**************************************************************************** Note: By default, each nucleotide/amino-acid is identified by chainId.name#. For example, B.DA1689 means adenosine #1689 on chain B, and C.ARG49 denotes arginine #49 on chain C. Use the --idstr=long option to get strictly delineated id strings. Command: x3dna-dssr snap -i=/data/pdb/pdbfiles/5gse.pdb -o=5gse.out --type=base File name: 5gse.pdb no. of peptide chains: 14 [A=96,B=82,C=102,D=92,E=97,F=79,G=109,H=91,K=88,L=69,M=106,N=93,O=96,P=81] no. of DNA/RNA chains: 2 [I=245,J=245] no. of amino acids: 1281 no. of nucleotides: 490 no. of atoms: 20244 no. of waters: 0 no. of metals: 0 **************************************************************************** List of 1 type of 3 modified nucleotides nt count list 1 5CM-c 3 I.5CM27,I.5CM130,J.5CM222 **************************************************************************** List of 2 helices Note: a helix is defined by base-stacking interactions, regardless of bp type and backbone connectivity, and may contain more than one stem. helix#number[stems-contained] bps=number-of-base-pairs in the helix bp-type: '|' for a canonical WC/wobble pair, '.' otherwise helix-form: classification of a dinucleotide step comprising the bp above the given designation and the bp that follows it. Types include 'A', 'B' or 'Z' for the common A-, B- and Z-form helices, '.' for an unclassified step, and 'x' for a step without a continuous backbone. -------------------------------------------------------------------- helix#1[0] bps=130 strand-1 5'-ATCGGATGTATATATCTGACACGTGCcTGGAGACTAGGGAGTAATCCCCTTGGCGGTTAAAACGCGGGGGACAGCGCGTACGTGCGTTTAAGCGGTGCTAGAGCTGTCTACGACCAATTGAGCTCGAGCc-3' bp-type |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| strand-2 3'-TAGCCTACATATATAGACTGTGCACGGAcCTCTGATCCCTCATTAGGGGAACCGCCAATTTTGCGCCCCCTGTCGCGCATGCACGCAAATTCGCCACGATCTCGACAGATGCTGGTTAACTCGAGCTCGG-5' helix-form BBBBB.BBBB..BBBB..BB.BBBBB..BBBBBBBBB.BBBBBBBBBBB.B..BBB..BBBBBBBBBBBBBBBBBBBB.BBBBBBBBB...BB...BB......BBBB.BB..BBBBBB......BBB. 1 I.DA1 J.DT250 A-T WC 20-XX cWW cW-W 2 I.DT2 J.DA249 T-A WC 20-XX cWW cW-W 3 I.DC3 J.DG248 C-G WC 19-XIX cWW cW-W 4 I.DG4 J.DC247 G-C WC 19-XIX cWW cW-W 5 I.DG5 J.DC246 G-C WC 19-XIX cWW cW-W 6 I.DA6 J.DT245 A-T WC 20-XX cWW cW-W 7 I.DT7 J.DA244 T-A WC 20-XX cWW cW-W 8 I.DG8 J.DC243 G-C WC 19-XIX cWW cW-W 9 I.DT9 J.DA242 T-A WC 20-XX cWW cW-W 10 I.DA10 J.DT241 A-T WC 20-XX cWW cW-W 11 I.DT11 J.DA240 T-A WC 20-XX cWW cW-W 12 I.DA12 J.DT239 A-T WC 20-XX cWW cW-W 13 I.DT13 J.DA238 T-A WC 20-XX cWW cW-W 14 I.DA14 J.DT237 A-T WC 20-XX cWW cW-W 15 I.DT15 J.DA236 T-A WC 20-XX cWW cW-W 16 I.DC16 J.DG235 C-G WC 19-XIX cWW cW-W 17 I.DT17 J.DA234 T-A WC 20-XX cWW cW-W 18 I.DG18 J.DC233 G-C WC 19-XIX cWW cW-W 19 I.DA19 J.DT232 A-T WC 20-XX cWW cW-W 20 I.DC20 J.DG231 C-G WC 19-XIX cWW cW-W 21 I.DA21 J.DT230 A-T WC 20-XX cWW cW-W 22 I.DC22 J.DG229 C-G WC 19-XIX cWW cW-W 23 I.DG23 J.DC228 G-C WC 19-XIX cWW cW-W 24 I.DT24 J.DA227 T-A WC 20-XX cWW cW-W 25 I.DG25 J.DC226 G-C WC 19-XIX cWW cW-W 26 I.DC26 J.DG225 C-G WC 19-XIX cWW cW-W 27 I.5CM27 J.DG224 c-G WC 19-XIX cWW cW-W 28 I.DT28 J.DA223 T-A WC 20-XX cWW cW-W 29 I.DG29 J.5CM222 G-c WC 19-XIX cWW cW-W 30 I.DG30 J.DC221 G-C WC 19-XIX cWW cW-W 31 I.DA31 J.DT220 A-T WC 20-XX cWW cW-W 32 I.DG32 J.DC219 G-C WC 19-XIX cWW cW-W 33 I.DA33 J.DT218 A-T WC 20-XX cWW cW-W 34 I.DC34 J.DG217 C-G WC 19-XIX cWW cW-W 35 I.DT35 J.DA216 T-A WC 20-XX cWW cW-W 36 I.DA36 J.DT215 A-T WC 20-XX cWW cW-W 37 I.DG37 J.DC214 G-C WC 19-XIX cWW cW-W 38 I.DG38 J.DC213 G-C WC 19-XIX cWW cW-W 39 I.DG39 J.DC212 G-C WC 19-XIX cWW cW-W 40 I.DA40 J.DT211 A-T WC 20-XX cWW cW-W 41 I.DG41 J.DC210 G-C WC 19-XIX cWW cW-W 42 I.DT42 J.DA209 T-A WC 20-XX cWW cW-W 43 I.DA43 J.DT208 A-T WC 20-XX cWW cW-W 44 I.DA44 J.DT207 A-T WC 20-XX cWW cW-W 45 I.DT45 J.DA206 T-A WC 20-XX cWW cW-W 46 I.DC46 J.DG205 C-G WC 19-XIX cWW cW-W 47 I.DC47 J.DG204 C-G WC 19-XIX cWW cW-W 48 I.DC48 J.DG203 C-G WC 19-XIX cWW cW-W 49 I.DC49 J.DG202 C-G WC 19-XIX cWW cW-W 50 I.DT50 J.DA201 T-A WC 20-XX cWW cW-W 51 I.DT51 J.DA200 T-A WC 20-XX cWW cW-W 52 I.DG52 J.DC199 G-C WC 19-XIX cWW cW-W 53 I.DG53 J.DC198 G-C WC 19-XIX cWW cW-W 54 I.DC54 J.DG197 C-G WC 19-XIX cWW cW-W 55 I.DG55 J.DC196 G-C WC 19-XIX cWW cW-W 56 I.DG56 J.DC195 G-C WC 19-XIX cWW cW-W 57 I.DT57 J.DA194 T-A WC 20-XX cWW cW-W 58 I.DT58 J.DA193 T-A WC 20-XX cWW cW-W 59 I.DA59 J.DT192 A-T WC 20-XX cWW cW-W 60 I.DA60 J.DT191 A-T WC 20-XX cWW cW-W 61 I.DA61 J.DT190 A-T WC 20-XX cWW cW-W 62 I.DA62 J.DT189 A-T WC 20-XX cWW cW-W 63 I.DC63 J.DG188 C-G WC 19-XIX cWW cW-W 64 I.DG64 J.DC187 G-C WC 19-XIX cWW cW-W 65 I.DC65 J.DG186 C-G WC 19-XIX cWW cW-W 66 I.DG66 J.DC185 G-C WC 19-XIX cWW cW-W 67 I.DG67 J.DC184 G-C WC 19-XIX cWW cW-W 68 I.DG68 J.DC183 G-C WC 19-XIX cWW cW-W 69 I.DG69 J.DC182 G-C WC 19-XIX cWW cW-W 70 I.DG70 J.DC181 G-C WC 19-XIX cWW cW-W 71 I.DA71 J.DT180 A-T WC 20-XX cWW cW-W 72 I.DC72 J.DG179 C-G WC 19-XIX cWW cW-W 73 I.DA73 J.DT178 A-T WC 20-XX cWW cW-W 74 I.DG74 J.DC177 G-C WC 19-XIX cWW cW-W 75 I.DC75 J.DG176 C-G WC 19-XIX cWW cW-W 76 I.DG76 J.DC175 G-C WC 19-XIX cWW cW-W 77 I.DC77 J.DG174 C-G WC 19-XIX cWW cW-W 78 I.DG78 J.DC173 G-C WC 19-XIX cWW cW-W 79 I.DT79 J.DA172 T-A WC 20-XX cWW cW-W 80 I.DA80 J.DT171 A-T WC 20-XX cWW cW-W 81 I.DC81 J.DG170 C-G WC 19-XIX cWW cW-W 82 I.DG82 J.DC169 G-C WC 19-XIX cWW cW-W 83 I.DT83 J.DA168 T-A WC 20-XX cWW cW-W 84 I.DG84 J.DC167 G-C WC 19-XIX cWW cW-W 85 I.DC85 J.DG166 C-G WC 19-XIX cWW cW-W 86 I.DG86 J.DC165 G-C WC 19-XIX cWW cW-W 87 I.DT87 J.DA164 T-A WC 20-XX cWW cW-W 88 I.DT88 J.DA163 T-A WC 20-XX cWW cW-W 89 I.DT89 J.DA162 T-A WC 20-XX cWW cW-W 90 I.DA90 J.DT161 A-T WC 20-XX cWW cW-W 91 I.DA91 J.DT160 A-T WC 20-XX cWW cW-W 92 I.DG92 J.DC159 G-C WC 19-XIX cWW cW-W 93 I.DC93 J.DG158 C-G WC 19-XIX cWW cW-W 94 I.DG94 J.DC157 G-C WC 19-XIX cWW cW-W 95 I.DG95 J.DC156 G-C WC 19-XIX cWW cW-W 96 I.DT96 J.DA155 T-A WC 20-XX cWW cW-W 97 I.DG97 J.DC154 G-C WC 19-XIX cWW cW-W 98 I.DC98 J.DG153 C-G WC 19-XIX cWW cW-W 99 I.DT99 J.DA152 T-A WC 20-XX cWW cW-W 100 I.DA100 J.DT151 A-T WC 20-XX cWW cW-W 101 I.DG101 J.DC150 G-C WC 19-XIX cWW cW-W 102 I.DA102 J.DT149 A-T WC 20-XX cWW cW-W 103 I.DG103 J.DC148 G-C WC 19-XIX cWW cW-W 104 I.DC104 J.DG147 C-G WC 19-XIX cWW cW-W 105 I.DT105 J.DA146 T-A WC 20-XX cWW cW-W 106 I.DG106 J.DC145 G-C WC 19-XIX cWW cW-W 107 I.DT107 J.DA144 T-A WC 20-XX cWW cW-W 108 I.DC108 J.DG143 C-G WC 19-XIX cWW cW-W 109 I.DT109 J.DA142 T-A WC 20-XX cWW cW-W 110 I.DA110 J.DT141 A-T WC 20-XX cWW cW-W 111 I.DC111 J.DG140 C-G WC 19-XIX cWW cW-W 112 I.DG112 J.DC139 G-C WC 19-XIX cWW cW-W 113 I.DA113 J.DT138 A-T WC 20-XX cWW cW-W 114 I.DC114 J.DG137 C-G WC 19-XIX cWW cW-W 115 I.DC115 J.DG136 C-G WC 19-XIX cWW cW-W 116 I.DA116 J.DT135 A-T WC 20-XX cWW cW-W 117 I.DA117 J.DT134 A-T WC 20-XX cWW cW-W 118 I.DT118 J.DA133 T-A WC 20-XX cWW cW-W 119 I.DT119 J.DA132 T-A WC 20-XX cWW cW-W 120 I.DG120 J.DC131 G-C WC 19-XIX cWW cW-W 121 I.DA121 J.DT130 A-T WC 20-XX cWW cW-W 122 I.DG122 J.DC129 G-C WC 19-XIX cWW cW-W 123 I.DC123 J.DG128 C-G WC 19-XIX cWW cW-W 124 I.DT124 J.DA127 T-A WC 20-XX cWW cW-W 125 I.DC125 J.DG126 C-G WC 19-XIX cWW cW-W 126 I.DG126 J.DC125 G-C WC 19-XIX cWW cW-W 127 I.DA127 J.DT124 A-T WC 20-XX cWW cW-W 128 I.DG128 J.DC123 G-C WC 19-XIX cWW cW-W 129 I.DC129 J.DG122 C-G WC 19-XIX cWW cW-W 130 I.5CM130 J.DG121 c-G WC 19-XIX cWW cW-W -------------------------------------------------------------------------- helix#2[0] bps=115 strand-1 5'-ACTAGGGAGTAATCCCCTTGGCGGTTAAAACGCGGGGGACAGCGCGTACGTGCGTTTAAGCGGTGCTAGAGCTGTCTACGACCAATTGAGCGGCCTCGGCACCGGGATTCTCGAT-3' bp-type ||.|||||.|||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| strand-2 3'-TGATCCCTCATTAGGGGAACCGCCAATTTTGCGCCCCCTGTCGCGCATGCACGCAAATTCGCCACGATCTCGACAGATGCTGGTTAACTCGCCGGAGCCGTGGCCCTAAGAGCTA-5' helix-form ...BBBB..BBBBBBBB....BBBB.BBBBBBBBBBBBBBBBBBBBBBBBBBBBBB...BB..BBB...BBBBBBB.BB..BBBBB..BBBBBBBB..BBBBBBBBBB.BBBB. 1 I.DA136 J.DT115 A-T WC 20-XX cWW cW-W 2 I.DC137 J.DG114 C-G WC 19-XIX cWW cW-W 3 I.DT138 J.DA113 T-A -- -- cWW cW-W 4 I.DA139 J.DT112 A-T WC 20-XX cWW cW-W 5 I.DG140 J.DC111 G-C WC 19-XIX cWW cW-W 6 I.DG141 J.DC110 G-C WC 19-XIX cWW cW-W 7 I.DG142 J.DC109 G-C WC 19-XIX cWW cW-W 8 I.DA143 J.DT108 A-T WC 20-XX cWW cW-W 9 I.DG144 J.DC107 G+C -- -- cWH cW+M 10 I.DT145 J.DA106 T-A WC 20-XX cWW cW-W 11 I.DA146 J.DT105 A-T WC 20-XX cWW cW-W 12 I.DA147 J.DT104 A-T WC 20-XX cWW cW-W 13 I.DT148 J.DA103 T-A WC 20-XX cWW cW-W 14 I.DC149 J.DG102 C-G WC 19-XIX cWW cW-W 15 I.DC150 J.DG101 C-G WC 19-XIX cWW cW-W 16 I.DC151 J.DG100 C-G WC 19-XIX cWW cW-W 17 I.DC152 J.DG99 C-G WC 19-XIX cWW cW-W 18 I.DT153 J.DA98 T-A WC 20-XX cWW cW-W 19 I.DT154 J.DA97 T-A WC 20-XX cWW cW-W 20 I.DG155 J.DC96 G-C WC 19-XIX cWW cW-W 21 I.DG156 J.DC95 G-C WC 19-XIX cWW cW-W 22 I.DC157 J.DG94 C-G WC 19-XIX cWW cW-W 23 I.DG158 J.DC93 G-C WC 19-XIX cWW cW-W 24 I.DG159 J.DC92 G-C WC 19-XIX cWW cW-W 25 I.DT160 J.DA91 T-A WC 20-XX cWW cW-W 26 I.DT161 J.DA90 T-A WC 20-XX cWW cW-W 27 I.DA162 J.DT89 A-T WC 20-XX cWW cW-W 28 I.DA163 J.DT88 A-T WC 20-XX cWW cW-W 29 I.DA164 J.DT87 A-T WC 20-XX cWW cW-W 30 I.DA165 J.DT86 A-T WC 20-XX cWW cW-W 31 I.DC166 J.DG85 C-G WC 19-XIX cWW cW-W 32 I.DG167 J.DC84 G-C WC 19-XIX cWW cW-W 33 I.DC168 J.DG83 C-G WC 19-XIX cWW cW-W 34 I.DG169 J.DC82 G-C WC 19-XIX cWW cW-W 35 I.DG170 J.DC81 G-C WC 19-XIX cWW cW-W 36 I.DG171 J.DC80 G-C WC 19-XIX cWW cW-W 37 I.DG172 J.DC79 G-C WC 19-XIX cWW cW-W 38 I.DG173 J.DC78 G-C WC 19-XIX cWW cW-W 39 I.DA174 J.DT77 A-T WC 20-XX cWW cW-W 40 I.DC175 J.DG76 C-G WC 19-XIX cWW cW-W 41 I.DA176 J.DT75 A-T WC 20-XX cWW cW-W 42 I.DG177 J.DC74 G-C WC 19-XIX cWW cW-W 43 I.DC178 J.DG73 C-G WC 19-XIX cWW cW-W 44 I.DG179 J.DC72 G-C WC 19-XIX cWW cW-W 45 I.DC180 J.DG71 C-G WC 19-XIX cWW cW-W 46 I.DG181 J.DC70 G-C WC 19-XIX cWW cW-W 47 I.DT182 J.DA69 T-A WC 20-XX cWW cW-W 48 I.DA183 J.DT68 A-T WC 20-XX cWW cW-W 49 I.DC184 J.DG67 C-G WC 19-XIX cWW cW-W 50 I.DG185 J.DC66 G-C WC 19-XIX cWW cW-W 51 I.DT186 J.DA65 T-A WC 20-XX cWW cW-W 52 I.DG187 J.DC64 G-C WC 19-XIX cWW cW-W 53 I.DC188 J.DG63 C-G WC 19-XIX cWW cW-W 54 I.DG189 J.DC62 G-C WC 19-XIX cWW cW-W 55 I.DT190 J.DA61 T-A WC 20-XX cWW cW-W 56 I.DT191 J.DA60 T-A WC 20-XX cWW cW-W 57 I.DT192 J.DA59 T-A WC 20-XX cWW cW-W 58 I.DA193 J.DT58 A-T WC 20-XX cWW cW-W 59 I.DA194 J.DT57 A-T WC 20-XX cWW cW-W 60 I.DG195 J.DC56 G-C WC 19-XIX cWW cW-W 61 I.DC196 J.DG55 C-G WC 19-XIX cWW cW-W 62 I.DG197 J.DC54 G-C WC 19-XIX cWW cW-W 63 I.DG198 J.DC53 G-C WC 19-XIX cWW cW-W 64 I.DT199 J.DA52 T-A WC 20-XX cWW cW-W 65 I.DG200 J.DC51 G-C WC 19-XIX cWW cW-W 66 I.DC201 J.DG50 C-G WC 19-XIX cWW cW-W 67 I.DT202 J.DA49 T-A WC 20-XX cWW cW-W 68 I.DA203 J.DT48 A-T WC 20-XX cWW cW-W 69 I.DG204 J.DC47 G-C WC 19-XIX cWW cW-W 70 I.DA205 J.DT46 A-T WC 20-XX cWW cW-W 71 I.DG206 J.DC45 G-C WC 19-XIX cWW cW-W 72 I.DC207 J.DG44 C-G WC 19-XIX cWW cW-W 73 I.DT208 J.DA43 T-A WC 20-XX cWW cW-W 74 I.DG209 J.DC42 G-C WC 19-XIX cWW cW-W 75 I.DT210 J.DA41 T-A WC 20-XX cWW cW-W 76 I.DC211 J.DG40 C-G WC 19-XIX cWW cW-W 77 I.DT212 J.DA39 T-A WC 20-XX cWW cW-W 78 I.DA213 J.DT38 A-T WC 20-XX cWW cW-W 79 I.DC214 J.DG37 C-G WC 19-XIX cWW cW-W 80 I.DG215 J.DC36 G-C WC 19-XIX cWW cW-W 81 I.DA216 J.DT35 A-T WC 20-XX cWW cW-W 82 I.DC217 J.DG34 C-G WC 19-XIX cWW cW-W 83 I.DC218 J.DG33 C-G WC 19-XIX cWW cW-W 84 I.DA219 J.DT32 A-T WC 20-XX cWW cW-W 85 I.DA220 J.DT31 A-T WC 20-XX cWW cW-W 86 I.DT221 J.DA30 T-A WC 20-XX cWW cW-W 87 I.DT222 J.DA29 T-A WC 20-XX cWW cW-W 88 I.DG223 J.DC28 G-C WC 19-XIX cWW cW-W 89 I.DA224 J.DT27 A-T WC 20-XX cWW cW-W 90 I.DG225 J.DC26 G-C WC 19-XIX cWW cW-W 91 I.DC226 J.DG25 C-G WC 19-XIX cWW cW-W 92 I.DG227 J.DC24 G-C WC 19-XIX cWW cW-W 93 I.DG228 J.DC23 G-C WC 19-XIX cWW cW-W 94 I.DC229 J.DG22 C-G WC 19-XIX cWW cW-W 95 I.DC230 J.DG21 C-G WC 19-XIX cWW cW-W 96 I.DT231 J.DA20 T-A WC 20-XX cWW cW-W 97 I.DC232 J.DG19 C-G WC 19-XIX cWW cW-W 98 I.DG233 J.DC18 G-C WC 19-XIX cWW cW-W 99 I.DG234 J.DC17 G-C WC 19-XIX cWW cW-W 100 I.DC235 J.DG16 C-G WC 19-XIX cWW cW-W 101 I.DA236 J.DT15 A-T WC 20-XX cWW cW-W 102 I.DC237 J.DG14 C-G WC 19-XIX cWW cW-W 103 I.DC238 J.DG13 C-G WC 19-XIX cWW cW-W 104 I.DG239 J.DC12 G-C WC 19-XIX cWW cW-W 105 I.DG240 J.DC11 G-C WC 19-XIX cWW cW-W 106 I.DG241 J.DC10 G-C WC 19-XIX cWW cW-W 107 I.DA242 J.DT9 A-T WC 20-XX cWW cW-W 108 I.DT243 J.DA8 T-A WC 20-XX cWW cW-W 109 I.DT244 J.DA7 T-A WC 20-XX cWW cW-W 110 I.DC245 J.DG6 C-G WC 19-XIX cWW cW-W 111 I.DT246 J.DA5 T-A WC 20-XX cWW cW-W 112 I.DC247 J.DG4 C-G WC 19-XIX cWW cW-W 113 I.DG248 J.DC3 G-C WC 19-XIX cWW cW-W 114 I.DA249 J.DT2 A-T WC 20-XX cWW cW-W 115 I.DT250 J.DA1 T-A WC 20-XX cWW cW-W **************************************************************************** List of 40 nucleotide/amino-acid interactions id nt-aa nt aa Tdst Rdst Tx Ty Tz Rx Ry Rz 1 5gse T-tyr I.DT7 E.TYR41 -13.73 -173.84 -5.61 -2.50 -12.28 -72.97 36.51 -171.86 2 5gse C-arg I.DC26 D.ARG33 -12.55 63.85 -12.15 1.68 2.66 29.43 -49.79 28.31 3 5gse C-arg I.5CM27 D.ARG33 -13.16 42.98 -12.48 4.09 0.88 -2.54 -42.90 1.05 4 5gse G-arg I.DG37 C.ARG42 -12.99 56.28 -12.58 0.24 3.24 31.35 -31.47 35.48 5 5gse T-arg I.DT50 A.ARG83 -12.48 -77.49 -11.76 2.68 -3.19 43.87 12.61 -64.41 6 5gse G-arg I.DG66 A.ARG40 -13.17 47.34 -11.85 4.11 -4.03 6.89 -5.88 46.52 7 5gse G-arg I.DG69 B.ARG45 -13.42 54.30 -12.64 4.51 -0.03 25.57 -45.85 14.38 8 5gse A-arg I.DA80 F.ARG45 13.30 -73.83 -13.01 -2.42 -1.37 28.15 42.70 -55.16 9 5gse G-arg I.DG82 E.ARG40 12.48 -63.49 -11.76 -4.16 -0.59 2.50 41.76 -48.88 10 5gse G-arg I.DG82 F.ARG35 15.72 -108.63 -7.75 12.12 6.34 6.76 -31.69 -105.19 11 5gse T-arg I.DT83 F.ARG35 15.48 -139.49 -5.26 14.18 3.28 -0.32 -37.93 -137.05 12 5gse G-leu I.DG92 E.LEU65 -12.22 -95.39 -6.15 10.53 -0.75 15.92 -20.06 -92.70 13 5gse A-arg I.DA100 E.ARG83 -12.43 -49.68 -12.12 2.63 -0.87 37.97 -28.45 -15.16 14 5gse C-arg I.DC111 G.ARG42 13.26 -68.28 -13.11 0.38 -1.95 43.94 41.66 -33.17 15 5gse G-arg I.DG112 G.ARG42 -12.56 -87.22 -11.62 1.99 -4.34 54.04 27.88 -65.83 16 5gse A-arg I.DA117 G.ARG11 -12.10 40.32 -11.99 0.90 1.40 20.12 -34.48 5.75 17 5gse T-arg I.DT153 O.ARG83 -12.63 -77.82 -12.09 3.09 -1.98 42.92 2.88 -66.48 18 5gse G-arg I.DG169 O.ARG40 -11.90 57.28 -11.69 2.21 -0.15 2.13 -40.77 41.08 19 5gse C-arg I.DC184 L.ARG45 -12.84 -91.83 -12.15 1.09 -4.00 46.42 20.13 -79.38 20 5gse A-arg I.DA203 K.ARG83 -12.28 -47.84 -11.93 2.68 -1.09 37.34 -27.89 -11.12 21 5gse G-arg I.DG225 N.ARG33 12.71 -52.92 -12.44 0.67 -2.52 21.89 42.18 -24.01 22 5gse C-arg I.DC226 N.ARG33 -11.92 -72.42 -10.09 3.32 -5.42 37.77 34.32 -53.21 23 5gse G-arg I.DG227 N.ARG33 -11.56 -100.95 -6.97 4.36 -8.13 46.61 18.24 -90.77 24 5gse G-arg J.DG50 K.ARG83 -12.26 -84.78 -11.76 2.03 -2.83 50.63 14.58 -69.00 25 5gse C-arg J.DC82 O.ARG40 11.96 -57.89 -11.75 -2.28 -0.08 7.28 42.81 -39.26 26 5gse G-arg J.DG83 O.ARG40 -11.36 -77.93 -10.72 -0.12 -3.74 18.16 31.43 -70.18 27 5gse C-leu J.DC92 O.LEU65 11.98 -100.92 -4.89 10.92 -0.42 21.79 -10.05 -98.79 28 5gse T-arg J.DT134 G.ARG11 11.95 -46.12 -11.88 -0.48 -1.18 22.82 39.18 -8.70 29 5gse T-arg J.DT135 G.ARG11 -12.07 -55.83 -10.62 2.53 -5.13 29.16 20.07 -43.89 30 5gse G-arg J.DG140 G.ARG42 -13.03 62.52 -12.75 -0.38 2.66 41.29 -34.32 33.31 31 5gse G-arg J.DG153 E.ARG83 -12.17 -85.75 -11.48 2.33 -3.31 55.54 11.21 -67.28 32 5gse C-arg J.DC183 B.ARG45 13.79 -72.79 -13.39 -2.59 -2.00 32.35 44.42 -49.73 33 5gse C-arg J.DC184 B.ARG45 -12.88 -106.26 -12.13 0.14 -4.35 49.08 33.66 -92.56 34 5gse G-arg J.DG186 A.ARG40 -12.87 -87.22 -12.84 -0.85 -0.24 16.42 -3.82 -85.90 35 5gse G-arg J.DG202 A.ARG83 13.39 44.27 -13.19 0.48 2.26 36.11 -5.57 25.43 36 5gse G-arg J.DG203 A.ARG83 -13.33 -39.57 -12.98 3.03 0.07 30.59 -14.24 -20.98 37 5gse C-arg J.DC214 C.ARG42 13.36 -66.67 -13.22 0.87 -1.69 36.21 38.67 -42.04 38 5gse T-arg J.DT215 C.ARG42 -12.47 -86.35 -11.39 1.91 -4.72 47.14 28.23 -69.44 39 5gse G-arg J.DG225 D.ARG33 12.35 -63.97 -11.93 -1.41 -2.89 30.95 48.35 -29.52 40 5gse C-arg J.DC226 D.ARG33 -11.62 -86.78 -9.93 1.91 -5.72 49.11 34.51 -65.89 **************************************************************************** List of 35 base-pair/amino-acid interactions id bp-aa nt1 nt2 aa Tdst Rdst Tx Ty Tz Rx Ry Rz 1 5gse AT-arg I.DA36 J.DT215 C.ARG42 12.48 81.32 -11.28 -1.36 5.17 44.98 -25.74 65.01 2 5gse AT-arg J.DA201 I.DT50 A.ARG83 12.57 76.41 -11.56 -2.72 4.12 46.61 -2.68 62.28 3 5gse AT-arg I.DA80 J.DT171 F.ARG45 -13.20 -66.53 -12.58 -2.56 -3.10 24.52 30.60 -54.86 4 5gse AT-arg J.DA168 I.DT83 F.ARG35 -15.39 138.06 -5.36 -14.01 -3.43 1.53 36.11 135.77 5 5gse AT-arg I.DA100 J.DT151 E.ARG83 -12.28 -56.10 -11.85 2.53 -1.96 38.50 -38.96 -12.63 6 5gse AT-arg I.DA116 J.DT135 G.ARG11 12.06 53.04 -10.73 -1.94 5.14 28.48 -22.38 39.42 7 5gse AT-arg I.DA117 J.DT134 G.ARG11 -12.02 43.21 -11.93 0.69 1.29 21.44 -36.84 7.22 8 5gse AT-arg J.DA98 I.DT153 O.ARG83 12.69 77.66 -11.98 -3.02 2.89 44.05 4.61 65.49 9 5gse AT-arg I.DA203 J.DT48 K.ARG83 -12.22 -53.90 -11.73 2.64 -2.17 36.99 -38.12 -9.52 10 5gse AT-tyr J.DA244 I.DT7 E.TYR41 13.57 173.36 -5.63 1.99 12.19 -66.33 -36.91 171.58 11 5gse GC-arg I.DG25 J.DC226 D.ARG33 11.51 87.08 -9.89 -1.91 5.58 48.04 -35.18 66.74 12 5gse GC-arg J.DG225 I.DC26 D.ARG33 12.45 -63.91 -12.04 -1.54 -2.78 30.20 49.07 -28.91 13 5gse GC-arg J.DG224 I.5CM27 D.ARG33 13.07 51.35 -12.40 -4.12 -0.29 6.38 50.93 1.70 14 5gse GC-arg I.DG37 J.DC214 C.ARG42 -13.17 61.46 -12.93 -0.31 2.48 33.70 -35.11 38.75 15 5gse GC-arg J.DG203 I.DC48 A.ARG83 -13.38 -43.43 -13.08 2.78 -0.36 34.13 -19.58 -18.75 16 5gse GC-arg J.DG202 I.DC49 A.ARG83 -13.53 48.03 -13.46 0.14 1.35 36.79 -12.17 28.95 17 5gse GC-arg J.DG186 I.DC65 A.ARG40 -12.93 -85.74 -12.88 -1.10 0.23 13.97 -1.38 -84.81 18 5gse GC-arg I.DG66 J.DC185 A.ARG40 -13.18 47.24 -11.92 4.28 -3.63 10.41 -5.92 45.78 19 5gse GC-arg I.DG67 J.DC184 B.ARG45 12.77 103.50 -11.88 -0.09 4.70 47.52 -29.37 91.03 20 5gse GC-arg I.DG68 J.DC183 B.ARG45 -13.66 69.46 -13.15 2.74 2.51 32.99 -40.64 47.38 21 5gse GC-arg I.DG69 J.DC182 B.ARG45 -13.48 59.38 -12.67 4.55 -0.64 25.41 -51.95 14.11 22 5gse GC-arg I.DG82 J.DC169 E.ARG40 12.57 -60.14 -11.70 -4.53 -0.86 -0.60 40.15 -45.74 23 5gse GC-arg I.DG82 J.DC169 F.ARG35 15.71 -105.19 -8.45 11.82 5.99 7.06 -33.75 -101.01 24 5gse GC-arg J.DG153 I.DC98 E.ARG83 -12.21 -81.91 -11.43 1.90 -3.83 52.55 8.07 -64.76 25 5gse GC-arg J.DG140 I.DC111 G.ARG42 -13.15 65.36 -12.94 -0.38 2.31 42.65 -37.98 33.23 26 5gse GC-arg I.DG112 J.DC139 G.ARG42 -12.59 -85.32 -11.48 1.75 -4.85 52.96 24.75 -65.15 27 5gse GC-arg J.DG83 I.DC168 O.ARG40 -11.39 -78.76 -10.85 -0.20 -3.47 17.90 33.20 -70.47 28 5gse GC-arg I.DG169 J.DC82 O.ARG40 -11.93 57.52 -11.72 2.25 -0.04 4.70 -41.80 40.17 29 5gse GC-arg J.DG67 I.DC184 L.ARG45 12.97 92.22 -11.86 -1.32 5.09 45.31 -12.59 81.76 30 5gse GC-arg J.DG50 I.DC201 K.ARG83 -12.29 -82.56 -11.76 1.75 -3.13 50.07 12.40 -66.85 31 5gse GC-arg I.DG225 J.DC26 N.ARG33 12.84 -43.92 -12.27 0.08 -3.78 12.51 35.51 -23.05 32 5gse GC-arg J.DG25 I.DC226 N.ARG33 11.81 69.14 -9.69 -3.44 5.82 39.58 -27.08 51.36 33 5gse GC-arg I.DG227 J.DC24 N.ARG33 -11.57 -97.58 -6.58 4.14 -8.57 46.91 12.60 -87.43 34 5gse GC-leu I.DG92 J.DC159 E.LEU65 -12.21 -93.06 -6.42 10.18 -2.06 11.51 -25.98 -89.58 35 5gse GC-leu I.DG159 J.DC92 O.LEU65 -11.93 101.94 -4.58 -11.00 0.62 18.66 14.30 99.94 **************************************************************************** List of 222 phosphate/amino-acid H-bonds id nt-atom aa-atom dist type 1 5gse OP1@I.DT9 NH1@E.ARG49 2.83 po4:sidechain:salt-bridge 2 5gse OP1@I.DA10 NZ@E.LYS56 3.03 po4:sidechain:salt-bridge 3 5gse OP1@I.DC20 OG@D.SER55 2.97 po4:sidechain 4 5gse OP1@I.DC20 N@D.SER56 2.95 po4:backbone 5 5gse OP1@I.DC20 OG@D.SER56 3.16 po4:sidechain 6 5gse OP2@I.DC20 OG@D.SER56 3.13 po4:sidechain 7 5gse OP1@I.DA21 OH@D.TYR42 3.00 po4:sidechain 8 5gse OP1@I.DA21 N@D.ILE54 3.78 po4:backbone 9 5gse OP1@I.DG30 NE@C.ARG32 2.78 po4:sidechain:salt-bridge 10 5gse OP1@I.DA31 N@C.ARG17 3.50 po4:backbone 11 5gse OP1@I.DA31 NH1@C.ARG17 2.79 po4:sidechain:salt-bridge 12 5gse OP2@I.DA31 NH1@C.ARG17 2.41 po4:sidechain:salt-bridge 13 5gse OP1@I.DG32 NH2@C.ARG20 3.36 po4:sidechain:salt-bridge 14 5gse OP2@I.DG32 NE@C.ARG20 3.94 po4:sidechain:salt-bridge 15 5gse OP1@I.DA40 N@D.SER87 3.04 po4:backbone 16 5gse OP1@I.DA40 OG@D.SER87 3.20 po4:sidechain 17 5gse OP1@I.DA40 OG1@D.THR88 3.10 po4:sidechain 18 5gse OP2@I.DA40 OG@D.SER87 3.26 po4:sidechain 19 5gse O3'@I.DG39 NH1@C.ARG42 3.45 po4:sidechain 20 5gse O3'@I.DG39 OG@D.SER87 3.26 po4:sidechain 21 5gse OP2@I.DG41 NH1@D.ARG86 3.03 po4:sidechain:salt-bridge 22 5gse OP2@I.DT50 N@A.SER86 3.15 po4:backbone 23 5gse OP1@I.DT51 NH1@A.ARG72 2.98 po4:sidechain:salt-bridge 24 5gse OP1@I.DT51 N@A.PHE84 3.43 po4:backbone 25 5gse OP1@I.DA61 NH2@B.ARG36 2.32 po4:sidechain:salt-bridge 26 5gse OP2@I.DA61 NH2@B.ARG36 3.15 po4:sidechain:salt-bridge 27 5gse O3'@I.DA60 NH2@A.ARG63 3.44 po4:sidechain 28 5gse OP2@I.DA62 N@B.LYS31 3.95 po4:backbone 29 5gse OP1@I.DA71 N@A.VAL117 3.13 po4:backbone 30 5gse OP1@I.DA71 N@A.THR118 2.95 po4:backbone 31 5gse OP1@I.DA71 OG1@A.THR118 2.54 po4:sidechain 32 5gse OP1@I.DC81 OG@F.SER47 3.13 po4:sidechain 33 5gse OP1@I.DC81 N@F.GLY48 2.91 po4:backbone 34 5gse OP1@I.DG82 N@F.ILE46 2.96 po4:backbone 35 5gse OP2@I.DG82 NH1@F.ARG35 2.59 po4:sidechain:salt-bridge 36 5gse OP2@I.DG82 NH2@F.ARG35 2.83 po4:sidechain:salt-bridge 37 5gse O5'@I.DG82 NH2@F.ARG35 3.21 po4:sidechain 38 5gse OP1@I.DT83 N@E.GLY44 2.93 po4:backbone 39 5gse OP1@I.DT83 N@E.ALA47 2.79 po4:backbone 40 5gse O3'@I.DG82 N@E.GLY44 3.33 po4:backbone 41 5gse OP1@I.DG84 N@E.TYR41 3.05 po4:backbone 42 5gse OP2@I.DT89 NH2@K.ARG52 2.71 po4:sidechain:salt-bridge 43 5gse OP1@I.DA91 NH2@E.ARG69 2.57 po4:sidechain:salt-bridge 44 5gse OP2@I.DA91 NH1@E.ARG69 3.17 po4:sidechain:salt-bridge 45 5gse OP2@I.DA91 NH2@E.ARG69 3.19 po4:sidechain:salt-bridge 46 5gse OP1@I.DG92 N@E.LYS64 3.36 po4:backbone 47 5gse OP2@I.DG92 N@E.LEU65 3.41 po4:backbone 48 5gse OP1@I.DG101 NZ@F.LYS79 3.09 po4:sidechain:salt-bridge 49 5gse OP1@I.DA102 N@F.LYS79 2.96 po4:backbone 50 5gse OP1@I.DA102 N@F.THR80 3.07 po4:backbone 51 5gse OP1@I.DC104 N@D.SER32 3.21 po4:backbone 52 5gse OP1@I.DC104 NZ@D.LYS34 3.23 po4:sidechain:salt-bridge 53 5gse OP2@I.DG112 N@G.ALA45 3.43 po4:backbone 54 5gse OP1@I.DA113 N@G.VAL43 2.84 po4:backbone 55 5gse OP1@I.DG122 OH@H.TYR40 3.20 po4:sidechain 56 5gse O5'@I.DG122 OH@H.TYR40 3.15 po4:sidechain 57 5gse OP1@I.DC123 N@H.SER36 3.34 po4:backbone 58 5gse O3'@I.DC123 N@H.LYS34 3.65 po4:backbone 59 5gse OP1@I.DT145 NH2@A.ARG52 3.77 po4:sidechain:salt-bridge 60 5gse OP1@I.DA146 N@A.ARG42 3.14 po4:backbone 61 5gse OP1@I.DA146 OG1@A.THR45 2.77 po4:sidechain 62 5gse OP1@I.DA147 N@A.ARG40 3.75 po4:backbone 63 5gse OP1@I.DT153 N@O.SER86 3.18 po4:backbone 64 5gse OP1@I.DT154 NH1@O.ARG72 2.70 po4:sidechain:salt-bridge 65 5gse OP1@I.DT154 N@O.PHE84 3.02 po4:backbone 66 5gse O5'@I.DA163 NH2@O.ARG63 3.34 po4:sidechain 67 5gse OP1@I.DA164 NH2@P.ARG36 2.21 po4:sidechain:salt-bridge 68 5gse OP2@I.DA164 NH2@P.ARG36 3.19 po4:sidechain:salt-bridge 69 5gse OP2@I.DA165 OG1@P.THR30 3.09 po4:sidechain 70 5gse OP1@I.DG172 NH1@O.ARG42 3.21 po4:sidechain:salt-bridge 71 5gse OP1@I.DA174 N@O.VAL117 2.83 po4:backbone 72 5gse OP1@I.DA174 N@O.THR118 2.90 po4:backbone 73 5gse OP1@I.DA174 OG1@O.THR118 2.93 po4:sidechain 74 5gse O3'@I.DG173 OG1@O.THR118 3.26 po4:sidechain 75 5gse OP2@I.DC184 N@L.GLY48 2.66 po4:backbone 76 5gse OP1@I.DG185 NH2@L.ARG39 3.71 po4:sidechain:salt-bridge 77 5gse OP1@I.DG185 N@L.ILE46 3.41 po4:backbone 78 5gse OP2@I.DG185 NH1@L.ARG35 2.15 po4:sidechain:salt-bridge 79 5gse OP1@I.DT186 N@K.ALA47 2.36 po4:backbone 80 5gse OP1@I.DA194 NH2@K.ARG69 3.27 po4:sidechain:salt-bridge 81 5gse OP2@I.DA194 NH2@K.ARG69 2.25 po4:sidechain:salt-bridge 82 5gse OP1@I.DG195 NH1@K.ARG63 3.73 po4:sidechain:salt-bridge 83 5gse OP1@I.DG195 N@K.LYS64 2.65 po4:backbone 84 5gse OP2@I.DG195 N@K.LEU65 3.80 po4:backbone 85 5gse OP1@I.DG204 OD2@K.ASP81 2.79 po4:sidechain 86 5gse OP1@I.DA205 N@L.LYS79 2.80 po4:backbone 87 5gse OP1@I.DA205 N@L.THR80 2.95 po4:backbone 88 5gse O5'@I.DA205 OG1@L.THR80 3.45 po4:sidechain 89 5gse OP1@I.DC207 NZ@H.LYS108 3.37 po4:sidechain:salt-bridge 90 5gse OP1@I.DT208 OG@H.SER112 3.09 po4:sidechain 91 5gse OP1@I.DG209 NZ@H.LYS116 3.12 po4:sidechain:salt-bridge 92 5gse OP2@I.DG209 NZ@H.LYS116 3.23 po4:sidechain:salt-bridge 93 5gse OP2@I.DG215 N@M.ALA45 3.17 po4:backbone 94 5gse OP1@I.DA216 NH1@M.ARG35 2.86 po4:sidechain:salt-bridge 95 5gse OP1@I.DA216 N@M.VAL43 3.28 po4:backbone 96 5gse OP1@I.DG225 OH@N.TYR40 2.69 po4:sidechain 97 5gse OP2@I.DG225 NZ@N.LYS43 3.34 po4:sidechain:salt-bridge 98 5gse OP1@I.DC226 NH2@M.ARG29 3.18 po4:sidechain:salt-bridge 99 5gse OP1@I.DG227 N@N.LYS34 2.76 po4:backbone 100 5gse OP1@I.DG227 NZ@N.LYS34 3.37 po4:sidechain:salt-bridge 101 5gse OP1@I.DC235 N@M.THR76 2.65 po4:backbone 102 5gse OP1@I.DC235 OG1@M.THR76 3.16 po4:sidechain 103 5gse OP1@I.DC235 N@M.ARG77 3.24 po4:backbone 104 5gse O3'@I.DG234 OG1@M.THR76 3.28 po4:sidechain 105 5gse OP2@I.DA236 NZ@M.LYS75 3.51 po4:sidechain:salt-bridge 106 5gse OP1@I.DC247 N@O.ARG42 2.77 po4:backbone 107 5gse OP1@I.DC247 OG1@O.THR45 2.96 po4:sidechain 108 5gse OP1@J.DA20 N@N.SER56 3.14 po4:backbone 109 5gse OP2@J.DA20 OG@N.SER56 2.19 po4:sidechain 110 5gse OP1@J.DG21 N@N.ILE54 3.51 po4:backbone 111 5gse OP2@J.DG21 O@N.ILE54 3.28 po4:backbone 112 5gse O5'@J.DG21 OH@N.TYR42 3.34 po4:sidechain 113 5gse OP1@J.DG22 OH@N.TYR42 3.25 po4:sidechain 114 5gse OP1@J.DA30 NE@M.ARG32 2.78 po4:sidechain:salt-bridge 115 5gse OP1@J.DT31 OG1@M.THR16 3.49 po4:sidechain 116 5gse OP1@J.DT31 N@M.ARG17 2.90 po4:backbone 117 5gse OP2@J.DT31 NE@M.ARG17 3.06 po4:sidechain:salt-bridge 118 5gse OP2@J.DT31 NH2@M.ARG17 3.30 po4:sidechain:salt-bridge 119 5gse OP1@J.DT32 N@M.LYS15 2.95 po4:backbone 120 5gse OP1@J.DT32 NH2@M.ARG20 3.11 po4:sidechain:salt-bridge 121 5gse O3'@J.DT31 O@M.LYS15 3.15 po4:backbone 122 5gse OP1@J.DG33 N@M.ALA12 3.29 po4:backbone 123 5gse OP1@J.DT38 NE2@H.HIS49 2.93 po4:sidechain:salt-bridge 124 5gse OP1@J.DG40 N@N.THR88 2.84 po4:backbone 125 5gse OP1@J.DG40 OG1@N.THR88 2.37 po4:sidechain 126 5gse OP2@J.DG40 OG@N.SER87 3.63 po4:sidechain 127 5gse OP2@J.DG50 N@K.SER86 3.80 po4:backbone 128 5gse OP1@J.DC51 NH1@K.ARG72 2.83 po4:sidechain:salt-bridge 129 5gse OP1@J.DC51 NH2@K.ARG72 2.73 po4:sidechain:salt-bridge 130 5gse OP1@J.DC51 N@K.PHE84 2.60 po4:backbone 131 5gse OP2@J.DC51 NH2@K.ARG72 2.67 po4:sidechain:salt-bridge 132 5gse OP1@J.DA61 NH2@L.ARG36 2.27 po4:sidechain:salt-bridge 133 5gse OP2@J.DC62 OG1@L.THR30 2.72 po4:sidechain 134 5gse OP1@J.DG71 N@K.VAL117 2.59 po4:backbone 135 5gse OP1@J.DG71 N@K.THR118 3.21 po4:backbone 136 5gse OP1@J.DC82 NH2@P.ARG35 3.05 po4:sidechain:salt-bridge 137 5gse OP1@J.DC82 N@P.ILE46 3.32 po4:backbone 138 5gse OP2@J.DC82 NH1@P.ARG35 2.37 po4:sidechain:salt-bridge 139 5gse OP2@J.DC82 NH2@P.ARG35 2.95 po4:sidechain:salt-bridge 140 5gse OP1@J.DG83 N@O.GLY44 3.19 po4:backbone 141 5gse OP1@J.DG83 N@O.VAL46 3.08 po4:backbone 142 5gse OP1@J.DG83 N@O.ALA47 2.95 po4:backbone 143 5gse O3'@J.DC82 N@O.GLY44 3.48 po4:backbone 144 5gse OP1@J.DC84 N@O.TYR41 3.09 po4:backbone 145 5gse O3'@J.DG83 N@O.TYR41 3.55 po4:backbone 146 5gse OP1@J.DA91 NH2@O.ARG69 3.15 po4:sidechain:salt-bridge 147 5gse OP2@J.DA91 NH2@O.ARG69 3.00 po4:sidechain:salt-bridge 148 5gse OP1@J.DC92 N@O.LYS64 2.96 po4:backbone 149 5gse OP2@J.DC92 N@O.LEU65 3.08 po4:backbone 150 5gse OP1@J.DG101 NZ@P.LYS79 2.65 po4:sidechain:salt-bridge 151 5gse OP2@J.DG101 NZ@P.LYS79 3.16 po4:sidechain:salt-bridge 152 5gse OP1@J.DG102 N@P.LYS79 3.08 po4:backbone 153 5gse OP1@J.DG102 N@P.THR80 3.05 po4:backbone 154 5gse OP1@J.DT104 OG@N.SER32 3.18 po4:sidechain 155 5gse O3'@J.DT108 OH@A.TYR41 3.22 po4:sidechain 156 5gse OP1@J.DC123 NH1@G.ARG77 2.44 po4:sidechain:salt-bridge 157 5gse OP2@J.DC123 N@H.SER56 2.99 po4:backbone 158 5gse OP2@J.DC123 OG@H.SER56 3.05 po4:sidechain 159 5gse OP1@J.DT134 OG1@G.THR16 2.68 po4:sidechain 160 5gse OP1@J.DT134 N@G.ARG17 3.36 po4:backbone 161 5gse OP2@J.DT134 NH1@G.ARG17 3.32 po4:sidechain:salt-bridge 162 5gse OP1@J.DT135 N@G.LYS15 3.23 po4:backbone 163 5gse OP1@J.DT135 NH2@G.ARG20 2.37 po4:sidechain:salt-bridge 164 5gse OP1@J.DG136 N@G.ALA12 3.11 po4:backbone 165 5gse OP1@J.DG143 N@H.SER87 2.60 po4:backbone 166 5gse OP1@J.DG143 N@H.THR88 2.97 po4:backbone 167 5gse OP1@J.DG143 OG1@H.THR88 3.01 po4:sidechain 168 5gse OP2@J.DG153 N@E.SER86 3.57 po4:backbone 169 5gse OP1@J.DC154 NH1@E.ARG72 3.01 po4:sidechain:salt-bridge 170 5gse OP1@J.DC154 NH2@E.ARG72 2.86 po4:sidechain:salt-bridge 171 5gse OP1@J.DC154 N@E.PHE84 2.60 po4:backbone 172 5gse OP2@J.DC154 NH2@E.ARG72 2.96 po4:sidechain:salt-bridge 173 5gse OP2@J.DC154 O@E.PHE84 2.85 po4:backbone 174 5gse O3'@J.DG153 NE@E.ARG83 3.53 po4:sidechain 175 5gse OP1@J.DA164 NE@E.ARG63 3.69 po4:sidechain:salt-bridge 176 5gse OP1@J.DA164 NH1@F.ARG36 3.02 po4:sidechain:salt-bridge 177 5gse OP1@J.DA164 NH2@F.ARG36 2.26 po4:sidechain:salt-bridge 178 5gse OP2@J.DA164 NH1@F.ARG36 3.20 po4:sidechain:salt-bridge 179 5gse OP1@J.DA172 NH1@E.ARG42 3.00 po4:sidechain:salt-bridge 180 5gse OP1@J.DA172 NH2@E.ARG42 2.14 po4:sidechain:salt-bridge 181 5gse OP1@J.DG174 N@E.VAL117 2.65 po4:backbone 182 5gse OP1@J.DG174 N@E.THR118 2.81 po4:backbone 183 5gse OP1@J.DG174 OG1@E.THR118 2.66 po4:sidechain 184 5gse OP2@J.DG176 NZ@A.LYS115 3.40 po4:sidechain:salt-bridge 185 5gse OP1@J.DC177 N@O.THR80 3.77 po4:backbone 186 5gse O5'@J.DC177 OG1@O.THR80 2.83 po4:sidechain 187 5gse OP1@J.DC184 N@B.GLY48 3.33 po4:backbone 188 5gse OP1@J.DC185 NH2@B.ARG39 3.67 po4:sidechain:salt-bridge 189 5gse OP1@J.DC185 N@B.ILE46 2.67 po4:backbone 190 5gse OP2@J.DC185 NH1@B.ARG35 2.36 po4:sidechain:salt-bridge 191 5gse OP2@J.DC185 NH2@B.ARG35 2.74 po4:sidechain:salt-bridge 192 5gse O5'@J.DC185 NH2@B.ARG35 2.99 po4:sidechain 193 5gse OP1@J.DG186 N@A.GLY44 3.10 po4:backbone 194 5gse OP1@J.DG186 N@A.THR45 3.12 po4:backbone 195 5gse OP1@J.DG186 N@A.VAL46 2.93 po4:backbone 196 5gse OP1@J.DG186 N@A.ALA47 2.79 po4:backbone 197 5gse O3'@J.DC185 N@A.GLY44 3.26 po4:backbone 198 5gse OP1@J.DC187 N@A.TYR41 3.16 po4:backbone 199 5gse OP1@J.DA194 NH2@A.ARG69 2.81 po4:sidechain:salt-bridge 200 5gse OP2@J.DA194 NH2@A.ARG69 2.57 po4:sidechain:salt-bridge 201 5gse OP1@J.DC195 NE@A.ARG63 3.13 po4:sidechain:salt-bridge 202 5gse OP1@J.DC195 NH1@A.ARG63 3.14 po4:sidechain:salt-bridge 203 5gse OP1@J.DC195 N@A.LYS64 3.02 po4:backbone 204 5gse OP2@J.DC195 N@A.LEU65 2.90 po4:backbone 205 5gse OP1@J.DG205 N@B.LYS79 2.51 po4:backbone 206 5gse OP1@J.DG205 N@B.THR80 2.92 po4:backbone 207 5gse OP1@J.DT215 N@C.ALA45 2.54 po4:backbone 208 5gse OP1@J.DA216 N@C.VAL43 2.66 po4:backbone 209 5gse OP2@J.DA216 NH2@C.ARG35 2.49 po4:sidechain:salt-bridge 210 5gse OP1@J.DG225 OH@D.TYR40 3.21 po4:sidechain 211 5gse OP1@J.DC226 NH1@C.ARG29 3.18 po4:sidechain:salt-bridge 212 5gse OP1@J.DC226 NH2@C.ARG29 3.09 po4:sidechain:salt-bridge 213 5gse OP1@J.DC226 N@D.SER36 3.47 po4:backbone 214 5gse OP1@J.DA227 N@D.LYS34 2.88 po4:backbone 215 5gse OP1@J.DG235 N@C.THR76 3.08 po4:backbone 216 5gse OP1@J.DG235 OG1@C.THR76 3.04 po4:sidechain 217 5gse OP1@J.DG235 N@C.ARG77 2.79 po4:backbone 218 5gse OP2@J.DG235 OG1@C.THR76 3.10 po4:sidechain 219 5gse O3'@J.DA234 OG1@C.THR76 3.04 po4:sidechain 220 5gse OP1@J.DA236 NZ@C.LYS75 3.50 po4:sidechain:salt-bridge 221 5gse OP1@J.DC247 N@E.ARG42 2.91 po4:backbone 222 5gse OP1@J.DC247 OG1@E.THR45 2.41 po4:sidechain **************************************************************************** List of 9 sugar/amino-acid H-bonds id nt-atom aa-atom dist type 1 5gse O4'@I.5CM27 NH2@D.ARG33 3.09 sugar:sidechain 2 5gse O4'@I.DT28 NH1@D.ARG33 3.01 sugar:sidechain 3 5gse O4'@I.DA100 NH2@E.ARG83 3.08 sugar:sidechain 4 5gse O4'@I.DC184 NH2@L.ARG45 2.82 sugar:sidechain 5 5gse O4'@J.DC81 NH2@P.ARG45 2.81 sugar:sidechain 6 5gse O4'@J.DT135 NH2@G.ARG11 2.67 sugar:sidechain 7 5gse O4'@J.DC187 NH2@A.ARG40 3.61 sugar:sidechain 8 5gse O4'@J.DT215 NH2@C.ARG42 2.71 sugar:sidechain 9 5gse O4'@J.DA234 NH2@C.ARG77 3.12 sugar:sidechain **************************************************************************** List of 10 base/amino-acid H-bonds id nt-atom aa-atom dist type 1 5gse O2@I.DC26 NH2@D.ARG33 3.65 base:sidechain 2 5gse O2@I.5CM27 NH1@D.ARG33 3.62 base:sidechain 3 5gse N3@I.DA203 NH2@K.ARG83 3.12 base:sidechain 4 5gse O2@I.DC226 NH1@N.ARG33 3.19 base:sidechain 5 5gse O2@J.DC82 NH2@O.ARG40 3.73 base:sidechain 6 5gse N3@J.DG83 NH2@O.ARG40 2.46 base:sidechain 7 5gse O2@J.DT134 NH2@G.ARG11 3.59 base:sidechain 8 5gse N3@J.DG186 NH2@A.ARG40 2.97 base:sidechain 9 5gse N3@J.DG203 NH1@A.ARG83 3.82 base:sidechain 10 5gse O2@J.DC214 NH2@C.ARG42 3.90 base:sidechain **************************************************************************** List of 5 base/amino-acid pairs id nt-aa nt aa vertical-distance plane-angle 1 5gse C-arg J.DC82 O.ARG40 2.06 59 2 5gse G-arg J.DG83 O.ARG40 1.23 63 3 5gse T-arg J.DT134 G.ARG11 0.78 30 4 5gse G-arg J.DG186 A.ARG40 1.42 61 5 5gse G-arg J.DG203 A.ARG83 2.45 55 **************************************************************************** List of 2 additional files 1 -- 5gse-baseAA-pairs.pdb 2 -- 5gse-pairs.pdb