0.023697 0.000000 0.000000 0.000000 0.019079 0.000000 0.000000 0.000000 0.018156 0.00000 0.00000 0.00000 Osipiuk, J. Maltseva, N. Dementieva, I. Moy, S. Joachimiak, A. Midwest Center for Structural Genomics (MCSG) http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 4 90.00 90.00 90.00 42.200 52.415 55.079 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 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 Ni 2 58.693 NICKEL (II) 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 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 N N 75 S C N 76 N C N 77 N O N 78 N C N 79 N C N 80 N C N 81 N O N 82 N N N 83 N O N 84 N H N 85 N H N 86 N H N 87 N H N 88 N H N 89 N H N 90 N H N 91 N H N 92 N H N 93 N H N 94 N N N 95 S C N 96 N C N 97 N O N 98 N C N 99 N C N 100 N C N 101 N O N 102 N O N 103 N O N 104 N H N 105 N H N 106 N H N 107 N H N 108 N H N 109 N H N 110 N H N 111 N H N 112 N H N 113 N N N 114 N C N 115 N C 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 N N 124 S C N 125 N C N 126 N O N 127 N C Y 128 N C Y 129 N N Y 130 N C Y 131 N C Y 132 N N N 133 N O N 134 N H N 135 N H N 136 N H N 137 N H N 138 N H N 139 N H N 140 N H N 141 N H N 142 N H N 143 N H N 144 N O N 145 N H N 146 N H N 147 N N N 148 S C N 149 N C N 150 N O N 151 S C N 152 N C N 153 N C N 154 N C N 155 N O N 156 N H N 157 N H N 158 N H 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 N N 170 S C N 171 N C N 172 N O N 173 N C N 174 N C N 175 N C N 176 N C N 177 N O 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 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 N N 192 S C N 193 N C N 194 N O N 195 N C N 196 N C N 197 N C N 198 N C N 199 N N N 200 N O N 201 N H N 202 N H 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 S N 223 N C N 224 N O 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 H N 232 N H N 233 N H N 234 N H N 235 N H N 236 N NI N 237 N N N 238 S C N 239 N C N 240 N O N 241 N C Y 242 N C Y 243 N C Y 244 N C Y 245 N C Y 246 N C Y 247 N C N 248 N O N 249 N H 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 N N 261 S C N 262 N C N 263 N O N 264 N C N 265 N C N 266 N C N 267 N O 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 H N 275 N H N 276 N H N 277 N N N 278 S C N 279 N C N 280 N O N 281 N C N 282 N O N 283 N O 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 N N 292 S C N 293 N C N 294 N O N 295 R C N 296 N O N 297 N C 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 H N 307 N H N 308 N N N 309 S C N 310 N C N 311 N O N 312 N C Y 313 N C Y 314 N C Y 315 N C Y 316 N N Y 317 N C Y 318 N C Y 319 N C Y 320 N C Y 321 N C N 322 N O N 323 N H N 324 N H N 325 N H N 326 N H N 327 N H N 328 N H 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 N N 336 S C N 337 N C N 338 N O N 339 N C Y 340 N C Y 341 N C Y 342 N C Y 343 N C Y 344 N C Y 345 N C N 346 N O N 347 N O N 348 N H N 349 N H 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 N N 360 S C N 361 N C N 362 N O N 363 N C N 364 N C N 365 N C N 366 N O 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 H N 375 N H N 376 N H N 377 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 doub 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 doub N 96 N sing N 97 N sing N 98 N sing N 99 N sing N 100 N sing N 101 N sing N 102 N sing N 103 N doub N 104 N sing N 105 N sing N 106 N sing 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 doub N 114 N sing N 115 N sing N 116 N sing N 117 N sing N 118 N sing N 119 N sing N 120 N sing N 121 N sing N 122 N doub N 123 N sing N 124 N sing N 125 N sing N 126 N sing Y 127 N sing Y 128 N doub Y 129 N doub N 130 N sing Y 131 N sing N 132 N sing Y 133 N sing N 134 N sing N 135 N sing 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 sing N 145 N doub N 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 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 doub 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 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 doub 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 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 doub 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 doub N 231 N sing N 232 N sing N 233 N sing N 234 N sing Y 235 N doub Y 236 N sing Y 237 N sing N 238 N sing Y 239 N doub N 240 N sing Y 241 N doub N 242 N sing Y 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 sing N 253 N doub N 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 sing N 265 N sing N 266 N sing N 267 N sing N 268 N sing N 269 N sing N 270 N doub 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 sing N 297 N sing N 298 N sing N 299 N doub N 300 N sing N 301 N sing N 302 N sing N 303 N sing Y 304 N doub Y 305 N sing Y 306 N sing N 307 N sing Y 308 N doub Y 309 N sing Y 310 N sing N 311 N sing Y 312 N sing Y 313 N doub N 314 N sing Y 315 N doub N 316 N sing Y 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 sing N 326 N sing N 327 N doub N 328 N sing N 329 N sing N 330 N sing N 331 N sing Y 332 N doub Y 333 N sing Y 334 N sing N 335 N sing Y 336 N doub N 337 N sing Y 338 N doub N 339 N sing Y 340 N sing N 341 N sing N 342 N sing N 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 doub N 352 N sing N 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 To be Published 0353 X-ray crystal structure of YpmB protein from Bacillus subtilis. 10.2210/pdb2gu3/pdb pdb_00002gu3 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 CCD 2006-04-19 SBC-3 double crystal monochromator MAD M x-ray 1 0.97872 1.0 1.48520 1.0 1.48590 1.0 1.45180 1.0 19-BM APS 0.97872, 1.48520, 1.48590, 1.45180 SYNCHROTRON APS BEAMLINE 19-BM 15055.077 YpmB protein 1 man polymer 58.693 NICKEL (II) ION 1 syn non-polymer 18.015 water 145 nat water no no SNASAMAQKEEGHEAAAAEAKKETDLAHVDQVETFVGKEKYYVVKGTDKKGTALYVWVPADKKAKILSKEAKEGISEDKA AKIIKDEGLVSKQKEVHLAREGNVLLWEVTYLDKEGQYSLSYVDFTTGKILKNITP SNASAMAQKEEGHEAAAAEAKKETDLAHVDQVETFVGKEKYYVVKGTDKKGTALYVWVPADKKAKILSKEAKEGISEDKA AKIIKDEGLVSKQKEVHLAREGNVLLWEVTYLDKEGQYSLSYVDFTTGKILKNITP A APC1927 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 Bacillus Bacillus subtilis subsp. subtilis str. 168 Escherichia Escherichia coli sample ypmB, BSU22380 224308 Bacillus subtilis subsp. subtilis str. 168 469008 Escherichia coli BL21(DE3) BL21(DE3) plasmid pMCSG7 1 2.02 39.19 VAPOR DIFFUSION, HANGING DROP 8.5 10 mM nickel chloride, 25% PEG 2000 MME, 100 mM Tris buffer, pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 295K 295 Midwest Center for Structural Genomics MCSG PSI, Protein Structure Initiative chem_comp_atom chem_comp_bond database_2 pdbx_struct_conn_angle struct_conn struct_ref_seq_dif struct_site repository Initial release Version format compliance Advisory Version format compliance Data collection Database references Derived calculations 1 0 2006-05-30 1 1 2008-05-01 1 2 2011-07-13 1 3 2024-02-14 _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.ptnr1_symmetry _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 _pdbx_struct_conn_angle.ptnr3_symmetry _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_asym_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_symmetry _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_conn.ptnr2_label_seq_id _struct_conn.ptnr2_symmetry _struct_ref_seq_dif.details _struct_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id BIOMOLECULE: 1 THIS ENTRY CONTAINS THE CRYSTALLOGRAPHIC ASYMMETRIC UNIT WHICH CONSISTS OF 1 CHAIN. THE BIOLOGICAL UNIT OF THIS PROTEIN IS UNKNOWN. Y RCSB Y RCSB 2006-04-28 REL REL NI NICKEL (II) ION HOH water NI 201 2 NI NI 201 A HOH 1 3 HOH HOH 202 A HOH 2 3 HOH HOH 203 A HOH 3 3 HOH HOH 204 A HOH 4 3 HOH HOH 205 A HOH 5 3 HOH HOH 206 A HOH 6 3 HOH HOH 207 A HOH 7 3 HOH HOH 208 A HOH 8 3 HOH HOH 209 A HOH 9 3 HOH HOH 210 A HOH 10 3 HOH HOH 211 A HOH 11 3 HOH HOH 212 A HOH 12 3 HOH HOH 213 A HOH 13 3 HOH HOH 214 A HOH 14 3 HOH HOH 215 A HOH 15 3 HOH HOH 216 A HOH 16 3 HOH HOH 217 A HOH 17 3 HOH HOH 218 A HOH 18 3 HOH HOH 219 A HOH 19 3 HOH HOH 220 A HOH 20 3 HOH HOH 221 A HOH 21 3 HOH HOH 222 A HOH 22 3 HOH HOH 223 A HOH 23 3 HOH HOH 224 A HOH 24 3 HOH HOH 225 A HOH 25 3 HOH HOH 226 A HOH 26 3 HOH HOH 227 A HOH 27 3 HOH HOH 228 A HOH 28 3 HOH HOH 229 A HOH 29 3 HOH HOH 230 A HOH 30 3 HOH HOH 231 A HOH 31 3 HOH HOH 232 A HOH 32 3 HOH HOH 233 A HOH 33 3 HOH HOH 234 A HOH 34 3 HOH HOH 235 A HOH 35 3 HOH HOH 236 A HOH 36 3 HOH HOH 237 A HOH 37 3 HOH HOH 238 A HOH 38 3 HOH HOH 239 A HOH 39 3 HOH HOH 240 A HOH 40 3 HOH HOH 241 A HOH 41 3 HOH HOH 242 A HOH 42 3 HOH HOH 243 A HOH 43 3 HOH HOH 244 A HOH 44 3 HOH HOH 245 A HOH 45 3 HOH HOH 246 A HOH 46 3 HOH HOH 247 A HOH 47 3 HOH HOH 248 A HOH 48 3 HOH HOH 249 A HOH 49 3 HOH HOH 250 A HOH 50 3 HOH HOH 251 A HOH 51 3 HOH HOH 252 A HOH 52 3 HOH HOH 253 A HOH 53 3 HOH HOH 254 A HOH 54 3 HOH HOH 255 A HOH 55 3 HOH HOH 256 A HOH 56 3 HOH HOH 257 A HOH 57 3 HOH HOH 258 A HOH 58 3 HOH HOH 259 A HOH 59 3 HOH HOH 260 A HOH 60 3 HOH HOH 261 A HOH 61 3 HOH HOH 262 A HOH 62 3 HOH HOH 263 A HOH 63 3 HOH HOH 264 A HOH 64 3 HOH HOH 265 A HOH 65 3 HOH HOH 266 A HOH 66 3 HOH HOH 267 A HOH 67 3 HOH HOH 268 A HOH 68 3 HOH HOH 269 A HOH 69 3 HOH HOH 270 A HOH 70 3 HOH HOH 271 A HOH 71 3 HOH HOH 272 A HOH 72 3 HOH HOH 273 A HOH 73 3 HOH HOH 274 A HOH 74 3 HOH HOH 275 A HOH 75 3 HOH HOH 276 A HOH 76 3 HOH HOH 277 A HOH 77 3 HOH HOH 278 A HOH 78 3 HOH HOH 279 A HOH 79 3 HOH HOH 280 A HOH 80 3 HOH HOH 281 A HOH 81 3 HOH HOH 282 A HOH 82 3 HOH HOH 283 A HOH 83 3 HOH HOH 284 A HOH 84 3 HOH HOH 285 A HOH 85 3 HOH HOH 286 A HOH 86 3 HOH HOH 287 A HOH 87 3 HOH HOH 288 A HOH 88 3 HOH HOH 289 A HOH 89 3 HOH HOH 290 A HOH 90 3 HOH HOH 291 A HOH 91 3 HOH HOH 292 A HOH 92 3 HOH HOH 293 A HOH 93 3 HOH HOH 294 A HOH 94 3 HOH HOH 295 A HOH 95 3 HOH HOH 296 A HOH 96 3 HOH HOH 297 A HOH 97 3 HOH HOH 298 A HOH 98 3 HOH HOH 299 A HOH 99 3 HOH HOH 300 A HOH 100 3 HOH HOH 301 A HOH 101 3 HOH HOH 302 A HOH 102 3 HOH HOH 303 A HOH 103 3 HOH HOH 304 A HOH 104 3 HOH HOH 305 A HOH 105 3 HOH HOH 306 A HOH 106 3 HOH HOH 307 A HOH 107 3 HOH HOH 308 A HOH 108 3 HOH HOH 309 A HOH 109 3 HOH HOH 310 A HOH 110 3 HOH HOH 311 A HOH 111 3 HOH HOH 312 A HOH 112 3 HOH HOH 313 A HOH 113 3 HOH HOH 314 A HOH 114 3 HOH HOH 315 A HOH 115 3 HOH HOH 316 A HOH 116 3 HOH HOH 317 A HOH 117 3 HOH HOH 318 A HOH 118 3 HOH HOH 319 A HOH 119 3 HOH HOH 320 A HOH 120 3 HOH HOH 321 A HOH 121 3 HOH HOH 322 A HOH 122 3 HOH HOH 323 A HOH 123 3 HOH HOH 324 A HOH 124 3 HOH HOH 325 A HOH 125 3 HOH HOH 326 A HOH 126 3 HOH HOH 327 A HOH 127 3 HOH HOH 328 A HOH 128 3 HOH HOH 329 A HOH 129 3 HOH HOH 330 A HOH 130 3 HOH HOH 331 A HOH 131 3 HOH HOH 332 A HOH 132 3 HOH HOH 333 A HOH 133 3 HOH HOH 334 A HOH 134 3 HOH HOH 335 A HOH 135 3 HOH HOH 336 A HOH 136 3 HOH HOH 337 A HOH 137 3 HOH HOH 338 A HOH 138 3 HOH HOH 339 A HOH 139 3 HOH HOH 340 A HOH 140 3 HOH HOH 341 A HOH 141 3 HOH HOH 342 A HOH 142 3 HOH HOH 343 A HOH 143 3 HOH HOH 344 A HOH 144 3 HOH HOH 345 A HOH 145 3 HOH HOH 346 A n 1 26 A n 2 27 A n 3 28 A n 4 29 A n 5 30 A n 6 31 A n 7 32 A n 8 33 A LYS 34 n 9 LYS 34 A GLU 35 n 10 GLU 35 A GLU 36 n 11 GLU 36 A GLY 37 n 12 GLY 37 A HIS 38 n 13 HIS 38 A GLU 39 n 14 GLU 39 A ALA 40 n 15 ALA 40 A ALA 41 n 16 ALA 41 A ALA 42 n 17 ALA 42 A ALA 43 n 18 ALA 43 A GLU 44 n 19 GLU 44 A ALA 45 n 20 ALA 45 A LYS 46 n 21 LYS 46 A LYS 47 n 22 LYS 47 A GLU 48 n 23 GLU 48 A THR 49 n 24 THR 49 A ASP 50 n 25 ASP 50 A LEU 51 n 26 LEU 51 A ALA 52 n 27 ALA 52 A HIS 53 n 28 HIS 53 A VAL 54 n 29 VAL 54 A ASP 55 n 30 ASP 55 A GLN 56 n 31 GLN 56 A VAL 57 n 32 VAL 57 A GLU 58 n 33 GLU 58 A THR 59 n 34 THR 59 A PHE 60 n 35 PHE 60 A VAL 61 n 36 VAL 61 A GLY 62 n 37 GLY 62 A LYS 63 n 38 LYS 63 A GLU 64 n 39 GLU 64 A LYS 65 n 40 LYS 65 A TYR 66 n 41 TYR 66 A TYR 67 n 42 TYR 67 A VAL 68 n 43 VAL 68 A VAL 69 n 44 VAL 69 A LYS 70 n 45 LYS 70 A GLY 71 n 46 GLY 71 A THR 72 n 47 THR 72 A ASP 73 n 48 ASP 73 A LYS 74 n 49 LYS 74 A LYS 75 n 50 LYS 75 A GLY 76 n 51 GLY 76 A THR 77 n 52 THR 77 A ALA 78 n 53 ALA 78 A LEU 79 n 54 LEU 79 A TYR 80 n 55 TYR 80 A VAL 81 n 56 VAL 81 A TRP 82 n 57 TRP 82 A VAL 83 n 58 VAL 83 A PRO 84 n 59 PRO 84 A ALA 85 n 60 ALA 85 A ASP 86 n 61 ASP 86 A LYS 87 n 62 LYS 87 A LYS 88 n 63 LYS 88 A ALA 89 n 64 ALA 89 A LYS 90 n 65 LYS 90 A ILE 91 n 66 ILE 91 A LEU 92 n 67 LEU 92 A SER 93 n 68 SER 93 A LYS 94 n 69 LYS 94 A GLU 95 n 70 GLU 95 A ALA 96 n 71 ALA 96 A LYS 97 n 72 LYS 97 A GLU 98 n 73 GLU 98 A GLY 99 n 74 GLY 99 A ILE 100 n 75 ILE 100 A SER 101 n 76 SER 101 A GLU 102 n 77 GLU 102 A ASP 103 n 78 ASP 103 A LYS 104 n 79 LYS 104 A ALA 105 n 80 ALA 105 A ALA 106 n 81 ALA 106 A LYS 107 n 82 LYS 107 A ILE 108 n 83 ILE 108 A ILE 109 n 84 ILE 109 A LYS 110 n 85 LYS 110 A ASP 111 n 86 ASP 111 A GLU 112 n 87 GLU 112 A GLY 113 n 88 GLY 113 A LEU 114 n 89 LEU 114 A VAL 115 n 90 VAL 115 A SER 116 n 91 SER 116 A LYS 117 n 92 LYS 117 A GLN 118 n 93 GLN 118 A LYS 119 n 94 LYS 119 A GLU 120 n 95 GLU 120 A VAL 121 n 96 VAL 121 A HIS 122 n 97 HIS 122 A LEU 123 n 98 LEU 123 A ALA 124 n 99 ALA 124 A ARG 125 n 100 ARG 125 A GLU 126 n 101 GLU 126 A GLY 127 n 102 GLY 127 A ASN 128 n 103 ASN 128 A VAL 129 n 104 VAL 129 A LEU 130 n 105 LEU 130 A LEU 131 n 106 LEU 131 A TRP 132 n 107 TRP 132 A GLU 133 n 108 GLU 133 A VAL 134 n 109 VAL 134 A THR 135 n 110 THR 135 A TYR 136 n 111 TYR 136 A LEU 137 n 112 LEU 137 A ASP 138 n 113 ASP 138 A LYS 139 n 114 LYS 139 A GLU 140 n 115 GLU 140 A GLY 141 n 116 GLY 141 A GLN 142 n 117 GLN 142 A TYR 143 n 118 TYR 143 A SER 144 n 119 SER 144 A LEU 145 n 120 LEU 145 A SER 146 n 121 SER 146 A TYR 147 n 122 TYR 147 A VAL 148 n 123 VAL 148 A ASP 149 n 124 ASP 149 A PHE 150 n 125 PHE 150 A THR 151 n 126 THR 151 A THR 152 n 127 THR 152 A GLY 153 n 128 GLY 153 A LYS 154 n 129 LYS 154 A ILE 155 n 130 ILE 155 A LEU 156 n 131 LEU 156 A LYS 157 n 132 LYS 157 A ASN 158 n 133 ASN 158 A ILE 159 n 134 ILE 159 A THR 160 n 135 THR 160 A PRO 161 n 136 PRO 161 A 1.9276 -0.1269 -0.2581 1.0520 -0.4930 0.9844 -0.0498 -0.0322 -0.1194 -0.0896 -0.0162 -0.1429 -0.0174 -0.0854 0.0660 -0.0483 -0.0122 0.0112 -0.0585 0.0081 -0.0380 refined 18.9556 27.4075 28.8769 X-RAY DIFFRACTION A 34 A 9 A 161 A 136 X-RAY DIFFRACTION 1 author_defined_assembly 1 monomeric A HIS 53 A NE2 HIS 28 1_555 A NI 201 B NI NI 1_555 A HIS 122 A NE2 HIS 97 4_466 90.1 A HIS 53 A NE2 HIS 28 1_555 A NI 201 B NI NI 1_555 A HOH 219 C O HOH 4_466 110.0 A HIS 122 A NE2 HIS 97 4_466 A NI 201 B NI NI 1_555 A HOH 219 C O HOH 4_466 95.6 A HIS 53 A NE2 HIS 28 1_555 A NI 201 B NI NI 1_555 A HOH 264 C O HOH 1_555 172.6 A HIS 122 A NE2 HIS 97 4_466 A NI 201 B NI NI 1_555 A HOH 264 C O HOH 1_555 96.4 A HOH 219 C O HOH 4_466 A NI 201 B NI NI 1_555 A HOH 264 C O HOH 1_555 73.1 A HIS 53 A NE2 HIS 28 1_555 A NI 201 B NI NI 1_555 A HOH 268 C O HOH 1_555 90.9 A HIS 122 A NE2 HIS 97 4_466 A NI 201 B NI NI 1_555 A HOH 268 C O HOH 1_555 176.1 A HOH 219 C O HOH 4_466 A NI 201 B NI NI 1_555 A HOH 268 C O HOH 1_555 80.5 A HOH 264 C O HOH 1_555 A NI 201 B NI NI 1_555 A HOH 268 C O HOH 1_555 82.9 A HIS 53 A NE2 HIS 28 1_555 A NI 201 B NI NI 1_555 A HOH 295 C O HOH 1_555 76.4 A HIS 122 A NE2 HIS 97 4_466 A NI 201 B NI NI 1_555 A HOH 295 C O HOH 1_555 86.2 A HOH 219 C O HOH 4_466 A NI 201 B NI NI 1_555 A HOH 295 C O HOH 1_555 173.3 A HOH 264 C O HOH 1_555 A NI 201 B NI NI 1_555 A HOH 295 C O HOH 1_555 100.4 A HOH 268 C O HOH 1_555 A NI 201 B NI NI 1_555 A HOH 295 C O HOH 1_555 97.7 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 A N GLU 58 A N GLU 33 A O VAL 68 A O VAL 43 A N VAL 69 A N VAL 44 A O VAL 81 A O VAL 56 A N TRP 82 A N TRP 57 A O LEU 92 A O LEU 67 A N GLU 120 A N GLU 95 A O THR 135 A O THR 110 A N VAL 134 A N VAL 109 A O SER 146 A O SER 121 A N LEU 145 A N LEU 120 A O ILE 159 A O ILE 134 1 A SER 26 A SER 1 1 Y 1 A ASN 27 A ASN 2 1 Y 1 A ALA 28 A ALA 3 1 Y 1 A SER 29 A SER 4 1 Y 1 A ALA 30 A ALA 5 1 Y 1 A MET 31 A MET 6 1 Y 1 A ALA 32 A ALA 7 1 Y 1 A GLN 33 A GLN 8 1 Y 1 A LYS 119 -114.20 -81.67 24.636 -1.29 0.00 0.00 0.76 0.00 0.53 0.958 HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS. ALL DATA WERE USED IN FINAL ROUND OF REFINEMENT. R-FACTOR-ALL CORRESPONDS TO DEPOSITED FILE. R-WORK AND R-FREE FACTORS ARE TAKEN FROM SECOND TO LAST ROUND OF REFINEMENT WHICH USED TEST DATA SET. 0.2144 0.188 0.188 0.188 1.74 28.30 624 12750 12750 98.34 3.635 0.064 RANDOM LIKELY RESIDUAL 1 0 0 MAD 0.125 0.80 0.80 1.20 MAXIMUM LIKELIHOOD MASK 1.74 28.30 145 1154 1 0 1008 0.017 0.022 1037 1.576 1.975 1398 6.451 5.000 131 35.228 26.591 44 14.245 15.000 206 5.325 15.000 1 0.125 0.200 157 0.008 0.020 753 0.217 0.200 442 0.309 0.200 696 0.162 0.200 139 0.136 0.200 1 0.267 0.200 28 0.133 0.200 21 1.134 1.500 656 1.741 2.000 1027 2.869 3.000 437 4.261 4.500 369 0.306 0.262 1.789 51 807 807 20 87.43 30.7 1.74 28.3 2GU3 12792 12792 0 0 0.056 1 25.5 4.7 98.4 0.451 1.74 1.78 2.44 790 1 3.5 88.6 refinement REFMAC 5.2.0019 data collection SBC-Collect data scaling SCALEPACK phasing HKL-3000 phasing SHELXD phasing MLPHARE phasing DM phasing SOLVE phasing RESOLVE YpmB protein from Bacillus subtilis 1 N N 2 N N 3 N N A GLY 37 A GLY 12 HELX_P A THR 49 A THR 24 1 1 13 A LYS 97 A LYS 72 HELX_P A GLY 99 A GLY 74 5 2 3 A SER 101 A SER 76 HELX_P A GLU 112 A GLU 87 1 3 12 metalc 2.189 A HIS 53 A NE2 HIS 28 1_555 A NI 201 B NI NI 1_555 metalc 2.149 A HIS 122 A NE2 HIS 97 4_466 A NI 201 B NI NI 1_555 metalc 2.252 A NI 201 B NI NI 1_555 A HOH 219 C O HOH 4_466 metalc 2.163 A NI 201 B NI NI 1_555 A HOH 264 C O HOH 1_555 metalc 2.252 A NI 201 B NI NI 1_555 A HOH 268 C O HOH 1_555 metalc 1.774 A NI 201 B NI NI 1_555 A HOH 295 C O HOH 1_555 STRUCTURAL GENOMICS, UNKNOWN FUNCTION APC1927, structural genomics, PSI, Protein Structure Initiative, Midwest Center for Structural Genomics, MCSG, UNKNOWN FUNCTION CAB14154 GB 1 29 2634656 SAMAQKEEGHEAAAAEAKKETDLAHVDQVETFVGKEKYYVVKGTDKKGTALYVWVPADKKAKILSKEAKEGISEDKAAKI IKDEGLVSKQKEVHLAREGNVLLWEVTYLDKEGQYSLSYVDFTTGKILKNITP 29 161 2GU3 29 161 2634656 A 1 4 136 1 cloning artifact SER 26 2GU3 A 2634656 GB 1 1 cloning artifact ASN 27 2GU3 A 2634656 GB 2 1 cloning artifact ALA 28 2GU3 A 2634656 GB 3 4 4 anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel anti-parallel A LEU 51 A LEU 26 A VAL 61 A VAL 36 A LYS 65 A LYS 40 A ASP 73 A ASP 48 A ALA 78 A ALA 53 A PRO 84 A PRO 59 A LEU 92 A LEU 67 A GLU 95 A GLU 70 A LYS 117 A LYS 92 A GLU 126 A GLU 101 A VAL 129 A VAL 104 A LEU 137 A LEU 112 A TYR 143 A TYR 118 A ASP 149 A ASP 124 A ILE 155 A ILE 130 A ILE 159 A ILE 134 BINDING SITE FOR RESIDUE NI A 201 A NI 201 Software 6 A HIS 53 A HIS 28 6 1_555 A HIS 122 A HIS 97 6 4_466 A HOH 219 C HOH 6 4_466 A HOH 264 C HOH 6 1_555 A HOH 268 C HOH 6 1_555 A HOH 295 C HOH 6 1_555 19 P 21 21 21