1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 Lim, K.W. Phan, A.T. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 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 GE Angew.Chem.Int.Ed.Engl. ACIEAY 0179 1521-3773 52 8566 8569 10.1002/anie.201302995 23794476 Structural basis of DNA quadruplex-duplex junction formation. 2013 10.2210/pdb2m92/pdb pdb_00002m92 10702.835 34-MER DNA 1 syn polymer no no (DA)(DG)(DG)(DG)(DT)(DG)(DG)(DG)(DT)(DG)(DC)(DT)(DG)(DG)(DG)(DG)(DC)(DG)(DC)(DG) (DA)(DA)(DG)(DC)(DA)(DT)(DT)(DC)(DG)(DC)(DG)(DA)(DG)(DG) AGGGTGGGTGCTGGGGCGCGAAGCATTCGCGAGG A polydeoxyribonucleotide n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n citation database_2 pdbx_nmr_software pdbx_nmr_spectrometer pdbx_database_status repository Initial release Data collection Database references Other 1 0 2013-07-10 1 1 2022-08-24 1 2 2023-06-14 _citation.journal_volume _citation.page_first _citation.page_last _citation.title _database_2.pdbx_DOI _database_2.pdbx_database_accession _pdbx_nmr_software.name _pdbx_nmr_spectrometer.model _pdbx_database_status.status_code_nmr_data STRUCTURE OF D[CGCGAAGCATTCGCG] HAIRPIN (REFERENCE DUPLEX HAIRPIN) STRUCTURE OF D[GGTTGGCGCGAAGCATTCGCGGGTTGG] quadruplex-duplex HYBRID (CONSTRUCT I) STRUCTURE OF D[GCGCGAAGCATTCGCGGGGAGGTGGGGAAGGG] quadruplex-duplex HYBRID (CONSTRUCT II) STRUCTURE OF D[GGGAAGGGCGCGAAGCATTCGCGAGGTAGG] quadruplex-duplex HYBRID (CONSTRUCT III) STRUCTURE OF D[TTGGGTGGGCGCGAAGCATTCGCGGGGTGGGT] quadruplex-duplex HYBRID (CONSTRUCT V) BMRB Y PDBJ 2013-05-30 REL REL REL REL structures with the lowest energy 100 10 1 2D 1H-1H NOESY 2D 1H-1H JR NOESY 2D 1H-1H JR NOESY 2D 1H-1H COSY 2D 1H-1H TOCSY 2D 1H-13C HSQC 2D 1H-13C JR HMBC H-D EXCHANGE 15N-FILTERED 15N-FILTERED D-LABELED 0.5-2.0 mM 0.5-2.0 mM 0.5-2.0 mM [U-2% 15N] 0.2-1.0 mM [U-100% 2H] 40 mM K+ 7 ambient 278 K 40 mM K+ 7 ambient 298 K DGSA-distance geometry simulated annealing, Distance-restrained molecular dynamics 1 lowest energy 0.5-2.0 mM DNA-1, 90% H2O/10% D2O 90% H2O/10% D2O 0.5-2.0 mM DNA-2, 100% D2O 100% D2O 0.5-2.0 mM [U-2% 15N] DNA-3, 90% H2O/10% D2O 90% H2O/10% D2O 0.2-1.0 mM [U-100% 2H] DNA-4, 100% D2O 100% D2O Bruker Biospin processing TopSpin 2.1 Felix NMR, Inc. peak picking Felix 2007 Schwieters, Kuszewski, Tjandra and Clore processing X-PLOR NIH 2.29 Schwieters, Kuszewski, Tjandra and Clore refinement X-PLOR NIH 2.29 600 Bruker AVANCE Bruker Avance 700 Bruker AVANCE Bruker Avance DA 1 n 1 DA 1 A DG 2 n 2 DG 2 A DG 3 n 3 DG 3 A DG 4 n 4 DG 4 A DT 5 n 5 DT 5 A DG 6 n 6 DG 6 A DG 7 n 7 DG 7 A DG 8 n 8 DG 8 A DT 9 n 9 DT 9 A DG 10 n 10 DG 10 A DC 11 n 11 DC 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 DG 16 n 16 DG 16 A DC 17 n 17 DC 17 A DG 18 n 18 DG 18 A DC 19 n 19 DC 19 A DG 20 n 20 DG 20 A DA 21 n 21 DA 21 A DA 22 n 22 DA 22 A DG 23 n 23 DG 23 A DC 24 n 24 DC 24 A DA 25 n 25 DA 25 A DT 26 n 26 DT 26 A DT 27 n 27 DT 27 A DC 28 n 28 DC 28 A DG 29 n 29 DG 29 A DC 30 n 30 DC 30 A DG 31 n 31 DG 31 A DA 32 n 32 DA 32 A DG 33 n 33 DG 33 A DG 34 n 34 DG 34 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 4 A A OP2 H5' DC DG 11 33 1.44 4 A A H1' OP2 DG DT 8 9 1.59 2 -3.84 0.60 122.90 119.06 A A A C6 C5 C7 DT DT DT 9 9 9 N 4 -3.61 0.60 122.90 119.29 A A A C6 C5 C7 DT DT DT 9 9 9 N 10 -3.63 0.60 122.90 119.27 A A A C6 C5 C7 DT DT DT 9 9 9 N lowest energy, model1 Structure of d[AGGGTGGGTGCTGGGGCGCGAAGCATTCGCGAGG] quadruplex-duplex hybrid 1 N N hydrog WATSON-CRICK A DA 1 A N1 DA 1 1_555 A DT 12 A N3 DT 12 1_555 hydrog WATSON-CRICK A DA 1 A N6 DA 1 1_555 A DT 12 A O4 DT 12 1_555 hydrog TYPE_6_PAIR A DG 2 A N1 DG 2 1_555 A DG 6 A O6 DG 6 1_555 hydrog TYPE_6_PAIR A DG 2 A N2 DG 2 1_555 A DG 6 A N7 DG 6 1_555 hydrog TYPE_6_PAIR A DG 2 A N7 DG 2 1_555 A DG 13 A N2 DG 13 1_555 hydrog TYPE_6_PAIR A DG 2 A O6 DG 2 1_555 A DG 13 A N1 DG 13 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 14 A N2 DG 14 1_555 hydrog TYPE_6_PAIR A DG 3 A O6 DG 3 1_555 A DG 14 A N1 DG 14 1_555 hydrog TYPE_6_PAIR A DG 4 A N1 DG 4 1_555 A DG 8 A O6 DG 8 1_555 hydrog TYPE_6_PAIR A DG 4 A N2 DG 4 1_555 A DG 8 A N7 DG 8 1_555 hydrog TYPE_6_PAIR A DG 4 A N7 DG 4 1_555 A DG 15 A N2 DG 15 1_555 hydrog TYPE_6_PAIR A DG 4 A O6 DG 4 1_555 A DG 15 A N1 DG 15 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 33 A O6 DG 33 1_555 hydrog TYPE_6_PAIR A DG 7 A N2 DG 7 1_555 A DG 33 A N7 DG 33 1_555 hydrog TYPE_6_PAIR A DG 8 A N1 DG 8 1_555 A DG 34 A O6 DG 34 1_555 hydrog TYPE_6_PAIR A DG 8 A N2 DG 8 1_555 A DG 34 A N7 DG 34 1_555 hydrog TYPE_6_PAIR A DG 10 A N1 DG 10 1_555 A DG 13 A O6 DG 13 1_555 hydrog TYPE_6_PAIR A DG 10 A N2 DG 10 1_555 A DG 13 A N7 DG 13 1_555 hydrog TYPE_6_PAIR A DG 14 A N7 DG 14 1_555 A DG 33 A N2 DG 33 1_555 hydrog TYPE_6_PAIR A DG 14 A O6 DG 14 1_555 A DG 33 A N1 DG 33 1_555 hydrog TYPE_6_PAIR A DG 15 A N7 DG 15 1_555 A DG 34 A N2 DG 34 1_555 hydrog TYPE_6_PAIR A DG 15 A O6 DG 15 1_555 A DG 34 A N1 DG 34 1_555 hydrog TYPE_8_PAIR A DG 16 A N1 DG 16 1_555 A DA 32 A N1 DA 32 1_555 hydrog TYPE_8_PAIR A DG 16 A O6 DG 16 1_555 A DA 32 A N6 DA 32 1_555 hydrog WATSON-CRICK A DC 17 A N3 DC 17 1_555 A DG 31 A N1 DG 31 1_555 hydrog WATSON-CRICK A DC 17 A N4 DC 17 1_555 A DG 31 A O6 DG 31 1_555 hydrog WATSON-CRICK A DC 17 A O2 DC 17 1_555 A DG 31 A N2 DG 31 1_555 hydrog WATSON-CRICK A DG 18 A N1 DG 18 1_555 A DC 30 A N3 DC 30 1_555 hydrog WATSON-CRICK A DG 18 A N2 DG 18 1_555 A DC 30 A O2 DC 30 1_555 hydrog WATSON-CRICK A DG 18 A O6 DG 18 1_555 A DC 30 A N4 DC 30 1_555 hydrog WATSON-CRICK A DC 19 A N3 DC 19 1_555 A DG 29 A N1 DG 29 1_555 hydrog WATSON-CRICK A DC 19 A N4 DC 19 1_555 A DG 29 A O6 DG 29 1_555 hydrog WATSON-CRICK A DC 19 A O2 DC 19 1_555 A DG 29 A N2 DG 29 1_555 hydrog WATSON-CRICK A DG 20 A N1 DG 20 1_555 A DC 28 A N3 DC 28 1_555 hydrog WATSON-CRICK A DG 20 A N2 DG 20 1_555 A DC 28 A O2 DC 28 1_555 hydrog WATSON-CRICK A DG 20 A O6 DG 20 1_555 A DC 28 A N4 DC 28 1_555 hydrog WATSON-CRICK A DA 21 A N1 DA 21 1_555 A DT 27 A N3 DT 27 1_555 hydrog WATSON-CRICK A DA 21 A N6 DA 21 1_555 A DT 27 A O4 DT 27 1_555 hydrog DA-DA MISPAIR A DA 22 A N1 DA 22 1_555 A DA 25 A N6 DA 25 1_555 hydrog WATSON-CRICK A DA 22 A N1 DA 22 1_555 A DT 26 A N3 DT 26 1_555 hydrog WATSON-CRICK A DA 22 A N6 DA 22 1_555 A DT 26 A O4 DT 26 1_555 DNA quadruplex-duplex hybrid, duplex, quadruplex, DNA 2M92 PDB 1 2M92 1 34 2M92 1 34 2M92 A 1 1 34