1YDY - Sequence, Chains, Asymmetric and Biological Units

• Title: CRYSTAL STRUCTURE OF PERIPLASMIC GLYCEROPHOSPHODIESTER PHOSPHODIESTERASE FROM ESCHERICHIA COLI
• Keywords: PHOSPHODIESTERASE, STRUCTURAL GENOMICS, PSI, PROTEIN STRUCTU INITIATIVE, NEW YORK SGX RESEARCH CENTER FOR STRUCTURAL GEN NYSGXRC, HYDROLASE
• Experiment: X-ray diffraction
• Number of Models: 1

Database	ID code	Status	Coordinate files
			Header	Asymmetric unit	Biological unit
PDB	1YDY	released	available	available	Quaternary Structure Server

Asymmetric unit from PDB

Unit	Type	Name	Chain ID	Residues	Atoms	Hetatoms
1	Protein	GLYCEROPHOSPHORYL DIESTER PHOSPHODIESTERASE	A	328	2660	0
2	Protein	GLYCEROPHOSPHORYL DIESTER PHOSPHODIESTERASE	B	328	2660	0
3	Ligand	GLYCEROPHOSPHORYL DIESTER PHOSPHODIESTERASE	A	2	0	7
4	Ligand	GLYCEROPHOSPHORYL DIESTER PHOSPHODIESTERASE	B	2	0	7
5	Water			785	0	785
total				1445	5320	799

Proteins

Unit 1

ASN 29 GLU 30 LYS 31 ILE 32 VAL 33 ILE 34 ALA 35 HIS 36 ARG 37 GLY 38 ALA 39 SER 40 GLY 41 TYR 42 LEU 43 PRO 44 GLU 45 HIS 46 THR 47 LEU 48 PRO 49 ALA 50 LYS 51 ALA 52 MET 53 ALA 54 TYR 55 ALA 56 GLN 57 GLY 58 ALA 59 ASP 60 TYR 61 LEU 62 GLU 63 GLN 64 ASP 65 LEU 66 VAL 67 MET 68 THR 69 LYS 70 ASP 71 ASP 72 ASN 73 LEU 74 VAL 75 VAL 76 LEU 77 HIS 78 ASP 79 HIS 80 TYR 81 LEU 82 ASP 83 ARG 84 VAL 85 THR 86 ASP 87 VAL 88 ALA 89 ASP 90 ARG 91 PHE 92 PRO 93 ASP 94 ARG 95 ALA 96 ARG 97 LYS 98 ASP 99 GLY 100 ARG 101 TYR 102 TYR 103 ALA 104 ILE 105 ASP 106 PHE 107 THR 108 LEU 109 ASP 110 GLU 111 ILE 112 LYS 113 SER 114 LEU 115 LYS 116 PHE 117 THR 118 GLU 119 GLY 120 PHE 121 ASP 122 ILE 123 GLU 124 ASN 125 GLY 126 LYS 127 LYS 128 VAL 129 GLN 130 THR 131 TYR 132 PRO 133 GLY 134 ARG 135 PHE 136 PRO 137 MET 138 GLY 139 LYS 140 SER 141 ASP 142 PHE 143 ARG 144 VAL 145 HIS 146 THR 147 PHE 148 GLU 149 GLU 150 GLU 151 ILE 152 GLU 153 PHE 154 VAL 155 GLN 156 GLY 157 LEU 158 ASN 159 HIS 160 SER 161 THR 162 GLY 163 LYS 164 ASN 165 ILE 166 GLY 167 ILE 168 TYR 169 PRO 170 GLU 171 ILE 172 LYS 173 ALA 174 PRO 175 TRP 176 PHE 177 HIS 178 HIS 179 GLN 180 GLU 181 GLY 182 LYS 183 ASP 184 ILE 185 ALA 186 ALA 187 LYS 188 THR 189 LEU 190 GLU 191 VAL 192 LEU 193 LYS 194 LYS 195 TYR 196 GLY 197 TYR 198 THR 199 GLY 200 LYS 201 ASP 202 ASP 203 LYS 204 VAL 205 TYR 206 LEU 207 GLN 208 CYS 209 PHE 210 ASP 211 ALA 212 ASP 213 GLU 214 LEU 215 LYS 216 ARG 217 ILE 218 LYS 219 ASN 220 GLU 221 LEU 222 GLU 223 PRO 224 LYS 225 MET 226 GLY 227 MET 228 GLU 229 LEU 230 ASN 231 LEU 232 VAL 233 GLN 234 LEU 235 ILE 236 ALA 237 TYR 238 THR 239 ASP 240 TRP 241 ASN 242 GLU 243 THR 244 GLN 245 GLN 246 LYS 247 GLN 248 PRO 249 ASP 250 GLY 251 SER 252 TRP 253 VAL 254 ASN 255 TYR 256 ASN 257 TYR 258 ASP 259 TRP 260 MET 261 PHE 262 LYS 263 PRO 264 GLY 265 ALA 266 MET 267 LYS 268 GLN 269 VAL 270 ALA 271 GLU 272 TYR 273 ALA 274 ASP 275 GLY 276 ILE 277 GLY 278 PRO 279 ASP 280 TYR 281 HIS 282 MET 283 LEU 284 ILE 285 GLU 286 GLU 287 THR 288 SER 289 GLN 290 PRO 291 GLY 292 ASN 293 ILE 294 LYS 295 LEU 296 THR 297 GLY 298 MET 299 VAL 300 GLN 301 ASP 302 ALA 303 GLN 304 GLN 305 ASN 306 LYS 307 LEU 308 VAL 309 VAL 310 HIS 311 PRO 312 TYR 313 THR 314 VAL 315 ARG 316 SER 317 ASP 318 LYS 319 LEU 320 PRO 321 GLU 322 TYR 323 THR 324 PRO 325 ASP 326 VAL 327 ASN 328 GLN 329 LEU 330 TYR 331 ASP 332 ALA 333 LEU 334 TYR 335 ASN 336 LYS 337 ALA 338 GLY 339 VAL 340 ASN 341 GLY 342 LEU 343 PHE 344 THR 345 ASP 346 PHE 347 PRO 348 ASP 349 LYS 350 ALA 351 VAL 352 LYS 353 PHE 354 LEU 355 ASN 356

Unit 2

ASN 29 GLU 30 LYS 31 ILE 32 VAL 33 ILE 34 ALA 35 HIS 36 ARG 37 GLY 38 ALA 39 SER 40 GLY 41 TYR 42 LEU 43 PRO 44 GLU 45 HIS 46 THR 47 LEU 48 PRO 49 ALA 50 LYS 51 ALA 52 MET 53 ALA 54 TYR 55 ALA 56 GLN 57 GLY 58 ALA 59 ASP 60 TYR 61 LEU 62 GLU 63 GLN 64 ASP 65 LEU 66 VAL 67 MET 68 THR 69 LYS 70 ASP 71 ASP 72 ASN 73 LEU 74 VAL 75 VAL 76 LEU 77 HIS 78 ASP 79 HIS 80 TYR 81 LEU 82 ASP 83 ARG 84 VAL 85 THR 86 ASP 87 VAL 88 ALA 89 ASP 90 ARG 91 PHE 92 PRO 93 ASP 94 ARG 95 ALA 96 ARG 97 LYS 98 ASP 99 GLY 100 ARG 101 TYR 102 TYR 103 ALA 104 ILE 105 ASP 106 PHE 107 THR 108 LEU 109 ASP 110 GLU 111 ILE 112 LYS 113 SER 114 LEU 115 LYS 116 PHE 117 THR 118 GLU 119 GLY 120 PHE 121 ASP 122 ILE 123 GLU 124 ASN 125 GLY 126 LYS 127 LYS 128 VAL 129 GLN 130 THR 131 TYR 132 PRO 133 GLY 134 ARG 135 PHE 136 PRO 137 MET 138 GLY 139 LYS 140 SER 141 ASP 142 PHE 143 ARG 144 VAL 145 HIS 146 THR 147 PHE 148 GLU 149 GLU 150 GLU 151 ILE 152 GLU 153 PHE 154 VAL 155 GLN 156 GLY 157 LEU 158 ASN 159 HIS 160 SER 161 THR 162 GLY 163 LYS 164 ASN 165 ILE 166 GLY 167 ILE 168 TYR 169 PRO 170 GLU 171 ILE 172 LYS 173 ALA 174 PRO 175 TRP 176 PHE 177 HIS 178 HIS 179 GLN 180 GLU 181 GLY 182 LYS 183 ASP 184 ILE 185 ALA 186 ALA 187 LYS 188 THR 189 LEU 190 GLU 191 VAL 192 LEU 193 LYS 194 LYS 195 TYR 196 GLY 197 TYR 198 THR 199 GLY 200 LYS 201 ASP 202 ASP 203 LYS 204 VAL 205 TYR 206 LEU 207 GLN 208 CYS 209 PHE 210 ASP 211 ALA 212 ASP 213 GLU 214 LEU 215 LYS 216 ARG 217 ILE 218 LYS 219 ASN 220 GLU 221 LEU 222 GLU 223 PRO 224 LYS 225 MET 226 GLY 227 MET 228 GLU 229 LEU 230 ASN 231 LEU 232 VAL 233 GLN 234 LEU 235 ILE 236 ALA 237 TYR 238 THR 239 ASP 240 TRP 241 ASN 242 GLU 243 THR 244 GLN 245 GLN 246 LYS 247 GLN 248 PRO 249 ASP 250 GLY 251 SER 252 TRP 253 VAL 254 ASN 255 TYR 256 ASN 257 TYR 258 ASP 259 TRP 260 MET 261 PHE 262 LYS 263 PRO 264 GLY 265 ALA 266 MET 267 LYS 268 GLN 269 VAL 270 ALA 271 GLU 272 TYR 273 ALA 274 ASP 275 GLY 276 ILE 277 GLY 278 PRO 279 ASP 280 TYR 281 HIS 282 MET 283 LEU 284 ILE 285 GLU 286 GLU 287 THR 288 SER 289 GLN 290 PRO 291 GLY 292 ASN 293 ILE 294 LYS 295 LEU 296 THR 297 GLY 298 MET 299 VAL 300 GLN 301 ASP 302 ALA 303 GLN 304 GLN 305 ASN 306 LYS 307 LEU 308 VAL 309 VAL 310 HIS 311 PRO 312 TYR 313 THR 314 VAL 315 ARG 316 SER 317 ASP 318 LYS 319 LEU 320 PRO 321 GLU 322 TYR 323 THR 324 PRO 325 ASP 326 VAL 327 ASN 328 GLN 329 LEU 330 TYR 331 ASP 332 ALA 333 LEU 334 TYR 335 ASN 336 LYS 337 ALA 338 GLY 339 VAL 340 ASN 341 GLY 342 LEU 343 PHE 344 THR 345 ASP 346 PHE 347 PRO 348 ASP 349 LYS 350 ALA 351 VAL 352 LYS 353 PHE 354 LEU 355 ASN 356

Ligands

Unit 3	GOL 902 CA 904
Unit 4	GOL 901 CA 903