1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 Do, N.Q. Lim, K.W. Teo, M.H. Heddi, B. Phan, A.T. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic C10 H14 N5 O7 P 347.221 y 2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE DNA linking C10 H13 N4 O7 P 332.207 y 2'-DEOXYINOSINE-5'-MONOPHOSPHATE DNA linking C10 H15 N2 O8 P 322.208 y THYMIDINE-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 N 17 N C N 18 N O N 19 N N N 20 N C N 21 N N N 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 O N 39 N P N 40 N O N 41 N O N 42 N O N 43 N C N 44 R C N 45 N O N 46 S C N 47 N O N 48 N C N 49 R C Y 50 N N Y 51 N C Y 52 N N Y 53 N C N 54 N C N 55 N O N 56 N N N 57 N C 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 O N 74 N P N 75 N O N 76 N O N 77 N O N 78 N C N 79 R C N 80 N O N 81 S C N 82 N O N 83 N C N 84 R C N 85 N N N 86 N C N 87 N O N 88 N N N 89 N C N 90 N O N 91 N C N 92 N C N 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 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 N 29 N sing Y 30 N doub N 31 N doub N 32 N sing N 33 N sing N 34 N sing N 35 N sing N 36 N doub N 37 N sing N 38 N sing N 39 N sing N 40 N sing N 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 Y 63 N sing Y 64 N sing Y 65 N doub N 66 N sing Y 67 N sing N 68 N sing Y 69 N doub N 70 N doub 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 N 78 N sing N 79 N doub 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 N 99 N sing N 100 N sing N 101 N sing N 102 N doub N 103 N sing N 104 N sing N 105 N sing N 106 N doub 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 UK Nucleic Acids Res. NARHAD 0389 1362-4962 10.1093/nar/gkr539 21840903 Stacking of G-quadruplexes: NMR structure of a G-rich oligonucleotide with potential anti-HIV and anticancer activity 2011 10.2210/pdb2le6/pdb pdb_00002le6 10.13018/BMR17697 5107.270 DNA (5'-D(*GP*IP*GP*TP*GP*GP*GP*TP*GP*GP*GP*TP*GP*GP*GP*T)-3') 2 syn polymer no no (DG)(DI)(DG)(DT)(DG)(DG)(DG)(DT)(DG)(DG)(DG)(DT)(DG)(DG)(DG)(DT) GIGTGGGTGGGTGGGT A,B polydeoxyribonucleotide n n n n n n n n n n n n n n n n database_2 pdbx_database_status pdbx_nmr_software pdbx_nmr_spectrometer chem_comp_atom chem_comp_bond database_2 repository Initial release Data collection Database references Other Data collection Database references 1 0 2011-08-31 1 1 2023-06-14 1 2 2024-05-15 _database_2.pdbx_DOI _database_2.pdbx_database_accession _pdbx_database_status.status_code_nmr_data _pdbx_nmr_software.name _pdbx_nmr_spectrometer.model _database_2.pdbx_DOI Dimeric parallel-stranded tetraplex with 3+1 5' G-tetrad interface, single-residue chain reversal loops and A(GGGG) pentad BMRB Y PDBJ 2011-06-10 REL REL REL REL synthetic DNA sample structures with the lowest energy 100 10 1 2D 1H-13C JR HMBC 2D 1H-1H JR NOESY 2D 1H-1H NOESY 2D 1H-1H COSY 2D 1H-1H TOCSY 2D 1H-13C HSQC H-D exchange 15N-filtered D-labeled 0.5-2.0 mM 0.5-2.0 mM 0.5-2.0 mM [U-2% 15N; U-2% 13C] 0.5-2.0 mM [U-100% 2H] 100mM K+ 7 ambient 298 K DGSA-distance geometry simulated annealing, distance-restrained molecular dynamics refinement in vacuo, distance-restrained molecular dynamics refinement in explicit solvent 1 lowest energy 0.5-2.0 mM DNA (5'-D(*GP*IP*GP*TP*GP*GP*GP*TP*GP*GP*GP*TP*GP*GP*GP*T)-3')-1, 90% H2O/10% D2O 90% H2O/10% D2O 0.5-2.0 mM DNA (5'-D(*GP*IP*GP*TP*GP*GP*GP*TP*GP*GP*GP*TP*GP*GP*GP*T)-3')-2, 100% D2O 100% D2O 0.5-2.0 mM [U-2% 15N; U-2% 13C] DNA (5'-D(*GP*IP*GP*TP*GP*GP*GP*TP*GP*GP*GP*TP*GP*GP*GP*T)-3')-3, 90% H2O/10% D2O 90% H2O/10% D2O 0.5-2.0 mM [U-100% 2H] DNA (5'-D(*GP*IP*GP*TP*GP*GP*GP*TP*GP*GP*GP*TP*GP*GP*GP*T)-3')-4, 90% H2O/10% D2O 90% H2O/10% D2O Bruker Biospin processing TopSpin 2.1 Felix NMR, Inc. peak picking Felix 2007 Schwieters, Kuszewski, Tjandra and Clore structure solution X-PLOR NIH 2.27 Case, Darden, Cheatham, III, Simmerling, Wang, Duke, Luo, ... and Kollm refinement Amber 10 Schwieters, Kuszewski, Tjandra and Clore refinement X-PLOR NIH 600 Bruker AVANCE Bruker Avance 700 Bruker AVANCE Bruker Avance DG 1 n 1 DG 1 A DI 2 n 2 DI 2 A DG 3 n 3 DG 3 A DT 4 n 4 DT 4 A DG 5 n 5 DG 5 A DG 6 n 6 DG 6 A DG 7 n 7 DG 7 A DT 8 n 8 DT 8 A DG 9 n 9 DG 9 A DG 10 n 10 DG 10 A DG 11 n 11 DG 11 A DT 12 n 12 DT 12 A DG 13 n 13 DG 13 A DG 14 n 14 DG 14 A DG 15 n 15 DG 15 A DT 16 n 16 DT 16 A DG 1 n 1 DG 1 B DI 2 n 2 DI 2 B DG 3 n 3 DG 3 B DT 4 n 4 DT 4 B DG 5 n 5 DG 5 B DG 6 n 6 DG 6 B DG 7 n 7 DG 7 B DT 8 n 8 DT 8 B DG 9 n 9 DG 9 B DG 10 n 10 DG 10 B DG 11 n 11 DG 11 B DT 12 n 12 DT 12 B DG 13 n 13 DG 13 B DG 14 n 14 DG 14 B DG 15 n 15 DG 15 B DT 16 n 16 DT 16 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 -3.62 0.60 122.90 119.28 A A A C6 C5 C7 DT DT DT 4 4 4 N 1 -3.67 0.60 122.90 119.23 B B B C6 C5 C7 DT DT DT 4 4 4 N 1 -3.62 0.60 122.90 119.28 B B B C6 C5 C7 DT DT DT 8 8 8 N 2 -3.60 0.60 122.90 119.30 A A A C6 C5 C7 DT DT DT 12 12 12 N 2 -3.69 0.60 122.90 119.21 B B B C6 C5 C7 DT DT DT 12 12 12 N 3 -3.63 0.60 122.90 119.27 A A A C6 C5 C7 DT DT DT 8 8 8 N 10 -3.60 0.60 122.90 119.30 A A A C6 C5 C7 DT DT DT 4 4 4 N 10 -3.63 0.60 122.90 119.27 A A A C6 C5 C7 DT DT DT 8 8 8 N 10 -3.73 0.60 122.90 119.17 A A A C6 C5 C7 DT DT DT 12 12 12 N 10 -3.63 0.60 122.90 119.27 B B B C6 C5 C7 DT DT DT 12 12 12 N N lowest energy, model 1 Structure of a dimeric all-parallel-stranded G-quadruplex stacked via the 5'-to-5' interface 1 N N 1 N N hydrog TYPE_6_PAIR A DG 1 A N1 DG 1 1_555 A DG 5 A O6 DG 5 1_555 hydrog TYPE_6_PAIR A DG 1 A N2 DG 1 1_555 A DG 5 A N7 DG 5 1_555 hydrog TYPE_6_PAIR A DG 1 A N7 DG 1 1_555 A DG 13 A N2 DG 13 1_555 hydrog TYPE_6_PAIR A DG 1 A O6 DG 1 1_555 A DG 13 A N1 DG 13 1_555 hydrog DI-DG MISPAIR A DI 2 A N1 DI 2 1_555 A DG 6 A O6 DG 6 1_555 hydrog TYPE_6_PAIR A DI 2 A N7 DI 2 1_555 A DG 14 A N2 DG 14 1_555 hydrog TYPE_6_PAIR A DI 2 A O6 DI 2 1_555 A DG 14 A N1 DG 14 1_555 hydrog TYPE_6_PAIR A DG 3 A N1 DG 3 1_555 A DG 7 A O6 DG 7 1_555 hydrog TYPE_6_PAIR A DG 3 A N2 DG 3 1_555 A DG 7 A N7 DG 7 1_555 hydrog TYPE_6_PAIR A DG 3 A N7 DG 3 1_555 A DG 15 A N2 DG 15 1_555 hydrog TYPE_6_PAIR A DG 3 A O6 DG 3 1_555 A DG 15 A N1 DG 15 1_555 hydrog TYPE_6_PAIR A DG 5 A N1 DG 5 1_555 A DG 9 A O6 DG 9 1_555 hydrog TYPE_6_PAIR A DG 5 A N2 DG 5 1_555 A DG 9 A N7 DG 9 1_555 hydrog TYPE_6_PAIR A DG 6 A N1 DG 6 1_555 A DG 10 A O6 DG 10 1_555 hydrog TYPE_6_PAIR A DG 6 A N2 DG 6 1_555 A DG 10 A N7 DG 10 1_555 hydrog TYPE_6_PAIR A DG 7 A N1 DG 7 1_555 A DG 11 A O6 DG 11 1_555 hydrog TYPE_6_PAIR A DG 7 A N2 DG 7 1_555 A DG 11 A N7 DG 11 1_555 hydrog TYPE_6_PAIR A DG 9 A N1 DG 9 1_555 A DG 13 A O6 DG 13 1_555 hydrog TYPE_6_PAIR A DG 9 A N2 DG 9 1_555 A DG 13 A N7 DG 13 1_555 hydrog TYPE_6_PAIR A DG 10 A N1 DG 10 1_555 A DG 14 A O6 DG 14 1_555 hydrog TYPE_6_PAIR A DG 10 A N2 DG 10 1_555 A DG 14 A N7 DG 14 1_555 hydrog TYPE_6_PAIR A DG 11 A N1 DG 11 1_555 A DG 15 A O6 DG 15 1_555 hydrog TYPE_6_PAIR A DG 11 A N2 DG 11 1_555 A DG 15 A N7 DG 15 1_555 hydrog TYPE_6_PAIR B DG 1 B N1 DG 1 1_555 B DG 5 B O6 DG 5 1_555 hydrog TYPE_6_PAIR B DG 1 B N2 DG 1 1_555 B DG 5 B N7 DG 5 1_555 hydrog TYPE_6_PAIR B DG 1 B N7 DG 1 1_555 B DG 13 B N2 DG 13 1_555 hydrog TYPE_6_PAIR B DG 1 B O6 DG 1 1_555 B DG 13 B N1 DG 13 1_555 hydrog DI-DG MISPAIR B DI 2 B N1 DI 2 1_555 B DG 6 B O6 DG 6 1_555 hydrog TYPE_6_PAIR B DI 2 B N7 DI 2 1_555 B DG 14 B N2 DG 14 1_555 hydrog TYPE_6_PAIR B DI 2 B O6 DI 2 1_555 B DG 14 B N1 DG 14 1_555 hydrog TYPE_6_PAIR B DG 3 B N1 DG 3 1_555 B DG 7 B O6 DG 7 1_555 hydrog TYPE_6_PAIR B DG 3 B N2 DG 3 1_555 B DG 7 B N7 DG 7 1_555 hydrog TYPE_6_PAIR B DG 3 B N7 DG 3 1_555 B DG 15 B N2 DG 15 1_555 hydrog TYPE_6_PAIR B DG 3 B O6 DG 3 1_555 B DG 15 B N1 DG 15 1_555 hydrog TYPE_6_PAIR B DG 5 B N1 DG 5 1_555 B DG 9 B O6 DG 9 1_555 hydrog TYPE_6_PAIR B DG 5 B N2 DG 5 1_555 B DG 9 B N7 DG 9 1_555 hydrog TYPE_6_PAIR B DG 6 B N1 DG 6 1_555 B DG 10 B O6 DG 10 1_555 hydrog TYPE_6_PAIR B DG 6 B N2 DG 6 1_555 B DG 10 B N7 DG 10 1_555 hydrog TYPE_6_PAIR B DG 7 B N1 DG 7 1_555 B DG 11 B O6 DG 11 1_555 hydrog TYPE_6_PAIR B DG 7 B N2 DG 7 1_555 B DG 11 B N7 DG 11 1_555 hydrog TYPE_6_PAIR B DG 9 B N1 DG 9 1_555 B DG 13 B O6 DG 13 1_555 hydrog TYPE_6_PAIR B DG 9 B N2 DG 9 1_555 B DG 13 B N7 DG 13 1_555 hydrog TYPE_6_PAIR B DG 10 B N1 DG 10 1_555 B DG 14 B O6 DG 14 1_555 hydrog TYPE_6_PAIR B DG 10 B N2 DG 10 1_555 B DG 14 B N7 DG 14 1_555 hydrog TYPE_6_PAIR B DG 11 B N1 DG 11 1_555 B DG 15 B O6 DG 15 1_555 hydrog TYPE_6_PAIR B DG 11 B N2 DG 11 1_555 B DG 15 B N7 DG 15 1_555 DNA HIV-1 integrase inhibition, G-quadruplex, anticancer, stacking, DNA 2LE6 PDB 1 2LE6 1 16 2LE6 1 16 2LE6 A 1 1 16 1 16 2LE6 1 16 2LE6 B 1 1 16