0.039170 0.000000 0.000000 0.000000 0.024260 0.000000 0.000000 0.000000 0.015237 0.00000 0.00000 0.00000 Hunter, W.N. Brown, T. Kneale, G. Anand, N.N. Rabinovich, D. Kennard, O. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 8 90.00 90.00 90.00 25.530 41.220 65.630 C10 H14 N5 O6 P 331.222 y 2'-DEOXYADENOSINE-5'-MONOPHOSPHATE DNA linking 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 H15 N2 O8 P 322.208 y THYMIDINE-5'-MONOPHOSPHATE DNA 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 Y 13 N N Y 14 N C Y 15 N N Y 16 N C Y 17 N C N 18 N N Y 19 N N Y 20 N C Y 21 N N Y 22 N C 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 H N 36 N H N 37 N O N 38 N P N 39 N O N 40 N O N 41 N O N 42 N C N 43 R C N 44 N O N 45 S C N 46 N O N 47 N C N 48 R C N 49 N N N 50 N C N 51 N O N 52 N N N 53 N C N 54 N N N 55 N C N 56 N C N 57 N H 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 O N 72 N P N 73 N O N 74 N O N 75 N O N 76 N C N 77 R C N 78 N O N 79 S C N 80 N O N 81 N C N 82 R C Y 83 N N Y 84 N C Y 85 N N Y 86 N C N 87 N C N 88 N O N 89 N N N 90 N C N 91 N N N 92 N N Y 93 N C N 94 N H N 95 N H 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 O N 109 N P N 110 N O N 111 N O N 112 N O N 113 N C N 114 R C N 115 N O N 116 S C N 117 N O N 118 N C N 119 R C N 120 N N N 121 N C N 122 N O N 123 N N N 124 N C N 125 N O N 126 N C N 127 N C N 128 N C N 129 N H N 130 N H N 131 N H N 132 N H N 133 N H N 134 N H N 135 N H N 136 N H N 137 N H N 138 N H N 139 N H N 140 N H N 141 N H N 142 N H N 143 N H N 144 N O N 145 N H N 146 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 Y 24 N sing Y 25 N sing Y 26 N doub N 27 N sing Y 28 N sing Y 29 N sing Y 30 N doub N 31 N sing Y 32 N doub N 33 N sing N 34 N sing Y 35 N sing Y 36 N doub N 37 N sing Y 38 N sing N 39 N sing N 40 N sing N 41 N doub 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 N 59 N sing N 60 N sing N 61 N sing N 62 N sing N 63 N sing N 64 N doub N 65 N sing 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 doub N 77 N sing 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 Y 97 N sing Y 98 N sing Y 99 N doub N 100 N sing Y 101 N sing N 102 N sing Y 103 N doub N 104 N doub N 105 N sing N 106 N sing N 107 N sing N 108 N sing N 109 N doub N 110 N sing N 111 N sing N 112 N sing N 113 N sing N 114 N sing N 115 N doub N 116 N sing N 117 N sing N 118 N sing N 119 N sing N 120 N sing N 121 N sing N 122 N sing 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 doub N 139 N sing N 140 N sing N 141 N sing N 142 N doub N 143 N sing N 144 N sing N 145 N doub N 146 N sing N 147 N sing N 148 N sing N 149 N sing N 150 N sing N 151 N sing US J.Biol.Chem. JBCHA3 0071 0021-9258 262 9962 9970 3611072 The structure of guanosine-thymidine mismatches in B-DNA at 2.5-A resolution. 1987 10.2210/pdb113d/pdb pdb_0000113d 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 279.00 1 DIFFRACTOMETER SYNTEX P21 x-ray 1 1.0 3678.403 DNA (5'-D(*CP*GP*CP*GP*AP*AP*TP*TP*TP*GP*CP*G)-3') 2 syn polymer 18.015 water 72 nat water no no (DC)(DG)(DC)(DG)(DA)(DA)(DT)(DT)(DT)(DG)(DC)(DG) CGCGAATTTGCG A,B polydeoxyribonucleotide n n n n n n n n n n n n 2.35 47.59 VAPOR DIFFUSION, SITTING DROP 7.40 pH 7.40, VAPOR DIFFUSION, SITTING DROP, temperature 281.00K 281.00 WATER 1 MPD 1 NA CACODYLATE 1 MG ACETATE 1 SPERMINE 1 WATER 2 MPD 2 1.431 1 19 A 1 B 24 -6.764 A_DC1:DG24_B 1 -12.532 0.371 0.405 -0.343 -1.119 1 19 A 2 B 23 -6.914 A_DG2:DC23_B 2 -13.823 -0.363 0.597 -0.421 -14.025 1 19 A 3 B 22 -4.610 A_DC3:DG22_B 3 -6.889 -0.678 0.735 -0.298 13.414 28 A 4 B 21 -3.045 A_DG4:DT21_B 4 -8.323 -2.486 -0.035 -0.642 4.375 1 20 A 5 B 20 5.765 A_DA5:DT20_B 5 -13.005 -0.085 -0.309 -0.239 8.467 1 20 A 6 B 19 1.234 A_DA6:DT19_B 6 -17.826 -0.560 0.276 -0.354 -1.377 1 20 A 7 B 18 7.022 A_DT7:DA18_B 7 -16.028 -0.444 -0.072 -0.261 -5.659 1 20 A 8 B 17 3.323 A_DT8:DA17_B 8 -17.027 0.467 -0.007 -0.305 -9.931 28 A 9 B 16 2.329 A_DT9:DG16_B 9 -10.158 2.717 -0.101 -0.667 14.781 1 19 A 10 B 15 -4.369 A_DG10:DC15_B 10 2.730 0.054 0.458 -0.215 -0.870 1 19 A 11 B 14 -6.896 A_DC11:DG14_B 11 -16.161 1.059 0.525 -0.654 2.031 1 19 A 12 B 13 -7.832 A_DG12:DC13_B 12 0.090 0.594 0.235 -0.204 3.376 31.754 A A 1 2 4.294 B B 24 23 3.400 2.347 -0.007 -0.149 AA_DC1DG2:DC23DG24_BB 1 -1.684 3.081 31.626 -0.719 -0.308 3.742 38.772 A A 2 3 -10.700 B B 23 22 3.774 -7.062 0.781 0.080 AA_DG2DC3:DG22DC23_BB 2 2.494 -3.778 38.069 1.123 -0.823 2.696 20.701 A A 3 4 18.196 B B 22 21 2.773 6.395 0.057 0.309 AA_DC3DG4:DT21DG22_BB 3 3.807 -10.832 19.330 -1.548 1.274 3.588 47.021 A A 4 5 7.669 B B 21 20 3.556 6.103 -0.138 0.472 AA_DG4DA5:DT20DT21_BB 4 -0.206 0.259 46.645 0.041 0.154 2.943 36.197 A A 5 6 1.052 B B 20 19 2.941 0.652 -0.178 0.167 AA_DA5DA6:DT19DT20_BB 5 -4.580 7.390 35.910 0.187 -0.295 3.629 34.894 A A 6 7 -4.337 B B 19 18 3.608 -2.597 0.248 -0.304 AA_DA6DT7:DA18DT19_BB 6 2.444 -4.082 34.717 -0.070 -0.002 3.387 40.242 A A 7 8 1.309 B B 18 17 3.400 0.900 -0.280 0.160 AA_DT7DT8:DA17DA18_BB 7 1.839 -2.674 40.192 0.127 0.624 3.470 47.717 A A 8 9 -3.292 B B 17 16 3.482 -2.662 0.424 0.190 AA_DT8DT9:DG16DA17_BB 8 0.438 -0.541 47.645 0.460 -0.487 2.775 19.168 A A 9 10 20.168 B B 16 15 2.804 6.546 -0.204 0.436 AA_DT9DG10:DC15DG16_BB 9 -3.385 10.429 17.707 -1.641 -0.914 3.738 46.130 A A 10 11 -11.667 B B 15 14 3.874 -9.085 -1.060 0.612 AA_DG10DC11:DG14DC15_BB 10 -2.322 2.982 45.218 1.696 1.119 3.401 35.648 A A 11 12 -6.063 B B 14 13 3.460 -3.703 -0.339 0.109 AA_DC11DG12:DC13DG14_BB 11 2.484 -4.067 35.377 0.744 0.933 chem_comp_atom chem_comp_bond database_2 repository Initial release Version format compliance Version format compliance Data collection Database references 1 0 1993-07-15 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 1993-01-04 REL HOH water HOH 25 2 HOH HOH 25 A HOH 27 2 HOH HOH 27 A HOH 28 2 HOH HOH 28 A HOH 30 2 HOH HOH 30 A HOH 31 2 HOH HOH 31 A HOH 32 2 HOH HOH 32 A HOH 35 2 HOH HOH 35 A HOH 39 2 HOH HOH 39 A HOH 41 2 HOH HOH 41 A HOH 42 2 HOH HOH 42 A HOH 45 2 HOH HOH 45 A HOH 50 2 HOH HOH 50 A HOH 51 2 HOH HOH 51 A HOH 54 2 HOH HOH 54 A HOH 55 2 HOH HOH 55 A HOH 56 2 HOH HOH 56 A HOH 57 2 HOH HOH 57 A HOH 59 2 HOH HOH 59 A HOH 61 2 HOH HOH 61 A HOH 62 2 HOH HOH 62 A HOH 65 2 HOH HOH 65 A HOH 66 2 HOH HOH 66 A HOH 69 2 HOH HOH 69 A HOH 70 2 HOH HOH 70 A HOH 72 2 HOH HOH 72 A HOH 73 2 HOH HOH 73 A HOH 74 2 HOH HOH 74 A HOH 75 2 HOH HOH 75 A HOH 76 2 HOH HOH 76 A HOH 82 2 HOH HOH 82 A HOH 83 2 HOH HOH 83 A HOH 84 2 HOH HOH 84 A HOH 85 2 HOH HOH 85 A HOH 86 2 HOH HOH 86 A HOH 88 2 HOH HOH 88 A HOH 89 2 HOH HOH 89 A HOH 93 2 HOH HOH 93 A HOH 94 2 HOH HOH 94 A HOH 95 2 HOH HOH 95 A HOH 96 2 HOH HOH 96 A HOH 26 2 HOH HOH 26 B HOH 29 2 HOH HOH 29 B HOH 33 2 HOH HOH 33 B HOH 34 2 HOH HOH 34 B HOH 36 2 HOH HOH 36 B HOH 37 2 HOH HOH 37 B HOH 38 2 HOH HOH 38 B HOH 40 2 HOH HOH 40 B HOH 43 2 HOH HOH 43 B HOH 44 2 HOH HOH 44 B HOH 46 2 HOH HOH 46 B HOH 47 2 HOH HOH 47 B HOH 48 2 HOH HOH 48 B HOH 49 2 HOH HOH 49 B HOH 52 2 HOH HOH 52 B HOH 53 2 HOH HOH 53 B HOH 58 2 HOH HOH 58 B HOH 60 2 HOH HOH 60 B HOH 63 2 HOH HOH 63 B HOH 64 2 HOH HOH 64 B HOH 67 2 HOH HOH 67 B HOH 68 2 HOH HOH 68 B HOH 71 2 HOH HOH 71 B HOH 77 2 HOH HOH 77 B HOH 78 2 HOH HOH 78 B HOH 79 2 HOH HOH 79 B HOH 80 2 HOH HOH 80 B HOH 81 2 HOH HOH 81 B HOH 87 2 HOH HOH 87 B HOH 90 2 HOH HOH 90 B HOH 91 2 HOH HOH 91 B HOH 92 2 HOH HOH 92 B C 1 n 1 DC 1 A G 2 n 2 DG 2 A C 3 n 3 DC 3 A G 4 n 4 DG 4 A A 5 n 5 DA 5 A A 6 n 6 DA 6 A T 7 n 7 DT 7 A T 8 n 8 DT 8 A T 9 n 9 DT 9 A G 10 n 10 DG 10 A C 11 n 11 DC 11 A G 12 n 12 DG 12 A C 13 n 1 DC 13 B G 14 n 2 DG 14 B C 15 n 3 DC 15 B G 16 n 4 DG 16 B A 17 n 5 DA 17 B A 18 n 6 DA 18 B T 19 n 7 DT 19 B T 20 n 8 DT 20 B T 21 n 9 DT 21 B G 22 n 10 DG 22 B C 23 n 11 DC 23 B G 24 n 12 DG 24 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 3.72 0.60 106.00 109.72 A A A O4' C4' C3' DC DC DC 1 1 1 N 1 10.39 1.20 115.70 126.09 A A A C5' C4' C3' DC DC DC 1 1 1 N 1 7.65 1.10 109.80 117.45 A A A C5' C4' O4' DC DC DC 1 1 1 N 1 3.97 0.30 108.30 112.27 A A A O4' C1' N9 DG DG DG 2 2 2 N 1 5.79 0.30 108.30 114.09 A A A O4' C1' N1 DC DC DC 3 3 3 N 1 -4.96 0.80 109.40 104.44 A A A O5' C5' C4' DG DG DG 4 4 4 N 1 10.87 1.60 120.90 131.77 A A A P O5' C5' DA DA DA 5 5 5 N 1 -5.34 0.70 108.00 102.66 A A A O4' C1' N9 DA DA DA 5 5 5 N 1 4.17 0.60 118.60 122.77 A A A C6 N1 C2 DA DA DA 5 5 5 N 1 -4.44 0.50 129.30 124.86 A A A N1 C2 N3 DA DA DA 5 5 5 N 1 4.27 0.60 127.20 131.47 A A A C2 N3 C4 DT DT DT 7 7 7 N 1 6.39 0.80 123.10 129.49 A A A N1 C2 O2 DT DT DT 7 7 7 N 1 -4.22 0.60 122.30 118.08 A A A N3 C2 O2 DT DT DT 7 7 7 N 1 -3.95 0.60 122.90 118.95 A A A C6 C5 C7 DT DT DT 9 9 9 N 1 7.00 0.30 108.30 115.30 A A A O4' C1' N9 DG DG DG 10 10 10 N 1 -2.50 0.40 106.40 103.90 A A A C8 N9 C4 DG DG DG 10 10 10 N 1 3.70 0.60 119.90 123.60 A A A N1 C6 O6 DG DG DG 10 10 10 N 1 4.36 0.70 118.00 122.36 B B B N3 C4 N4 DC DC DC 13 13 13 N 1 -4.28 0.70 120.20 115.92 B B B C5 C4 N4 DC DC DC 13 13 13 N 1 4.18 0.30 108.30 112.48 B B B O4' C1' N1 DC DC DC 15 15 15 N 1 4.13 0.30 108.30 112.43 B B B O4' C1' N9 DG DG DG 16 16 16 N 1 9.03 1.20 119.70 128.73 B B B C3' O3' P DG DG DA 16 16 17 Y 1 -3.75 0.50 129.30 125.55 B B B N1 C2 N3 DA DA DA 17 17 17 N 1 9.15 1.20 119.70 128.85 B B B C3' O3' P DA DA DA 17 17 18 Y 1 -6.65 0.70 108.00 101.35 B B B O4' C1' N9 DA DA DA 18 18 18 N 1 6.26 0.60 118.60 124.86 B B B C6 N1 C2 DA DA DA 18 18 18 N 1 -6.32 0.50 129.30 122.98 B B B N1 C2 N3 DA DA DA 18 18 18 N 1 -3.81 0.60 122.30 118.49 B B B N3 C2 O2 DT DT DT 20 20 20 N 1 -3.72 0.60 122.90 119.18 B B B C6 C5 C7 DT DT DT 21 21 21 N 1 3.87 0.30 108.30 112.17 B B B O4' C1' N9 DG DG DG 22 22 22 N 1 2.49 0.30 108.30 110.79 B B B O4' C1' N1 DC DC DC 23 23 23 N 0.1800000 2.500 8.000 2004 1 1.000 TR isotropic TR isotropic 2.500 8.000 72 560 0 488 0 fix fix 2.500 8.000 113D 2497 0.000 1 refinement NUCLSQ THE STRUCTURE OF GUANOSINE-THYMIDINE MISMATCHES IN B-DNA AT 2.5 ANGSTROMS RESOLUTION 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 24 B N1 DG 12 1_555 hydrog WATSON-CRICK A DC 1 A N4 DC 1 1_555 B DG 24 B O6 DG 12 1_555 hydrog WATSON-CRICK A DC 1 A O2 DC 1 1_555 B DG 24 B N2 DG 12 1_555 hydrog WATSON-CRICK A DG 2 A N1 DG 2 1_555 B DC 23 B N3 DC 11 1_555 hydrog WATSON-CRICK A DG 2 A N2 DG 2 1_555 B DC 23 B O2 DC 11 1_555 hydrog WATSON-CRICK A DG 2 A O6 DG 2 1_555 B DC 23 B N4 DC 11 1_555 hydrog WATSON-CRICK A DC 3 A N3 DC 3 1_555 B DG 22 B N1 DG 10 1_555 hydrog WATSON-CRICK A DC 3 A N4 DC 3 1_555 B DG 22 B O6 DG 10 1_555 hydrog WATSON-CRICK A DC 3 A O2 DC 3 1_555 B DG 22 B N2 DG 10 1_555 hydrog TYPE_28_PAIR A DG 4 A N1 DG 4 1_555 B DT 21 B O2 DT 9 1_555 hydrog TYPE_28_PAIR A DG 4 A O6 DG 4 1_555 B DT 21 B N3 DT 9 1_555 hydrog WATSON-CRICK A DA 5 A N1 DA 5 1_555 B DT 20 B N3 DT 8 1_555 hydrog WATSON-CRICK A DA 5 A N6 DA 5 1_555 B DT 20 B O4 DT 8 1_555 hydrog WATSON-CRICK A DA 6 A N1 DA 6 1_555 B DT 19 B N3 DT 7 1_555 hydrog WATSON-CRICK A DA 6 A N6 DA 6 1_555 B DT 19 B O4 DT 7 1_555 hydrog WATSON-CRICK A DT 7 A N3 DT 7 1_555 B DA 18 B N1 DA 6 1_555 hydrog WATSON-CRICK A DT 7 A O4 DT 7 1_555 B DA 18 B N6 DA 6 1_555 hydrog WATSON-CRICK A DT 8 A N3 DT 8 1_555 B DA 17 B N1 DA 5 1_555 hydrog WATSON-CRICK A DT 8 A O4 DT 8 1_555 B DA 17 B N6 DA 5 1_555 hydrog TYPE_28_PAIR A DT 9 A N3 DT 9 1_555 B DG 16 B O6 DG 4 1_555 hydrog TYPE_28_PAIR A DT 9 A O2 DT 9 1_555 B DG 16 B N1 DG 4 1_555 hydrog WATSON-CRICK A DG 10 A N1 DG 10 1_555 B DC 15 B N3 DC 3 1_555 hydrog WATSON-CRICK A DG 10 A N2 DG 10 1_555 B DC 15 B O2 DC 3 1_555 hydrog WATSON-CRICK A DG 10 A O6 DG 10 1_555 B DC 15 B N4 DC 3 1_555 hydrog WATSON-CRICK A DC 11 A N3 DC 11 1_555 B DG 14 B N1 DG 2 1_555 hydrog WATSON-CRICK A DC 11 A N4 DC 11 1_555 B DG 14 B O6 DG 2 1_555 hydrog WATSON-CRICK A DC 11 A O2 DC 11 1_555 B DG 14 B N2 DG 2 1_555 hydrog WATSON-CRICK A DG 12 A N1 DG 12 1_555 B DC 13 B N3 DC 1 1_555 hydrog WATSON-CRICK A DG 12 A N2 DG 12 1_555 B DC 13 B O2 DC 1 1_555 hydrog WATSON-CRICK A DG 12 A O6 DG 12 1_555 B DC 13 B N4 DC 1 1_555 DNA B-DNA, DOUBLE HELIX, MISMATCHED, DNA 113D PDB 1 113D 1 12 113D 1 12 113D A 1 1 12 13 24 113D 13 24 113D B 1 1 12 19 P 21 21 21