0.012137 0.000000 0.000000 0.000000 0.012137 0.000000 0.000000 0.000000 0.013351 0.00000 0.00000 0.00000 Czudnochowski, N. Finer-Moore, J.S. Stroud, R.M. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 8 90.00 90.00 90.00 82.390 82.390 74.900 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 Cl -1 35.453 CHLORIDE ION non-polymer 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 H2 O 18.015 WATER non-polymer 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 Pt 2 195.078 PLATINUM (II) ION non-polymer C3 H7 N O3 105.093 y SERINE L-peptide linking C4 H9 N O3 119.119 y THREONINE L-peptide linking C11 H12 N2 O2 204.225 y TRYPTOPHAN 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 CL N 75 N N N 76 R C N 77 N C N 78 N O N 79 N C N 80 N S N 81 N O 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 H N 89 N N N 90 S C N 91 N C N 92 N O N 93 N C N 94 N C N 95 N C N 96 N O N 97 N N N 98 N O 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 N N 110 S C N 111 N C N 112 N O N 113 N C N 114 N C N 115 N C N 116 N O N 117 N O N 118 N O 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 H N 128 N N N 129 N C N 130 N C N 131 N O N 132 N O N 133 N H N 134 N H N 135 N H N 136 N H N 137 N H N 138 N N N 139 S C N 140 N C N 141 N O N 142 N C Y 143 N C Y 144 N N Y 145 N C Y 146 N C Y 147 N N N 148 N O 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 H N 159 N O N 160 N H N 161 N H N 162 N N N 163 S C N 164 N C N 165 N O N 166 S C N 167 N C N 168 N C N 169 N C N 170 N O 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 H N 181 N H N 182 N H N 183 N H N 184 N N N 185 S C N 186 N C N 187 N O N 188 N C N 189 N C N 190 N C N 191 N C N 192 N O 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 H N 203 N H N 204 N H N 205 N H N 206 N N N 207 S C N 208 N C N 209 N O N 210 N C N 211 N C N 212 N C N 213 N C N 214 N N N 215 N O 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 H N 228 N H N 229 N H N 230 N H N 231 N N N 232 S C N 233 N C N 234 N O N 235 N C N 236 N C N 237 N S N 238 N C N 239 N O 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 H N 248 N H N 249 N H N 250 N H N 251 N N N 252 S C N 253 N C N 254 N O N 255 N C Y 256 N C Y 257 N C Y 258 N C Y 259 N C Y 260 N C Y 261 N C N 262 N O 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 H N 271 N H N 272 N H N 273 N H N 274 N N N 275 S C N 276 N C N 277 N O N 278 N C N 279 N C N 280 N C N 281 N O N 282 N H N 283 N H N 284 N H N 285 N H N 286 N H N 287 N H N 288 N H N 289 N H N 290 N H N 291 N PT N 292 N N N 293 S C N 294 N C N 295 N O N 296 N C N 297 N O N 298 N O N 299 N H N 300 N H N 301 N H N 302 N H N 303 N H N 304 N H N 305 N H N 306 N N N 307 S C N 308 N C N 309 N O N 310 R C N 311 N O N 312 N C N 313 N O N 314 N H N 315 N H N 316 N H N 317 N H N 318 N H N 319 N H N 320 N H N 321 N H N 322 N H N 323 N N N 324 S C N 325 N C N 326 N O N 327 N C Y 328 N C Y 329 N C Y 330 N C Y 331 N N Y 332 N C Y 333 N C Y 334 N C Y 335 N C Y 336 N C N 337 N O N 338 N H N 339 N H N 340 N H N 341 N H N 342 N H N 343 N H N 344 N H N 345 N H N 346 N H N 347 N H N 348 N H N 349 N H N 350 N N N 351 S C N 352 N C N 353 N O N 354 N C Y 355 N C Y 356 N C Y 357 N C Y 358 N C Y 359 N C Y 360 N C N 361 N O N 362 N O N 363 N H N 364 N H N 365 N H N 366 N H N 367 N H N 368 N H N 369 N H N 370 N H N 371 N H N 372 N H N 373 N H N 374 N N N 375 S C N 376 N C N 377 N O N 378 N C N 379 N C N 380 N C N 381 N O N 382 N H N 383 N H N 384 N H N 385 N H N 386 N H N 387 N H N 388 N H N 389 N H N 390 N H N 391 N H N 392 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 sing N 157 N sing N 158 N doub 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 sing N 178 N sing N 179 N doub 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 sing N 199 N sing N 200 N doub 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 sing N 223 N sing N 224 N doub 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 sing N 242 N sing N 243 N doub N 244 N sing N 245 N sing N 246 N sing N 247 N sing Y 248 N doub Y 249 N sing Y 250 N sing N 251 N sing Y 252 N doub N 253 N sing Y 254 N doub N 255 N sing Y 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 sing N 265 N sing N 266 N doub 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 sing N 282 N sing N 283 N doub 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 sing N 295 N sing N 296 N doub 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 sing N 311 N sing N 312 N doub N 313 N sing N 314 N sing N 315 N sing N 316 N sing Y 317 N doub Y 318 N sing Y 319 N sing N 320 N sing Y 321 N doub Y 322 N sing Y 323 N sing N 324 N sing Y 325 N sing Y 326 N doub N 327 N sing Y 328 N doub N 329 N sing Y 330 N sing N 331 N sing N 332 N sing N 333 N sing N 334 N sing N 335 N sing N 336 N sing N 337 N sing N 338 N sing N 339 N sing N 340 N doub N 341 N sing N 342 N sing N 343 N sing N 344 N sing Y 345 N doub Y 346 N sing Y 347 N sing N 348 N sing Y 349 N doub N 350 N sing Y 351 N doub N 352 N sing Y 353 N sing N 354 N sing N 355 N sing N 356 N sing N 357 N sing N 358 N sing N 359 N sing N 360 N sing N 361 N sing N 362 N sing N 363 N sing N 364 N doub N 365 N sing N 366 N sing N 367 N sing N 368 N sing N 369 N sing N 370 N sing N 371 N sing N 372 N sing N 373 N sing N 374 N sing N 375 N sing UK Nucleic Acids Res. NARHAD 0389 0305-1048 42 2037 2048 10.1093/nar/gkt1050 24214967 The mechanism of pseudouridine synthases from a covalent complex with RNA, and alternate specificity for U2605 versus U2604 between close homologs. 2014 10.2210/pdb4lab/pdb pdb_00004lab 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 monochromator CCD 2011-02-17 ADSC QUANTUM 315r Si(111) SINGLE WAVELENGTH M x-ray 1 1.068830 1.0 8.3.1 ALS 1.068830 SYNCHROTRON ALS BEAMLINE 8.3.1 28552.619 Ribosomal large subunit pseudouridine synthase B 5.4.99.22 UNP Residues 1-251 1 man polymer 195.078 PLATINUM (II) ION 2 syn non-polymer 35.453 CHLORIDE ION 1 syn non-polymer 18.015 water 19 nat water 23S rRNA pseudouridine(2605) synthase, rRNA pseudouridylate synthase B, rRNA-uridine isomerase B no no GPGSMSEKLQKVLARAGHGSRREIESIIEAGRVSVDGKIAKLGDRVEVTPGLKIRIDGHLISVRESAEQICRVLAYYKPE GELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTTDGELANRLMHPSREVEREYAVRVFGQVDDAKLRDL SRGVQLEDGPAAFKTIKFSGGEGINQWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPLPKGLPRGGWTELDLAQ TNYLRELVELPPETS GPGSMSEKLQKVLARAGHGSRREIESIIEAGRVSVDGKIAKLGDRVEVTPGLKIRIDGHLISVRESAEQICRVLAYYKPE GELCTRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTTDGELANRLMHPSREVEREYAVRVFGQVDDAKLRDL SRGVQLEDGPAAFKTIKFSGGEGINQWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPLPKGLPRGGWTELDLAQ TNYLRELVELPPETS 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 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 K12 sample b1269, JW1261, rluB, yciL 83333 Escherichia coli 469008 Escherichia coli BL21(DE3) PLASMID pET47 modified 1 2.23 44.74 VAPOR DIFFUSION, HANGING DROP 5.6 0.1M tri-Sodium citrate pH 5.6, 20% isopropanol, 15% PEG4000, VAPOR DIFFUSION, HANGING DROP, temperature 289K 289 software software chem_comp_atom chem_comp_bond database_2 pdbx_initial_refinement_model pdbx_struct_conn_angle struct_conn struct_ref_seq_dif struct_site repository Initial release Database references Refinement description Data collection Refinement description Data collection Database references Derived calculations Refinement description 1 0 2013-11-20 1 1 2014-02-26 1 2 2017-11-15 1 3 2019-07-17 1 4 2023-09-20 _software.classification _software.name _software.version _database_2.pdbx_DOI _database_2.pdbx_database_accession _pdbx_struct_conn_angle.ptnr1_auth_comp_id _pdbx_struct_conn_angle.ptnr1_auth_seq_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.ptnr3_auth_comp_id _pdbx_struct_conn_angle.ptnr3_auth_seq_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_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_label_asym_id _struct_ref_seq_dif.details _struct_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id RCSB Y RCSB 2013-06-19 REL REL PT PLATINUM (II) ION CL CHLORIDE ION HOH water 2GML PDB ENTRY 2GML PDB experimental model PT 301 2 PT PT 301 A PT 302 2 PT PT 302 A CL 303 3 CL CL 303 A HOH 401 4 HOH HOH 401 A HOH 402 4 HOH HOH 402 A HOH 403 4 HOH HOH 403 A HOH 404 4 HOH HOH 404 A HOH 405 4 HOH HOH 405 A HOH 406 4 HOH HOH 406 A HOH 407 4 HOH HOH 407 A HOH 408 4 HOH HOH 408 A HOH 409 4 HOH HOH 409 A HOH 410 4 HOH HOH 410 A HOH 411 4 HOH HOH 411 A HOH 412 4 HOH HOH 412 A HOH 413 4 HOH HOH 413 A HOH 414 4 HOH HOH 414 A HOH 415 4 HOH HOH 415 A HOH 416 4 HOH HOH 416 A HOH 417 4 HOH HOH 417 A HOH 418 4 HOH HOH 418 A HOH 419 4 HOH HOH 419 A n 1 -3 A n 2 -2 A n 3 -1 A n 4 0 A n 5 1 A n 6 2 A n 7 3 A n 8 4 A n 9 5 A n 10 6 A n 11 7 A n 12 8 A n 13 9 A n 14 10 A n 15 11 A n 16 12 A n 17 13 A n 18 14 A n 19 15 A n 20 16 A n 21 17 A n 22 18 A n 23 19 A n 24 20 A n 25 21 A n 26 22 A n 27 23 A n 28 24 A n 29 25 A n 30 26 A n 31 27 A n 32 28 A n 33 29 A n 34 30 A n 35 31 A n 36 32 A n 37 33 A n 38 34 A n 39 35 A n 40 36 A n 41 37 A n 42 38 A n 43 39 A n 44 40 A n 45 41 A n 46 42 A n 47 43 A n 48 44 A n 49 45 A n 50 46 A n 51 47 A n 52 48 A n 53 49 A n 54 50 A n 55 51 A n 56 52 A n 57 53 A n 58 54 A n 59 55 A n 60 56 A n 61 57 A n 62 58 A n 63 59 A n 64 60 A n 65 61 A n 66 62 A n 67 63 A n 68 64 A GLN 65 n 69 GLN 65 A ILE 66 n 70 ILE 66 A CYS 67 n 71 CYS 67 A ARG 68 n 72 ARG 68 A VAL 69 n 73 VAL 69 A LEU 70 n 74 LEU 70 A ALA 71 n 75 ALA 71 A TYR 72 n 76 TYR 72 A TYR 73 n 77 TYR 73 A LYS 74 n 78 LYS 74 A PRO 75 n 79 PRO 75 A GLU 76 n 80 GLU 76 A GLY 77 n 81 GLY 77 A GLU 78 n 82 GLU 78 A LEU 79 n 83 LEU 79 A CYS 80 n 84 CYS 80 A THR 81 n 85 THR 81 A ARG 82 n 86 ARG 82 A ASN 83 n 87 ASN 83 A ASP 84 n 88 ASP 84 A PRO 85 n 89 PRO 85 A GLU 86 n 90 GLU 86 A GLY 87 n 91 GLY 87 A ARG 88 n 92 ARG 88 A PRO 89 n 93 PRO 89 A THR 90 n 94 THR 90 A VAL 91 n 95 VAL 91 A PHE 92 n 96 PHE 92 A ASP 93 n 97 ASP 93 A ARG 94 n 98 ARG 94 A LEU 95 n 99 LEU 95 A PRO 96 n 100 PRO 96 A LYS 97 n 101 LYS 97 A LEU 98 n 102 LEU 98 A ARG 99 n 103 ARG 99 A GLY 100 n 104 GLY 100 A ALA 101 n 105 ALA 101 A ARG 102 n 106 ARG 102 A TRP 103 n 107 TRP 103 A ILE 104 n 108 ILE 104 A ALA 105 n 109 ALA 105 A VAL 106 n 110 VAL 106 A GLY 107 n 111 GLY 107 A ARG 108 n 112 ARG 108 A LEU 109 n 113 LEU 109 A ASP 110 n 114 ASP 110 A VAL 111 n 115 VAL 111 A ASN 112 n 116 ASN 112 A THR 113 n 117 THR 113 A CYS 114 n 118 CYS 114 A GLY 115 n 119 GLY 115 A LEU 116 n 120 LEU 116 A LEU 117 n 121 LEU 117 A LEU 118 n 122 LEU 118 A PHE 119 n 123 PHE 119 A THR 120 n 124 THR 120 A THR 121 n 125 THR 121 A ASP 122 n 126 ASP 122 A GLY 123 n 127 GLY 123 A GLU 124 n 128 GLU 124 A LEU 125 n 129 LEU 125 A ALA 126 n 130 ALA 126 A ASN 127 n 131 ASN 127 A ARG 128 n 132 ARG 128 A LEU 129 n 133 LEU 129 A MET 130 n 134 MET 130 A HIS 131 n 135 HIS 131 A PRO 132 n 136 PRO 132 A SER 133 n 137 SER 133 A ARG 134 n 138 ARG 134 A GLU 135 n 139 GLU 135 A VAL 136 n 140 VAL 136 A GLU 137 n 141 GLU 137 A ARG 138 n 142 ARG 138 A GLU 139 n 143 GLU 139 A TYR 140 n 144 TYR 140 A ALA 141 n 145 ALA 141 A VAL 142 n 146 VAL 142 A ARG 143 n 147 ARG 143 A VAL 144 n 148 VAL 144 A PHE 145 n 149 PHE 145 A GLY 146 n 150 GLY 146 A GLN 147 n 151 GLN 147 A VAL 148 n 152 VAL 148 A ASP 149 n 153 ASP 149 A ASP 150 n 154 ASP 150 A ALA 151 n 155 ALA 151 A LYS 152 n 156 LYS 152 A LEU 153 n 157 LEU 153 A ARG 154 n 158 ARG 154 A ASP 155 n 159 ASP 155 A LEU 156 n 160 LEU 156 A SER 157 n 161 SER 157 A ARG 158 n 162 ARG 158 A GLY 159 n 163 GLY 159 A VAL 160 n 164 VAL 160 A GLN 161 n 165 GLN 161 A LEU 162 n 166 LEU 162 A GLU 163 n 167 GLU 163 A ASP 164 n 168 ASP 164 A GLY 165 n 169 GLY 165 A PRO 166 n 170 PRO 166 A ALA 167 n 171 ALA 167 A ALA 168 n 172 ALA 168 A PHE 169 n 173 PHE 169 A LYS 170 n 174 LYS 170 A THR 171 n 175 THR 171 A ILE 172 n 176 ILE 172 A LYS 173 n 177 LYS 173 A PHE 174 n 178 PHE 174 A SER 175 n 179 SER 175 A GLY 176 n 180 GLY 176 A GLY 177 n 181 GLY 177 A GLU 178 n 182 GLU 178 A GLY 179 n 183 GLY 179 A ILE 180 n 184 ILE 180 A ASN 181 n 185 ASN 181 A GLN 182 n 186 GLN 182 A TRP 183 n 187 TRP 183 A TYR 184 n 188 TYR 184 A ASN 185 n 189 ASN 185 A VAL 186 n 190 VAL 186 A THR 187 n 191 THR 187 A LEU 188 n 192 LEU 188 A THR 189 n 193 THR 189 A GLU 190 n 194 GLU 190 A GLY 191 n 195 GLY 191 A ARG 192 n 196 ARG 192 A ASN 193 n 197 ASN 193 A ARG 194 n 198 ARG 194 A GLU 195 n 199 GLU 195 A VAL 196 n 200 VAL 196 A ARG 197 n 201 ARG 197 A ARG 198 n 202 ARG 198 A LEU 199 n 203 LEU 199 A TRP 200 n 204 TRP 200 A GLU 201 n 205 GLU 201 A ALA 202 n 206 ALA 202 A VAL 203 n 207 VAL 203 A GLY 204 n 208 GLY 204 A VAL 205 n 209 VAL 205 A GLN 206 n 210 GLN 206 A VAL 207 n 211 VAL 207 A SER 208 n 212 SER 208 A ARG 209 n 213 ARG 209 A LEU 210 n 214 LEU 210 A ILE 211 n 215 ILE 211 A ARG 212 n 216 ARG 212 A VAL 213 n 217 VAL 213 A ARG 214 n 218 ARG 214 A TYR 215 n 219 TYR 215 A GLY 216 n 220 GLY 216 A ASP 217 n 221 ASP 217 A ILE 218 n 222 ILE 218 A PRO 219 n 223 PRO 219 A LEU 220 n 224 LEU 220 A PRO 221 n 225 PRO 221 A LYS 222 n 226 LYS 222 A GLY 223 n 227 GLY 223 A LEU 224 n 228 LEU 224 A PRO 225 n 229 PRO 225 A ARG 226 n 230 ARG 226 A GLY 227 n 231 GLY 227 A GLY 228 n 232 GLY 228 A TRP 229 n 233 TRP 229 A THR 230 n 234 THR 230 A GLU 231 n 235 GLU 231 A LEU 232 n 236 LEU 232 A ASP 233 n 237 ASP 233 A LEU 234 n 238 LEU 234 A ALA 235 n 239 ALA 235 A GLN 236 n 240 GLN 236 A THR 237 n 241 THR 237 A ASN 238 n 242 ASN 238 A TYR 239 n 243 TYR 239 A LEU 240 n 244 LEU 240 A ARG 241 n 245 ARG 241 A GLU 242 n 246 GLU 242 A LEU 243 n 247 LEU 243 A VAL 244 n 248 VAL 244 A GLU 245 n 249 GLU 245 A LEU 246 n 250 LEU 246 A PRO 247 n 251 PRO 247 A PRO 248 n 252 PRO 248 A GLU 249 n 253 GLU 249 A THR 250 n 254 THR 250 A SER 251 n 255 SER 251 A 3.9293 2.7754 -0.0873 8.1207 -0.4351 4.8960 -0.0755 0.4765 0.0950 -0.4616 0.0403 -0.3759 -0.0229 0.4250 0.0718 0.2672 0.0526 0.0007 0.4986 0.0423 0.2806 refined 40.8883 8.8979 24.9800 X-RAY DIFFRACTION 1.0967 0.5513 -0.7487 4.9251 -3.0206 4.4886 0.1668 0.1774 0.3592 0.4264 0.2178 0.6725 -0.6925 -0.6268 -0.3311 0.3787 0.0761 0.1062 0.5422 0.1086 0.5803 refined 34.3758 23.6706 27.2208 X-RAY DIFFRACTION X-RAY DIFFRACTION 1 (chain A and resid 65:138) X-RAY DIFFRACTION 2 (chain A and resid 139:251) author_and_software_defined_assembly PISA 1 monomeric A CYS 114 A SG CYS 118 1_555 A PT 301 B PT PT 1_555 A ARG 226 A NH2 ARG 230 1_555 66.9 A CYS 114 A SG CYS 118 1_555 A PT 301 B PT PT 1_555 A ARG 226 A NE ARG 230 1_555 98.2 A ARG 226 A NH2 ARG 230 1_555 A PT 301 B PT PT 1_555 A ARG 226 A NE ARG 230 1_555 52.4 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 A N ILE 104 A N ILE 108 A O THR 120 A O THR 124 A N CYS 114 A N CYS 118 A O LEU 210 A O LEU 214 A N TYR 215 A N TYR 219 A O ILE 218 A O ILE 222 A N LYS 173 A N LYS 177 A O ASN 185 A O ASN 189 A O TYR 184 A O TYR 188 A N VAL 142 A N VAL 146 A N ALA 141 A N ALA 145 A O ILE 211 A O ILE 215 A O LEU 210 A O LEU 214 A N CYS 114 A N CYS 118 A O GLY 115 A O GLY 119 A N LYS 74 A N LYS 78 A N ALA 71 A N ALA 75 A O THR 230 A O THR 234 A N VAL 160 A N VAL 164 A O ALA 167 A O ALA 171 1 A CG ARG 134 A CG ARG 138 1 Y 1 A CD ARG 134 A CD ARG 138 1 Y 1 A NE ARG 134 A NE ARG 138 1 Y 1 A CZ ARG 134 A CZ ARG 138 1 Y 1 A NH1 ARG 134 A NH1 ARG 138 1 Y 1 A NH2 ARG 134 A NH2 ARG 138 1 Y 1 A CG ARG 154 A CG ARG 158 1 Y 1 A CD ARG 154 A CD ARG 158 1 Y 1 A NE ARG 154 A NE ARG 158 1 Y 1 A CZ ARG 154 A CZ ARG 158 1 Y 1 A NH1 ARG 154 A NH1 ARG 158 1 Y 1 A NH2 ARG 154 A NH2 ARG 158 1 Y 1 A CG ARG 158 A CG ARG 162 1 Y 1 A CD ARG 158 A CD ARG 162 1 Y 1 A NE ARG 158 A NE ARG 162 1 Y 1 A CZ ARG 158 A CZ ARG 162 1 Y 1 A NH1 ARG 158 A NH1 ARG 162 1 Y 1 A NH2 ARG 158 A NH2 ARG 162 1 Y 1 A CD GLN 161 A CD GLN 165 1 Y 1 A OE1 GLN 161 A OE1 GLN 165 1 Y 1 A NE2 GLN 161 A NE2 GLN 165 1 Y 1 A CG LYS 170 A CG LYS 174 1 Y 1 A CD LYS 170 A CD LYS 174 1 Y 1 A CE LYS 170 A CE LYS 174 1 Y 1 A NZ LYS 170 A NZ LYS 174 1 Y 1 A CG ARG 194 A CG ARG 198 1 Y 1 A CD ARG 194 A CD ARG 198 1 Y 1 A NE ARG 194 A NE ARG 198 1 Y 1 A CZ ARG 194 A CZ ARG 198 1 Y 1 A NH1 ARG 194 A NH1 ARG 198 1 Y 1 A NH2 ARG 194 A NH2 ARG 198 1 Y 1 A CD ARG 209 A CD ARG 213 1 Y 1 A NE ARG 209 A NE ARG 213 1 Y 1 A CZ ARG 209 A CZ ARG 213 1 Y 1 A NH1 ARG 209 A NH1 ARG 213 1 Y 1 A NH2 ARG 209 A NH2 ARG 213 1 Y 1 A CG LYS 222 A CG LYS 226 1 Y 1 A CD LYS 222 A CD LYS 226 1 Y 1 A CE LYS 222 A CE LYS 226 1 Y 1 A NZ LYS 222 A NZ LYS 226 1 Y 1 A GLY -3 A GLY 1 1 Y 1 A PRO -2 A PRO 2 1 Y 1 A GLY -1 A GLY 3 1 Y 1 A SER 0 A SER 4 1 Y 1 A MET 1 A MET 5 1 Y 1 A SER 2 A SER 6 1 Y 1 A GLU 3 A GLU 7 1 Y 1 A LYS 4 A LYS 8 1 Y 1 A LEU 5 A LEU 9 1 Y 1 A GLN 6 A GLN 10 1 Y 1 A LYS 7 A LYS 11 1 Y 1 A VAL 8 A VAL 12 1 Y 1 A LEU 9 A LEU 13 1 Y 1 A ALA 10 A ALA 14 1 Y 1 A ARG 11 A ARG 15 1 Y 1 A ALA 12 A ALA 16 1 Y 1 A GLY 13 A GLY 17 1 Y 1 A HIS 14 A HIS 18 1 Y 1 A GLY 15 A GLY 19 1 Y 1 A SER 16 A SER 20 1 Y 1 A ARG 17 A ARG 21 1 Y 1 A ARG 18 A ARG 22 1 Y 1 A GLU 19 A GLU 23 1 Y 1 A ILE 20 A ILE 24 1 Y 1 A GLU 21 A GLU 25 1 Y 1 A SER 22 A SER 26 1 Y 1 A ILE 23 A ILE 27 1 Y 1 A ILE 24 A ILE 28 1 Y 1 A GLU 25 A GLU 29 1 Y 1 A ALA 26 A ALA 30 1 Y 1 A GLY 27 A GLY 31 1 Y 1 A ARG 28 A ARG 32 1 Y 1 A VAL 29 A VAL 33 1 Y 1 A SER 30 A SER 34 1 Y 1 A VAL 31 A VAL 35 1 Y 1 A ASP 32 A ASP 36 1 Y 1 A GLY 33 A GLY 37 1 Y 1 A LYS 34 A LYS 38 1 Y 1 A ILE 35 A ILE 39 1 Y 1 A ALA 36 A ALA 40 1 Y 1 A LYS 37 A LYS 41 1 Y 1 A LEU 38 A LEU 42 1 Y 1 A GLY 39 A GLY 43 1 Y 1 A ASP 40 A ASP 44 1 Y 1 A ARG 41 A ARG 45 1 Y 1 A VAL 42 A VAL 46 1 Y 1 A GLU 43 A GLU 47 1 Y 1 A VAL 44 A VAL 48 1 Y 1 A THR 45 A THR 49 1 Y 1 A PRO 46 A PRO 50 1 Y 1 A GLY 47 A GLY 51 1 Y 1 A LEU 48 A LEU 52 1 Y 1 A LYS 49 A LYS 53 1 Y 1 A ILE 50 A ILE 54 1 Y 1 A ARG 51 A ARG 55 1 Y 1 A ILE 52 A ILE 56 1 Y 1 A ASP 53 A ASP 57 1 Y 1 A GLY 54 A GLY 58 1 Y 1 A HIS 55 A HIS 59 1 Y 1 A LEU 56 A LEU 60 1 Y 1 A ILE 57 A ILE 61 1 Y 1 A SER 58 A SER 62 1 Y 1 A VAL 59 A VAL 63 1 Y 1 A ARG 60 A ARG 64 1 Y 1 A GLU 61 A GLU 65 1 Y 1 A SER 62 A SER 66 1 Y 1 A ALA 63 A ALA 67 1 Y 1 A GLU 64 A GLU 68 1 Y 1 A PRO 85 -67.54 2.90 1 A SER 175 -86.25 -142.36 1 A GLU 190 -88.68 -149.36 0.2605 0.2306 0.2322 2.5043 58.259 471 9317 9317 5.06 99.82 0.30 1 Isotropic with TLS parameters for 2 groups 2.00 MOLECULAR REPLACEMENT 31.41 1.20 1.30 PDB ENTRY 2GML ML FLAT BULK SOLVENT MODEL 2.5043 58.259 19 1481 3 0 1459 0.006 1494 0.917 2029 14.750 553 0.060 225 0.005 268 0.3198 0.2778 2.8666 148 2867 100.00 0.2974 0.2544 3.6116 147 2921 100.00 0.2362 0.2123 58.2743 176 3058 100.00 56.5 2.5 58.259 4LAB 9324 9324 -3.0 .099 1 21.52 18.9 99.4 1.53 2.5 2.6 2.6 1 17.5 94.2 refinement PHENIX (phenix.refine: 1.8_1069) model building PHENIX refinement ELVES data reduction XDS data scaling XDS phasing PHENIX Crystal structure of the catalytic domain of RluB 1 N N 2 N N 2 N N 3 N N 4 N N A ASP 122 A ASP 126 HELX_P A HIS 131 A HIS 135 1 1 10 A ASP 149 A ASP 153 HELX_P A GLY 159 A GLY 163 1 2 11 A ARG 194 A ARG 198 HELX_P A ALA 202 A ALA 206 1 3 9 A ASP 233 A ASP 237 HELX_P A LEU 243 A LEU 247 1 4 11 metalc 2.452 A CYS 114 A SG CYS 118 1_555 A PT 301 B PT PT 1_555 metalc 2.520 A MET 130 A SD MET 134 1_555 A PT 302 C PT PT 1_555 metalc 2.414 A ARG 226 A NH2 ARG 230 1_555 A PT 301 B PT PT 1_555 metalc 2.764 A ARG 226 A NE ARG 230 1_555 A PT 301 B PT PT 1_555 RNA BINDING PROTEIN beta sheet, alpha-beta protein, pseudouridine synthase, E. coli ribosomal RNA, RNA binding protein RLUB_ECOLI UNP 1 1 P37765 MSEKLQKVLARAGHGSRREIESIIEAGRVSVDGKIAKLGDRVEVTPGLKIRIDGHLISVRESAEQICRVLAYYKPEGELC TRNDPEGRPTVFDRLPKLRGARWIAVGRLDVNTCGLLLFTTDGELANRLMHPSREVEREYAVRVFGQVDDAKLRDLSRGV QLEDGPAAFKTIKFSGGEGINQWYNVTLTEGRNREVRRLWEAVGVQVSRLIRVRYGDIPLPKGLPRGGWTELDLAQTNYL RELVELPPETSSKVAVEKDRRRMKANQIRRAVKRHSQVSGGRRSGGRNNNG 1 251 4LAB 1 251 P37765 A 1 5 255 1 expression tag GLY -3 4LAB A P37765 UNP 1 1 expression tag PRO -2 4LAB A P37765 UNP 2 1 expression tag GLY -1 4LAB A P37765 UNP 3 1 expression tag SER 0 4LAB A P37765 UNP 4 4 7 2 anti-parallel parallel anti-parallel anti-parallel anti-parallel anti-parallel parallel anti-parallel anti-parallel anti-parallel A ILE 104 A ILE 108 A ALA 105 A ALA 109 A CYS 114 A CYS 118 A THR 120 A THR 124 A VAL 207 A VAL 211 A TYR 215 A TYR 219 A ILE 218 A ILE 222 A PRO 219 A PRO 223 A THR 171 A THR 175 A GLU 178 A GLU 182 A ASN 181 A ASN 185 A LEU 188 A LEU 192 A ARG 138 A ARG 142 A VAL 144 A VAL 148 A VAL 207 A VAL 211 A TYR 215 A TYR 219 A CYS 114 A CYS 118 A THR 120 A THR 124 A VAL 69 A VAL 73 A LYS 74 A LYS 78 A TRP 229 A TRP 233 A GLU 231 A GLU 235 A VAL 160 A VAL 164 A LEU 162 A LEU 166 A GLY 165 A GLY 169 A ALA 167 A ALA 171 BINDING SITE FOR RESIDUE PT A 301 A PT 301 Software 4 BINDING SITE FOR RESIDUE PT A 302 A PT 302 Software 3 BINDING SITE FOR RESIDUE CL A 303 A CL 303 Software 2 A CYS 114 A CYS 118 4 1_555 A ARG 209 A ARG 213 4 1_555 A ARG 226 A ARG 230 4 1_555 A CL 303 D CL 4 1_555 A GLY 107 A GLY 111 3 1_555 A MET 130 A MET 134 3 1_555 A TRP 229 A TRP 233 3 3_544 A ARG 209 A ARG 213 2 1_555 A PT 301 B PT 2 1_555 96 P 43 21 2