1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 Matsugami, A. Ouhashi, K. Kanagawa, M. Liu, H. Kanagawa, S. Uesugi, S. Katahira, M. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic C10 H14 N5 O6 P 331.222 y 2'-DEOXYADENOSINE-5'-MONOPHOSPHATE DNA linking C10 H14 N5 O7 P 347.221 y 2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE DNA linking 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 Y 49 N N Y 50 N C Y 51 N N Y 52 N C N 53 N C N 54 N O N 55 N N N 56 N C N 57 N N N 58 N N Y 59 N C 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 H N 73 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 Y 62 N sing Y 63 N sing Y 64 N doub N 65 N sing Y 66 N sing N 67 N sing Y 68 N doub N 69 N doub N 70 N sing N 71 N sing N 72 N sing N 73 N sing N 74 N doub N 75 N sing N 76 N sing N 77 N sing UK J.Mol.Biol. JMOBAK 0070 0022-2836 313 255 269 10.1006/jmbi.2001.5047 11800555 An intramolecular quadruplex of (GGA)(4) triplet repeat DNA with a G:G:G:G tetrad and a G(:A):G(:A):G(:A):G heptad, and its dimeric interaction. 2001 10.2210/pdb1myq/pdb pdb_00001myq 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 1 SINGLE WAVELENGTH M 1 1.0 K+ Cation Stabilized 3841.516 5'-D(*GP*GP*AP*GP*GP*AP*GP*GP*AP*GP*GP*A)-3' 2 syn polymer no no (DG)(DG)(DA)(DG)(DG)(DA)(DG)(DG)(DA)(DG)(DG)(DA) GGAGGAGGAGGA A,B polydeoxyribonucleotide n n n n n n n n n n n n database_2 pdbx_struct_assembly pdbx_struct_oper_list chem_comp_atom chem_comp_bond repository Initial release Version format compliance Version format compliance Database references Derived calculations Data collection 1 0 2002-10-23 1 1 2008-04-28 1 2 2011-07-13 1 3 2022-02-23 1 4 2024-05-22 _database_2.pdbx_DOI _database_2.pdbx_database_accession RCSB Y RCSB 2002-10-04 REL structures with the lowest energy 1 2D NOESY 2D NOESY 2D TOCSY DQF-COSY 100 mM KCl 6.5 ambient 274 K 100 mM KCl 6.5 ambient 298 K simulated annealing 1 lowest energy 2 mM DNA; 10 mM sodium phosphate buffer (pH 6.5); 100 mM KCl; 95% H2O/5% D2O 2 mM DNA; 10 mM sodium phosphate buffer (pH 6.5); 100% D2O Brunger structure solution X-PLOR 3.851 Brunger refinement X-PLOR 3.851 600 Bruker DRX G 1 n 1 DG 1 A G 2 n 2 DG 2 A A 3 n 3 DA 3 A G 4 n 4 DG 4 A G 5 n 5 DG 5 A A 6 n 6 DA 6 A G 7 n 7 DG 7 A G 8 n 8 DG 8 A A 9 n 9 DA 9 A G 10 n 10 DG 10 A G 11 n 11 DG 11 A A 12 n 12 DA 12 A G 13 n 1 DG 13 B G 14 n 2 DG 14 B A 15 n 3 DA 15 B G 16 n 4 DG 16 B G 17 n 5 DG 17 B A 18 n 6 DA 18 B G 19 n 7 DG 19 B G 20 n 8 DG 20 B A 21 n 9 DA 21 B G 22 n 10 DG 22 B G 23 n 11 DG 23 B A 24 n 12 DA 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 A A O6 H61 DG DA 8 12 1.47 1 B B H1 O6 DG DG 19 22 1.47 1 B B H1 O6 DG DG 16 19 1.50 1 A A H1 O6 DG DG 4 7 1.52 1 A A N7 H21 DG DG 2 11 1.54 1 A A H22 N7 DG DA 1 3 1.59 1 3.51 0.30 108.30 111.81 A A A O4' C1' N9 DG DG DG 1 1 1 N 1 4.53 0.50 113.10 117.63 A A A N7 C8 N9 DG DG DG 1 1 1 N 1 -2.56 0.40 106.40 103.84 A A A C8 N9 C4 DG DG DG 1 1 1 N 1 3.57 0.30 108.30 111.87 A A A O4' C1' N9 DG DG DG 2 2 2 N 1 4.59 0.50 113.10 117.69 A A A N7 C8 N9 DG DG DG 2 2 2 N 1 -2.70 0.40 106.40 103.70 A A A C8 N9 C4 DG DG DG 2 2 2 N 1 3.74 0.50 113.80 117.54 A A A N7 C8 N9 DA DA DA 3 3 3 N 1 -2.66 0.40 105.80 103.14 A A A C8 N9 C4 DA DA DA 3 3 3 N 1 4.71 0.50 113.10 117.81 A A A N7 C8 N9 DG DG DG 4 4 4 N 1 -2.65 0.40 106.40 103.75 A A A C8 N9 C4 DG DG DG 4 4 4 N 1 2.52 0.30 108.30 110.82 A A A O4' C1' N9 DG DG DG 5 5 5 N 1 4.40 0.50 113.10 117.50 A A A N7 C8 N9 DG DG DG 5 5 5 N 1 -2.49 0.40 106.40 103.91 A A A C8 N9 C4 DG DG DG 5 5 5 N 1 2.19 0.30 108.30 110.49 A A A O4' C1' N9 DA DA DA 6 6 6 N 1 3.72 0.50 113.80 117.52 A A A N7 C8 N9 DA DA DA 6 6 6 N 1 3.12 0.30 108.30 111.42 A A A O4' C1' N9 DG DG DG 7 7 7 N 1 4.21 0.50 113.10 117.31 A A A N7 C8 N9 DG DG DG 7 7 7 N 1 3.87 0.30 108.30 112.17 A A A O4' C1' N9 DG DG DG 8 8 8 N 1 4.41 0.50 113.10 117.51 A A A N7 C8 N9 DG DG DG 8 8 8 N 1 -2.64 0.40 106.40 103.76 A A A C8 N9 C4 DG DG DG 8 8 8 N 1 3.63 0.50 113.80 117.43 A A A N7 C8 N9 DA DA DA 9 9 9 N 1 -2.79 0.40 105.80 103.01 A A A C8 N9 C4 DA DA DA 9 9 9 N 1 2.89 0.30 108.30 111.19 A A A O4' C1' N9 DG DG DG 10 10 10 N 1 4.49 0.50 113.10 117.59 A A A N7 C8 N9 DG DG DG 10 10 10 N 1 -2.57 0.40 106.40 103.83 A A A C8 N9 C4 DG DG DG 10 10 10 N 1 2.41 0.30 108.30 110.71 A A A O4' C1' N9 DG DG DG 11 11 11 N 1 4.55 0.50 113.10 117.65 A A A N7 C8 N9 DG DG DG 11 11 11 N 1 -2.69 0.40 106.40 103.71 A A A C8 N9 C4 DG DG DG 11 11 11 N 1 2.32 0.30 108.30 110.62 A A A O4' C1' N9 DA DA DA 12 12 12 N 1 3.74 0.50 113.80 117.54 A A A N7 C8 N9 DA DA DA 12 12 12 N 1 3.40 0.30 108.30 111.70 B B B O4' C1' N9 DG DG DG 13 13 13 N 1 4.57 0.50 113.10 117.67 B B B N7 C8 N9 DG DG DG 13 13 13 N 1 -2.49 0.40 106.40 103.91 B B B C8 N9 C4 DG DG DG 13 13 13 N 1 3.71 0.30 108.30 112.01 B B B O4' C1' N9 DG DG DG 14 14 14 N 1 4.63 0.50 113.10 117.73 B B B N7 C8 N9 DG DG DG 14 14 14 N 1 -2.80 0.40 106.40 103.60 B B B C8 N9 C4 DG DG DG 14 14 14 N 1 3.69 0.50 113.80 117.49 B B B N7 C8 N9 DA DA DA 15 15 15 N 1 -2.55 0.40 105.80 103.25 B B B C8 N9 C4 DA DA DA 15 15 15 N 1 4.79 0.50 113.10 117.89 B B B N7 C8 N9 DG DG DG 16 16 16 N 1 -2.74 0.40 106.40 103.66 B B B C8 N9 C4 DG DG DG 16 16 16 N 1 2.50 0.30 108.30 110.80 B B B O4' C1' N9 DG DG DG 17 17 17 N 1 4.44 0.50 113.10 117.54 B B B N7 C8 N9 DG DG DG 17 17 17 N 1 -2.52 0.40 106.40 103.88 B B B C8 N9 C4 DG DG DG 17 17 17 N 1 2.24 0.30 108.30 110.54 B B B O4' C1' N9 DA DA DA 18 18 18 N 1 3.72 0.50 113.80 117.52 B B B N7 C8 N9 DA DA DA 18 18 18 N 1 -2.42 0.40 105.80 103.38 B B B C8 N9 C4 DA DA DA 18 18 18 N 1 3.14 0.30 108.30 111.44 B B B O4' C1' N9 DG DG DG 19 19 19 N 1 4.28 0.50 113.10 117.38 B B B N7 C8 N9 DG DG DG 19 19 19 N 1 4.05 0.30 108.30 112.35 B B B O4' C1' N9 DG DG DG 20 20 20 N 1 4.43 0.50 113.10 117.53 B B B N7 C8 N9 DG DG DG 20 20 20 N 1 -2.55 0.40 106.40 103.85 B B B C8 N9 C4 DG DG DG 20 20 20 N 1 3.77 0.50 113.80 117.57 B B B N7 C8 N9 DA DA DA 21 21 21 N 1 -2.84 0.40 105.80 102.96 B B B C8 N9 C4 DA DA DA 21 21 21 N 1 2.81 0.30 108.30 111.11 B B B O4' C1' N9 DG DG DG 22 22 22 N 1 4.57 0.50 113.10 117.67 B B B N7 C8 N9 DG DG DG 22 22 22 N 1 -2.58 0.40 106.40 103.82 B B B C8 N9 C4 DG DG DG 22 22 22 N 1 2.47 0.30 108.30 110.77 B B B O4' C1' N9 DG DG DG 23 23 23 N 1 4.43 0.50 113.10 117.53 B B B N7 C8 N9 DG DG DG 23 23 23 N 1 -2.64 0.40 106.40 103.76 B B B C8 N9 C4 DG DG DG 23 23 23 N 1 2.27 0.30 108.30 110.57 B B B O4' C1' N9 DA DA DA 24 24 24 N 1 3.70 0.50 113.80 117.50 B B B N7 C8 N9 DA DA DA 24 24 24 N An intramolecular quadruplex of (GGA)(4) triplet repeat DNA with a G:G:G:G tetrad and a G(:A):G(:A):G(:A):G heptad, and its dimeric interaction 1 N N 1 N N hydrog TYPE_11_PAIR A DG 1 A N2 DG 1 1_555 A DA 3 A N7 DA 3 1_555 hydrog TYPE_11_PAIR A DG 1 A N3 DG 1 1_555 A DA 3 A N6 DA 3 1_555 hydrog TYPE_6_PAIR A DG 1 A N1 DG 1 1_555 A DG 4 A O6 DG 4 1_555 hydrog TYPE_6_PAIR A DG 1 A N2 DG 1 1_555 A DG 4 A N7 DG 4 1_555 hydrog TYPE_6_PAIR A DG 1 A N7 DG 1 1_555 A DG 10 A N2 DG 10 1_555 hydrog TYPE_6_PAIR A DG 1 A O6 DG 1 1_555 A DG 10 A N1 DG 10 1_555 hydrog DG-DG MISPAIR A DG 1 A N7 DG 1 1_555 A DG 11 A N1 DG 11 1_555 hydrog DG-DG MISPAIR A DG 2 A N1 DG 2 1_555 A DG 5 A O6 DG 5 1_555 hydrog TYPE_6_PAIR A DG 2 A N7 DG 2 1_555 A DG 11 A N2 DG 11 1_555 hydrog TYPE_6_PAIR A DG 2 A O6 DG 2 1_555 A DG 11 A N1 DG 11 1_555 hydrog DA-DG MISPAIR A DA 3 A N6 DA 3 1_555 B DG 22 B N7 DG 10 1_555 hydrog TYPE_11_PAIR A DG 4 A N2 DG 4 1_555 A DA 6 A N7 DA 6 1_555 hydrog TYPE_11_PAIR A DG 4 A N3 DG 4 1_555 A DA 6 A N6 DA 6 1_555 hydrog TYPE_6_PAIR A DG 4 A N1 DG 4 1_555 A DG 7 A O6 DG 7 1_555 hydrog TYPE_6_PAIR A DG 4 A N2 DG 4 1_555 A DG 7 A N7 DG 7 1_555 hydrog TYPE_6_PAIR A DG 5 A N1 DG 5 1_555 A DG 8 A O6 DG 8 1_555 hydrog TYPE_6_PAIR A DG 5 A N2 DG 5 1_555 A DG 8 A N7 DG 8 1_555 hydrog DA-DG MISPAIR A DA 6 A N6 DA 6 1_555 B DG 19 B N7 DG 7 1_555 hydrog TYPE_11_PAIR A DG 7 A N2 DG 7 1_555 A DA 9 A N7 DA 9 1_555 hydrog TYPE_11_PAIR A DG 7 A N3 DG 7 1_555 A DA 9 A N6 DA 9 1_555 hydrog TYPE_6_PAIR A DG 7 A N1 DG 7 1_555 A DG 10 A O6 DG 10 1_555 hydrog TYPE_6_PAIR A DG 7 A N2 DG 7 1_555 A DG 10 A N7 DG 10 1_555 hydrog DG-DA MISPAIR A DG 7 A N7 DG 7 1_555 B DA 18 B N6 DA 6 1_555 hydrog TYPE_6_PAIR A DG 8 A N1 DG 8 1_555 A DG 11 A O6 DG 11 1_555 hydrog TYPE_6_PAIR A DG 8 A N2 DG 8 1_555 A DG 11 A N7 DG 11 1_555 hydrog DG-DA MISPAIR A DG 8 A O6 DG 8 1_555 A DA 12 A N6 DA 12 1_555 hydrog DG-DA MISPAIR A DG 10 A N7 DG 10 1_555 B DA 15 B N6 DA 3 1_555 hydrog TYPE_11_PAIR B DG 13 B N2 DG 1 1_555 B DA 15 B N7 DA 3 1_555 hydrog TYPE_11_PAIR B DG 13 B N3 DG 1 1_555 B DA 15 B N6 DA 3 1_555 hydrog TYPE_6_PAIR B DG 13 B N1 DG 1 1_555 B DG 16 B O6 DG 4 1_555 hydrog TYPE_6_PAIR B DG 13 B N2 DG 1 1_555 B DG 16 B N7 DG 4 1_555 hydrog TYPE_6_PAIR B DG 13 B N7 DG 1 1_555 B DG 22 B N2 DG 10 1_555 hydrog TYPE_6_PAIR B DG 13 B O6 DG 1 1_555 B DG 22 B N1 DG 10 1_555 hydrog TYPE_6_PAIR B DG 13 B N7 DG 1 1_555 B DG 23 B N2 DG 11 1_555 hydrog TYPE_6_PAIR B DG 13 B O6 DG 1 1_555 B DG 23 B N1 DG 11 1_555 hydrog DG-DG MISPAIR B DG 14 B N1 DG 2 1_555 B DG 17 B O6 DG 5 1_555 hydrog TYPE_6_PAIR B DG 14 B N7 DG 2 1_555 B DG 23 B N2 DG 11 1_555 hydrog TYPE_6_PAIR B DG 14 B O6 DG 2 1_555 B DG 23 B N1 DG 11 1_555 hydrog TYPE_11_PAIR B DG 16 B N2 DG 4 1_555 B DA 18 B N7 DA 6 1_555 hydrog TYPE_11_PAIR B DG 16 B N3 DG 4 1_555 B DA 18 B N6 DA 6 1_555 hydrog TYPE_6_PAIR B DG 16 B N1 DG 4 1_555 B DG 19 B O6 DG 7 1_555 hydrog TYPE_6_PAIR B DG 16 B N2 DG 4 1_555 B DG 19 B N7 DG 7 1_555 hydrog TYPE_6_PAIR B DG 17 B N1 DG 5 1_555 B DG 20 B O6 DG 8 1_555 hydrog TYPE_6_PAIR B DG 17 B N2 DG 5 1_555 B DG 20 B N7 DG 8 1_555 hydrog TYPE_11_PAIR B DG 19 B N2 DG 7 1_555 B DA 21 B N7 DA 9 1_555 hydrog TYPE_11_PAIR B DG 19 B N3 DG 7 1_555 B DA 21 B N6 DA 9 1_555 hydrog TYPE_6_PAIR B DG 19 B N1 DG 7 1_555 B DG 22 B O6 DG 10 1_555 hydrog TYPE_6_PAIR B DG 19 B N2 DG 7 1_555 B DG 22 B N7 DG 10 1_555 hydrog TYPE_6_PAIR B DG 20 B N1 DG 8 1_555 B DG 23 B O6 DG 11 1_555 hydrog TYPE_6_PAIR B DG 20 B N2 DG 8 1_555 B DG 23 B N7 DG 11 1_555 hydrog DG-DA MISPAIR B DG 20 B O6 DG 8 1_555 B DA 24 B N6 DA 12 1_555 DNA intramolecular parallel quadruplex structure, dimeric structure, DNA 1MYQ PDB 1 1MYQ 1 12 1MYQ 1 12 1MYQ A 1 1 12 13 24 1MYQ 13 24 1MYQ B 1 1 12