0.024643 0.014227 0.000000 0.000000 0.028455 0.000000 0.000000 0.000000 0.017811 0.00000 0.00000 0.00000 Kiliszek, A. Kierzek, R. Krzyzosiak, W.J. Rypniewski, W. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 18 90.00 90.00 120.00 40.580 40.580 56.144 C9 H14 N3 O8 P 323.197 y CYTIDINE-5'-MONOPHOSPHATE RNA linking C10 H14 N5 O8 P 363.221 y GUANOSINE-5'-MONOPHOSPHATE RNA linking H2 O 18.015 WATER non-polymer 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 R C N 12 N O N 13 R C N 14 N N N 15 N C N 16 N O N 17 N N N 18 N C N 19 N N N 20 N C N 21 N C 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 H N 35 N H N 36 N O N 37 N P N 38 N O N 39 N O N 40 N O N 41 N C N 42 R C N 43 N O N 44 S C N 45 N O N 46 R C N 47 N O N 48 R C Y 49 N N Y 50 N C Y 51 N N Y 52 N C N 53 N C N 54 N O N 55 N N N 56 N C N 57 N N 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 H N 74 N O N 75 N H N 76 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 N 24 N sing N 25 N sing N 26 N sing N 27 N doub N 28 N sing N 29 N doub N 30 N sing N 31 N sing N 32 N sing N 33 N sing N 34 N doub N 35 N sing N 36 N sing N 37 N sing N 38 N sing N 39 N doub 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 N 58 N sing N 59 N sing N 60 N sing Y 61 N sing Y 62 N sing Y 63 N doub N 64 N sing Y 65 N sing N 66 N sing Y 67 N doub N 68 N doub N 69 N sing N 70 N sing N 71 N sing N 72 N sing N 73 N doub N 74 N sing N 75 N sing N 76 N sing N 77 N sing N 78 N sing UK Nucleic Acids Res. NARHAD 0389 0305-1048 40 8155 8162 10.1093/nar/gks557 22718980 Crystallographic characterization of CCG repeats. 2012 10.2210/pdb4e59/pdb pdb_00004e59 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 100 1 CCD 2010-10-05 MARMOSAIC 225 mm CCD Si SINGLE WAVELENGTH M x-ray 1 0.9184 1.0 14.2 BESSY 0.9184 SYNCHROTRON BESSY BEAMLINE 14.2 2516.569 RNA duplex containing CCG repeats 2 syn polymer 18.015 water 16 nat water no no GCCGCCGC GCCGCCGC A,B polyribonucleotide n n n n n n n n 1 1.77 30.41 VAPOR DIFFUSION, HANGING DROP 5.6 magnesium acetate, MES and ammonium sulphate, pH 5.6, VAPOR DIFFUSION, HANGING DROP, temperature 303K 303 -3.491 1 19 A 1 B 5 -2.878 A_G1:C5_B 1 -14.140 -0.420 0.172 -0.453 -2.460 1 19 A 2 B 4 -3.431 A_C2:G4_B 2 -11.623 0.051 -0.093 -0.338 2.220 1 19 A 4 B 2 3.313 A_G4:C2_B 3 -9.655 -0.433 0.137 -0.129 3.252 1 19 A 5 B 1 -0.697 A_C5:G1_B 4 -14.000 0.270 -0.076 -0.268 3.066 37.871 A A 1 2 5.707 B B 5 4 3.249 3.697 -0.155 -1.685 AA_G1C2:G4C5_BB 1 1.778 -2.745 37.656 -3.056 0.460 4.828 64.742 A A 2 4 19.359 B B 4 2 6.047 20.444 -0.300 -3.425 AA_C2G4:C2G4_BB 2 -1.528 1.447 61.748 -4.673 0.170 2.877 35.340 A A 4 5 12.653 B B 2 1 3.244 7.619 0.217 -1.445 AA_G4C5:G1C2_BB 3 2.344 -3.892 34.457 -3.447 -0.029 pdbx_entity_src_syn software chem_comp_atom chem_comp_bond database_2 pdbx_initial_refinement_model repository Initial release Refinement description Source and taxonomy Data collection Database references Refinement description 1 0 2012-12-12 1 1 2017-11-15 1 2 2023-09-13 _pdbx_entity_src_syn.ncbi_taxonomy_id _pdbx_entity_src_syn.organism_scientific _software.name _database_2.pdbx_DOI _database_2.pdbx_database_accession Similar sequence but with an LNA nucleotide RCSB Y RCSB 2012-03-14 REL REL HOH water This sequence is a part of mRNA in humans 9606 Homo sapiens sample 4E58 PDB experimental model HOH 8 2 HOH HOH 101 A HOH 10 2 HOH HOH 102 A HOH 11 2 HOH HOH 103 A HOH 12 2 HOH HOH 104 A HOH 18 2 HOH HOH 105 A HOH 19 2 HOH HOH 106 A HOH 21 2 HOH HOH 107 A HOH 22 2 HOH HOH 108 A HOH 23 2 HOH HOH 109 A HOH 1 2 HOH HOH 101 B HOH 2 2 HOH HOH 102 B HOH 3 2 HOH HOH 103 B HOH 6 2 HOH HOH 104 B HOH 9 2 HOH HOH 105 B HOH 13 2 HOH HOH 106 B HOH 14 2 HOH HOH 107 B G 1 n 1 G 1 A C 2 n 2 C 2 A C 3 n 3 C 3 A G 4 n 4 G 4 A C 5 n 5 C 5 A C 6 n 6 C 6 A G 7 n 7 G 7 A C 8 n 8 C 8 A G 1 n 1 G 1 B C 2 n 2 C 2 B C 3 n 3 C 3 B G 4 n 4 G 4 B C 5 n 5 C 5 B C 6 n 6 C 6 B G 7 n 7 G 7 B C 8 n 8 C 8 B author_and_software_defined_assembly PISA 2 dimeric software_defined_assembly PISA 6 hexameric 570 -4 3060 3640 -46 7280 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 -0.5000000000 -0.8660254038 0.0000000000 0.8660254038 -0.5000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 2_555 -y,x-y,z crystal symmetry operation 0.0000000000 0.0000000000 0.0000000000 -0.5000000000 0.8660254038 0.0000000000 -0.8660254038 -0.5000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 3_555 -x+y,-x,z crystal symmetry operation 0.0000000000 0.0000000000 0.0000000000 1 A HOH 105 C HOH 1 A HOH 106 C HOH 1 B HOH 105 D HOH 1 B HOH 106 D HOH 1 A C5' C 8 A C5' C 8 1 Y 1 A C4' C 8 A C4' C 8 1 Y 1 A O4' C 8 A O4' C 8 1 Y 1 A C3' C 8 A C3' C 8 1 Y 1 A O3' C 8 A O3' C 8 1 Y 1 A C2' C 8 A C2' C 8 1 Y 1 A O2' C 8 A O2' C 8 1 Y 1 A C1' C 8 A C1' C 8 1 Y 1 A N1 C 8 A N1 C 8 1 Y 1 A C2 C 8 A C2 C 8 1 Y 1 A O2 C 8 A O2 C 8 1 Y 1 A N3 C 8 A N3 C 8 1 Y 1 A C4 C 8 A C4 C 8 1 Y 1 A N4 C 8 A N4 C 8 1 Y 1 A C5 C 8 A C5 C 8 1 Y 1 A C6 C 8 A C6 C 8 1 Y 1 B C5' C 8 B C5' C 8 1 Y 1 B C4' C 8 B C4' C 8 1 Y 1 B O4' C 8 B O4' C 8 1 Y 1 B C3' C 8 B C3' C 8 1 Y 1 B O3' C 8 B O3' C 8 1 Y 1 B C2' C 8 B C2' C 8 1 Y 1 B O2' C 8 B O2' C 8 1 Y 1 B C1' C 8 B C1' C 8 1 Y 1 B N1 C 8 B N1 C 8 1 Y 1 B C2 C 8 B C2 C 8 1 Y 1 B O2 C 8 B O2 C 8 1 Y 1 B N3 C 8 B N3 C 8 1 Y 1 B C4 C 8 B C4 C 8 1 Y 1 B N4 C 8 B N4 C 8 1 Y 1 B C5 C 8 B C5 C 8 1 Y 1 B C6 C 8 B C6 C 8 1 Y 1 -3.71 0.40 120.30 116.59 A A A C6 N1 C2 C C C 6 6 6 N 1 -4.29 0.70 121.90 117.61 A A A N3 C2 O2 C C C 6 6 6 N 27.79 4.8628 0.0000 -0.0000 4.8628 -0.0000 -9.7256 0.3035 0.2553 0.2570 0.2553 1.540 18.715 501 5073 5073 100.00 99.41 0.25 RANDOM 1 THROUGHOUT 1.99 MOLECULAR REPLACEMENT 30.22 0.16 0.50 4E58 ML FLAT BULK SOLVENT MODEL 63.918 0.458 1.540 18.715 16 316 0 300 0 0.010 332 1.290 516 13.993 164 0.076 70 0.015 14 0.3627 0.3411 1.6950 130 161 1270 100.00 1.54 20.00 4E59 5101 5101 0 0 0.040 1 26.14 4.3 99.9 1.54 1.57 2.06 262 0.711 1 3.8 100.0 data collection MAR345 phasing PHASER refinement PHENIX (phenix.refine: 1.7_650) data reduction HKL-2000 data scaling HKL-2000 Crystal structure of GCCGCCGC duplex 1 N N 1 N N 2 N N 2 N N hydrog WATSON-CRICK A G 1 A N1 G 1 1_555 B C 5 B N3 C 5 1_555 hydrog WATSON-CRICK A G 1 A N2 G 1 1_555 B C 5 B O2 C 5 1_555 hydrog WATSON-CRICK A G 1 A O6 G 1 1_555 B C 5 B N4 C 5 1_555 hydrog WATSON-CRICK A C 2 A N3 C 2 1_555 B G 4 B N1 G 4 1_555 hydrog WATSON-CRICK A C 2 A N4 C 2 1_555 B G 4 B O6 G 4 1_555 hydrog WATSON-CRICK A C 2 A O2 C 2 1_555 B G 4 B N2 G 4 1_555 hydrog WATSON-CRICK A G 4 A N1 G 4 1_555 B C 2 B N3 C 2 1_555 hydrog WATSON-CRICK A G 4 A N2 G 4 1_555 B C 2 B O2 C 2 1_555 hydrog WATSON-CRICK A G 4 A O6 G 4 1_555 B C 2 B N4 C 2 1_555 hydrog WATSON-CRICK A C 5 A N3 C 5 1_555 B G 1 B N1 G 1 1_555 hydrog WATSON-CRICK A C 5 A N4 C 5 1_555 B G 1 B O6 G 1 1_555 hydrog WATSON-CRICK A C 5 A O2 C 5 1_555 B G 1 B N2 G 1 1_555 RNA 3' slippery duplexes, X-linked mental retardation, Huntington's disease, myotonic dystrophy type 1, RNA, CCG repeats 4E59 PDB 1 1 4E59 GCCGCCGC 1 8 4E59 1 8 4E59 A 1 1 8 1 8 4E59 1 8 4E59 B 1 1 8 146 H 3