1_555 B DC 17 B N4 DC 7 1_555 hydrog WATSON-CRICK A DC 5 A N3 DC 5 1_555 B G 16 B N1 G 6 1_555 hydrog WATSON-CRICK A DC 5 A N4 DC 5 1_555 B G 16 B O6 G 6 1_555 hydrog WATSON-CRICK A DC 5 A O2 DC 5 1_555 B G 16 B N2 G 6 1_555 hydrog WATSON-CRICK A G 6 A N1 G 6 1_555 B DC 15 B N3 DC 5 1_555 hydrog WATSON-CRICK A G 6 A N2 G 6 1_555 B DC 15 B O2 DC 5 1_555 hydrog WATSON-CRICK A G 6 A O6 G 6 1_555 B DC 15 B N4 DC 5 1_555 hydrog WATSON-CRICK A DC 7 A N3 DC 7 1_555 B DG 14 B N1 DG 4 1_555 hydrog WATSON-CRICK A DC 7 A N4 DC 7 1_555 B DG 14 B O6 DG 4 1_555 hydrog WATSON-CRICK A DC 7 A O2 DC 7 1_555 B DG 14 B N2 DG 4 1_555 hydrog WATSON-CRICK A DC 8 A N3 DC 8 1_555 B DG 13 B N1 DG 3 1_555 hydrog WATSON-CRICK A DC 8 A N4 DC 8 1_555 B DG 13 B O6 DG 3 1_555 hydrog WATSON-CRICK A DC 8 A O2 DC 8 1_555 B DG 13 B N2 DG 3 1_555 hydrog WATSON-CRICK A DG 9 A N1 DG 9 1_555 B DC 12 B N3 DC 2 1_555 hydrog WATSON-CRICK A DG 9 A N2 DG 9 1_555 B DC 12 B O2 DC 2 1_555 hydrog WATSON-CRICK A DG 9 A O6 DG 9 1_555 B DC 12 B N4 DC 2 1_555 hydrog WATSON-CRICK A DG 10 A N1 DG 10 1_555 B DC 11 B N3 DC 1 1_555 hydrog WATSON-CRICK A DG 10 A N2 DG 10 1_555 B DC 11 B O2 DC 1 1_555 hydrog WATSON-CRICK A DG 10 A O6 DG 10 1_555 B DC 11 B N4 DC 1 1_555 DNA-RNA HYBRID A-DNA/RNA, DOUBLE HELIX, DNA-RNA HYBRID 161D PDB 1 161D 1 10 161D 1 10 161D A 1 1 10 11 20 161D 11 20 161D B 1 1 10 19 P 21 21 21