1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 Mukundan, V.T. 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 H15 N2 O8 P 322.208 y THYMIDINE-5'-MONOPHOSPHATE DNA linking US J.Am.Chem.Soc. JACSAT 0004 0002-7863 135 5017 5028 10.1021/ja310251r 23521617 Bulges in G-Quadruplexes: Broadening the Definition of G-Quadruplex-Forming Sequences. 2013 10.2210/pdb2m4p/pdb pdb_00002m4p 6034.862 DNA (5'-D(*TP*TP*GP*TP*GP*GP*TP*GP*GP*GP*TP*GP*GP*GP*TP*GP*GP*GP*T)-3') 1 syn polymer no no (DT)(DT)(DG)(DT)(DG)(DG)(DT)(DG)(DG)(DG)(DT)(DG)(DG)(DG)(DT)(DG)(DG)(DG)(DT) TTGTGGTGGGTGGGTGGGT A polydeoxyribonucleotide n n n n n n n n n n n n n n n n n n n 7.784 3 6 A 12 A 16 -88.359 A_DG12:DG16_A 1 -5.556 1.610 -0.002 3.584 -1.304 3 6 A 13 A 17 -88.583 A_DG13:DG17_A 2 -2.966 1.602 -0.027 3.657 -1.546 3 6 A 14 A 18 -93.672 A_DG14:DG18_A 3 -1.692 0.795 0.013 3.717 6.348 3 6 A 10 A 6 94.091 A_DG10:DG6_A 4 2.068 -0.869 0.038 -3.707 -6.267 3 6 A 3 A 8 -91.191 A_DG3:DG8_A 5 -6.813 1.702 0.275 3.458 3.972 32.583 A A 12 13 -3.818 A A 16 17 3.853 -2.139 -0.825 -1.232 AA_DG12DG13:DG17DG16_AA 1 -2.380 4.248 32.430 -1.750 0.974 3.250 31.825 A A 13 14 0.604 A A 17 18 3.251 0.331 -0.182 -0.417 AA_DG13DG14:DG18DG17_AA 2 -0.960 1.751 31.809 -0.820 0.158 0.189 -179.507 A A 14 10 0.187 A A 18 6 0.188 -0.373 1.812 3.585 AA_DG14DG10:DG6DG18_AA 3 -3.719 -1.860 -179.507 -1.792 0.906 database_2 pdbx_database_status pdbx_nmr_software pdbx_nmr_spectrometer repository Initial release Data collection Database references Other 1 0 2013-06-19 1 1 2023-06-14 _database_2.pdbx_DOI _database_2.pdbx_database_accession _pdbx_database_status.status_code_nmr_data _pdbx_nmr_software.name _pdbx_nmr_spectrometer.model BMRB Y PDBJ 2013-02-08 REL REL REL REL 340 238 32 70 structures with the lowest energy 100 10 0.099 0.179 1 0.013 0.002 2D 1H-1H TOCSY 2D 1H-13C HSQC 2D 1H-1H NOESY 2D 1H-13C JR-HMBC 0.1-2.0 mM .05 7.0 ambient 298 K DGSA-distance geometry simulated annealing, simulated annealing, molecular dynamics 1 lowest energy 0.1-2.0 mM DNA (5'-D(*TP*TP*GP*TP*GP*GP*TP*GP*GP*GP*TP*GP*GP*GP*TP*GP*GP*GP*T)-3')-1, 90% H2O/10% D2O 90% H2O/10% D2O Schwieters, Kuszewski, Tjandra and Clore geometry optimization X-PLOR NIH Schwieters, Kuszewski, Tjandra and Clore refinement X-PLOR NIH 600 Bruker AVANCE Bruker Avance DT 1 n 1 DT 1 A DT 2 n 2 DT 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 DT 7 n 7 DT 7 A DG 8 n 8 DG 8 A DG 9 n 9 DG 9 A DG 10 n 10 DG 10 A DT 11 n 11 DT 11 A DG 12 n 12 DG 12 A DG 13 n 13 DG 13 A DG 14 n 14 DG 14 A DT 15 n 15 DT 15 A DG 16 n 16 DG 16 A DG 17 n 17 DG 17 A DG 18 n 18 DG 18 A DT 19 n 19 DT 19 A author_defined_assembly 1 monomeric 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 2 A A H1' OP1 DT DG 7 9 1.59 lowest energy, model1 Solution structure of an intramolecular propeller-type G-quadruplex containing a single bulge 1 N N hydrog TYPE_6_PAIR A DG 3 A N1 DG 3 1_555 A DG 8 A O6 DG 8 1_555 hydrog TYPE_6_PAIR A DG 3 A N2 DG 3 1_555 A DG 8 A N7 DG 8 1_555 hydrog TYPE_6_PAIR A DG 3 A N7 DG 3 1_555 A DG 16 A N2 DG 16 1_555 hydrog TYPE_6_PAIR A DG 3 A O6 DG 3 1_555 A DG 16 A N1 DG 16 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 5 A N7 DG 5 1_555 A DG 17 A N2 DG 17 1_555 hydrog TYPE_6_PAIR A DG 5 A O6 DG 5 1_555 A DG 17 A N1 DG 17 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 6 A N7 DG 6 1_555 A DG 18 A N2 DG 18 1_555 hydrog TYPE_6_PAIR A DG 6 A O6 DG 6 1_555 A DG 18 A N1 DG 18 1_555 hydrog TYPE_6_PAIR A DG 8 A N1 DG 8 1_555 A DG 12 A O6 DG 12 1_555 hydrog TYPE_6_PAIR A DG 8 A N2 DG 8 1_555 A DG 12 A N7 DG 12 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 12 A N1 DG 12 1_555 A DG 16 A O6 DG 16 1_555 hydrog TYPE_6_PAIR A DG 12 A N2 DG 12 1_555 A DG 16 A N7 DG 16 1_555 hydrog TYPE_6_PAIR A DG 13 A N1 DG 13 1_555 A DG 17 A O6 DG 17 1_555 hydrog TYPE_6_PAIR A DG 13 A N2 DG 13 1_555 A DG 17 A N7 DG 17 1_555 hydrog TYPE_6_PAIR A DG 14 A N1 DG 14 1_555 A DG 18 A O6 DG 18 1_555 hydrog TYPE_6_PAIR A DG 14 A N2 DG 14 1_555 A DG 18 A N7 DG 18 1_555 DNA G-quadruplex, Bulges, DNA 2M4P PDB 1 2M4P 1 19 2M4P 1 19 2M4P A 1 1 19