1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 Agrawal, R.K. Linde, J. Segupta, J. Nierhaus, K.H. Frank, J. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic C3 H7 N O2 89.093 y ALANINE L-peptide linking C6 H15 N4 O2 1 175.209 y ARGININE L-peptide linking C4 H8 N2 O3 132.118 y ASPARAGINE L-peptide linking C4 H7 N O4 133.103 y ASPARTIC ACID L-peptide linking C3 H7 N O2 S 121.158 y CYSTEINE L-peptide linking C5 H10 N2 O3 146.144 y GLUTAMINE L-peptide linking C5 H9 N O4 147.129 y GLUTAMIC ACID L-peptide linking C2 H5 N O2 75.067 y GLYCINE peptide linking C6 H10 N3 O2 1 156.162 y HISTIDINE L-peptide linking C6 H13 N O2 131.173 y ISOLEUCINE L-peptide linking C6 H13 N O2 131.173 y LEUCINE L-peptide linking C6 H15 N2 O2 1 147.195 y LYSINE L-peptide linking C5 H11 N O2 S 149.211 y METHIONINE L-peptide linking C9 H11 N O2 165.189 y PHENYLALANINE L-peptide linking C5 H9 N O2 115.130 y PROLINE L-peptide linking C3 H7 N O3 105.093 y SERINE L-peptide linking C4 H9 N O3 119.119 y THREONINE L-peptide linking C9 H11 N O3 181.189 y TYROSINE L-peptide linking C5 H11 N O2 117.146 y VALINE L-peptide linking N 1 N N N 2 S C N 3 N C N 4 N O N 5 N C N 6 N O N 7 N H N 8 N H N 9 N H N 10 N H N 11 N H N 12 N H N 13 N H N 14 N N N 15 S C N 16 N C N 17 N O N 18 N C N 19 N C N 20 N C N 21 N N N 22 N C N 23 N N N 24 N N N 25 N O 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 H N 39 N H N 40 N H N 41 N N N 42 S C N 43 N C N 44 N O N 45 N C N 46 N C N 47 N O N 48 N N N 49 N O N 50 N H N 51 N H N 52 N H N 53 N H N 54 N H N 55 N H N 56 N H N 57 N H N 58 N N N 59 S C N 60 N C N 61 N O N 62 N C N 63 N C N 64 N O N 65 N O N 66 N O 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 N N 75 R C N 76 N C N 77 N O N 78 N C N 79 N S N 80 N O N 81 N H N 82 N H N 83 N H N 84 N H N 85 N H N 86 N H N 87 N H N 88 N N N 89 S C N 90 N C N 91 N O N 92 N C N 93 N C N 94 N C N 95 N O N 96 N N N 97 N O 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 N N 109 S C N 110 N C N 111 N O N 112 N C N 113 N C N 114 N C N 115 N O N 116 N O N 117 N O N 118 N H N 119 N H N 120 N H N 121 N H N 122 N H N 123 N H N 124 N H N 125 N H N 126 N H N 127 N N N 128 N C N 129 N C N 130 N O N 131 N O N 132 N H N 133 N H N 134 N H N 135 N H N 136 N H N 137 N N N 138 S C N 139 N C N 140 N O N 141 N C Y 142 N C Y 143 N N Y 144 N C Y 145 N C Y 146 N N N 147 N O N 148 N H N 149 N H N 150 N H N 151 N H N 152 N H N 153 N H N 154 N H N 155 N H N 156 N H N 157 N H N 158 N N N 159 S C N 160 N C N 161 N O N 162 S C N 163 N C N 164 N C N 165 N C N 166 N O N 167 N H N 168 N H N 169 N H N 170 N H N 171 N H N 172 N H N 173 N H N 174 N H N 175 N H N 176 N H N 177 N H N 178 N H N 179 N H N 180 N N N 181 S C N 182 N C N 183 N O N 184 N C N 185 N C N 186 N C N 187 N C N 188 N O N 189 N H N 190 N H N 191 N H N 192 N H N 193 N H N 194 N H N 195 N H N 196 N H N 197 N H N 198 N H N 199 N H N 200 N H N 201 N H N 202 N N N 203 S C N 204 N C N 205 N O N 206 N C N 207 N C N 208 N C N 209 N C N 210 N N N 211 N O N 212 N H N 213 N H N 214 N H N 215 N H N 216 N H N 217 N H N 218 N H N 219 N H N 220 N H N 221 N H N 222 N H N 223 N H N 224 N H N 225 N H N 226 N H N 227 N N N 228 S C N 229 N C N 230 N O N 231 N C N 232 N C N 233 N S N 234 N C N 235 N O N 236 N H N 237 N H N 238 N H N 239 N H N 240 N H N 241 N H N 242 N H N 243 N H N 244 N H N 245 N H N 246 N H N 247 N N N 248 S C N 249 N C N 250 N O N 251 N C Y 252 N C Y 253 N C Y 254 N C Y 255 N C Y 256 N C Y 257 N C N 258 N O N 259 N H N 260 N H N 261 N H N 262 N H N 263 N H N 264 N H N 265 N H N 266 N H N 267 N H N 268 N H N 269 N H N 270 N N N 271 S C N 272 N C N 273 N O N 274 N C N 275 N C N 276 N C N 277 N O N 278 N H N 279 N H N 280 N H N 281 N H N 282 N H N 283 N H N 284 N H N 285 N H N 286 N H N 287 N N N 288 S C N 289 N C N 290 N O N 291 N C N 292 N O N 293 N O N 294 N H N 295 N H N 296 N H N 297 N H N 298 N H N 299 N H N 300 N H N 301 N N N 302 S C N 303 N C N 304 N O N 305 R C N 306 N O N 307 N C N 308 N O N 309 N H N 310 N H N 311 N H N 312 N H N 313 N H N 314 N H N 315 N H N 316 N H N 317 N H N 318 N N N 319 S C N 320 N C N 321 N O N 322 N C Y 323 N C Y 324 N C Y 325 N C Y 326 N C Y 327 N C Y 328 N C N 329 N O N 330 N O N 331 N H N 332 N H N 333 N H N 334 N H N 335 N H N 336 N H N 337 N H N 338 N H N 339 N H N 340 N H N 341 N H N 342 N N N 343 S C N 344 N C N 345 N O N 346 N C N 347 N C N 348 N C N 349 N O N 350 N H N 351 N H N 352 N H N 353 N H N 354 N H N 355 N H N 356 N H N 357 N H N 358 N H N 359 N H N 360 N H N 1 N sing N 2 N sing N 3 N sing N 4 N sing N 5 N sing N 6 N sing N 7 N doub 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 doub 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 sing N 31 N sing N 32 N sing N 33 N doub N 34 N sing N 35 N sing N 36 N sing N 37 N sing 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 doub N 46 N sing N 47 N sing N 48 N sing N 49 N sing N 50 N doub 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 doub 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 sing N 69 N sing N 70 N sing N 71 N sing N 72 N sing N 73 N sing N 74 N sing N 75 N sing N 76 N doub 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 doub 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 doub N 98 N sing N 99 N sing N 100 N sing N 101 N sing N 102 N sing N 103 N sing N 104 N sing N 105 N sing N 106 N sing N 107 N sing N 108 N doub N 109 N sing N 110 N sing N 111 N sing N 112 N sing N 113 N sing N 114 N sing N 115 N sing N 116 N doub N 117 N sing N 118 N sing N 119 N sing N 120 N sing N 121 N sing N 122 N sing N 123 N sing N 124 N sing N 125 N sing N 126 N doub 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 doub N 136 N sing N 137 N sing N 138 N sing N 139 N sing Y 140 N sing Y 141 N doub Y 142 N doub N 143 N sing Y 144 N sing N 145 N sing Y 146 N sing N 147 N sing N 148 N sing N 149 N sing N 150 N sing N 151 N sing N 152 N sing N 153 N sing N 154 N sing N 155 N sing N 156 N doub N 157 N sing N 158 N sing N 159 N sing N 160 N sing N 161 N sing N 162 N sing N 163 N sing N 164 N sing N 165 N sing N 166 N sing N 167 N sing N 168 N sing N 169 N sing N 170 N sing N 171 N sing N 172 N sing N 173 N sing N 174 N sing N 175 N sing N 176 N sing N 177 N doub N 178 N sing N 179 N sing N 180 N sing N 181 N sing N 182 N sing N 183 N sing N 184 N sing N 185 N sing N 186 N sing N 187 N sing N 188 N sing N 189 N sing N 190 N sing N 191 N sing N 192 N sing N 193 N sing N 194 N sing N 195 N sing N 196 N sing N 197 N sing N 198 N doub N 199 N sing N 200 N sing N 201 N sing N 202 N sing N 203 N sing N 204 N sing N 205 N sing N 206 N sing N 207 N sing N 208 N sing N 209 N sing N 210 N sing N 211 N sing N 212 N sing N 213 N sing N 214 N sing N 215 N sing N 216 N sing N 217 N sing N 218 N sing N 219 N sing N 220 N sing N 221 N sing N 222 N doub N 223 N sing N 224 N sing N 225 N sing N 226 N sing N 227 N sing N 228 N sing N 229 N sing N 230 N sing N 231 N sing N 232 N sing N 233 N sing N 234 N sing N 235 N sing N 236 N sing N 237 N sing N 238 N sing N 239 N sing N 240 N sing N 241 N doub N 242 N sing N 243 N sing N 244 N sing N 245 N sing Y 246 N doub Y 247 N sing Y 248 N sing N 249 N sing Y 250 N doub N 251 N sing Y 252 N doub N 253 N sing Y 254 N sing N 255 N sing N 256 N sing N 257 N sing N 258 N sing N 259 N sing N 260 N sing N 261 N sing N 262 N sing N 263 N sing N 264 N doub N 265 N sing N 266 N sing N 267 N sing N 268 N sing N 269 N sing N 270 N sing N 271 N sing N 272 N sing N 273 N sing N 274 N sing N 275 N sing N 276 N sing N 277 N sing N 278 N sing N 279 N sing N 280 N sing N 281 N doub N 282 N sing N 283 N sing N 284 N sing N 285 N sing N 286 N sing N 287 N sing N 288 N sing N 289 N sing N 290 N sing N 291 N sing N 292 N sing N 293 N sing N 294 N doub N 295 N sing N 296 N sing N 297 N sing N 298 N sing N 299 N sing N 300 N sing N 301 N sing N 302 N sing N 303 N sing N 304 N sing N 305 N sing N 306 N sing N 307 N sing N 308 N sing N 309 N sing N 310 N doub N 311 N sing N 312 N sing N 313 N sing N 314 N sing Y 315 N doub Y 316 N sing Y 317 N sing N 318 N sing Y 319 N doub N 320 N sing Y 321 N doub N 322 N sing Y 323 N sing N 324 N sing N 325 N sing N 326 N sing N 327 N sing N 328 N sing N 329 N sing N 330 N sing N 331 N sing N 332 N sing N 333 N sing N 334 N doub N 335 N sing N 336 N sing N 337 N sing N 338 N sing N 339 N sing N 340 N sing N 341 N sing N 342 N sing N 343 N sing N 344 N sing N 345 N sing UK J.Mol.Biol. JMOBAK 0070 0022-2836 311 777 787 10.1006/jmbi.2001.4907 11518530 Localization of L11 protein on the ribosome and elucidation of its involvement in EF-G-dependent translocation. 2001 US Cell(Cambridge,Mass.) CELLB5 0998 0092-8674 97 491 502 10.1016/S0092-8674(00)80759-X A Detailed View of a Ribosomal Active Site: The Structure of the L11-RNA Complex 1999 US Cell(Cambridge,Mass.) CELLB5 0998 0092-8674 100 537 549 10.1016/S0092-8674(00)80690-X EF-G-dependent GTP hydrolysis induces solution structure of the E. coli 70S ribosome at 11.5A resolution 2000 US Nat.Struct.Biol. NSBIEW 2024 1072-8368 6 643 647 10.1038/10695 EF-G-dependent GTP hydrolysis induces translocation accompanied by large conformational changes in the 70S ribosome 1999 10.2210/pdb1jqt/pdb pdb_00001jqt 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 REFINEMENT PROTOCOL--MANUAL DETAILS--This structure was generated by fitting the X-ray crystal structure of L11 into the 70S E. coli ribosome map. L11 (linker region between N and C terminal) was modeled to accommodate the observed densities. Conformational changes occur in protein L11 and EF-G due to the binding of EF-G to the 70S ribosome. These changed conformations were modeled based on the fitting of the crystal coordinates to the low resolution ribosome map (factor-bound) and energy minimizing the fitted structures. OTHER REAL VISUAL AGREEMENT 1JQT 36113 18 FSC 0.5 CUT-OFF POINT 70S ribosome 0 RIBOSOME PARTICLE 1 1 SINGLE PARTICLE 10 GENERIC FILM OTHER FLOOD BEAM FEI/PHILIPS EM420 BRIGHT FIELD 52000 GATAN LIQUID NITROGEN 1 1JQT C1 NO NO NO YES L11 from E. coli 70S ribosome modeled by crystal structure of L11 from Thermatogoma maritima 14865.637 50S Ribosomal protein L11 1 nat polymer no no AKKVAAQIKLQLPAGKATPAPPVGPALGQHGVNIMEFCKRFNAETADKAGMILPVVITVYEDKSFTFIIKTPPASFLLKK AAGIEKGSSEPKRKIVGKVTRKQIEEIAKTKMPDLNANSLEAAMKIIEGTAKSMGIEVV AKKVAAQIKLQLPAGKATPAPPVGPALGQHGVNIMEFCKRFNAETADKAGMILPVVITVYEDKSFTFIIKTPPASFLLKK AAGIEKGSSEPKRKIVGKVTRKQIEEIAKTKMPDLNANSLEAAMKIIEGTAKSMGIEVV A polypeptide(L) 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 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 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 Escherichia sample 562 Escherichia coli chem_comp_atom chem_comp_bond database_2 em_image_scans repository Initial release Version format compliance Version format compliance Data collection Database references 1 0 2001-09-07 1 1 2008-04-27 1 2 2011-07-13 1 3 2024-02-07 _database_2.pdbx_DOI _database_2.pdbx_database_accession CA ATOMS ONLY Fitting of Components with Known Structure Into An 11.5A Cryo-EM Map Of the E.coli 70s Ribosome RCSB Y RCSB 2001-08-07 REL This structure was generated by fitting the X-ray crystal structure of L11 into the 70S E. coli ribosome map. L11 (linker region between N and C terminal) was modeled to accommodate the observed densities. Conformational changes occur in protein L11 when it is bound to 70S ribosome. This changed conformation was modeled based on the fitting of the crystal coordinates to the low resolution ribosome map and energy minimizing the fitted structures. Molecular Modeling based on crystal structures Numerical Algorithms Group, Inc data analysis IRIS Explorer 3.5 Jones, Zou, Cowan, Kjeldgaard data analysis O 5.10 Frank processing SPIDER 4.48 Biosym/MSI Inc. data analysis Insight II 1998 n 1 -5 A n 2 -4 A n 3 -3 A n 4 -2 A n 5 -1 A n 6 0 A GLN 1 n 7 GLN 1 A ILE 2 n 8 ILE 2 A LYS 3 n 9 LYS 3 A LEU 4 n 10 LEU 4 A GLN 5 n 11 GLN 5 A LEU 6 n 12 LEU 6 A PRO 7 n 13 PRO 7 A ALA 8 n 14 ALA 8 A GLY 9 n 15 GLY 9 A LYS 10 n 16 LYS 10 A ALA 11 n 17 ALA 11 A THR 12 n 18 THR 12 A PRO 13 n 19 PRO 13 A ALA 14 n 20 ALA 14 A PRO 15 n 21 PRO 15 A PRO 16 n 22 PRO 16 A VAL 17 n 23 VAL 17 A GLY 18 n 24 GLY 18 A PRO 19 n 25 PRO 19 A ALA 20 n 26 ALA 20 A LEU 21 n 27 LEU 21 A GLY 22 n 28 GLY 22 A GLN 23 n 29 GLN 23 A HIS 24 n 30 HIS 24 A GLY 25 n 31 GLY 25 A VAL 26 n 32 VAL 26 A ASN 27 n 33 ASN 27 A ILE 28 n 34 ILE 28 A MET 29 n 35 MET 29 A GLU 30 n 36 GLU 30 A PHE 31 n 37 PHE 31 A CYS 32 n 38 CYS 32 A LYS 33 n 39 LYS 33 A ARG 34 n 40 ARG 34 A PHE 35 n 41 PHE 35 A ASN 36 n 42 ASN 36 A ALA 37 n 43 ALA 37 A GLU 38 n 44 GLU 38 A THR 39 n 45 THR 39 A ALA 40 n 46 ALA 40 A ASP 41 n 47 ASP 41 A LYS 42 n 48 LYS 42 A ALA 43 n 49 ALA 43 A GLY 44 n 50 GLY 44 A MET 45 n 51 MET 45 A ILE 46 n 52 ILE 46 A LEU 47 n 53 LEU 47 A PRO 48 n 54 PRO 48 A VAL 49 n 55 VAL 49 A VAL 50 n 56 VAL 50 A ILE 51 n 57 ILE 51 A THR 52 n 58 THR 52 A VAL 53 n 59 VAL 53 A TYR 54 n 60 TYR 54 A GLU 55 n 61 GLU 55 A ASP 56 n 62 ASP 56 A LYS 57 n 63 LYS 57 A SER 58 n 64 SER 58 A PHE 59 n 65 PHE 59 A THR 60 n 66 THR 60 A PHE 61 n 67 PHE 61 A ILE 62 n 68 ILE 62 A ILE 63 n 69 ILE 63 A LYS 64 n 70 LYS 64 A THR 65 n 71 THR 65 A PRO 66 n 72 PRO 66 A PRO 67 n 73 PRO 67 A ALA 68 n 74 ALA 68 A SER 69 n 75 SER 69 A PHE 70 n 76 PHE 70 A LEU 71 n 77 LEU 71 A LEU 72 n 78 LEU 72 A LYS 73 n 79 LYS 73 A LYS 74 n 80 LYS 74 A ALA 75 n 81 ALA 75 A ALA 76 n 82 ALA 76 A GLY 77 n 83 GLY 77 A ILE 78 n 84 ILE 78 A GLU 79 n 85 GLU 79 A LYS 80 n 86 LYS 80 A GLY 81 n 87 GLY 81 A SER 82 n 88 SER 82 A SER 83 n 89 SER 83 A GLU 84 n 90 GLU 84 A PRO 85 n 91 PRO 85 A LYS 86 n 92 LYS 86 A ARG 87 n 93 ARG 87 A LYS 88 n 94 LYS 88 A ILE 89 n 95 ILE 89 A VAL 90 n 96 VAL 90 A GLY 91 n 97 GLY 91 A LYS 92 n 98 LYS 92 A VAL 93 n 99 VAL 93 A THR 94 n 100 THR 94 A ARG 95 n 101 ARG 95 A LYS 96 n 102 LYS 96 A GLN 97 n 103 GLN 97 A ILE 98 n 104 ILE 98 A GLU 99 n 105 GLU 99 A GLU 100 n 106 GLU 100 A ILE 101 n 107 ILE 101 A ALA 102 n 108 ALA 102 A LYS 103 n 109 LYS 103 A THR 104 n 110 THR 104 A LYS 105 n 111 LYS 105 A MET 106 n 112 MET 106 A PRO 107 n 113 PRO 107 A ASP 108 n 114 ASP 108 A LEU 109 n 115 LEU 109 A ASN 110 n 116 ASN 110 A ALA 111 n 117 ALA 111 A ASN 112 n 118 ASN 112 A SER 113 n 119 SER 113 A LEU 114 n 120 LEU 114 A GLU 115 n 121 GLU 115 A ALA 116 n 122 ALA 116 A ALA 117 n 123 ALA 117 A MET 118 n 124 MET 118 A LYS 119 n 125 LYS 119 A ILE 120 n 126 ILE 120 A ILE 121 n 127 ILE 121 A GLU 122 n 128 GLU 122 A GLY 123 n 129 GLY 123 A THR 124 n 130 THR 124 A ALA 125 n 131 ALA 125 A LYS 126 n 132 LYS 126 A SER 127 n 133 SER 127 A MET 128 n 134 MET 128 A GLY 129 n 135 GLY 129 A ILE 130 n 136 ILE 130 A GLU 131 n 137 GLU 131 A VAL 132 n 138 VAL 132 A VAL 133 n 139 VAL 133 A author_defined_assembly 1 monomeric 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 ALA -5 A ALA 1 1 Y 1 A LYS -4 A LYS 2 1 Y 1 A LYS -3 A LYS 3 1 Y 1 A VAL -2 A VAL 4 1 Y 1 A ALA -1 A ALA 5 1 Y 1 A ALA 0 A ALA 6 1 Y 0 133 0 0 133 Fitting of L11 protein in the low resolution cryo-EM map of E.coli 70S ribosome 1 N N RIBOSOME L11, cryo-EM, 70S E.coli ribosome, RIBOSOME RL11_THEMA UNP 1 1 P29395 AKKVAAQIKLQLPAGKATPAPPVGPALGQHGVNIMEFCKRFNAETADKAGMILPVVITVYEDKSFTFIIKTPPASFLLKK AAGIEKGSSEPKRKIVGKVTRKQIEEIAKTKMPDLNANSLEAAMKIIEGTAKSMGIEVV 1 139 1JQT -5 133 P29395 A 1 1 139