0.041736 0.000000 0.002384 0.000000 0.020429 0.000000 0.000000 0.000000 0.031068 0.00000 0.00000 0.00000 Abrescia, N.G.A. Thompson, A. Huynh-Dinh, T. Subirana, J.A. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 8 90.00 93.27 90.00 23.960 48.950 32.240 C9 H12 Br N2 O8 P 387.078 n 5-BROMO-2'-DEOXYURIDINE-5'-MONOPHOSPHATE DNA linking C10 H14 N5 O6 P 331.222 y 2'-DEOXYADENOSINE-5'-MONOPHOSPHATE DNA linking C10 H15 N2 O8 P 322.208 y THYMIDINE-5'-MONOPHOSPHATE DNA linking H2 O 18.015 WATER non-polymer N 1 N N N 2 N C N 3 N N N 4 N C N 5 N C N 6 N C N 7 N O N 8 N O N 9 N BR N 10 R C N 11 N C N 12 S C N 13 R C N 14 N O N 15 N O N 16 N C N 17 N O N 18 N P N 19 N O N 20 N O N 21 N O N 22 N H 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 O N 35 N P N 36 N O N 37 N O N 38 N O N 39 N C N 40 R C N 41 N O N 42 S C N 43 N O N 44 N C N 45 R C Y 46 N N Y 47 N C Y 48 N N Y 49 N C Y 50 N C N 51 N N Y 52 N N Y 53 N C Y 54 N N Y 55 N C N 56 N H N 57 N H N 58 N H N 59 N H 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 O N 71 N P N 72 N O N 73 N O N 74 N O N 75 N C N 76 R C N 77 N O N 78 S C N 79 N O N 80 N C N 81 R C N 82 N N N 83 N C N 84 N O N 85 N N N 86 N C N 87 N O N 88 N C N 89 N C N 90 N C N 91 N H N 92 N H N 93 N H 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 O N 107 N H N 108 N H N 1 N sing N 2 N sing N 3 N sing N 4 N sing N 5 N doub N 6 N sing N 7 N sing N 8 N sing N 9 N doub N 10 N doub 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 N 24 N sing N 25 N sing N 26 N sing N 27 N sing N 28 N sing N 29 N sing N 30 N doub N 31 N sing N 32 N sing N 33 N sing N 34 N sing N 35 N sing N 36 N sing N 37 N doub N 38 N sing N 39 N sing N 40 N sing N 41 N sing 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 Y 58 N sing Y 59 N sing Y 60 N doub N 61 N sing Y 62 N sing Y 63 N sing Y 64 N doub N 65 N sing Y 66 N doub N 67 N sing N 68 N sing Y 69 N sing Y 70 N doub N 71 N sing Y 72 N sing N 73 N sing N 74 N sing N 75 N doub N 76 N sing N 77 N sing N 78 N sing N 79 N sing 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 doub 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 doub N 106 N sing N 107 N sing N 108 N sing N 109 N sing N 110 N sing N 111 N sing US Proc.Natl.Acad.Sci.USA PNASA6 0040 0027-8424 99 2806 10.1073/PNAS.052675499 11880632 Crystal Structure of an Antiparallel DNA Fragment with Hoogsteen Base Pairing 2002 10.2210/pdb1gqu/pdb pdb_00001gqu 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 110.0 1 CCD 2001-03-15 MARCCD MAD M x-ray 1 0.919 1.0 0.855 1.0 BM14 ESRF 0.919,0.855 SYNCHROTRON ESRF BEAMLINE BM14 1872.111 DNA (5'(*AP*TP*AP*UP*AP*T)-3') 4 syn polymer 18.015 water 47 nat water no yes (DA)(DT)(DA)(BRU)(DA)(DT) ATAUAT A,B,C,D polydeoxyribonucleotide n n n n n n 1 2.52 51.20 FOR MORE DETAILS ON DATA STATISTICS SEE PAPER 6.00 pH 6.00 -15.024 3 23 B 7 A 6 67.942 B_DA7:DT6_A 1 24.077 0.779 1.546 -3.761 -21.961 3 23 B 8 A 5 -62.026 B_DT8:DA5_A 2 3.037 0.227 0.639 3.411 5.525 3 23 B 9 A 4 66.288 B_DA9:BRU4_A 3 10.827 0.178 -0.331 -3.516 -8.238 3 23 B 10 A 3 -62.434 B_BRU10:DA3_A 4 -4.263 -0.269 0.192 3.454 16.497 3 23 B 11 A 2 57.511 B_DA11:DT2_A 5 -3.693 0.184 -0.607 -3.774 10.571 3 23 B 12 A 1 -64.774 B_DT12:DA1_A 6 -20.982 -0.416 -0.860 3.578 10.304 3 23 C 16 D 19 -65.392 C_BRU16:DA19_D 7 -19.316 -0.382 -0.387 3.625 8.844 3 23 C 15 D 20 66.787 C_DA15:DT20_D 8 -0.681 0.745 -0.303 -3.720 -9.406 3 23 C 14 D 21 -61.758 C_DT14:DA21_D 9 0.915 -0.554 0.382 3.880 -2.368 3 23 C 13 D 22 61.505 C_DA13:BRU22_D 10 20.199 0.148 0.258 -3.611 0.156 174.995 B B 7 8 -73.149 A A 6 5 -1.718 -144.876 -1.051 -3.656 BB_DA7DT8:DA5DT6_AA 1 92.215 -46.560 105.421 -2.052 0.385 0.242 -176.023 B B 8 9 37.440 A A 5 4 -3.017 -74.214 -1.831 4.582 BB_DT8DA9:BRU4DA5_AA 2 157.550 79.481 -94.229 -2.524 -1.409 0.167 -176.558 B B 9 10 -75.384 A A 4 3 3.035 149.353 1.419 3.461 BB_DA9BRU10:DA3BRU4_AA 3 -92.362 -46.618 -76.864 -2.389 0.303 -0.116 -179.191 B B 10 11 33.296 A A 3 2 -0.811 -66.569 -3.185 4.834 BB_BRU10DA11:DT2DA3_AA 4 161.154 80.604 -163.488 -2.430 -1.624 -0.217 -178.008 B B 11 12 -74.111 A A 2 1 1.329 147.802 0.881 4.074 BB_DA11DT12:DA1DT2_AA 5 -95.135 -47.703 -123.754 -2.154 0.365 -0.118 -175.969 B C 12 16 29.236 A D 1 19 -1.207 -58.121 -0.518 4.303 BC_DT12BRU16:DA19DA1_DA 6 161.523 81.250 -122.134 -2.211 -0.420 -0.328 -179.788 C C 16 15 -74.214 D D 19 20 0.145 148.416 0.325 4.705 CC_BRU16DA15:DT20DA19_DD 7 -98.855 -49.431 -165.485 -2.347 0.166 0.039 179.960 C C 15 14 31.186 D D 20 21 0.099 62.373 3.407 -4.889 CC_DA15DT14:DA21DT20_DD 8 -165.332 82.666 178.601 -2.445 -1.704 0.307 -178.538 C C 14 13 -73.166 D D 21 22 2.368 145.978 0.586 4.192 CC_DT14DA13:BRU22DA21_DD 9 -100.619 -50.431 -114.568 -2.419 0.071 chem_comp_atom chem_comp_bond database_2 pdbx_database_status struct_conn repository Initial release Version format compliance Version format compliance Data collection Database references Derived calculations Other 1 0 2002-12-05 1 1 2011-05-08 1 2 2011-07-13 1 3 2024-05-08 _database_2.pdbx_DOI _database_2.pdbx_database_accession _pdbx_database_status.status_code_sf _struct_conn.pdbx_leaving_atom_flag PDBE Y PDBE 2001-12-05 REL REL HOH water HOH 2001 2 HOH HOH 2001 A HOH 2002 2 HOH HOH 2002 A HOH 2003 2 HOH HOH 2003 A HOH 2004 2 HOH HOH 2004 A HOH 2005 2 HOH HOH 2005 A HOH 2006 2 HOH HOH 2006 A HOH 2007 2 HOH HOH 2007 A HOH 2008 2 HOH HOH 2008 A HOH 2009 2 HOH HOH 2009 A HOH 2010 2 HOH HOH 2010 A HOH 2011 2 HOH HOH 2011 A HOH 2012 2 HOH HOH 2012 A HOH 2013 2 HOH HOH 2013 A HOH 2014 2 HOH HOH 2014 A HOH 2001 2 HOH HOH 2001 B HOH 2002 2 HOH HOH 2002 B HOH 2003 2 HOH HOH 2003 B HOH 2004 2 HOH HOH 2004 B HOH 2005 2 HOH HOH 2005 B HOH 2006 2 HOH HOH 2006 B HOH 2007 2 HOH HOH 2007 B HOH 2008 2 HOH HOH 2008 B HOH 2009 2 HOH HOH 2009 B HOH 2010 2 HOH HOH 2010 B HOH 2011 2 HOH HOH 2011 B HOH 2012 2 HOH HOH 2012 B HOH 2001 2 HOH HOH 2001 C HOH 2002 2 HOH HOH 2002 C HOH 2003 2 HOH HOH 2003 C HOH 2004 2 HOH HOH 2004 C HOH 2005 2 HOH HOH 2005 C HOH 2006 2 HOH HOH 2006 C HOH 2007 2 HOH HOH 2007 C HOH 2008 2 HOH HOH 2008 C HOH 2001 2 HOH HOH 2001 D HOH 2002 2 HOH HOH 2002 D HOH 2003 2 HOH HOH 2003 D HOH 2004 2 HOH HOH 2004 D HOH 2005 2 HOH HOH 2005 D HOH 2006 2 HOH HOH 2006 D HOH 2007 2 HOH HOH 2007 D HOH 2009 2 HOH HOH 2009 D HOH 2010 2 HOH HOH 2010 D HOH 2011 2 HOH HOH 2011 D HOH 2012 2 HOH HOH 2012 D HOH 2013 2 HOH HOH 2013 D HOH 2014 2 HOH HOH 2014 D DA 1 n 1 DA 1 A DT 2 n 2 DT 2 A DA 3 n 3 DA 3 A BRU 4 n 4 BRU 4 A DA 5 n 5 DA 5 A DT 6 n 6 DT 6 A DA 7 n 1 DA 7 B DT 8 n 2 DT 8 B DA 9 n 3 DA 9 B BRU 10 n 4 BRU 10 B DA 11 n 5 DA 11 B DT 12 n 6 DT 12 B DA 13 n 1 DA 13 C DT 14 n 2 DT 14 C DA 15 n 3 DA 15 C BRU 16 n 4 BRU 16 C DA 17 n 5 DA 17 C DT 18 n 6 DT 18 C DA 19 n 1 DA 19 D DT 20 n 2 DT 20 D DA 21 n 3 DA 21 D BRU 22 n 4 BRU 22 D DA 23 n 5 DA 23 D DT 24 n 6 DT 24 D author_and_software_defined_assembly PQS 2 dimeric author_and_software_defined_assembly PQS 2 dimeric A BRU 4 A BRU 4 DU B BRU 10 B BRU 4 DU C BRU 16 C BRU 4 DU D BRU 22 D BRU 4 DU 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 B DA 7 0.054 SIDE CHAIN DNA-RNA.PARAM DNA-RNA.TOP WATER_REP.PARAM WATER_REP.TOP FOR MORE DETAILS ON DATA STATISTICS SEE PAPER 0.22 0.22 2.5 15.00 240 2547 9.2 97.2 RANDOM 1 THROUGHOUT 0.0 MAD FLAT MODEL 2.5 15.00 47 527 0 480 0 0.0089 1.17 2.61 273 8 2.500 30.000 1GQU 2591 2.000 0.06000 1 10.300 90.3 2.50 1 68.6 refinement CNS 1.0 data reduction DENZO data scaling SCALEPACK data scaling SCALEIT phasing MLPHARE Crystal structure of an alternating A-T oligonucleotide fragment with Hoogsteen base pairing 1 N N 1 N N 1 N N 1 N N 2 N N 2 N N 2 N N 2 N N covale 1.613 both A DA 3 A O3' DA 3 1_555 A BRU 4 A P BRU 4 1_555 covale 1.601 both A BRU 4 A O3' BRU 4 1_555 A DA 5 A P DA 5 1_555 covale 1.602 both B DA 9 B O3' DA 3 1_555 B BRU 10 B P BRU 4 1_555 covale 1.598 both B BRU 10 B O3' BRU 4 1_555 B DA 11 B P DA 5 1_555 covale 1.609 both C DA 15 C O3' DA 3 1_555 C BRU 16 C P BRU 4 1_555 covale 1.601 both C BRU 16 C O3' BRU 4 1_555 C DA 17 C P DA 5 1_555 covale 1.613 both D DA 21 D O3' DA 3 1_555 D BRU 22 D P BRU 4 1_555 covale 1.605 both D BRU 22 D O3' BRU 4 1_555 D DA 23 D P DA 5 1_555 hydrog HOOGSTEEN A DA 1 A N6 DA 1 1_555 B DT 12 B O4 DT 6 1_555 hydrog HOOGSTEEN A DA 1 A N7 DA 1 1_555 B DT 12 B N3 DT 6 1_555 hydrog HOOGSTEEN A DT 2 A N3 DT 2 1_555 B DA 11 B N7 DA 5 1_555 hydrog HOOGSTEEN A DT 2 A O4 DT 2 1_555 B DA 11 B N6 DA 5 1_555 hydrog HOOGSTEEN A DA 3 A N6 DA 3 1_555 B BRU 10 B O4 BRU 4 1_555 hydrog HOOGSTEEN A DA 3 A N7 DA 3 1_555 B BRU 10 B N3 BRU 4 1_555 hydrog HOOGSTEEN A BRU 4 A N3 BRU 4 1_555 B DA 9 B N7 DA 3 1_555 hydrog HOOGSTEEN A BRU 4 A O4 BRU 4 1_555 B DA 9 B N6 DA 3 1_555 hydrog HOOGSTEEN A DA 5 A N6 DA 5 1_555 B DT 8 B O4 DT 2 1_555 hydrog HOOGSTEEN A DA 5 A N7 DA 5 1_555 B DT 8 B N3 DT 2 1_555 hydrog HOOGSTEEN A DT 6 A N3 DT 6 1_555 B DA 7 B N7 DA 1 1_555 hydrog HOOGSTEEN A DT 6 A O4 DT 6 1_555 B DA 7 B N6 DA 1 1_555 hydrog HOOGSTEEN C DA 13 C N6 DA 1 1_555 D BRU 22 D O4 BRU 4 1_555 hydrog HOOGSTEEN C DA 13 C N7 DA 1 1_555 D BRU 22 D N3 BRU 4 1_555 hydrog DT-DA PAIR C DT 14 C O2 DT 2 1_555 C DA 17 C N6 DA 5 1_555 hydrog HOOGSTEEN C DT 14 C N3 DT 2 1_555 D DA 21 D N7 DA 3 1_555 hydrog HOOGSTEEN C DT 14 C O4 DT 2 1_555 D DA 21 D N6 DA 3 1_555 hydrog HOOGSTEEN C DA 15 C N6 DA 3 1_555 D DT 20 D O4 DT 2 1_555 hydrog HOOGSTEEN C DA 15 C N7 DA 3 1_555 D DT 20 D N3 DT 2 1_555 hydrog HOOGSTEEN C BRU 16 C N3 BRU 4 1_555 D DA 19 D N7 DA 1 1_555 hydrog HOOGSTEEN C BRU 16 C O4 BRU 4 1_555 D DA 19 D N6 DA 1 1_555 DNA DNA, DNA/RNA, NEW DNA STRUCTURE, HOOGSTEEN BASE PAIRING 1GQU PDB 1 1GQU 1 6 1GQU 1 6 1GQU A 1 1 6 7 12 1GQU 7 12 1GQU B 1 1 6 13 18 1GQU 13 18 1GQU C 1 1 6 19 24 1GQU 19 24 1GQU D 1 1 6 4 P 1 21 1