0.00862 0.00498 0.00000 0.00000 0.00996 0.00000 0.00000 0.00000 0.00836 0.00000 0.00000 0.00000 Joint Center for Structural Genomics (JCSG) http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 12 90.000 90.000 120.000 115.980 115.980 119.639 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 C3 H8 O3 92.094 GLYCEROL GLYCERIN; PROPANE-1,2,3-TRIOL non-polymer 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 C5 H11 N O2 Se 196.106 n SELENOMETHIONINE 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 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 To be published 0353 Crystal structure of transcription regulator from Bacteroides thetaiotaomicron VPI-5482 at 2.15 A resolution 10.2210/pdb1zyb/pdb pdb_00001zyb 100 1 Double-crystal monochromator (Si 111), toroid CCD 2005-05-05 ADSC QUANTUM 4 MAD M x-ray 1 0.979094 1.0 0.918381 1.0 BL1-5 SSRL 0.979094, 0.918381 SYNCHROTRON SSRL BEAMLINE BL1-5 27209.520 transcription regulator, CRP family 1 man polymer 92.094 GLYCEROL 7 syn non-polymer 18.015 water 187 nat water no yes (MSE)GSDKIHHHHHH(MSE)ET(MSE)FDTLLQLPLFQGLCHEDFTSILDKVKLHFIKHKAGETIIKSGNPCTQLCFLL KGEISIVTNAKENIYTVIEQIEAPYLIEPQSLFG(MSE)NTNYASSYVAHTEVHTVCISKAFVLSDLFRYDIFRLNY (MSE)NIVSNRAQNLYSRLWDEPTLDLKSKIIRFFLSHCEKPQGEKTFKVK(MSE)DDLARCLDDTRLNISKTLNELQDN GLIELHRKEILIPDAQKLL MGSDKIHHHHHHMETMFDTLLQLPLFQGLCHEDFTSILDKVKLHFIKHKAGETIIKSGNPCTQLCFLLKGEISIVTNAKE NIYTVIEQIEAPYLIEPQSLFGMNTNYASSYVAHTEVHTVCISKAFVLSDLFRYDIFRLNYMNIVSNRAQNLYSRLWDEP TLDLKSKIIRFFLSHCEKPQGEKTFKVKMDDLARCLDDTRLNISKTLNELQDNGLIELHRKEILIPDAQKLL A 358851 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 Bacteroides Bacteroides thetaiotaomicron VPI-5482 Escherichia sample np_813211.1 226186 Bacteroides thetaiotaomicron 562 Escherichia coli Plasmid 1 3.86 67.86 4.0M NaFormate, VAPOR DIFFUSION, SITTING DROP, NANODROP, temperature 273K 273 Joint Center for Structural Genomics JCSG PSI, Protein Structure Initiative software database_2 struct_conn struct_ref_seq_dif struct_site repository Initial release Version format compliance Advisory Derived calculations Source and taxonomy Version format compliance Refinement description Database references Derived calculations 1 0 2005-07-19 1 1 2008-04-30 1 2 2011-07-13 1 3 2017-10-11 1 4 2023-01-25 _software.name _database_2.pdbx_DOI _database_2.pdbx_database_accession _struct_conn.pdbx_leaving_atom_flag _struct_ref_seq_dif.details _struct_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id Y RCSB Y RCSB 2005-06-09 REL REL GOL GLYCEROL HOH water GOL 1 2 GOL GOL 221 A GOL 2 2 GOL GOL 222 A GOL 3 2 GOL GOL 223 A GOL 4 2 GOL GOL 224 A GOL 5 2 GOL GOL 225 A GOL 6 2 GOL GOL 226 A GOL 7 2 GOL GOL 227 A HOH 8 3 HOH HOH 228 A HOH 9 3 HOH HOH 229 A HOH 10 3 HOH HOH 230 A HOH 11 3 HOH HOH 231 A HOH 12 3 HOH HOH 232 A HOH 13 3 HOH HOH 233 A HOH 14 3 HOH HOH 234 A HOH 15 3 HOH HOH 235 A HOH 16 3 HOH HOH 236 A HOH 17 3 HOH HOH 237 A HOH 18 3 HOH HOH 238 A HOH 19 3 HOH HOH 239 A HOH 20 3 HOH HOH 240 A HOH 21 3 HOH HOH 241 A HOH 22 3 HOH HOH 242 A HOH 23 3 HOH HOH 243 A HOH 24 3 HOH HOH 244 A HOH 25 3 HOH HOH 245 A HOH 26 3 HOH HOH 246 A HOH 27 3 HOH HOH 247 A HOH 28 3 HOH HOH 248 A HOH 29 3 HOH HOH 249 A HOH 30 3 HOH HOH 250 A HOH 31 3 HOH HOH 251 A HOH 32 3 HOH HOH 252 A HOH 33 3 HOH HOH 253 A HOH 34 3 HOH HOH 254 A HOH 35 3 HOH HOH 255 A HOH 36 3 HOH HOH 256 A HOH 37 3 HOH HOH 257 A HOH 38 3 HOH HOH 258 A HOH 39 3 HOH HOH 259 A HOH 40 3 HOH HOH 260 A HOH 41 3 HOH HOH 261 A HOH 42 3 HOH HOH 262 A HOH 43 3 HOH HOH 263 A HOH 44 3 HOH HOH 264 A HOH 45 3 HOH HOH 265 A HOH 46 3 HOH HOH 266 A HOH 47 3 HOH HOH 267 A HOH 48 3 HOH HOH 268 A HOH 49 3 HOH HOH 269 A HOH 50 3 HOH HOH 270 A HOH 51 3 HOH HOH 271 A HOH 52 3 HOH HOH 272 A HOH 53 3 HOH HOH 273 A HOH 54 3 HOH HOH 274 A HOH 55 3 HOH HOH 275 A HOH 56 3 HOH HOH 276 A HOH 57 3 HOH HOH 277 A HOH 58 3 HOH HOH 278 A HOH 59 3 HOH HOH 279 A HOH 60 3 HOH HOH 280 A HOH 61 3 HOH HOH 281 A HOH 62 3 HOH HOH 282 A HOH 63 3 HOH HOH 283 A HOH 64 3 HOH HOH 284 A HOH 65 3 HOH HOH 285 A HOH 66 3 HOH HOH 286 A HOH 67 3 HOH HOH 287 A HOH 68 3 HOH HOH 288 A HOH 69 3 HOH HOH 289 A HOH 70 3 HOH HOH 290 A HOH 71 3 HOH HOH 291 A HOH 72 3 HOH HOH 292 A HOH 73 3 HOH HOH 293 A HOH 74 3 HOH HOH 294 A HOH 75 3 HOH HOH 295 A HOH 76 3 HOH HOH 296 A HOH 77 3 HOH HOH 297 A HOH 78 3 HOH HOH 298 A HOH 79 3 HOH HOH 299 A HOH 80 3 HOH HOH 300 A HOH 81 3 HOH HOH 301 A HOH 82 3 HOH HOH 302 A HOH 83 3 HOH HOH 303 A HOH 84 3 HOH HOH 304 A HOH 85 3 HOH HOH 305 A HOH 86 3 HOH HOH 306 A HOH 87 3 HOH HOH 307 A HOH 88 3 HOH HOH 308 A HOH 89 3 HOH HOH 309 A HOH 90 3 HOH HOH 310 A HOH 91 3 HOH HOH 311 A HOH 92 3 HOH HOH 312 A HOH 93 3 HOH HOH 313 A HOH 94 3 HOH HOH 314 A HOH 95 3 HOH HOH 315 A HOH 96 3 HOH HOH 316 A HOH 97 3 HOH HOH 317 A HOH 98 3 HOH HOH 318 A HOH 99 3 HOH HOH 319 A HOH 100 3 HOH HOH 320 A HOH 101 3 HOH HOH 321 A HOH 102 3 HOH HOH 322 A HOH 103 3 HOH HOH 323 A HOH 104 3 HOH HOH 324 A HOH 105 3 HOH HOH 325 A HOH 106 3 HOH HOH 326 A HOH 107 3 HOH HOH 327 A HOH 108 3 HOH HOH 328 A HOH 109 3 HOH HOH 329 A HOH 110 3 HOH HOH 330 A HOH 111 3 HOH HOH 331 A HOH 112 3 HOH HOH 332 A HOH 113 3 HOH HOH 333 A HOH 114 3 HOH HOH 334 A HOH 115 3 HOH HOH 335 A HOH 116 3 HOH HOH 336 A HOH 117 3 HOH HOH 337 A HOH 118 3 HOH HOH 338 A HOH 119 3 HOH HOH 339 A HOH 120 3 HOH HOH 340 A HOH 121 3 HOH HOH 341 A HOH 122 3 HOH HOH 342 A HOH 123 3 HOH HOH 343 A HOH 124 3 HOH HOH 344 A HOH 125 3 HOH HOH 345 A HOH 126 3 HOH HOH 346 A HOH 127 3 HOH HOH 347 A HOH 128 3 HOH HOH 348 A HOH 129 3 HOH HOH 349 A HOH 130 3 HOH HOH 350 A HOH 131 3 HOH HOH 351 A HOH 132 3 HOH HOH 352 A HOH 133 3 HOH HOH 353 A HOH 134 3 HOH HOH 354 A HOH 135 3 HOH HOH 355 A HOH 136 3 HOH HOH 356 A HOH 137 3 HOH HOH 357 A HOH 138 3 HOH HOH 358 A HOH 139 3 HOH HOH 359 A HOH 140 3 HOH HOH 360 A HOH 141 3 HOH HOH 361 A HOH 142 3 HOH HOH 362 A HOH 143 3 HOH HOH 363 A HOH 144 3 HOH HOH 364 A HOH 145 3 HOH HOH 365 A HOH 146 3 HOH HOH 366 A HOH 147 3 HOH HOH 367 A HOH 148 3 HOH HOH 368 A HOH 149 3 HOH HOH 369 A HOH 150 3 HOH HOH 370 A HOH 151 3 HOH HOH 371 A HOH 152 3 HOH HOH 372 A HOH 153 3 HOH HOH 373 A HOH 154 3 HOH HOH 374 A HOH 155 3 HOH HOH 375 A HOH 156 3 HOH HOH 376 A HOH 157 3 HOH HOH 377 A HOH 158 3 HOH HOH 378 A HOH 159 3 HOH HOH 379 A HOH 160 3 HOH HOH 380 A HOH 161 3 HOH HOH 381 A HOH 162 3 HOH HOH 382 A HOH 163 3 HOH HOH 383 A HOH 164 3 HOH HOH 384 A HOH 165 3 HOH HOH 385 A HOH 166 3 HOH HOH 386 A HOH 167 3 HOH HOH 387 A HOH 168 3 HOH HOH 388 A HOH 169 3 HOH HOH 389 A HOH 170 3 HOH HOH 390 A HOH 171 3 HOH HOH 391 A HOH 172 3 HOH HOH 392 A HOH 173 3 HOH HOH 393 A HOH 174 3 HOH HOH 394 A HOH 175 3 HOH HOH 395 A HOH 176 3 HOH HOH 396 A HOH 177 3 HOH HOH 397 A HOH 178 3 HOH HOH 398 A HOH 179 3 HOH HOH 399 A HOH 180 3 HOH HOH 400 A HOH 181 3 HOH HOH 401 A HOH 182 3 HOH HOH 402 A HOH 183 3 HOH HOH 403 A HOH 184 3 HOH HOH 404 A HOH 185 3 HOH HOH 405 A HOH 186 3 HOH HOH 406 A HOH 187 3 HOH HOH 407 A HOH 188 3 HOH HOH 408 A HOH 189 3 HOH HOH 409 A HOH 190 3 HOH HOH 410 A HOH 191 3 HOH HOH 411 A HOH 192 3 HOH HOH 412 A HOH 193 3 HOH HOH 413 A HOH 194 3 HOH HOH 414 A n 1 -11 A n 2 -10 A SER -9 n 3 SER -9 A ASP -8 n 4 ASP -8 A LYS -7 n 5 LYS -7 A ILE -6 n 6 ILE -6 A HIS -5 n 7 HIS -5 A HIS -4 n 8 HIS -4 A HIS -3 n 9 HIS -3 A HIS -2 n 10 HIS -2 A HIS -1 n 11 HIS -1 A HIS 0 n 12 HIS 0 A MSE 1 n 13 MSE 1 A GLU 2 n 14 GLU 2 A THR 3 n 15 THR 3 A MSE 4 n 16 MSE 4 A PHE 5 n 17 PHE 5 A ASP 6 n 18 ASP 6 A THR 7 n 19 THR 7 A LEU 8 n 20 LEU 8 A LEU 9 n 21 LEU 9 A GLN 10 n 22 GLN 10 A LEU 11 n 23 LEU 11 A PRO 12 n 24 PRO 12 A LEU 13 n 25 LEU 13 A PHE 14 n 26 PHE 14 A GLN 15 n 27 GLN 15 A GLY 16 n 28 GLY 16 A LEU 17 n 29 LEU 17 A CYS 18 n 30 CYS 18 A HIS 19 n 31 HIS 19 A GLU 20 n 32 GLU 20 A ASP 21 n 33 ASP 21 A PHE 22 n 34 PHE 22 A THR 23 n 35 THR 23 A SER 24 n 36 SER 24 A ILE 25 n 37 ILE 25 A LEU 26 n 38 LEU 26 A ASP 27 n 39 ASP 27 A LYS 28 n 40 LYS 28 A VAL 29 n 41 VAL 29 A LYS 30 n 42 LYS 30 A LEU 31 n 43 LEU 31 A HIS 32 n 44 HIS 32 A PHE 33 n 45 PHE 33 A ILE 34 n 46 ILE 34 A LYS 35 n 47 LYS 35 A HIS 36 n 48 HIS 36 A LYS 37 n 49 LYS 37 A ALA 38 n 50 ALA 38 A GLY 39 n 51 GLY 39 A GLU 40 n 52 GLU 40 A THR 41 n 53 THR 41 A ILE 42 n 54 ILE 42 A ILE 43 n 55 ILE 43 A LYS 44 n 56 LYS 44 A SER 45 n 57 SER 45 A GLY 46 n 58 GLY 46 A ASN 47 n 59 ASN 47 A PRO 48 n 60 PRO 48 A CYS 49 n 61 CYS 49 A THR 50 n 62 THR 50 A GLN 51 n 63 GLN 51 A LEU 52 n 64 LEU 52 A CYS 53 n 65 CYS 53 A PHE 54 n 66 PHE 54 A LEU 55 n 67 LEU 55 A LEU 56 n 68 LEU 56 A LYS 57 n 69 LYS 57 A GLY 58 n 70 GLY 58 A GLU 59 n 71 GLU 59 A ILE 60 n 72 ILE 60 A SER 61 n 73 SER 61 A ILE 62 n 74 ILE 62 A VAL 63 n 75 VAL 63 A THR 64 n 76 THR 64 A ASN 65 n 77 ASN 65 A ALA 66 n 78 ALA 66 A LYS 67 n 79 LYS 67 A GLU 68 n 80 GLU 68 A ASN 69 n 81 ASN 69 A ILE 70 n 82 ILE 70 A TYR 71 n 83 TYR 71 A THR 72 n 84 THR 72 A VAL 73 n 85 VAL 73 A ILE 74 n 86 ILE 74 A GLU 75 n 87 GLU 75 A GLN 76 n 88 GLN 76 A ILE 77 n 89 ILE 77 A GLU 78 n 90 GLU 78 A ALA 79 n 91 ALA 79 A PRO 80 n 92 PRO 80 A TYR 81 n 93 TYR 81 A LEU 82 n 94 LEU 82 A ILE 83 n 95 ILE 83 A GLU 84 n 96 GLU 84 A PRO 85 n 97 PRO 85 A GLN 86 n 98 GLN 86 A SER 87 n 99 SER 87 A LEU 88 n 100 LEU 88 A PHE 89 n 101 PHE 89 A GLY 90 n 102 GLY 90 A MSE 91 n 103 MSE 91 A ASN 92 n 104 ASN 92 A THR 93 n 105 THR 93 A ASN 94 n 106 ASN 94 A TYR 95 n 107 TYR 95 A ALA 96 n 108 ALA 96 A SER 97 n 109 SER 97 A SER 98 n 110 SER 98 A TYR 99 n 111 TYR 99 A VAL 100 n 112 VAL 100 A ALA 101 n 113 ALA 101 A HIS 102 n 114 HIS 102 A THR 103 n 115 THR 103 A GLU 104 n 116 GLU 104 A VAL 105 n 117 VAL 105 A HIS 106 n 118 HIS 106 A THR 107 n 119 THR 107 A VAL 108 n 120 VAL 108 A CYS 109 n 121 CYS 109 A ILE 110 n 122 ILE 110 A SER 111 n 123 SER 111 A LYS 112 n 124 LYS 112 A ALA 113 n 125 ALA 113 A PHE 114 n 126 PHE 114 A VAL 115 n 127 VAL 115 A LEU 116 n 128 LEU 116 A SER 117 n 129 SER 117 A ASP 118 n 130 ASP 118 A LEU 119 n 131 LEU 119 A PHE 120 n 132 PHE 120 A ARG 121 n 133 ARG 121 A TYR 122 n 134 TYR 122 A ASP 123 n 135 ASP 123 A ILE 124 n 136 ILE 124 A PHE 125 n 137 PHE 125 A ARG 126 n 138 ARG 126 A LEU 127 n 139 LEU 127 A ASN 128 n 140 ASN 128 A TYR 129 n 141 TYR 129 A MSE 130 n 142 MSE 130 A ASN 131 n 143 ASN 131 A ILE 132 n 144 ILE 132 A VAL 133 n 145 VAL 133 A SER 134 n 146 SER 134 A ASN 135 n 147 ASN 135 A ARG 136 n 148 ARG 136 A ALA 137 n 149 ALA 137 A GLN 138 n 150 GLN 138 A ASN 139 n 151 ASN 139 A LEU 140 n 152 LEU 140 A TYR 141 n 153 TYR 141 A SER 142 n 154 SER 142 A ARG 143 n 155 ARG 143 A LEU 144 n 156 LEU 144 A TRP 145 n 157 TRP 145 A ASP 146 n 158 ASP 146 A GLU 147 n 159 GLU 147 A PRO 148 n 160 PRO 148 A THR 149 n 161 THR 149 A LEU 150 n 162 LEU 150 A ASP 151 n 163 ASP 151 A LEU 152 n 164 LEU 152 A LYS 153 n 165 LYS 153 A SER 154 n 166 SER 154 A LYS 155 n 167 LYS 155 A ILE 156 n 168 ILE 156 A ILE 157 n 169 ILE 157 A ARG 158 n 170 ARG 158 A PHE 159 n 171 PHE 159 A PHE 160 n 172 PHE 160 A LEU 161 n 173 LEU 161 A SER 162 n 174 SER 162 A HIS 163 n 175 HIS 163 A CYS 164 n 176 CYS 164 A GLU 165 n 177 GLU 165 A LYS 166 n 178 LYS 166 A PRO 167 n 179 PRO 167 A GLN 168 n 180 GLN 168 A GLY 169 n 181 GLY 169 A GLU 170 n 182 GLU 170 A LYS 171 n 183 LYS 171 A THR 172 n 184 THR 172 A PHE 173 n 185 PHE 173 A LYS 174 n 186 LYS 174 A VAL 175 n 187 VAL 175 A LYS 176 n 188 LYS 176 A MSE 177 n 189 MSE 177 A ASP 178 n 190 ASP 178 A ASP 179 n 191 ASP 179 A LEU 180 n 192 LEU 180 A ALA 181 n 193 ALA 181 A ARG 182 n 194 ARG 182 A CYS 183 n 195 CYS 183 A LEU 184 n 196 LEU 184 A ASP 185 n 197 ASP 185 A ASP 186 n 198 ASP 186 A THR 187 n 199 THR 187 A ARG 188 n 200 ARG 188 A LEU 189 n 201 LEU 189 A ASN 190 n 202 ASN 190 A ILE 191 n 203 ILE 191 A SER 192 n 204 SER 192 A LYS 193 n 205 LYS 193 A THR 194 n 206 THR 194 A LEU 195 n 207 LEU 195 A ASN 196 n 208 ASN 196 A GLU 197 n 209 GLU 197 A LEU 198 n 210 LEU 198 A GLN 199 n 211 GLN 199 A ASP 200 n 212 ASP 200 A ASN 201 n 213 ASN 201 A GLY 202 n 214 GLY 202 A LEU 203 n 215 LEU 203 A ILE 204 n 216 ILE 204 A GLU 205 n 217 GLU 205 A LEU 206 n 218 LEU 206 A HIS 207 n 219 HIS 207 A ARG 208 n 220 ARG 208 A LYS 209 n 221 LYS 209 A GLU 210 n 222 GLU 210 A ILE 211 n 223 ILE 211 A LEU 212 n 224 LEU 212 A ILE 213 n 225 ILE 213 A PRO 214 n 226 PRO 214 A ASP 215 n 227 ASP 215 A ALA 216 n 228 ALA 216 A GLN 217 n 229 GLN 217 A LYS 218 n 230 LYS 218 A LEU 219 n 231 LEU 219 A LEU 220 n 232 LEU 220 A 1.3136 0.9782 -0.5254 1.6663 -0.1776 0.2588 -0.0555 -0.2061 -0.0828 0.1045 0.0442 0.0182 -0.0197 0.1377 0.0114 -0.1211 -0.0239 -0.0332 0.0545 0.1586 -0.0891 refined -23.4662 43.9930 1.7133 X-RAY DIFFRACTION A -9 A 3 A 220 A 232 X-RAY DIFFRACTION 1 author_and_software_defined_assembly PISA,PQS 2 dimeric 7830 -42 22000 A MSE 1 SELENOMETHIONINE A MSE 13 MET A MSE 4 SELENOMETHIONINE A MSE 16 MET A MSE 91 SELENOMETHIONINE A MSE 103 MET A MSE 130 SELENOMETHIONINE A MSE 142 MET A MSE 177 SELENOMETHIONINE A MSE 189 MET 1.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 1_555 x,y,z identity operation 0.0000000000 0.0000000000 0.0000000000 0.5000000000 0.8660254038 0.0000000000 0.8660254038 -0.5000000000 0.0000000000 0.0000000000 0.0000000000 -1.0000000000 12_564 x,x-y+1,-z-1/6 crystal symmetry operation -57.9900000000 100.4416263309 -19.9398333333 A N HIS 36 A N HIS 48 A O VAL 105 A O VAL 117 A O ILE 110 A O ILE 122 A N LEU 52 A N LEU 64 A N LEU 55 A N LEU 67 A O TYR 81 A O TYR 93 A N ILE 43 A N ILE 55 A O TYR 99 A O TYR 111 A O SER 98 A O SER 110 A N VAL 63 A N VAL 75 A N ILE 62 A N ILE 74 A O GLU 75 A O GLU 87 A N THR 72 A N THR 84 A O LYS 174 A O LYS 186 A N LYS 171 A N LYS 183 A O ILE 213 A O ILE 225 A O GLU 210 A O GLU 222 A N HIS 207 A N HIS 219 1 A HOH 339 I HOH 1 A OG SER -9 A OG SER 3 1 Y 1 A CE LYS 28 A CE LYS 40 1 Y 1 A NZ LYS 28 A NZ LYS 40 1 Y 1 A CD LYS 67 A CD LYS 79 1 Y 1 A CE LYS 67 A CE LYS 79 1 Y 1 A NZ LYS 67 A NZ LYS 79 1 Y 1 A CG ARG 208 A CG ARG 220 1 Y 1 A CD ARG 208 A CD ARG 220 1 Y 1 A NE ARG 208 A NE ARG 220 1 Y 1 A CZ ARG 208 A CZ ARG 220 1 Y 1 A NH1 ARG 208 A NH1 ARG 220 1 Y 1 A NH2 ARG 208 A NH2 ARG 220 1 Y 1 A CD LYS 218 A CD LYS 230 1 Y 1 A CE LYS 218 A CE LYS 230 1 Y 1 A NZ LYS 218 A NZ LYS 230 1 Y 1 A MSE -11 A MSE 1 1 Y 1 A GLY -10 A GLY 2 1 Y 1 A THR 7 -129.31 -82.61 1 A GLU 84 38.44 60.79 1 A ASP 118 -107.65 -66.62 1 A PRO 167 -90.13 46.48 38.566 -1.330 -0.660 0.000 -1.330 0.000 1.990 0.960 0.939 1. HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS. 2. A MET-INHIBITION PROTOCOL WAS USED FOR SELENOMETHIONINE INCORPORATION DURING PROTEIN EXPRESSION. THE OCCUPANCY OF THE SE ATOMS IN THE MSE RESIDUES WAS REDUCED TO 0.7 TO ACCOUNT FOR THE REDUCED SCATTERING POWER DUE TO PARTIAL S-MET INCORPORATION. 3. THERE EXISTS A PARTIAL DISULFIDE BOND BETWEEN CYS 53 AND CYS 109. 0.228 0.177 0.18 2.150 29.2 1332 25047 5.000 99.870 8.237 0.111 RANDOM LIKELY RESIDUAL 1 THROUGHOUT MAD 0.140 0.146 0.800 0.800 1.200 MAXIMUM LIKELIHOOD WITH PHASES BABINET MODEL WITH MASK 2.150 29.2 187 2092 42 0 1863 0.016 0.022 2000 0.001 0.020 1825 1.406 1.966 2700 0.781 3.000 4272 5.560 5.000 229 35.444 24.796 98 12.987 15.000 369 15.613 15.000 8 0.084 0.200 312 0.006 0.020 2116 0.001 0.020 379 0.210 0.200 377 0.173 0.200 1741 0.181 0.200 945 0.085 0.200 1223 0.143 0.200 142 0.179 0.200 20 0.240 0.200 103 0.232 0.200 15 2.395 3.000 1262 0.529 3.000 462 3.226 5.000 1914 5.604 8.000 897 7.474 11.000 786 0.295 0.229 2.206 97 1808 20 100.000 2.10 29.91 1ZYB 28282 0.088 0.088 1 6.400 6.800 99.900 0.766 2.10 2.15 1.000 2027 0.766 1 4.200 98.800 0.649 2.15 2.21 1.200 1986 0.649 1 5.000 100.000 0.617 2.21 2.28 1.200 1951 0.617 1 6.300 100.000 0.517 2.28 2.35 1.500 1904 0.517 1 7.400 100.000 0.404 2.35 2.42 1.900 1823 0.404 1 7.300 100.000 0.315 2.42 2.51 2.400 1797 0.315 1 7.300 100.000 0.263 2.51 2.60 2.900 1724 0.263 1 7.300 100.000 0.204 2.60 2.71 3.700 1642 0.204 1 7.300 100.000 0.162 2.71 2.83 4.700 1603 0.162 1 7.300 100.000 0.123 2.83 2.97 6.100 1531 0.123 1 7.300 100.000 0.099 2.97 3.13 7.200 1467 0.099 1 7.200 100.000 0.085 3.13 3.32 7.900 1380 0.085 1 7.200 100.000 0.073 3.32 3.55 8.900 1311 0.073 1 7.200 100.000 0.064 3.55 3.83 9.400 1220 0.064 1 7.100 100.000 0.058 3.83 4.20 10.600 1133 0.058 1 7.100 100.000 0.052 4.20 4.70 11.200 1038 0.052 1 7.000 100.000 0.049 4.70 5.42 12.200 936 0.049 1 6.900 100.000 0.052 5.42 6.64 10.300 797 0.052 1 6.800 100.000 0.037 6.64 9.39 14.400 637 0.037 1 6.400 99.800 0.032 9.39 29.91 16.300 375 0.032 1 5.600 96.000 refinement Murshudov, G.N. ccp4@dl.ac.uk Fortran http://www.ccp4.ac.uk/main.html REFMAC 5.2.0005 data scaling Phil Evans pre@mrc-lmb.cam.ac.uk Fortran http://www.ccp4.ac.uk/dist/html/INDEX.html SCALA data extraction PDB sw-help@rcsb.rutgers.edu Jan. 30, 2005 C++ http://pdb.rutgers.edu/software/ PDB_EXTRACT package 1.601 data reduction MOSFLM data scaling CCP4 (SCALA) phasing SOLVE Crystal structure of transcription regulator from Bacteroides thetaiotaomicron VPI-5482 at 2.15 A resolution 1 N N 2 N N 2 N N 2 N N 2 N N 2 N N 2 N N 2 N N 3 N N A HIS -4 A HIS 8 HELX_P A ASP 6 A ASP 18 1 1 11 A THR 7 A THR 19 HELX_P A GLN 15 A GLN 27 5 2 9 A CYS 18 A CYS 30 HELX_P A LYS 28 A LYS 40 1 3 11 A LYS 67 A LYS 79 HELX_P A ILE 70 A ILE 82 5 4 4 A GLU 84 A GLU 96 HELX_P A PHE 89 A PHE 101 5 5 6 A LYS 112 A LYS 124 HELX_P A ASP 118 A ASP 130 1 6 7 A LEU 119 A LEU 131 HELX_P A ARG 121 A ARG 133 5 7 3 A TYR 122 A TYR 134 HELX_P A LEU 144 A LEU 156 1 8 23 A ASP 151 A ASP 163 HELX_P A SER 162 A SER 174 1 9 12 A LYS 176 A LYS 188 HELX_P A ASP 185 A ASP 197 1 10 10 A THR 187 A THR 199 HELX_P A ASN 201 A ASN 213 1 11 15 A ASP 215 A ASP 227 HELX_P A LEU 220 A LEU 232 5 12 6 disulf 2.055 B B A CYS 53 A SG CYS 65 1_555 A CYS 109 A SG CYS 121 1_555 covale 1.324 both A HIS 0 A C HIS 12 1_555 A MSE 1 A N MSE 13 1_555 covale 1.326 both A MSE 1 A C MSE 13 1_555 A GLU 2 A N GLU 14 1_555 covale 1.328 both A THR 3 A C THR 15 1_555 A MSE 4 A N MSE 16 1_555 covale 1.321 both A MSE 4 A C MSE 16 1_555 A PHE 5 A N PHE 17 1_555 covale 1.332 both A GLY 90 A C GLY 102 1_555 A MSE 91 A N MSE 103 1_555 covale 1.332 both A MSE 91 A C MSE 103 1_555 A ASN 92 A N ASN 104 1_555 covale 1.331 both A TYR 129 A C TYR 141 1_555 A MSE 130 A N MSE 142 1_555 covale 1.322 both A MSE 130 A C MSE 142 1_555 A ASN 131 A N ASN 143 1_555 covale 1.307 both A LYS 176 A C LYS 188 1_555 A MSE 177 A N MSE 189 1_555 covale 1.332 both A MSE 177 A C MSE 189 1_555 A ASP 178 A N ASP 190 1_555 TRANSCRIPTION REGULATOR np_813211.1, Structural Genomics, Joint Center for Structural Genomics, JCSG, Protein Structure Initiative, PSI, TRANSCRIPTION REGULATOR A ALA 79 A ALA 91 1 A PRO 80 A PRO 92 -5.17 NP_813211 GB 1 1 29349708 METMFDTLLQLPLFQGLCHEDFTSILDKVKLHFIKHKAGETIIKSGNPCTQLCFLLKGEISIVTNAKENIYTVIEQIEAP YLIEPQSLFGMNTNYASSYVAHTEVHTVCISKAFVLSDLFRYDIFRLNYMNIVSNRAQNLYSRLWDEPTLDLKSKIIRFF LSHCEKPQGEKTFKVKMDDLARCLDDTRLNISKTLNELQDNGLIELHRKEILIPDAQKLL 1 220 1ZYB 1 220 29349708 A 1 13 232 1 expression tag MSE -11 1ZYB A 29349708 GB 1 1 expression tag GLY -10 1ZYB A 29349708 GB 2 1 expression tag SER -9 1ZYB A 29349708 GB 3 1 expression tag ASP -8 1ZYB A 29349708 GB 4 1 expression tag LYS -7 1ZYB A 29349708 GB 5 1 expression tag ILE -6 1ZYB A 29349708 GB 6 1 expression tag HIS -5 1ZYB A 29349708 GB 7 1 expression tag HIS -4 1ZYB A 29349708 GB 8 1 expression tag HIS -3 1ZYB A 29349708 GB 9 1 expression tag HIS -2 1ZYB A 29349708 GB 10 1 expression tag HIS -1 1ZYB A 29349708 GB 11 1 expression tag HIS 0 1ZYB A 29349708 GB 12 1 MET modified residue MSE 1 1ZYB A 29349708 GB 1 13 1 MET modified residue MSE 4 1ZYB A 29349708 GB 4 16 1 MET modified residue MSE 91 1ZYB A 29349708 GB 91 103 1 MET modified residue MSE 130 1ZYB A 29349708 GB 130 142 1 MET modified residue MSE 177 1ZYB A 29349708 GB 177 189 4 7 anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel A HIS 32 A HIS 44 A HIS 36 A HIS 48 A VAL 105 A VAL 117 A SER 111 A SER 123 A GLN 51 A GLN 63 A LYS 57 A LYS 69 A TYR 81 A TYR 93 A ILE 83 A ILE 95 A THR 41 A THR 53 A ILE 43 A ILE 55 A SER 98 A SER 110 A ALA 101 A ALA 113 A GLU 59 A GLU 71 A ASN 65 A ASN 77 A THR 72 A THR 84 A GLU 78 A GLU 90 A LYS 171 A LYS 183 A LYS 174 A LYS 186 A GLU 210 A GLU 222 A ILE 213 A ILE 225 A GLU 205 A GLU 217 A HIS 207 A HIS 219 BINDING SITE FOR RESIDUE GOL A 221 A GOL 221 Software 5 BINDING SITE FOR RESIDUE GOL A 222 A GOL 222 Software 4 BINDING SITE FOR RESIDUE GOL A 223 A GOL 223 Software 5 BINDING SITE FOR RESIDUE GOL A 224 A GOL 224 Software 5 BINDING SITE FOR RESIDUE GOL A 225 A GOL 225 Software 6 BINDING SITE FOR RESIDUE GOL A 226 A GOL 226 Software 8 BINDING SITE FOR RESIDUE GOL A 227 A GOL 227 Software 9 A THR 64 A THR 76 5 1_555 A ASN 65 A ASN 77 5 1_555 A ALA 96 A ALA 108 5 1_555 A TRP 145 A TRP 157 5 12_564 A HOH 237 I HOH 5 1_555 A HIS 36 A HIS 48 4 1_555 A ILE 42 A ILE 54 4 1_555 A ILE 43 A ILE 55 4 1_555 A GLN 51 A GLN 63 4 1_555 A HIS -2 A HIS 10 5 1_555 A MSE 1 A MSE 13 5 1_555 A GLU 2 A GLU 14 5 1_555 A PHE 5 A PHE 17 5 1_555 A HOH 379 I HOH 5 1_555 A HIS -1 A HIS 11 5 10_555 A LYS -7 A LYS 5 5 1_555 A HIS 0 A HIS 12 5 10_555 A THR 3 A THR 15 5 10_555 A HOH 388 I HOH 5 1_555 A VAL 175 A VAL 187 6 1_555 A MSE 177 A MSE 189 6 1_555 A HIS 207 A HIS 219 6 1_555 A LYS 209 A LYS 221 6 1_555 A GLU 210 A GLU 222 6 1_555 A HOH 311 I HOH 6 1_555 A PHE 114 A PHE 126 8 5_555 A SER 117 A SER 129 8 5_555 A ASP 118 A ASP 130 8 5_555 A LEU 206 A LEU 218 8 1_555 A HIS 207 A HIS 219 8 1_555 A HOH 326 I HOH 8 1_555 A HOH 372 I HOH 8 1_555 A HOH 381 I HOH 8 1_555 A ARG 136 A ARG 148 9 1_555 A ASN 139 A ASN 151 9 1_555 A LEU 140 A LEU 152 9 1_555 A TYR 141 A TYR 153 9 12_564 A ARG 143 A ARG 155 9 1_555 A SER 162 A SER 174 9 1_555 A CYS 164 A CYS 176 9 1_555 A GLU 165 A GLU 177 9 1_555 A HOH 354 I HOH 9 1_555 179 P 65 2 2