0.018884 0.010902 0.000000 -0.000000 0.021805 0.000000 0.000000 -0.000000 0.002333 0.000000 0.000000 0.000000 2.3100 1.0200 1.5886 0.8650 20.8439 10.2075 0.5687 51.6512 0.2156 11.2296 7.3883 4.7393 0.7108 4.1231 0.2726 10.2443 25.6466 1.0796 1.7775 0.1472 0.4930 0.3229 0.1402 0.0408 10.5109 26.1257 3.1424 57.7997 0.0030 12.2126 3.1322 2.0125 1.1663 0.0057 9.8933 28.9975 0.5826 -11.5290 3.2565 3.9362 1.3998 1.0032 2.6671 6.1153 0.2001 14.0390 0.4634 0.0512 0.0594 3.0485 2.2868 1.5463 0.8670 13.2771 5.7011 0.3239 32.9089 0.2508 6.9053 5.2034 1.4379 1.5863 1.4679 22.2151 0.2536 56.1720 1.0555 0.2439 0.1886 Joint Center for Structural Genomics (JCSG) http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 18 90.000 90.000 120.000 52.956 52.956 428.627 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 Co 2 58.933 COBALT (II) ION non-polymer C3 H7 N O2 S 121.158 y CYSTEINE L-peptide linking C2 H6 O2 62.068 1,2-ETHANEDIOL ETHYLENE GLYCOL non-polymer 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 Na 1 22.990 SODIUM ION non-polymer 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 O4 S -2 96.063 SULFATE ION non-polymer 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 CO 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 C N 90 N O N 91 N C N 92 N O N 93 N H N 94 N H N 95 N H N 96 N H N 97 N H N 98 N H N 99 N N N 100 S C N 101 N C N 102 N O N 103 N C N 104 N C N 105 N C N 106 N O N 107 N N N 108 N O N 109 N H N 110 N H N 111 N H N 112 N H N 113 N H N 114 N H N 115 N H N 116 N H N 117 N H N 118 N H N 119 N N N 120 S C N 121 N C N 122 N O N 123 N C N 124 N C N 125 N C N 126 N O N 127 N O N 128 N O N 129 N H N 130 N H N 131 N H N 132 N H 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 N C N 140 N C N 141 N O N 142 N O N 143 N H N 144 N H N 145 N H N 146 N H N 147 N H N 148 N N N 149 S C N 150 N C N 151 N O N 152 N C Y 153 N C Y 154 N N Y 155 N C Y 156 N C Y 157 N N N 158 N O N 159 N H N 160 N H N 161 N H N 162 N H N 163 N H N 164 N H N 165 N H N 166 N H N 167 N H N 168 N H N 169 N O N 170 N H N 171 N H N 172 N N N 173 S C N 174 N C N 175 N O N 176 S C N 177 N C N 178 N C N 179 N C N 180 N O N 181 N H N 182 N H N 183 N H N 184 N H N 185 N H N 186 N H N 187 N H N 188 N H N 189 N H N 190 N H N 191 N H N 192 N H N 193 N H N 194 N N N 195 S C N 196 N C N 197 N O N 198 N C N 199 N C N 200 N C N 201 N C N 202 N O N 203 N H N 204 N H N 205 N H N 206 N H N 207 N H N 208 N H N 209 N H N 210 N H N 211 N H N 212 N H N 213 N H N 214 N H N 215 N H N 216 N N N 217 S C N 218 N C N 219 N O N 220 N C N 221 N C N 222 N C N 223 N C N 224 N N N 225 N O N 226 N H N 227 N H N 228 N H N 229 N H N 230 N H N 231 N H N 232 N H N 233 N H N 234 N H N 235 N H N 236 N H N 237 N H N 238 N H N 239 N H N 240 N H N 241 N N N 242 S C N 243 N C N 244 N O N 245 N C N 246 N C N 247 N S N 248 N C N 249 N O N 250 N H N 251 N H N 252 N H N 253 N H N 254 N H N 255 N H N 256 N H N 257 N H N 258 N H N 259 N H N 260 N H N 261 N NA N 262 N N N 263 S C N 264 N C N 265 N O N 266 N C Y 267 N C Y 268 N C Y 269 N C Y 270 N C Y 271 N C Y 272 N C N 273 N O N 274 N H N 275 N H N 276 N H N 277 N H 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 N N 286 S C N 287 N C N 288 N O N 289 N C N 290 N C N 291 N C N 292 N O N 293 N H 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 H N 302 N N N 303 S C N 304 N C N 305 N O N 306 N C N 307 N O 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 S N 317 N O N 318 N O N 319 N O N 320 N O N 321 N N N 322 S C N 323 N C N 324 N O N 325 R C N 326 N O N 327 N C N 328 N O N 329 N H N 330 N H 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 N N 339 S C N 340 N C N 341 N O N 342 N C Y 343 N C Y 344 N C Y 345 N C Y 346 N N Y 347 N C Y 348 N C Y 349 N C Y 350 N C Y 351 N C N 352 N O 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 361 N H N 362 N H N 363 N H N 364 N H N 365 N N N 366 S C N 367 N C N 368 N O N 369 N C Y 370 N C Y 371 N C Y 372 N C Y 373 N C Y 374 N C Y 375 N C N 376 N O N 377 N O N 378 N H N 379 N H N 380 N H N 381 N H 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 N N 390 S C N 391 N C N 392 N O N 393 N C N 394 N C N 395 N C N 396 N O N 397 N H N 398 N H N 399 N H N 400 N H N 401 N H N 402 N H N 403 N H N 404 N H N 405 N H N 406 N H N 407 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 sing N 90 N sing N 91 N sing N 92 N sing N 93 N sing N 94 N sing N 95 N sing N 96 N sing N 97 N sing N 98 N doub 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 doub N 107 N sing N 108 N sing 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 sing N 117 N doub 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 doub N 126 N sing N 127 N sing N 128 N sing N 129 N sing N 130 N sing N 131 N sing N 132 N sing N 133 N sing N 134 N sing N 135 N doub N 136 N sing N 137 N sing N 138 N sing N 139 N sing N 140 N sing N 141 N sing N 142 N sing N 143 N sing N 144 N doub N 145 N sing N 146 N sing N 147 N sing N 148 N sing Y 149 N sing Y 150 N doub Y 151 N doub N 152 N sing Y 153 N sing N 154 N sing Y 155 N sing N 156 N sing 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 doub 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 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 doub 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 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 doub 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 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 doub 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 sing N 244 N sing N 245 N sing N 246 N sing N 247 N sing N 248 N sing N 249 N sing N 250 N sing N 251 N sing N 252 N doub N 253 N sing N 254 N sing N 255 N sing N 256 N sing Y 257 N doub Y 258 N sing Y 259 N sing N 260 N sing Y 261 N doub N 262 N sing Y 263 N doub N 264 N sing Y 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 doub 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 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 doub N 293 N sing N 294 N sing N 295 N sing N 296 N sing N 297 N sing N 298 N sing N 299 N doub N 300 N doub 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 doub N 310 N sing N 311 N sing N 312 N sing N 313 N sing N 314 N sing N 315 N sing N 316 N sing N 317 N sing N 318 N sing N 319 N sing N 320 N sing N 321 N sing N 322 N sing N 323 N sing N 324 N sing N 325 N doub N 326 N sing N 327 N sing N 328 N sing N 329 N sing Y 330 N doub Y 331 N sing Y 332 N sing N 333 N sing Y 334 N doub Y 335 N sing Y 336 N sing N 337 N sing Y 338 N sing Y 339 N doub N 340 N sing Y 341 N doub N 342 N sing Y 343 N sing N 344 N sing N 345 N sing N 346 N sing N 347 N sing N 348 N sing N 349 N sing N 350 N sing N 351 N sing N 352 N sing N 353 N doub N 354 N sing N 355 N sing N 356 N sing N 357 N sing Y 358 N doub Y 359 N sing Y 360 N sing N 361 N sing Y 362 N doub N 363 N sing Y 364 N doub N 365 N sing Y 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 N 376 N sing N 377 N doub N 378 N sing N 379 N sing N 380 N sing N 381 N sing N 382 N sing N 383 N sing N 384 N sing N 385 N sing N 386 N sing N 387 N sing N 388 N sing To be published 0353 Crystal structure of a bile-acid 7-alpha dehydratase (CLOHYLEM_06634) from Clostridium hylemonae DSM 15053 at 2.20 A resolution 10.2210/pdb4l8o/pdb pdb_00004l8o 100 1 KOHZU: Double Crystal Si(111) CCD 2012-09-19 ADSC QUANTUM 315 Double Crystal Si(111) SINGLE WAVELENGTH M x-ray 1 0.999941 1.0 8.2.2 ALS 0.999941 SYNCHROTRON ALS BEAMLINE 8.2.2 22217.275 Bile acid 7a-dehydratase, BaiE 4.2.1.106 1 man polymer 58.933 COBALT (II) ION 1 syn non-polymer 22.990 SODIUM ION 1 syn non-polymer 96.063 SULFATE ION 1 syn non-polymer 62.068 1,2-ETHANEDIOL 4 syn non-polymer 18.015 water 70 nat water no no MGSDKIHHHHHHENLYFQGMSIEERLEALEKEIQKMKDIEEIKKLKGQYFRCLDGKFWDELETTLSPNIVTSYSNGKLVF HGPKEVTDYFKKAMPREEISMHMGHTPEITIDSETTATGRWYLEDKLIFTEESKYAGSGVNGGAFYTDKYEKVDGKWYIL ETGYLRVYEEHFMRDPKIKITMNMHKTK MGSDKIHHHHHHENLYFQGMSIEERLEALEKEIQKMKDIEEIKKLKGQYFRCLDGKFWDELETTLSPNIVTSYSNGKLVF HGPKEVTDYFKKAMPREEISMHMGHTPEITIDSETTATGRWYLEDKLIFTEESKYAGSGVNGGAFYTDKYEKVDGKWYIL ETGYLRVYEEHFMRDPKIKITMNMHKTK A JCSG-421786 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 sample baiE, CLOHYLEM_06634 553973 Clostridium hylemonae DSM 15053 562 Escherichia Coli PB1 Plasmid SpeedET 1 2.60 57.55 VAPOR DIFFUSION, SITTING DROP 6.5 0.01M cobalt chloride, 1.80M ammonium sulfate, 0.1M MES pH 6.5, Additive - 0.001 M 3-oxo-delta 4,6, Lithocholyl Coenzyme A, NANODROP, VAPOR DIFFUSION, SITTING DROP, temperature 293K 293 Joint Center for Structural Genomics JCSG PSI:Biology software database_2 pdbx_struct_conn_angle struct_conn struct_ref_seq_dif struct_site chem_comp_atom chem_comp_bond pdbx_initial_refinement_model repository Initial release Refinement description Database references Derived calculations Data collection Refinement description 1 0 2013-08-21 1 1 2017-11-15 1 2 2023-02-01 1 3 2023-09-20 _software.classification _software.name _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_asym_id _pdbx_struct_conn_angle.ptnr1_label_atom_id _pdbx_struct_conn_angle.ptnr1_label_comp_id _pdbx_struct_conn_angle.ptnr1_label_seq_id _pdbx_struct_conn_angle.ptnr3_auth_comp_id _pdbx_struct_conn_angle.ptnr3_auth_seq_id _pdbx_struct_conn_angle.ptnr3_label_asym_id _pdbx_struct_conn_angle.ptnr3_label_atom_id _pdbx_struct_conn_angle.ptnr3_label_comp_id _pdbx_struct_conn_angle.ptnr3_label_seq_id _struct_conn.pdbx_dist_value _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id _struct_ref_seq_dif.details _struct_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id Crystal structure of a bile-acid 7-alpha dehydratase (CLOHIR_00079) from Clostridium hiranonis DSM 13275 at 1.60 A resolution - Ortholog structure Crystal structure of a bile-acid 7-alpha dehydratase (CLOSCI_03134) from Clostridium scindens ATCC 35704 at 2.90 A resolution - Ortholog structure Y RCSB Y RCSB 2013-06-17 REL REL CO COBALT (II) ION NA SODIUM ION SO4 SULFATE ION EDO 1,2-ETHANEDIOL HOH water THIS CONSTRUCT (RESIDUES 1-169) WAS EXPRESSED WITH AN N-TERMINAL PURIFICATION TAG MGSDKIHHHHHHENLYFQG. 4L8P PDB experimental model CO 201 2 CO CO 201 A NA 202 3 NA NA 202 A SO4 203 4 SO4 SO4 203 A EDO 204 5 EDO EDO 204 A EDO 205 5 EDO EDO 205 A EDO 206 5 EDO EDO 206 A EDO 207 5 EDO EDO 207 A HOH 208 6 HOH HOH 301 A HOH 209 6 HOH HOH 302 A HOH 210 6 HOH HOH 303 A HOH 211 6 HOH HOH 304 A HOH 212 6 HOH HOH 305 A HOH 213 6 HOH HOH 306 A HOH 214 6 HOH HOH 307 A HOH 215 6 HOH HOH 308 A HOH 216 6 HOH HOH 309 A HOH 217 6 HOH HOH 310 A HOH 218 6 HOH HOH 311 A HOH 219 6 HOH HOH 312 A HOH 220 6 HOH HOH 313 A HOH 221 6 HOH HOH 314 A HOH 222 6 HOH HOH 315 A HOH 223 6 HOH HOH 316 A HOH 224 6 HOH HOH 317 A HOH 225 6 HOH HOH 318 A HOH 226 6 HOH HOH 319 A HOH 227 6 HOH HOH 320 A HOH 228 6 HOH HOH 321 A HOH 229 6 HOH HOH 322 A HOH 230 6 HOH HOH 323 A HOH 231 6 HOH HOH 324 A HOH 232 6 HOH HOH 325 A HOH 233 6 HOH HOH 326 A HOH 234 6 HOH HOH 327 A HOH 235 6 HOH HOH 328 A HOH 236 6 HOH HOH 329 A HOH 237 6 HOH HOH 330 A HOH 238 6 HOH HOH 331 A HOH 239 6 HOH HOH 332 A HOH 240 6 HOH HOH 333 A HOH 241 6 HOH HOH 334 A HOH 242 6 HOH HOH 335 A HOH 243 6 HOH HOH 336 A HOH 244 6 HOH HOH 337 A HOH 245 6 HOH HOH 338 A HOH 246 6 HOH HOH 339 A HOH 247 6 HOH HOH 340 A HOH 248 6 HOH HOH 341 A HOH 249 6 HOH HOH 342 A HOH 250 6 HOH HOH 343 A HOH 251 6 HOH HOH 344 A HOH 252 6 HOH HOH 345 A HOH 253 6 HOH HOH 346 A HOH 254 6 HOH HOH 347 A HOH 255 6 HOH HOH 348 A HOH 256 6 HOH HOH 349 A HOH 257 6 HOH HOH 350 A HOH 258 6 HOH HOH 351 A HOH 259 6 HOH HOH 352 A HOH 260 6 HOH HOH 353 A HOH 261 6 HOH HOH 354 A HOH 262 6 HOH HOH 355 A HOH 263 6 HOH HOH 356 A HOH 264 6 HOH HOH 357 A HOH 265 6 HOH HOH 358 A HOH 266 6 HOH HOH 359 A HOH 267 6 HOH HOH 360 A HOH 268 6 HOH HOH 361 A HOH 269 6 HOH HOH 362 A HOH 270 6 HOH HOH 363 A HOH 271 6 HOH HOH 364 A HOH 272 6 HOH HOH 365 A HOH 273 6 HOH HOH 366 A HOH 274 6 HOH HOH 367 A HOH 275 6 HOH HOH 368 A HOH 276 6 HOH HOH 369 A HOH 277 6 HOH HOH 370 A n 1 -18 A n 2 -17 A n 3 -16 A n 4 -15 A n 5 -14 A n 6 -13 A n 7 -12 A n 8 -11 A n 9 -10 A n 10 -9 A n 11 -8 A n 12 -7 A n 13 -6 A n 14 -5 A n 15 -4 A n 16 -3 A n 17 -2 A n 18 -1 A n 19 0 A MET 1 n 20 MET 1 A SER 2 n 21 SER 2 A ILE 3 n 22 ILE 3 A GLU 4 n 23 GLU 4 A GLU 5 n 24 GLU 5 A ARG 6 n 25 ARG 6 A LEU 7 n 26 LEU 7 A GLU 8 n 27 GLU 8 A ALA 9 n 28 ALA 9 A LEU 10 n 29 LEU 10 A GLU 11 n 30 GLU 11 A LYS 12 n 31 LYS 12 A GLU 13 n 32 GLU 13 A ILE 14 n 33 ILE 14 A GLN 15 n 34 GLN 15 A LYS 16 n 35 LYS 16 A MET 17 n 36 MET 17 A LYS 18 n 37 LYS 18 A ASP 19 n 38 ASP 19 A ILE 20 n 39 ILE 20 A GLU 21 n 40 GLU 21 A GLU 22 n 41 GLU 22 A ILE 23 n 42 ILE 23 A LYS 24 n 43 LYS 24 A LYS 25 n 44 LYS 25 A LEU 26 n 45 LEU 26 A LYS 27 n 46 LYS 27 A GLY 28 n 47 GLY 28 A GLN 29 n 48 GLN 29 A TYR 30 n 49 TYR 30 A PHE 31 n 50 PHE 31 A ARG 32 n 51 ARG 32 A CYS 33 n 52 CYS 33 A LEU 34 n 53 LEU 34 A ASP 35 n 54 ASP 35 A GLY 36 n 55 GLY 36 A LYS 37 n 56 LYS 37 A PHE 38 n 57 PHE 38 A TRP 39 n 58 TRP 39 A ASP 40 n 59 ASP 40 A GLU 41 n 60 GLU 41 A LEU 42 n 61 LEU 42 A GLU 43 n 62 GLU 43 A THR 44 n 63 THR 44 A THR 45 n 64 THR 45 A LEU 46 n 65 LEU 46 A SER 47 n 66 SER 47 A PRO 48 n 67 PRO 48 A ASN 49 n 68 ASN 49 A ILE 50 n 69 ILE 50 A VAL 51 n 70 VAL 51 A THR 52 n 71 THR 52 A SER 53 n 72 SER 53 A TYR 54 n 73 TYR 54 A n 74 55 A n 75 56 A n 76 57 A LYS 58 n 77 LYS 58 A LEU 59 n 78 LEU 59 A VAL 60 n 79 VAL 60 A PHE 61 n 80 PHE 61 A HIS 62 n 81 HIS 62 A GLY 63 n 82 GLY 63 A PRO 64 n 83 PRO 64 A LYS 65 n 84 LYS 65 A GLU 66 n 85 GLU 66 A VAL 67 n 86 VAL 67 A THR 68 n 87 THR 68 A ASP 69 n 88 ASP 69 A TYR 70 n 89 TYR 70 A PHE 71 n 90 PHE 71 A LYS 72 n 91 LYS 72 A LYS 73 n 92 LYS 73 A ALA 74 n 93 ALA 74 A MET 75 n 94 MET 75 A PRO 76 n 95 PRO 76 A ARG 77 n 96 ARG 77 A GLU 78 n 97 GLU 78 A GLU 79 n 98 GLU 79 A ILE 80 n 99 ILE 80 A SER 81 n 100 SER 81 A MET 82 n 101 MET 82 A HIS 83 n 102 HIS 83 A MET 84 n 103 MET 84 A GLY 85 n 104 GLY 85 A HIS 86 n 105 HIS 86 A THR 87 n 106 THR 87 A PRO 88 n 107 PRO 88 A GLU 89 n 108 GLU 89 A ILE 90 n 109 ILE 90 A THR 91 n 110 THR 91 A ILE 92 n 111 ILE 92 A ASP 93 n 112 ASP 93 A SER 94 n 113 SER 94 A GLU 95 n 114 GLU 95 A THR 96 n 115 THR 96 A THR 97 n 116 THR 97 A ALA 98 n 117 ALA 98 A THR 99 n 118 THR 99 A GLY 100 n 119 GLY 100 A ARG 101 n 120 ARG 101 A TRP 102 n 121 TRP 102 A TYR 103 n 122 TYR 103 A LEU 104 n 123 LEU 104 A GLU 105 n 124 GLU 105 A ASP 106 n 125 ASP 106 A LYS 107 n 126 LYS 107 A LEU 108 n 127 LEU 108 A ILE 109 n 128 ILE 109 A PHE 110 n 129 PHE 110 A THR 111 n 130 THR 111 A GLU 112 n 131 GLU 112 A GLU 113 n 132 GLU 113 A SER 114 n 133 SER 114 A LYS 115 n 134 LYS 115 A TYR 116 n 135 TYR 116 A ALA 117 n 136 ALA 117 A GLY 118 n 137 GLY 118 A SER 119 n 138 SER 119 A GLY 120 n 139 GLY 120 A VAL 121 n 140 VAL 121 A ASN 122 n 141 ASN 122 A GLY 123 n 142 GLY 123 A GLY 124 n 143 GLY 124 A ALA 125 n 144 ALA 125 A PHE 126 n 145 PHE 126 A TYR 127 n 146 TYR 127 A THR 128 n 147 THR 128 A ASP 129 n 148 ASP 129 A LYS 130 n 149 LYS 130 A TYR 131 n 150 TYR 131 A GLU 132 n 151 GLU 132 A LYS 133 n 152 LYS 133 A VAL 134 n 153 VAL 134 A ASP 135 n 154 ASP 135 A GLY 136 n 155 GLY 136 A LYS 137 n 156 LYS 137 A TRP 138 n 157 TRP 138 A TYR 139 n 158 TYR 139 A ILE 140 n 159 ILE 140 A LEU 141 n 160 LEU 141 A GLU 142 n 161 GLU 142 A THR 143 n 162 THR 143 A GLY 144 n 163 GLY 144 A TYR 145 n 164 TYR 145 A LEU 146 n 165 LEU 146 A ARG 147 n 166 ARG 147 A VAL 148 n 167 VAL 148 A TYR 149 n 168 TYR 149 A GLU 150 n 169 GLU 150 A GLU 151 n 170 GLU 151 A HIS 152 n 171 HIS 152 A PHE 153 n 172 PHE 153 A MET 154 n 173 MET 154 A ARG 155 n 174 ARG 155 A ASP 156 n 175 ASP 156 A PRO 157 n 176 PRO 157 A LYS 158 n 177 LYS 158 A ILE 159 n 178 ILE 159 A LYS 160 n 179 LYS 160 A ILE 161 n 180 ILE 161 A THR 162 n 181 THR 162 A MET 163 n 182 MET 163 A ASN 164 n 183 ASN 164 A MET 165 n 184 MET 165 A HIS 166 n 185 HIS 166 A LYS 167 n 186 LYS 167 A THR 168 n 187 THR 168 A n 188 169 A 1.5941 0.0734 0.0094 1.7673 -0.2136 1.4446 -0.0475 0.0603 0.1400 -0.1123 -0.0122 -0.1014 -0.0850 0.0806 0.0597 0.0535 -0.0167 -0.0021 0.0320 -0.0008 0.0918 refined 6.7007 11.3469 42.0699 X-RAY DIFFRACTION A 1 A 168 X-RAY DIFFRACTION 1 author_and_software_defined_assembly PISA 3 trimeric 11140 -124 23320 A HIS 86 A NE2 HIS 105 1_555 A CO 201 B CO CO 1_555 A HOH 301 I O HOH 1_555 87.7 A GLU 105 A OE1 GLU 124 1_555 A NA 202 C NA NA 1_555 A HOH 370 I O HOH 1_555 105.7 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 2_555 -y,x-y,z crystal symmetry 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 3_555 -x+y,-x,z crystal symmetry operation 0.0000000000 0.0000000000 0.0000000000 A N THR 52 A N THR 71 A O PHE 61 A O PHE 80 A N THR 91 A N THR 110 A O THR 99 A O THR 118 A N LEU 104 A N LEU 123 A O ALA 125 A O ALA 144 A N THR 128 A N THR 147 A O GLY 144 A O GLY 163 1 A CO 201 B CO 1 A NA 202 C NA 1 A SO4 203 D SO4 1 A CE LYS 12 A CE LYS 31 1 Y 1 A NZ LYS 12 A NZ LYS 31 1 Y 1 A C TYR 54 A C TYR 73 1 Y 1 A O TYR 54 A O TYR 73 1 Y 1 A CB TYR 54 A CB TYR 73 1 Y 1 A CG TYR 54 A CG TYR 73 1 Y 1 A CD1 TYR 54 A CD1 TYR 73 1 Y 1 A CD2 TYR 54 A CD2 TYR 73 1 Y 1 A CE1 TYR 54 A CE1 TYR 73 1 Y 1 A CE2 TYR 54 A CE2 TYR 73 1 Y 1 A CZ TYR 54 A CZ TYR 73 1 Y 1 A OH TYR 54 A OH TYR 73 1 Y 1 A N LYS 58 A N LYS 77 1 Y 1 A CA LYS 58 A CA LYS 77 1 Y 1 A CB LYS 58 A CB LYS 77 1 Y 1 A CG LYS 58 A CG LYS 77 1 Y 1 A CD LYS 58 A CD LYS 77 1 Y 1 A CE LYS 58 A CE LYS 77 1 Y 1 A NZ LYS 58 A NZ LYS 77 1 Y 1 A NE ARG 77 A NE ARG 96 1 Y 1 A CZ ARG 77 A CZ ARG 96 1 Y 1 A NH1 ARG 77 A NH1 ARG 96 1 Y 1 A NH2 ARG 77 A NH2 ARG 96 1 Y 1 A CD LYS 115 A CD LYS 134 1 Y 1 A CE LYS 115 A CE LYS 134 1 Y 1 A NZ LYS 115 A NZ LYS 134 1 Y 1 A CD LYS 160 A CD LYS 179 1 Y 1 A CE LYS 160 A CE LYS 179 1 Y 1 A NZ LYS 160 A NZ LYS 179 1 Y 1 A CG LYS 167 A CG LYS 186 1 Y 1 A CD LYS 167 A CD LYS 186 1 Y 1 A CE LYS 167 A CE LYS 186 1 Y 1 A NZ LYS 167 A NZ LYS 186 1 Y 1 A O THR 168 A O THR 187 1 Y 1 A MET -18 A MET 1 1 Y 1 A GLY -17 A GLY 2 1 Y 1 A SER -16 A SER 3 1 Y 1 A ASP -15 A ASP 4 1 Y 1 A LYS -14 A LYS 5 1 Y 1 A ILE -13 A ILE 6 1 Y 1 A HIS -12 A HIS 7 1 Y 1 A HIS -11 A HIS 8 1 Y 1 A HIS -10 A HIS 9 1 Y 1 A HIS -9 A HIS 10 1 Y 1 A HIS -8 A HIS 11 1 Y 1 A HIS -7 A HIS 12 1 Y 1 A GLU -6 A GLU 13 1 Y 1 A ASN -5 A ASN 14 1 Y 1 A LEU -4 A LEU 15 1 Y 1 A TYR -3 A TYR 16 1 Y 1 A PHE -2 A PHE 17 1 Y 1 A GLN -1 A GLN 18 1 Y 1 A GLY 0 A GLY 19 1 Y 1 A SER 55 A SER 74 1 Y 1 A ASN 56 A ASN 75 1 Y 1 A GLY 57 A GLY 76 1 Y 1 A LYS 169 A LYS 188 1 Y 1 A THR 87 39.88 68.48 1 A ASN 164 -165.94 106.39 103.210 35.1609 14.540 0.1100 0.1100 0.0000 0.1100 0.0000 -0.3400 0.9420 0.9320 1. HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS. 2. ATOM RECORDS CONTAIN SUM OF TLS AND RESIDUAL B FACTORS. 3. ANISOU RECORDS CONTAIN SUM OF TLS AND RESIDUAL U FACTORS. 4. WATERS WERE EXCLUDED FROM AUTOMATIC TLS ASSIGNMENT. 5. COBALT (CO+2) IS MODELED BASED ON A PEAK IN THE ANOMALOUS DIFFERENCE FOURIER AND ITS PRESCIENCE IN THE CRYSTALLIZATION CONDITIONS. 6. THE MODELED ETHYLENE GLYCOL (EDO), SULFATE (SO4) AND SODIUM IONS (NA) ARE PRESENT IN CRYO / CRYSTALLIZATION / PROTEIN BUFFER SOLUTIONS. 7. RESIDUES IN THE LOOP FROM 55-57 ALONG WITH PART OF THE NEIGHBORING RESIDUES 54 AND 58 HAVE BEEN LEFT UNMODELED. THIS LOOP IS NEAR A CRYSTALLOGRAPHIC 3-FOLD AXIS AND IT WAS DIFFICULT TO BUILD THE MULTIPLE CONFORMATIONS REQUIRED TO FIT THE DENSITY AND AVOID A SYMMETRY CLASH. 8. THE SCATTERING FACTORS FOR SODIUM, SULFUR, AND COBALT ATOMS WERE ADJUSTED BY REFMAC 5.7.0032 TO ACCOUNT FOR ANOMALOUS DISPERSION BASED ON THE WAVELENGTH 1.000 A (NA F'=0.06, S F'=0.18, CO F'=0.15). THE CROMER MANN VALUES LISTED IN THE CIF VERSION OF THE FILE INCLUDE THIS CORRECTION. 0.2250 0.1942 0.1958 2.2000 28.575 568 11786 4.8000 94.7300 1.000 0.330 9.9140 0.1250 RANDOM 1 THROUGHOUT 0.000 MOLECULAR REPLACEMENT 0.2290 0.1840 0.8000 0.8000 1.2000 4L8P MAXIMUM LIKELIHOOD BABINET MODEL WITH MASK 2.2000 28.575 70 1428 23 0 1335 0.013 0.022 1409 0.002 0.020 1319 1.319 1.969 1894 0.849 3.000 3063 6.472 5.000 170 34.979 24.688 64 13.712 15.000 265 15.092 15.000 5 0.079 0.200 201 0.005 0.020 1540 0.001 0.020 300 2.454 3.548 667 2.404 3.550 667 3.882 6.581 835 0.5040 0.5310 2.2580 28 515 543 20 61.7700 39.357 2.20 28.575 4L8O 12340 -3.000 0.086 1 12.880 98.500 0.479 2.20 2.28 2.9 5216 1092 1 4.8 94.1 0.640 2.28 2.36 3.0 7390 1148 1 6.4 99.9 0.498 2.36 2.46 3.9 7310 1108 1 6.6 100.0 0.401 2.46 2.57 4.9 7034 1067 1 6.6 100.0 0.289 2.57 2.70 6.7 6850 1035 1 6.6 100.0 0.226 2.70 2.84 8.6 6299 956 1 6.6 100.0 0.155 2.84 3.01 12.1 6069 926 1 6.6 100.0 0.104 3.01 3.22 17.4 5795 887 1 6.5 99.9 0.068 3.22 3.48 25.8 5352 824 1 6.5 100.0 0.052 3.48 3.81 31.6 4880 758 1 6.4 99.7 0.041 3.81 4.26 39.1 4343 690 1 6.3 100.0 0.032 4.26 4.92 46.3 3801 616 1 6.2 100.0 0.037 4.92 6.03 38.5 3294 545 1 6.0 99.9 0.031 6.03 8.52 41.1 2500 429 1 5.8 100.0 0.018 8.52 28.58 53.7 1365 259 1 5.3 97.0 model building D.C. & J.S. Richardson lab molprobity@kinemage.biochem.duke.edu http://kinemage.biochem.duke.edu/molprobity/ MolProbity package 3beta29 data extraction PDB deposit@deposit.rcsb.org June 10, 2010 C++ http://sw-tools.pdb.org/apps/PDB_EXTRACT/ PDB_EXTRACT package 3.10 phasing Randy J. Read cimr-phaser@lists.cam.ac.uk http://www-structmed.cimr.cam.ac.uk/phaser/ PHASER program 2.3.0 data scaling Wolfgang Kabsch http://www.mpimf-heidelberg.mpg.de/~kabsch/xds/html_doc/xscale_program.html XSCALE package March 15, 2012 refinement Garib N. Murshudov garib@ysbl.york.ac.uk Fortran_77 http://www.ccp4.ac.uk/dist/html/refmac5.html REFMAC program 5.7.0032 data reduction XDS Crystal structure of a bile-acid 7-alpha dehydratase (CLOHYLEM_06634) from Clostridium hylemonae DSM 15053 at 2.20 A resolution 1 N N 2 N N 3 N N 4 N N 5 N N 5 N N 5 N N 5 N N 6 N N A SER 2 A SER 21 HELX_P A GLY 36 A GLY 55 1 1 35 A PHE 38 A PHE 57 HELX_P A THR 44 A THR 63 1 2 7 A GLY 63 A GLY 82 HELX_P A MET 75 A MET 94 1 3 13 metalc 2.321 A HIS 86 A NE2 HIS 105 1_555 A CO 201 B CO CO 1_555 metalc 2.656 A GLU 105 A OE1 GLU 124 1_555 A NA 202 C NA NA 1_555 metalc 2.247 A CO 201 B CO CO 1_555 A HOH 301 I O HOH 1_555 metalc 2.955 A NA 202 C NA NA 1_555 A HOH 370 I O HOH 1_555 LYASE SnoaL-like domain, PF13577 family protein, Structural Genomics, Joint Center for Structural Genomics, JCSG, Protein Structure Initiative, PSI-BIOLOGY, LYASE B4YSU1_9CLOT UNP 1 1 B4YSU1 MSIEERLEALEKEIQKMKDIEEIKKLKGQYFRCLDGKFWDELETTLSPNIVTSYSNGKLVFHGPKEVTDYFKKAMPREEI SMHMGHTPEITIDSETTATGRWYLEDKLIFTEESKYAGSGVNGGAFYTDKYEKVDGKWYILETGYLRVYEEHFMRDPKIK ITMNMHKTK 1 169 4L8O 1 169 B4YSU1 A 1 20 188 1 expression tag MET -18 4L8O A B4YSU1 UNP 1 1 expression tag GLY -17 4L8O A B4YSU1 UNP 2 1 expression tag SER -16 4L8O A B4YSU1 UNP 3 1 expression tag ASP -15 4L8O A B4YSU1 UNP 4 1 expression tag LYS -14 4L8O A B4YSU1 UNP 5 1 expression tag ILE -13 4L8O A B4YSU1 UNP 6 1 expression tag HIS -12 4L8O A B4YSU1 UNP 7 1 expression tag HIS -11 4L8O A B4YSU1 UNP 8 1 expression tag HIS -10 4L8O A B4YSU1 UNP 9 1 expression tag HIS -9 4L8O A B4YSU1 UNP 10 1 expression tag HIS -8 4L8O A B4YSU1 UNP 11 1 expression tag HIS -7 4L8O A B4YSU1 UNP 12 1 expression tag GLU -6 4L8O A B4YSU1 UNP 13 1 expression tag ASN -5 4L8O A B4YSU1 UNP 14 1 expression tag LEU -4 4L8O A B4YSU1 UNP 15 1 expression tag TYR -3 4L8O A B4YSU1 UNP 16 1 expression tag PHE -2 4L8O A B4YSU1 UNP 17 1 expression tag GLN -1 4L8O A B4YSU1 UNP 18 1 expression tag GLY 0 4L8O A B4YSU1 UNP 19 2 4 anti-parallel anti-parallel anti-parallel anti-parallel A VAL 51 A VAL 70 A SER 53 A SER 72 A VAL 60 A VAL 79 A HIS 62 A HIS 81 A GLU 79 A GLU 98 A SER 94 A SER 113 A THR 97 A THR 116 A PHE 110 A PHE 129 A SER 119 A SER 138 A VAL 134 A VAL 153 A LYS 137 A LYS 156 A MET 154 A MET 173 BINDING SITE FOR RESIDUE CO A 201 A CO 201 Software 6 BINDING SITE FOR RESIDUE NA A 202 A NA 202 Software 6 BINDING SITE FOR RESIDUE SO4 A 203 A SO4 203 Software 8 BINDING SITE FOR RESIDUE EDO A 204 A EDO 204 Software 1 BINDING SITE FOR RESIDUE EDO A 205 A EDO 205 Software 7 BINDING SITE FOR RESIDUE EDO A 206 A EDO 206 Software 4 BINDING SITE FOR RESIDUE EDO A 207 A EDO 207 Software 3 A HIS 86 A HIS 105 6 1_555 A HIS 86 A HIS 105 6 2_555 A HIS 86 A HIS 105 6 3_555 A HOH 301 I HOH 6 2_555 A HOH 301 I HOH 6 3_555 A HOH 301 I HOH 6 1_555 A GLU 105 A GLU 124 6 2_555 A GLU 105 A GLU 124 6 3_555 A GLU 105 A GLU 124 6 1_555 A HOH 370 I HOH 6 2_555 A HOH 370 I HOH 6 3_555 A HOH 370 I HOH 6 1_555 A LYS 24 A LYS 43 8 3_555 A LYS 24 A LYS 43 8 2_555 A LYS 24 A LYS 43 8 1_555 A HOH 317 I HOH 8 2_555 A HOH 317 I HOH 8 1_555 A HOH 317 I HOH 8 3_555 A HOH 318 I HOH 8 3_555 A HOH 318 I HOH 8 1_555 A HIS 152 A HIS 171 1 1_555 A HIS 62 A HIS 81 7 3_565 A THR 128 A THR 147 7 1_555 A LYS 130 A LYS 149 7 1_555 A GLU 142 A GLU 161 7 1_555 A THR 143 A THR 162 7 1_555 A GLY 144 A GLY 163 7 1_555 A HOH 360 I HOH 7 1_555 A THR 52 A THR 71 4 1_555 A SER 53 A SER 72 4 1_555 A TYR 54 A TYR 73 4 1_555 A TYR 70 A TYR 89 4 1_555 A GLU 151 A GLU 170 3 3_555 A PHE 153 A PHE 172 3 3_555 A ILE 159 A ILE 178 3 1_555 155 H 3 2