0.010137 0.000000 0.000000 0.000000 0.010137 0.000000 0.000000 0.000000 0.010137 0.00000 0.00000 0.00000 Foos, N. Mate, M.J. Ortiz-Lombardia, M. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 24 90.00 90.00 90.00 98.648 98.648 98.648 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 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 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 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 CL N 59 N N N 60 R C N 61 N C N 62 N O N 63 N C N 64 N S N 65 N O N 66 N H 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 N N 74 S C N 75 N C N 76 N O N 77 N C N 78 N C N 79 N C N 80 N O N 81 N N N 82 N O 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 H N 90 N H N 91 N H N 92 N H N 93 N N N 94 S C N 95 N C N 96 N O N 97 N C N 98 N C N 99 N C N 100 N O N 101 N O N 102 N O 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 H N 110 N H N 111 N H N 112 N N N 113 N C N 114 N C N 115 N O N 116 N O N 117 N H N 118 N H N 119 N H N 120 N H N 121 N H N 122 N N N 123 S C N 124 N C N 125 N O N 126 N C Y 127 N C Y 128 N N Y 129 N C Y 130 N C Y 131 N N 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 H N 139 N H N 140 N H N 141 N H N 142 N H N 143 N O N 144 N H N 145 N H N 146 N N N 147 S C N 148 N C N 149 N O N 150 S C N 151 N C N 152 N C N 153 N C N 154 N O N 155 N H 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 N N 169 S C N 170 N C N 171 N O N 172 N C N 173 N C N 174 N C N 175 N C N 176 N O 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 H N 185 N H N 186 N H N 187 N H N 188 N H N 189 N H N 190 N N N 191 S C N 192 N C N 193 N O N 194 N C N 195 N C N 196 N C N 197 N C N 198 N N N 199 N O 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 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 N N 216 S C N 217 N C N 218 N O N 219 N C N 220 N C N 221 N S N 222 N C N 223 N O 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 H N 232 N H N 233 N H N 234 N H N 235 N N N 236 S C N 237 N C N 238 N O N 239 N C Y 240 N C Y 241 N C Y 242 N C Y 243 N C Y 244 N C Y 245 N C N 246 N O N 247 N H N 248 N H 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 N N 259 S C N 260 N C N 261 N O N 262 N C N 263 N C N 264 N C N 265 N O 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 H N 275 N N N 276 S C N 277 N C N 278 N O N 279 N C N 280 N O 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 S N 290 N O N 291 N O N 292 N O N 293 N O N 294 N N N 295 S C N 296 N C N 297 N O N 298 R C N 299 N O N 300 N C N 301 N O 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 H N 309 N H N 310 N H N 311 N N N 312 S C N 313 N C N 314 N O N 315 N C Y 316 N C Y 317 N C Y 318 N C Y 319 N N Y 320 N C Y 321 N C Y 322 N C Y 323 N C Y 324 N C N 325 N O 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 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 C Y 347 N C Y 348 N C N 349 N O N 350 N O N 351 N H N 352 N H N 353 N H N 354 N H N 355 N H N 356 N H N 357 N H N 358 N H N 359 N H N 360 N H N 361 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 sing 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 doub N 75 N sing N 76 N sing N 77 N sing N 78 N sing N 79 N sing N 80 N sing N 81 N sing N 82 N doub 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 doub N 94 N sing N 95 N sing N 96 N sing N 97 N sing N 98 N sing N 99 N sing N 100 N sing N 101 N doub 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 sing N 109 N sing N 110 N sing N 111 N doub N 112 N sing N 113 N sing 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 doub N 121 N sing N 122 N sing N 123 N sing N 124 N sing Y 125 N sing Y 126 N doub Y 127 N doub N 128 N sing Y 129 N sing N 130 N sing Y 131 N sing N 132 N sing N 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 doub N 144 N sing N 145 N sing 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 doub 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 sing N 180 N sing N 181 N sing N 182 N sing N 183 N sing N 184 N sing N 185 N doub 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 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 doub N 229 N sing N 230 N sing N 231 N sing N 232 N sing Y 233 N doub Y 234 N sing Y 235 N sing N 236 N sing Y 237 N doub N 238 N sing Y 239 N doub N 240 N sing Y 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 doub N 252 N sing N 253 N sing 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 doub 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 doub 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 doub 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 sing N 300 N sing N 301 N doub N 302 N sing N 303 N sing N 304 N sing N 305 N sing Y 306 N doub Y 307 N sing Y 308 N sing N 309 N sing Y 310 N doub Y 311 N sing Y 312 N sing N 313 N sing Y 314 N sing Y 315 N doub N 316 N sing Y 317 N doub N 318 N sing Y 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 sing N 328 N sing N 329 N doub N 330 N sing N 331 N sing N 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 doub N 339 N sing Y 340 N doub N 341 N sing Y 342 N sing N 343 N sing N 344 N sing N 345 N sing N 346 N sing UK Structure STRUE6 2005 0969-2126 23 270 10.1016/J.STR.2014.12.011 25651060 A Flexible Extension of the Drosophila Ultrabithorax Homeodomain Defines a Novel Hox/Pbc Interaction Mode. 2015 10.2210/pdb4uut/pdb pdb_00004uut 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 PIXEL 2011-10-21 DECTRIS PILATUS 6M SINGLE WAVELENGTH M x-ray 1 0.974716 1.0 ID29 ESRF 0.974716 SYNCHROTRON ESRF BEAMLINE ID29 11459.246 HOMEOTIC PROTEIN ULTRABITHORAX HOMEODOMAIN AND UBDA, RESIDUES 233-324 1 man polymer 96.063 SULFATE ION 4 syn non-polymer 35.453 CHLORIDE ION 2 syn non-polymer 18.015 water 7 nat water no no MQASNHTFYPWMAIAGTNGLRRRGRQTYTRYQTLELEKEFHTNHYLTRRRRIEMAHALCLTERQIKIWFQNRRMKLKKEI QAIKELNEQEKQA MQASNHTFYPWMAIAGTNGLRRRGRQTYTRYQTLELEKEFHTNHYLTRRRRIEMAHALCLTERQIKIWFQNRRMKLKKEI QAIKELNEQEKQA 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 FRUIT FLY sample 7227 DROSOPHILA MELANOGASTER 469008 ESCHERICHIA COLI BL21(DE3) ROSETTA PLYSS PDEST14 PLASMID UBXIVA PDEST14 3.5 64.86 NONE 20% 1-4 BUTANEDIOL, 0.2M LISO4, 0.1M MES PH 6 chem_comp_atom chem_comp_bond database_2 pdbx_database_status pdbx_initial_refinement_model software struct_site repository Initial release Data collection Database references Derived calculations Other Refinement description 1 0 2015-02-18 1 1 2024-05-01 _database_2.pdbx_DOI _database_2.pdbx_database_accession _pdbx_database_status.status_code_sf _software.name _struct_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id CRYSTAL STRUCTURE OF A UBX-EXD-DNA COMPLEX INCLUDING THE UBDA MOTIF PDBE Y PDBE 2014-07-31 REL REL SO4 SULFATE ION CL CHLORIDE ION HOH water LOCAL STRUCTURE OF UBX other SO4 1074 2 SO4 SO4 1074 A SO4 1075 2 SO4 SO4 1075 A SO4 1076 2 SO4 SO4 1076 A CL 1077 3 CL CL 1077 A SO4 1078 2 SO4 SO4 1078 A CL 1079 3 CL CL 1079 A HOH 2001 4 HOH HOH 2001 A HOH 2002 4 HOH HOH 2002 A HOH 2003 4 HOH HOH 2003 A HOH 2004 4 HOH HOH 2004 A HOH 2005 4 HOH HOH 2005 A HOH 2006 4 HOH HOH 2006 A HOH 2007 4 HOH HOH 2007 A n 1 -19 A n 2 -18 A n 3 -17 A n 4 -16 A n 5 -15 A n 6 -14 A n 7 -13 A n 8 -12 A n 9 -11 A n 10 -10 A n 11 -9 A n 12 -8 A n 13 -7 A n 14 -6 A n 15 -5 A n 16 -4 A n 17 -3 A n 18 -2 A n 19 -1 A n 20 0 A n 21 1 A n 22 2 A n 23 3 A n 24 4 A n 25 5 A n 26 6 A THR 7 n 27 THR 7 A TYR 8 n 28 TYR 8 A THR 9 n 29 THR 9 A ARG 10 n 30 ARG 10 A TYR 11 n 31 TYR 11 A GLN 12 n 32 GLN 12 A THR 13 n 33 THR 13 A LEU 14 n 34 LEU 14 A GLU 15 n 35 GLU 15 A LEU 16 n 36 LEU 16 A GLU 17 n 37 GLU 17 A LYS 18 n 38 LYS 18 A GLU 19 n 39 GLU 19 A PHE 20 n 40 PHE 20 A HIS 21 n 41 HIS 21 A THR 22 n 42 THR 22 A ASN 23 n 43 ASN 23 A HIS 24 n 44 HIS 24 A TYR 25 n 45 TYR 25 A LEU 26 n 46 LEU 26 A THR 27 n 47 THR 27 A ARG 28 n 48 ARG 28 A ARG 29 n 49 ARG 29 A ARG 30 n 50 ARG 30 A ARG 31 n 51 ARG 31 A ILE 32 n 52 ILE 32 A GLU 33 n 53 GLU 33 A MET 34 n 54 MET 34 A ALA 35 n 55 ALA 35 A HIS 36 n 56 HIS 36 A ALA 37 n 57 ALA 37 A LEU 38 n 58 LEU 38 A CYS 39 n 59 CYS 39 A LEU 40 n 60 LEU 40 A THR 41 n 61 THR 41 A GLU 42 n 62 GLU 42 A ARG 43 n 63 ARG 43 A GLN 44 n 64 GLN 44 A ILE 45 n 65 ILE 45 A LYS 46 n 66 LYS 46 A ILE 47 n 67 ILE 47 A TRP 48 n 68 TRP 48 A PHE 49 n 69 PHE 49 A GLN 50 n 70 GLN 50 A ASN 51 n 71 ASN 51 A ARG 52 n 72 ARG 52 A ARG 53 n 73 ARG 53 A MET 54 n 74 MET 54 A LYS 55 n 75 LYS 55 A LEU 56 n 76 LEU 56 A LYS 57 n 77 LYS 57 A LYS 58 n 78 LYS 58 A GLU 59 n 79 GLU 59 A ILE 60 n 80 ILE 60 A GLN 61 n 81 GLN 61 A ALA 62 n 82 ALA 62 A ILE 63 n 83 ILE 63 A LYS 64 n 84 LYS 64 A GLU 65 n 85 GLU 65 A LEU 66 n 86 LEU 66 A ASN 67 n 87 ASN 67 A GLU 68 n 88 GLU 68 A GLN 69 n 89 GLN 69 A GLU 70 n 90 GLU 70 A LYS 71 n 91 LYS 71 A GLN 72 n 92 GLN 72 A ALA 73 n 93 ALA 73 A 5.2072 -1.9989 -2.9831 2.4925 1.3350 1.6875 -0.0211 0.3164 0.1117 -0.4276 -0.1226 0.0817 0.1926 -0.3112 0.1437 -0.1874 0.0998 -0.0117 0.0380 0.0851 -0.1093 refined -12.0782 15.4626 -3.2635 X-RAY DIFFRACTION X-RAY DIFFRACTION 1 CHAIN A author_defined_assembly 1 monomeric 1.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 1_555 x,y,z identity operation 0.0000000000 0.0000000000 0.0000000000 1 A HOH 2002 H HOH 1 A HOH 2004 H HOH 1 A MET -19 A MET 1 1 Y 1 A GLN -18 A GLN 2 1 Y 1 A ALA -17 A ALA 3 1 Y 1 A SER -16 A SER 4 1 Y 1 A ASN -15 A ASN 5 1 Y 1 A HIS -14 A HIS 6 1 Y 1 A THR -13 A THR 7 1 Y 1 A PHE -12 A PHE 8 1 Y 1 A TYR -11 A TYR 9 1 Y 1 A PRO -10 A PRO 10 1 Y 1 A TRP -9 A TRP 11 1 Y 1 A MET -8 A MET 12 1 Y 1 A ALA -7 A ALA 13 1 Y 1 A ILE -6 A ILE 14 1 Y 1 A ALA -5 A ALA 15 1 Y 1 A GLY -4 A GLY 16 1 Y 1 A THR -3 A THR 17 1 Y 1 A ASN -2 A ASN 18 1 Y 1 A GLY -1 A GLY 19 1 Y 1 A LEU 0 A LEU 20 1 Y 1 A ARG 1 A ARG 21 1 Y 1 A ARG 2 A ARG 22 1 Y 1 A ARG 3 A ARG 23 1 Y 1 A GLY 4 A GLY 24 1 Y 1 A ARG 5 A ARG 25 1 Y 1 A GLN 6 A GLN 26 1 Y 88.31 0.0000 0.0000 0.0000 0.0000 0.0000 0.0000 0.9378 0.9407 0.2366 0.2175 0.2192 2.80 69.75 406 4390 9.25 99.68 0.346 RANDOM 1 THROUGHOUT 0.0 MOLECULAR REPLACEMENT 0.386 0.257 0.248 LOCAL STRUCTURE OF UBX 0.503 2.80 69.75 7 622 22 0 593 0.010 618 HARMONIC 2.00 1.03 827 HARMONIC 2.00 240 SINUSOIDAL 2.00 19 HARMONIC 2.00 83 HARMONIC 5.00 618 HARMONIC 20.00 2.31 20.69 78 SEMIHARMONIC 5.00 698 SEMIHARMONIC 4.00 0.2882 0.2401 0.2439 3.13 106 1092 1198 5 8.85 99.68 101.67 2.80 69.75 4UUT 4428 -3.0 0.06 1 25.80 8.7 100.0 0.58 2.80 3.13 3.90 1 8.8 100.0 refinement BUSTER 2.11.5 data reduction autoPROC data scaling Aimless phasing PHASER Crystal structure of the Ultrabithorax protein 1 N N 2 N N 2 N N 2 N N 3 N N 2 N N 3 N N 4 N N A THR 9 A THR 29 HELX_P A ASN 23 A ASN 43 1 1 15 A THR 27 A THR 47 HELX_P A CYS 39 A CYS 59 1 2 13 A THR 41 A THR 61 HELX_P A LYS 71 A LYS 91 1 3 31 TRANSCRIPTION TRANSCRIPTION, UBX, HOMEOTIC PROTEIN, TRANSCRIPTION FACTOR UBX_DROME UNP 1 P83949 233 324 4UUT -18 73 P83949 A 1 2 93 1 expression tag MET -19 4UUT A P83949 UNP 1 BINDING SITE FOR RESIDUE SO4 A 1074 A SO4 1074 Software 2 BINDING SITE FOR RESIDUE SO4 A 1075 A SO4 1075 Software 5 BINDING SITE FOR RESIDUE SO4 A 1076 A SO4 1076 Software 1 BINDING SITE FOR RESIDUE CL A 1077 A CL 1077 Software 1 BINDING SITE FOR RESIDUE SO4 A 1078 A SO4 1078 Software 4 BINDING SITE FOR RESIDUE CL A 1079 A CL 1079 Software 1 A ARG 53 A ARG 73 2 1_555 A HOH 2005 H HOH 2 1_555 A PHE 20 A PHE 40 5 20_554 A HIS 21 A HIS 41 5 20_554 A HIS 24 A HIS 44 5 20_554 A ARG 28 A ARG 48 5 1_555 A ARG 29 A ARG 49 5 1_555 A MET 34 A MET 54 1 1_555 A ARG 31 A ARG 51 1 1_555 A HIS 21 A HIS 41 4 17_455 A ARG 28 A ARG 48 4 4_455 A ARG 29 A ARG 49 4 4_455 A LYS 71 A LYS 91 4 1_555 A ARG 10 A ARG 30 1 1_555 213 P 41 3 2