1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 Yang, X.-L. Sugiyama, H. Ikeda, S. Saito, I. Wang, A.H.-J. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 1 90.00 90.00 90.00 1.000 1.000 1.000 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 C10 H14 N5 O7 P 347.221 n 2'-DEOXYISOGUANINE-5'-MONOPHOSPHATE DNA linking C10 H16 N3 O7 P 321.224 n N1-[2-DEOXY-RIBOFURANOSYL]-[2-AMINO-5-METHYL-4-OXO-4H-PYRIMIDINE]-5'-MONOPHOSPHATE DNA linking US Biophys.J. BIOJAU 0030 0006-3495 75 1163 1171 9726918 Structural studies of a stable parallel-stranded DNA duplex incorporating isoguanine:cytosine and isocytosine:guanine basepairs by nuclear magnetic resonance spectroscopy. 1998 10.2210/pdb1be5/pdb pdb_00001be5 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 3087.086 DNA DUPLEX (TGCACGGACT) 1 syn polymer 3045.004 DNA DUPLEX (TGCACGGACT) 1 syn polymer no yes (DT)(IGU)(IMC)(DA)(IMC)(IGU)(IGU)(DA)(IMC)(DT) TGCACGGACT A polydeoxyribonucleotide no no (DA)(DC)(DG)(DT)(DG)(DC)(DC)(DT)(DG)(DA) ACGTGCCTGA B polydeoxyribonucleotide n n n n n n n n n n n n n n n n n n n n 5.695 2 A 2 B 12 162.979 A_IGU2:DC12_B 1 -10.430 0.150 -0.791 1.544 -12.489 2 A 3 B 13 -162.541 A_IMC3:DG13_B 2 -9.332 -0.206 0.141 -1.625 40.772 2 21 A 4 B 14 174.619 A_DA4:DT14_B 3 18.001 0.269 -0.500 1.880 -34.882 2 A 5 B 15 -165.019 A_IMC5:DG15_B 4 -2.744 -0.303 0.056 -1.976 18.418 A 6 B 16 172.349 A_IGU6:DC16_B 5 -24.195 -0.052 -0.923 0.714 6.604 A 7 B 17 168.266 A_IGU7:DC17_B 6 -19.865 0.092 -0.550 1.041 19.942 2 21 A 8 B 18 177.551 A_DA8:DT18_B 7 1.029 0.358 -0.307 1.205 -23.730 2 A 9 B 19 -165.257 A_IMC9:DG19_B 8 1.728 -0.214 0.194 -1.519 -39.746 2 21 A 10 B 20 -164.305 A_DT10:DA20_B 9 34.459 -0.033 1.054 -1.685 2.583 -156.607 A A 2 3 3.478 B B 12 13 2.561 -6.811 -2.120 -0.385 AA_IGU2IMC3:DG13DC12_BB 1 7.065 3.608 -156.520 0.213 -1.066 3.028 -136.697 A A 3 4 -2.277 B B 13 14 3.024 4.231 -1.031 1.161 AA_IMC3DA4:DT14DG13_BB 2 6.161 3.315 -136.600 -0.649 -0.520 3.472 -137.376 A A 4 5 -2.005 B B 14 15 3.464 3.736 -0.876 0.528 AA_DA4IMC5:DG15DT14_BB 3 5.513 2.959 -137.300 -0.307 -0.435 3.433 -141.637 A A 5 6 -4.623 B B 15 16 3.450 8.730 -0.407 1.030 AA_IMC5IGU6:DC16DG15_BB 4 10.606 5.617 -141.348 -0.594 -0.156 2.812 37.986 A A 6 7 -2.255 B B 16 17 2.884 -1.462 0.173 0.304 AA_IGU6IGU7:DC17DC16_BB 5 -5.919 9.130 37.511 0.631 -0.927 2.844 30.537 A A 7 8 2.494 B B 17 18 2.764 1.310 -0.585 0.705 AA_IGU7DA8:DT18DC17_BB 6 -4.025 7.666 30.249 1.115 0.422 3.339 -146.248 A A 8 9 -1.256 B B 18 19 3.330 2.405 -0.708 0.560 AA_DA8IMC9:DG19DT18_BB 7 7.124 3.723 -146.173 -0.304 -0.337 3.936 52.914 A A 9 10 -0.615 B B 19 20 4.076 -0.547 0.815 0.056 AA_IMC9DT10:DA20DG19_BB 8 -7.347 8.268 52.435 0.106 -1.497 database_2 pdbx_database_status pdbx_struct_assembly pdbx_struct_oper_list struct_conn repository Initial release Version format compliance Version format compliance Database references Derived calculations Other 1 0 1998-08-12 1 1 2008-03-24 1 2 2011-07-13 1 3 2022-02-16 _database_2.pdbx_DOI _database_2.pdbx_database_accession _pdbx_database_status.process_site _struct_conn.pdbx_leaving_atom_flag _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id Y BNL 1998-05-19 REL REL THE STRUCTURE WAS DETERMINED USING 1H 2D NMR SPECTROSCOPY MINIMIZED AVERAGE 1 1 NOESY TOCSY 20mM PHOSPHATE BUFFER 7.0 1 atm 275 K REFINEMENT DETAILS CAN BE FOUND IN THE JRNL CITATION ABOVE. NOE-RMD WATER BRUNGER refinement X-PLOR structure solution X-PLOR structure solution SPEDREF 750 Varian UNITY 750 500 Varian VXR 500 T 1 n 1 DT 1 A IGU 2 n 2 IGU 2 A IMC 3 n 3 IMC 3 A A 4 n 4 DA 4 A IMC 5 n 5 IMC 5 A IGU 6 n 6 IGU 6 A IGU 7 n 7 IGU 7 A A 8 n 8 DA 8 A IMC 9 n 9 IMC 9 A T 10 n 10 DT 10 A A 11 n 1 DA 11 B C 12 n 2 DC 12 B G 13 n 3 DG 13 B T 14 n 4 DT 14 B G 15 n 5 DG 15 B C 16 n 6 DC 16 B C 17 n 7 DC 17 B T 18 n 8 DT 18 B G 19 n 9 DG 19 B A 20 n 10 DA 20 B author_defined_assembly 2 dimeric A IGU 2 2'-DEOXYISOGUANINE-5'-MONOPHOSPHATE A IGU 2 DG A IMC 3 A IMC 3 DC A IMC 5 A IMC 5 DC A IGU 6 2'-DEOXYISOGUANINE-5'-MONOPHOSPHATE A IGU 6 DG A IGU 7 2'-DEOXYISOGUANINE-5'-MONOPHOSPHATE A IGU 7 DG A IMC 9 A IMC 9 DC 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 DT 10 0.098 SIDE CHAIN 1 B DG 15 0.097 SIDE CHAIN 1 B DA 20 0.085 SIDE CHAIN 1 4.06 0.30 108.30 112.36 A A A O4' C1' N1 DT DT DT 1 1 1 N 1 2.42 0.40 105.80 108.22 A A A N9 C4 C5 DA DA DA 4 4 4 N 1 3.08 0.30 108.30 111.38 A A A O4' C1' N9 DA DA DA 8 8 8 N 1 6.67 0.30 108.30 114.97 B B B O4' C1' N9 DG DG DG 13 13 13 N 1 5.34 0.60 106.00 111.34 B B B O4' C4' C3' DG DG DG 15 15 15 N 1 -5.26 0.70 102.20 96.94 B B B C4' C3' C2' DG DG DG 15 15 15 N 1 -5.94 0.70 108.00 102.06 B B B O4' C1' N1 DC DC DC 17 17 17 N 1 -5.87 0.70 102.20 96.33 B B B C4' C3' C2' DG DG DG 19 19 19 N 1 6.31 0.30 108.30 114.61 B B B O4' C1' N9 DG DG DG 19 19 19 N 1 2.10 0.30 108.30 110.40 B B B O4' C1' N9 DA DA DA 20 20 20 N 1 A A C5' C4' DT DT 1 1 0.069 0.007 1.512 1.581 N 1 A A C5 C7 DT DT 1 1 0.042 0.006 1.496 1.538 N 1 A A C5 C7 DT DT 10 10 0.042 0.006 1.496 1.538 N 1 B B C3' C2' DG DG 13 13 -0.048 0.008 1.516 1.468 N 1 B B C5' C4' DT DT 14 14 0.067 0.007 1.512 1.579 N 1 B B C5 C7 DT DT 14 14 0.039 0.006 1.496 1.535 N 1 B B C5' C4' DC DC 16 16 0.055 0.007 1.512 1.567 N model building X-PLOR refinement X-PLOR phasing X-PLOR STRUCTURAL STUDIES OF A STABLE PARALLEL-STRANDED DNA DUPLEX INCORPORATING ISOGUANINE:CYTOSINE AND ISOCYTOSINE:GUANINE BASE PAIRS BY NMR, MINIMIZED AVERAGE STRUCTURE 1 N N 2 N N covale 1.614 both A DT 1 A O3' DT 1 1_555 A IGU 2 A P IGU 2 1_555 covale 1.634 both A IGU 2 A O3' IGU 2 1_555 A IMC 3 A P IMC 3 1_555 covale 1.613 both A IMC 3 A O3' IMC 3 1_555 A DA 4 A P DA 4 1_555 covale 1.625 both A DA 4 A O3' DA 4 1_555 A IMC 5 A P IMC 5 1_555 covale 1.622 both A IMC 5 A O3' IMC 5 1_555 A IGU 6 A P IGU 6 1_555 covale 1.616 both A IGU 6 A O3' IGU 6 1_555 A IGU 7 A P IGU 7 1_555 covale 1.621 both A IGU 7 A O3' IGU 7 1_555 A DA 8 A P DA 8 1_555 covale 1.632 both A DA 8 A O3' DA 8 1_555 A IMC 9 A P IMC 9 1_555 covale 1.631 both A IMC 9 A O3' IMC 9 1_555 A DT 10 A P DT 10 1_555 hydrog IGU-DC PAIR A IGU 2 A N1 IGU 2 1_555 B DC 12 B O2 DC 2 1_555 hydrog IMC-DG PAIR A IMC 3 A N3 IMC 3 1_555 B DG 13 B N1 DG 3 1_555 hydrog REVERSED WATSON-CRICK A DA 4 A N1 DA 4 1_555 B DT 14 B N3 DT 4 1_555 hydrog REVERSED WATSON-CRICK A DA 4 A N6 DA 4 1_555 B DT 14 B O2 DT 4 1_555 hydrog IMC-DG PAIR A IMC 5 A N3 IMC 5 1_555 B DG 15 B N1 DG 5 1_555 hydrog IGU-DC PAIR A IGU 6 A N1 IGU 6 1_555 B DC 16 B N3 DC 6 1_555 hydrog IGU-DC PAIR A IGU 7 A N1 IGU 7 1_555 B DC 17 B N3 DC 7 1_555 hydrog REVERSED WATSON-CRICK A DA 8 A N1 DA 8 1_555 B DT 18 B N3 DT 8 1_555 hydrog REVERSED WATSON-CRICK A DA 8 A N6 DA 8 1_555 B DT 18 B O2 DT 8 1_555 hydrog IMC-DG PAIR A IMC 9 A N3 IMC 9 1_555 B DG 19 B N1 DG 9 1_555 hydrog REVERSED WATSON-CRICK A DT 10 A N3 DT 10 1_555 B DA 20 B N1 DA 10 1_555 hydrog REVERSED WATSON-CRICK A DT 10 A O2 DT 10 1_555 B DA 20 B N6 DA 10 1_555 DNA DNA STRUCTURE, NOVEL DNA BASES, ANTISENSE OLIGONUCLEOTIDES, INTERCALATOR BINDING, REVERSE WATSON-CRICK BASE PAIRS, DEOXYRIBONUCLEIC ACID, DNA 1BE5 PDB 1 1 10 1BE5 1 10 1BE5 A 1 1 10 11 20 1BE5 11 20 1BE5 B 1 1 10 1 P 1