0.007999 0.000000 0.000000 0.000000 0.007999 0.000000 0.000000 0.000000 0.037052 0.00000 0.00000 0.00000 Zhang, H. Endrizzi, J.A. Shu, Y. Haque, F. Sauter, C. Guo, P. Chi, Y.-I. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 8 90.00 90.00 90.00 125.012 125.012 26.989 C10 H14 N5 O7 P 347.221 y ADENOSINE-5'-MONOPHOSPHATE RNA linking 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 Mn 2 54.938 MANGANESE (II) ION non-polymer C9 H13 N2 O9 P 324.181 y URIDINE-5'-MONOPHOSPHATE RNA linking 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 Y 14 N N Y 15 N C Y 16 N N Y 17 N C Y 18 N C N 19 N N Y 20 N N Y 21 N C Y 22 N N Y 23 N C 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 H N 37 N H N 38 N O N 39 N P N 40 N O N 41 N O N 42 N O N 43 N C N 44 R C N 45 N O N 46 S C N 47 N O N 48 R C N 49 N O N 50 R C N 51 N N N 52 N C N 53 N O N 54 N N N 55 N C N 56 N N N 57 N C N 58 N C 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 H N 71 N H N 72 N H N 73 N O N 74 N P N 75 N O N 76 N O N 77 N O N 78 N C N 79 R C N 80 N O N 81 S C N 82 N O N 83 R C N 84 N O N 85 R C Y 86 N N Y 87 N C Y 88 N N Y 89 N C N 90 N C N 91 N O N 92 N N N 93 N C N 94 N N N 95 N N Y 96 N C 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 H N 107 N H N 108 N H N 109 N H N 110 N H N 111 N O N 112 N H N 113 N H N 114 N MN N 115 N O N 116 N P N 117 N O N 118 N O N 119 N O N 120 N C N 121 R C N 122 N O N 123 S C N 124 N O N 125 R C N 126 N O N 127 R C N 128 N N N 129 N C N 130 N O N 131 N N N 132 N C N 133 N O N 134 N C N 135 N C N 136 N H N 137 N H N 138 N H N 139 N H N 140 N H N 141 N H N 142 N H N 143 N H N 144 N H N 145 N H N 146 N H N 147 N H N 148 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 Y 25 N sing Y 26 N sing Y 27 N doub N 28 N sing Y 29 N sing Y 30 N sing Y 31 N doub N 32 N sing Y 33 N doub N 34 N sing N 35 N sing Y 36 N sing Y 37 N doub N 38 N sing Y 39 N sing N 40 N sing N 41 N sing N 42 N doub 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 N 61 N sing N 62 N sing N 63 N sing N 64 N sing N 65 N sing N 66 N doub N 67 N sing 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 doub 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 sing N 99 N sing Y 100 N sing Y 101 N sing Y 102 N doub N 103 N sing Y 104 N sing N 105 N sing Y 106 N doub N 107 N doub N 108 N sing N 109 N sing N 110 N sing N 111 N sing N 112 N doub N 113 N sing N 114 N sing N 115 N sing N 116 N sing N 117 N sing N 118 N sing N 119 N sing N 120 N doub N 121 N sing N 122 N sing N 123 N sing N 124 N sing N 125 N sing N 126 N sing N 127 N sing N 128 N sing N 129 N sing N 130 N sing N 131 N sing N 132 N sing N 133 N sing N 134 N sing N 135 N sing N 136 N sing N 137 N sing N 138 N sing N 139 N sing N 140 N sing N 141 N sing N 142 N sing N 143 N sing N 144 N doub N 145 N sing N 146 N sing N 147 N sing N 148 N doub N 149 N sing N 150 N doub N 151 N sing N 152 N sing UK Rna RNARFU 2122 1355-8382 19 1226 1237 10.1261/rna.037077.112 23884902 Crystal structure of 3WJ core revealing divalent ion-promoted thermostability and assembly of the Phi29 hexameric motor pRNA. 2013 10.2210/pdb4kz2/pdb pdb_00004kz2 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 2012-04-21 MARMOSAIC 225 mm CCD Rosenbaum-Rock monochromator high-resolution double-crystal Si (111) sagittal focusing. Rosenbaum-Rock vertical focusing mirror. SINGLE WAVELENGTH M x-ray 1 0.98789 1.0 22-BM APS 0.98789 SYNCHROTRON APS BEAMLINE 22-BM 5783.419 phi29 pRNA 3WJ core RNA 18 mer 1 syn polymer 6241.711 phi29 pRNA 3WJ core RNA 20 mer 1 syn polymer 5145.144 phi29 pRNA 3WJ core RNA 16 mer 1 syn polymer 54.938 MANGANESE (II) ION 3 syn non-polymer 18.015 water 2 nat water no no UUGCCAUGUGUAUGUGGG UUGCCAUGUGUAUGUGGG A polyribonucleotide no no CCCACAUACUUUGUUGAUCC CCCACAUACUUUGUUGAUCC B polyribonucleotide no no GGAUCAAUCAUGGCAA GGAUCAAUCAUGGCAA C polyribonucleotide 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 n n n n n n n n n n n n n n n n n n n n 1 3.07 59.94 VAPOR DIFFUSION, HANGING DROP 4.6 100mM Sodium acetate, 24-26% MPD, 20mM CaCl2, 10mM MnCl2, pH 4.6, VAPOR DIFFUSION, HANGING DROP, temperature 295K 295 -6.428 1 20 A 1 C 16 -1.786 A_U1:A16_C 1 -12.825 0.334 -0.132 -0.116 7.279 1 20 A 2 C 15 5.587 A_U2:A15_C 2 -5.535 0.079 0.272 -0.112 3.706 1 19 A 3 C 14 2.224 A_G3:C14_C 3 -3.703 -0.310 -0.279 -0.140 7.813 1 A 4 C 13 10.792 A_C4:G13_C 4 -5.692 -0.407 -0.124 0.283 7.795 1 A 5 C 12 10.957 A_C5:G12_C 5 -6.704 -0.443 -0.255 0.294 -4.873 1 20 A 6 C 11 6.278 A_A6:U11_C 6 -9.609 -0.191 -0.219 -0.048 -15.694 1 20 A 7 C 10 9.457 A_U7:A10_C 7 -13.972 -0.052 0.334 0.098 -3.066 1 19 A 8 C 9 8.151 A_G8:C9_C 8 -5.689 0.185 0.157 0.176 0.438 1 28 B 13 C 8 -0.503 B_G13:U8_C 9 -10.285 -2.662 0.035 -0.721 1.107 1 20 B 14 C 7 7.262 B_U14:A7_C 10 -11.495 0.278 0.057 -0.105 -3.752 1 20 B 15 C 6 5.021 B_U15:A6_C 11 -4.320 -0.117 0.130 -0.058 -8.793 1 19 B 16 C 5 2.816 B_G16:C5_C 12 -9.703 0.064 -0.299 -0.072 -3.231 1 20 B 17 C 4 -0.078 B_A17:U4_C 13 -12.109 0.128 -0.102 -0.039 4.892 1 20 B 18 C 3 1.032 B_U18:A3_C 14 -15.524 -0.280 0.002 -0.109 0.191 1 19 B 19 C 2 -0.980 B_C19:G2_C 15 -12.540 0.359 0.160 -0.207 2.102 1 19 B 20 C 1 4.181 B_C20:G1_C 16 -12.472 0.152 0.233 -0.064 -10.227 1 16 A 9 B 10 14.101 A_U9:U10_B 17 -9.872 -2.708 0.103 -1.782 -11.398 1 19 A 10 B 9 2.616 A_G10:C9_B 18 -11.451 -0.602 -0.230 -0.136 -5.228 1 20 A 11 B 8 2.663 A_U11:A8_B 19 -2.310 0.104 0.280 -0.036 -0.140 1 20 A 12 B 7 -2.650 A_A12:U7_B 20 -10.788 0.062 0.178 -0.024 4.909 A 13 B 6 9.144 A_U13:A6_B 21 -23.240 0.970 0.241 0.200 -9.027 1 19 A 14 B 5 3.906 A_G14:C5_B 22 -5.941 0.587 0.075 -0.089 -4.450 1 20 A 15 B 4 1.465 A_U15:A4_B 23 -4.629 -0.101 0.173 -0.105 -3.440 1 19 A 16 B 3 2.279 A_G16:C3_B 24 -7.492 0.144 -0.070 -0.151 -11.354 1 19 A 17 B 2 2.432 A_G17:C2_B 25 -11.251 0.017 -0.148 -0.137 -21.191 1 19 A 18 B 1 -0.729 A_G18:C1_B 26 -13.579 0.583 -0.229 -0.099 2.334 31.437 A A 1 2 20.368 C C 16 15 2.977 10.784 0.537 -1.085 AA_U1U2:A15A16_CC 1 -4.486 8.473 29.238 -3.706 -1.700 2.374 30.848 A A 2 3 19.909 C C 15 14 3.121 10.388 -0.266 -1.685 AA_U2G3:C14A15_CC 2 1.563 -2.996 29.045 -4.920 0.763 2.760 31.065 A A 3 4 9.661 C C 14 13 3.127 5.147 0.577 -1.694 AA_G3C4:G13C14_CC 3 -2.379 4.465 30.555 -4.059 -1.491 2.590 29.880 A A 4 5 13.043 C C 13 12 3.076 6.670 -0.217 -1.861 AA_C4C5:G12G13_CC 4 0.686 -1.341 29.134 -4.825 0.545 2.700 33.423 A A 5 6 23.075 C C 12 11 3.463 12.942 -0.133 -1.343 AA_C5A6:U11G12_CC 5 -0.449 0.801 30.879 -4.438 0.158 2.665 35.220 A A 6 7 25.888 C C 11 10 3.510 15.165 0.354 -1.150 AA_A6U7:A10U11_CC 6 -2.780 4.745 31.763 -4.148 -0.996 1.593 33.828 A A 7 8 29.465 C C 10 9 2.667 16.450 0.005 -1.579 AA_U7G8:C9A10_CC 7 -1.433 2.566 29.627 -4.567 -0.170 1.869 21.829 A B 8 13 20.206 C C 9 8 2.938 7.498 -0.015 -2.624 AB_G8G13:U8C9_CC 8 0.803 -2.163 20.500 -9.152 0.278 3.043 45.480 B B 13 14 5.457 C C 8 7 3.174 4.213 0.276 -1.255 BB_G13U14:A7U8_CC 9 -1.286 1.666 45.278 -1.977 -0.465 2.519 31.891 B B 14 15 15.780 C C 7 6 3.170 8.563 0.234 -2.095 BB_U14U15:A6A7_CC 10 2.073 -3.819 30.680 -5.195 -0.092 3.175 30.933 B B 15 16 6.174 C C 6 5 3.450 3.277 -0.341 -1.747 BB_U15G16:C5A6_CC 11 4.177 -7.869 30.485 -3.923 1.463 2.913 28.009 B B 16 17 7.818 C C 5 4 3.162 3.772 -0.239 -1.725 BB_G16A17:U4C5_CC 12 -0.948 1.965 27.743 -4.397 0.285 3.046 29.054 B B 17 18 0.475 C C 4 3 3.062 0.238 0.134 -1.729 BB_A17U18:A3U4_CC 13 -0.472 0.941 29.050 -3.495 -0.365 3.151 34.682 B B 18 19 6.353 C C 3 2 3.331 3.779 -0.219 -1.591 BB_U18C19:G2A3_CC 14 -1.653 2.780 34.443 -3.246 0.115 2.509 33.551 B B 19 20 18.179 C C 2 1 3.128 10.293 0.740 -1.836 BB_C19C20:G1G2_CC 15 5.087 -8.984 31.579 -4.684 -0.540 3.074 41.694 A A 9 10 11.255 B B 10 9 3.319 7.962 -0.561 -0.840 AA_U9G10:C9U10_BB 16 2.352 -3.325 40.895 -2.009 1.032 2.678 33.014 A A 10 11 15.252 B B 9 8 3.089 8.564 -0.039 -1.200 AA_G10U11:A8C9_BB 17 -2.693 4.797 31.802 -3.417 -0.343 2.523 31.263 A A 11 12 16.241 B B 8 7 2.985 8.634 0.229 -1.331 AA_U11A12:U7A8_BB 18 2.551 -4.799 29.970 -3.877 -0.009 2.619 40.781 A A 12 13 18.379 B B 7 6 3.084 12.610 0.941 -1.224 AA_A12U13:A6U7_BB 19 1.891 -2.757 38.818 -3.002 -1.164 2.788 31.932 A A 13 14 16.724 B B 6 5 3.325 9.080 -0.462 -1.485 AA_U13G14:C5A6_BB 20 -0.436 0.803 30.644 -4.273 0.765 2.893 28.233 A A 14 15 7.970 B B 5 4 3.133 3.875 -0.223 -1.612 AA_G14U15:A4C5_BB 21 -0.896 1.844 27.957 -4.139 0.264 2.807 32.669 A A 15 16 14.319 B B 4 3 3.169 7.974 0.185 -1.162 AA_U15G16:C3A4_BB 22 1.711 -3.072 31.662 -3.348 -0.053 2.809 30.560 A A 16 17 13.659 B B 3 2 3.365 7.133 0.512 -2.142 AA_G16G17:C2C3_BB 23 1.600 -3.065 29.693 -5.418 -0.668 3.331 36.046 A A 17 18 5.829 B B 2 1 3.527 3.587 0.297 -1.908 AA_G17G18:C1C2_BB 24 5.735 -9.320 35.427 -3.621 0.381 atom_site atom_site_anisotrop database_2 pdbx_struct_conn_angle pdbx_unobs_or_zero_occ_atoms struct_conn struct_site chem_comp_atom chem_comp_bond pdbx_initial_refinement_model repository Initial release Advisory Atomic model Database references Derived calculations Data collection Refinement description 1 0 2013-10-16 2 0 2022-06-08 2 1 2024-02-28 2 2 2024-04-03 _database_2.pdbx_DOI _database_2.pdbx_database_accession _pdbx_struct_conn_angle.ptnr1_auth_asym_id _pdbx_struct_conn_angle.ptnr1_auth_comp_id _pdbx_struct_conn_angle.ptnr1_auth_seq_id _pdbx_struct_conn_angle.ptnr1_label_asym_id _pdbx_struct_conn_angle.ptnr1_label_atom_id _pdbx_struct_conn_angle.ptnr1_label_comp_id _pdbx_struct_conn_angle.ptnr1_label_seq_id _pdbx_struct_conn_angle.ptnr2_auth_asym_id _pdbx_struct_conn_angle.ptnr2_label_asym_id _pdbx_struct_conn_angle.ptnr3_auth_asym_id _pdbx_struct_conn_angle.ptnr3_auth_comp_id _pdbx_struct_conn_angle.ptnr3_auth_seq_id _pdbx_struct_conn_angle.ptnr3_label_asym_id _pdbx_struct_conn_angle.ptnr3_label_atom_id _pdbx_struct_conn_angle.ptnr3_label_comp_id _pdbx_struct_conn_angle.ptnr3_label_seq_id _pdbx_struct_conn_angle.value _struct_conn.pdbx_dist_value _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id RCSB Y RCSB 2013-05-29 REL REL MN MANGANESE (II) ION HOH water Chemically synthesized sample Chemically synthesized sample Chemically synthesized sample 7 base pair A-form double helix other MN 2 4 MN MN 101 A MN 3 4 MN MN 101 B MN 1 4 MN MN 101 C HOH 4 5 HOH HOH 201 A HOH 5 5 HOH HOH 202 A U 1 n 1 U 1 A U 2 n 2 U 2 A G 3 n 3 G 3 A C 4 n 4 C 4 A C 5 n 5 C 5 A A 6 n 6 A 6 A U 7 n 7 U 7 A G 8 n 8 G 8 A U 9 n 9 U 9 A G 10 n 10 G 10 A U 11 n 11 U 11 A A 12 n 12 A 12 A U 13 n 13 U 13 A G 14 n 14 G 14 A U 15 n 15 U 15 A G 16 n 16 G 16 A G 17 n 17 G 17 A G 18 n 18 G 18 A C 1 n 1 C 1 B C 2 n 2 C 2 B C 3 n 3 C 3 B A 4 n 4 A 4 B C 5 n 5 C 5 B A 6 n 6 A 6 B U 7 n 7 U 7 B A 8 n 8 A 8 B C 9 n 9 C 9 B U 10 n 10 U 10 B U 11 n 11 U 11 B U 12 n 12 U 12 B G 13 n 13 G 13 B U 14 n 14 U 14 B U 15 n 15 U 15 B G 16 n 16 G 16 B A 17 n 17 A 17 B U 18 n 18 U 18 B C 19 n 19 C 19 B C 20 n 20 C 20 B G 1 n 1 G 1 C G 2 n 2 G 2 C A 3 n 3 A 3 C U 4 n 4 U 4 C C 5 n 5 C 5 C A 6 n 6 A 6 C A 7 n 7 A 7 C U 8 n 8 U 8 C C 9 n 9 C 9 C A 10 n 10 A 10 C U 11 n 11 U 11 C G 12 n 12 G 12 C G 13 n 13 G 13 C C 14 n 14 C 14 C A 15 n 15 A 15 C A 16 n 16 A 16 C author_and_software_defined_assembly PISA 3 trimeric 3400 -28 9540 A G 3 A OP1 G 3 1_555 A MN 101 D MN MN 1_555 C A 7 C OP1 A 7 1_555 164.9 A C 4 A OP1 C 4 1_555 C MN 101 F MN MN 1_555 C A 6 C OP1 A 6 1_555 159.0 B C 20 B O3' C 20 1_555 B MN 101 E MN MN 1_555 B C 20 B O2' C 20 1_555 71.0 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 OP2 U 2 A OP2 U 2 1 Y 1 A OP2 G 3 A OP2 G 3 1 Y 1 A OP2 C 4 A OP2 C 4 1 Y 1 A OP2 C 5 A OP2 C 5 1 Y 1 A OP2 A 6 A OP2 A 6 1 Y 1 A OP2 U 7 A OP2 U 7 1 Y 1 A OP2 G 8 A OP2 G 8 1 Y 1 A OP2 U 9 A OP2 U 9 1 Y 1 A OP2 G 10 A OP2 G 10 1 Y 1 A OP2 U 11 A OP2 U 11 1 Y 1 A OP2 A 12 A OP2 A 12 1 Y 1 A OP2 U 13 A OP2 U 13 1 Y 1 A OP2 G 14 A OP2 G 14 1 Y 1 A OP2 U 15 A OP2 U 15 1 Y 1 A OP2 G 16 A OP2 G 16 1 Y 1 A OP2 G 17 A OP2 G 17 1 Y 1 A OP2 G 18 A OP2 G 18 1 Y 1 B OP2 C 2 B OP2 C 2 1 Y 1 B OP2 C 3 B OP2 C 3 1 Y 1 B OP2 A 4 B OP2 A 4 1 Y 1 B OP2 C 5 B OP2 C 5 1 Y 1 B OP2 A 6 B OP2 A 6 1 Y 1 B OP2 U 7 B OP2 U 7 1 Y 1 B OP2 A 8 B OP2 A 8 1 Y 1 B OP2 C 9 B OP2 C 9 1 Y 1 B OP2 U 10 B OP2 U 10 1 Y 1 B OP2 U 11 B OP2 U 11 1 Y 1 B OP2 U 12 B OP2 U 12 1 Y 1 B OP2 G 13 B OP2 G 13 1 Y 1 B OP2 U 14 B OP2 U 14 1 Y 1 B OP2 U 15 B OP2 U 15 1 Y 1 B OP2 G 16 B OP2 G 16 1 Y 1 B OP2 A 17 B OP2 A 17 1 Y 1 B OP2 U 18 B OP2 U 18 1 Y 1 B OP2 C 19 B OP2 C 19 1 Y 1 B OP2 C 20 B OP2 C 20 1 Y 1 C OP2 G 2 C OP2 G 2 1 Y 1 C OP2 A 3 C OP2 A 3 1 Y 1 C OP2 U 4 C OP2 U 4 1 Y 1 C OP2 C 5 C OP2 C 5 1 Y 1 C OP2 A 6 C OP2 A 6 1 Y 1 C OP2 A 7 C OP2 A 7 1 Y 1 C OP2 U 8 C OP2 U 8 1 Y 1 C OP2 C 9 C OP2 C 9 1 Y 1 C OP2 A 10 C OP2 A 10 1 Y 1 C OP2 U 11 C OP2 U 11 1 Y 1 C OP2 G 12 C OP2 G 12 1 Y 1 C OP2 G 13 C OP2 G 13 1 Y 1 C OP2 C 14 C OP2 C 14 1 Y 1 C OP2 A 15 C OP2 A 15 1 Y 1 C OP2 A 16 C OP2 A 16 1 Y 0.197 0.197 0.182 3.05 30.0 215 4203 4201 RANDOM 1 3 MOLECULAR REPLACEMENT 7 base-pair A-form helix 3.05 30.0 2 1139 3 1134 0 75.2 3.05 88.40 4KZ2 4217 4203 1.0 1.0 0.088 0.088 1 30.3 10.0 99.68 data collection HKL-2000 model building PHENIX refinement PHENIX data reduction HKL-2000 data scaling HKL-2000 phasing PHENIX Crystal Structure of phi29 pRNA 3WJ Core 1 N N 2 N N 3 N N 4 N N 4 N N 4 N N 5 N N metalc 2.353 A G 3 A OP1 G 3 1_555 A MN 101 D MN MN 1_555 metalc 2.334 A C 4 A OP1 C 4 1_555 C MN 101 F MN MN 1_555 metalc 2.338 A MN 101 D MN MN 1_555 C A 7 C OP1 A 7 1_555 metalc 2.042 B C 20 B O3' C 20 1_555 B MN 101 E MN MN 1_555 metalc 2.661 B C 20 B O2' C 20 1_555 B MN 101 E MN MN 1_555 metalc 2.165 C A 6 C OP1 A 6 1_555 C MN 101 F MN MN 1_555 hydrog WATSON-CRICK A U 1 A N3 U 1 1_555 C A 16 C N1 A 16 1_555 hydrog WATSON-CRICK A U 1 A O4 U 1 1_555 C A 16 C N6 A 16 1_555 hydrog WATSON-CRICK A U 2 A N3 U 2 1_555 C A 15 C N1 A 15 1_555 hydrog WATSON-CRICK A U 2 A O4 U 2 1_555 C A 15 C N6 A 15 1_555 hydrog WATSON-CRICK A G 3 A N1 G 3 1_555 C C 14 C N3 C 14 1_555 hydrog WATSON-CRICK A G 3 A N2 G 3 1_555 C C 14 C O2 C 14 1_555 hydrog WATSON-CRICK A G 3 A O6 G 3 1_555 C C 14 C N4 C 14 1_555 hydrog C-G PAIR A C 4 A O2 C 4 1_555 C G 13 C N2 G 13 1_555 hydrog C-G PAIR A C 5 A O2 C 5 1_555 C G 12 C N2 G 12 1_555 hydrog WATSON-CRICK A A 6 A N1 A 6 1_555 C U 11 C N3 U 11 1_555 hydrog WATSON-CRICK A A 6 A N6 A 6 1_555 C U 11 C O4 U 11 1_555 hydrog WATSON-CRICK A U 7 A N3 U 7 1_555 C A 10 C N1 A 10 1_555 hydrog WATSON-CRICK A U 7 A O4 U 7 1_555 C A 10 C N6 A 10 1_555 hydrog WATSON-CRICK A G 8 A N1 G 8 1_555 C C 9 C N3 C 9 1_555 hydrog WATSON-CRICK A G 8 A N2 G 8 1_555 C C 9 C O2 C 9 1_555 hydrog WATSON-CRICK A G 8 A O6 G 8 1_555 C C 9 C N4 C 9 1_555 hydrog TYPE_16_PAIR A U 9 A N3 U 9 1_555 B U 10 B O2 U 10 1_555 hydrog TYPE_16_PAIR A U 9 A O4 U 9 1_555 B U 10 B N3 U 10 1_555 hydrog WATSON-CRICK A G 10 A N1 G 10 1_555 B C 9 B N3 C 9 1_555 hydrog WATSON-CRICK A G 10 A N2 G 10 1_555 B C 9 B O2 C 9 1_555 hydrog WATSON-CRICK A G 10 A O6 G 10 1_555 B C 9 B N4 C 9 1_555 hydrog WATSON-CRICK A U 11 A N3 U 11 1_555 B A 8 B N1 A 8 1_555 hydrog WATSON-CRICK A U 11 A O4 U 11 1_555 B A 8 B N6 A 8 1_555 hydrog WATSON-CRICK A A 12 A N1 A 12 1_555 B U 7 B N3 U 7 1_555 hydrog WATSON-CRICK A A 12 A N6 A 12 1_555 B U 7 B O4 U 7 1_555 hydrog U-A PAIR A U 13 A N3 U 13 1_555 B A 6 B N1 A 6 1_555 hydrog WATSON-CRICK A G 14 A N1 G 14 1_555 B C 5 B N3 C 5 1_555 hydrog WATSON-CRICK A G 14 A N2 G 14 1_555 B C 5 B O2 C 5 1_555 hydrog WATSON-CRICK A G 14 A O6 G 14 1_555 B C 5 B N4 C 5 1_555 hydrog WATSON-CRICK A U 15 A N3 U 15 1_555 B A 4 B N1 A 4 1_555 hydrog WATSON-CRICK A U 15 A O4 U 15 1_555 B A 4 B N6 A 4 1_555 hydrog WATSON-CRICK A G 16 A N1 G 16 1_555 B C 3 B N3 C 3 1_555 hydrog WATSON-CRICK A G 16 A N2 G 16 1_555 B C 3 B O2 C 3 1_555 hydrog WATSON-CRICK A G 16 A O6 G 16 1_555 B C 3 B N4 C 3 1_555 hydrog WATSON-CRICK A G 17 A N1 G 17 1_555 B C 2 B N3 C 2 1_555 hydrog WATSON-CRICK A G 17 A N2 G 17 1_555 B C 2 B O2 C 2 1_555 hydrog WATSON-CRICK A G 17 A O6 G 17 1_555 B C 2 B N4 C 2 1_555 hydrog WATSON-CRICK A G 18 A N1 G 18 1_555 B C 1 B N3 C 1 1_555 hydrog WATSON-CRICK A G 18 A N2 G 18 1_555 B C 1 B O2 C 1 1_555 hydrog WATSON-CRICK A G 18 A O6 G 18 1_555 B C 1 B N4 C 1 1_555 hydrog TYPE_28_PAIR B G 13 B N1 G 13 1_555 C U 8 C O2 U 8 1_555 hydrog TYPE_28_PAIR B G 13 B O6 G 13 1_555 C U 8 C N3 U 8 1_555 hydrog WATSON-CRICK B U 14 B N3 U 14 1_555 C A 7 C N1 A 7 1_555 hydrog WATSON-CRICK B U 14 B O4 U 14 1_555 C A 7 C N6 A 7 1_555 hydrog WATSON-CRICK B U 15 B N3 U 15 1_555 C A 6 C N1 A 6 1_555 hydrog WATSON-CRICK B U 15 B O4 U 15 1_555 C A 6 C N6 A 6 1_555 hydrog WATSON-CRICK B G 16 B N1 G 16 1_555 C C 5 C N3 C 5 1_555 hydrog WATSON-CRICK B G 16 B N2 G 16 1_555 C C 5 C O2 C 5 1_555 hydrog WATSON-CRICK B G 16 B O6 G 16 1_555 C C 5 C N4 C 5 1_555 hydrog WATSON-CRICK B A 17 B N1 A 17 1_555 C U 4 C N3 U 4 1_555 hydrog WATSON-CRICK B A 17 B N6 A 17 1_555 C U 4 C O4 U 4 1_555 hydrog WATSON-CRICK B U 18 B N3 U 18 1_555 C A 3 C N1 A 3 1_555 hydrog WATSON-CRICK B U 18 B O4 U 18 1_555 C A 3 C N6 A 3 1_555 hydrog WATSON-CRICK B C 19 B N3 C 19 1_555 C G 2 C N1 G 2 1_555 hydrog WATSON-CRICK B C 19 B N4 C 19 1_555 C G 2 C O6 G 2 1_555 hydrog WATSON-CRICK B C 19 B O2 C 19 1_555 C G 2 C N2 G 2 1_555 hydrog WATSON-CRICK B C 20 B N3 C 20 1_555 C G 1 C N1 G 1 1_555 hydrog WATSON-CRICK B C 20 B N4 C 20 1_555 C G 1 C O6 G 1 1_555 hydrog WATSON-CRICK B C 20 B O2 C 20 1_555 C G 1 C N2 G 1 1_555 RNA phi29 DNA packaging motor pRNA core element, RNA 4KZ2 PDB 1 4KZ2 UUGCCAUGUGUAUGUGGG 4KZ2 PDB 2 4KZ2 CCCACAUACUUUGUUGAUCC 4KZ2 PDB 3 4KZ2 GGAUCAAUCAUGGCAA 1 18 4KZ2 1 18 4KZ2 A 1 1 18 1 20 4KZ2 1 20 4KZ2 B 2 1 20 1 16 4KZ2 1 16 4KZ2 C 3 1 16 BINDING SITE FOR RESIDUE MN A 101 A MN 101 Software 3 BINDING SITE FOR RESIDUE MN B 101 B MN 101 Software 1 BINDING SITE FOR RESIDUE MN C 101 C MN 101 Software 4 A G 3 A G 3 3 1_555 B C 19 B C 19 3 6_554 C A 7 C A 7 3 1_555 B C 20 B C 20 1 1_555 A C 4 A C 4 4 1_555 A G 18 A G 18 4 3_655 B C 20 B C 20 4 6_554 C A 6 C A 6 4 1_555 79 I 4