PFRMAT AL TARGET T0294 REMARK $$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$ REMARK $ $ REMARK $ Your FUGUE job has finished successfully. $ REMARK $ A short summary is shown below and MORE DETAILED RESULT can be examined at $ REMARK $ $ REMARK $ http://raven.bioc.cam.ac.uk/~kenji/work/fugue/1254/fugue.html $ REMARK $ ------------------------------------------------------------------------- $ REMARK $ $ REMARK $ (the results will be deleted in *five* days). $ REMARK $ $ REMARK $ Information about the size of fold library and RECOMMENDED CUTOFF can be $ REMARK $ found in the description box below. $ REMARK $ $ REMARK $ Suggestions and comments to: fugue@cryst.bioc.cam.ac.uk $ REMARK $ $ REMARK $$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$$ REMARK REMARK REMARK REMARK REMARK ############################################################################### REMARK # FUGUE v2.s.07 (01 Apr 2003) # REMARK # # REMARK # Search sequence(s) against fold library using environment-specific # REMARK # substitution tables and structure-dependent gap penalties. # REMARK # # REMARK # Fold library and substitution tables are based on the HOMSTRAD database. # REMARK # http://www-cryst.bioc.cam.ac.uk/~homstrad/ # REMARK # # REMARK # FUGUE server is available at: # REMARK # http://www-cryst.bioc.cam.ac.uk/~fugue/ # REMARK # http://www-cryst.bioc.cam.ac.uk/~fugue/prfsearch.html # REMARK # # REMARK # Citation: # REMARK # J. Shi, T. L. Blundell and K. Mizuguchi (2001), J Mol Biol, 310(1), 243-57 # REMARK # # REMARK # N.B. Please note that Fugue has been updated (since 2nd of May 2002) and # REMARK # consequently the recommended z-score cut-offs used are different from # REMARK # previous versions. The new recommended cut-offs are shown below. # REMARK # # REMARK # Size of fold library: 6659 # REMARK # Probe sequence ID : T0294 # REMARK # Probe sequence len : 328 # REMARK # Probe divergence : 0.589 # REMARK # Recommended cutoff : ZSCORE >= 6.0 (CERTAIN 99% confidence) # REMARK # Other cutoff : ZSCORE >= 4.0 (LIKELY 95% confidence) # REMARK # Other cutoff : ZSCORE >= 3.5 (MARGINAL 90% confidence) # REMARK # Other cutoff : ZSCORE >= 2.0 (GUESS 50% confidence) # REMARK # Other cutoff : ZSCORE < 2.0 (UNCERTAIN) # REMARK # # REMARK # PLEN : Profile length # REMARK # RAWS : Raw alignment score # REMARK # RVN : (Raw score)-(Raw score for NULL model) # REMARK # ZSCORE : Z-score normalized by sequence divergence # REMARK # PVZ : P-value based on Z-score jumbling (Currently Disabled) # REMARK # ZORI : Original Z-score (before normalization) # REMARK # EVP : E-value based on profile calibration (Currently Disabled) # REMARK # EVF : E-value based on library search (Currently Disabled) # REMARK # AL : Alignment algorithm used for Zscore/Alignment calculation # REMARK # 0 -- Global, 2 -- GloLocSeq (No sequence termini gap penalty) # REMARK # 3 -- GloLocPrf (No profile termini gap penalty) # REMARK ############################################################################### REMARK REMARK REMARK #-----------------------------------------------------------------------------# REMARK # Profile PLEN RAWS RVN ZSCORE PVZ ZORI EVP EVF AL# REMARK # ****** # REMARK #-----------------------------------------------------------------------------# REMARK gdh 383 564 902 53.37 1.0E+03 55.70 1.0E+03 1.0E+03 00 REMARK hs1ygya 527 316 918 52.40 1.0E+03 54.85 1.0E+03 1.0E+03 03 REMARK hs1mx3a 326 633 949 50.90 1.0E+03 53.17 1.0E+03 1.0E+03 00 REMARK hsd1psda2 132 0 237 15.81 1.0E+03 18.07 1.0E+03 1.0E+03 02 REMARK hsd2dlda2 140 -149 119 12.69 1.0E+03 15.04 1.0E+03 1.0E+03 02 REMARK hsd1pjca1 168 -7 121 9.74 1.0E+03 11.62 1.0E+03 1.0E+03 22 REMARK hsd1b3ra1 163 -111 120 9.59 1.0E+03 11.22 1.0E+03 1.0E+03 02 REMARK hsd1uag_1 93 19 65 9.08 1.0E+03 11.53 1.0E+03 1.0E+03 22 REMARK hsd1dxy_2 100 -188 82 8.50 1.0E+03 10.77 1.0E+03 1.0E+03 02 REMARK AlaDh_PNT 397 -265 175 8.24 1.0E+03 10.50 1.0E+03 1.0E+03 00 REMARK REMARK REMARK ### CASP FORMAT OUTPUT (EXPERIMENTAL ONLY, MAY CONTAINS ERRORS) ### REMARK ### IF NOT EQUIVELENT TO <> SECTION, THIS PART WILL BE DISCARDED. ### REMARK REMARK FUGUE AUTOMATIC ALIGNMENT REMARK ZSCORE=53.37 REMARK CONFIDENCE: CERTAIN (99% confidence [ ZSCORE>=6.0 ]) REMARK DERIVED FROM HOMSTRAD PROFILE: gdh METHOD Environment-specific substitution tables were derived from the structure-based METHOD alignments in the HOMSTRAD database. Each alignment in HOMSTRAD was converted METHOD into a scoring template (profile) using the environment-specific substitution METHOD tables and structure-dependent gap penalties. The program FUGUE searches METHOD a sequence or sequence alignment against the library of profiles. METHOD ------------- MODEL 1 PARENT 1gdh_A L 6 K 2 M 7 K 3 K 8 K 4 V 9 I 5 F 10 L 6 V 11 I 7 T 12 T 8 R 13 W 9 R 14 P 10 R 20 M 16 V 21 A 17 A 22 R 18 L 23 A 19 A 24 R 20 R 25 E 21 A 26 S 22 A 27 Y 23 D 28 D 24 C 29 V 25 E 30 I 26 D 37 D 31 E 38 P 32 P 39 K 33 I 40 I 34 P 41 T 35 A 42 I 36 K 43 D 37 E 44 E 38 L 45 M 39 E 46 I 40 R 47 E 41 G 48 T 42 V 49 A 43 A 50 K 44 G 51 S 45 A 52 V 46 H 53 D 47 G 54 A 48 L 55 L 49 L 56 L 50 C 57 I 51 L 58 T 52 L 59 L 53 S 60 N 54 D 61 E 55 H 62 K 56 V 63 C 57 D 64 R 58 K 65 K 59 R 66 E 60 I 67 V 61 L 68 I 62 D 69 D 63 A 70 R 64 A 71 I 65 G 72 P 66 A 73 E 67 N 74 N 68 L 75 I 69 K 76 K 70 V 77 C 71 I 78 I 72 S 79 S 73 T 80 T 74 M 81 Y 75 S 82 S 76 V 83 I 77 G 84 G 78 I 85 F 79 D 86 D 80 H 87 H 81 L 88 I 82 A 89 D 83 L 90 L 84 D 91 D 85 E 92 A 86 I 93 C 87 K 94 K 88 K 95 A 89 R 96 R 90 G 97 G 91 I 98 I 92 R 99 K 93 V 100 V 94 G 101 G 95 Y 102 N 96 T 103 A 97 P 104 P 98 D 105 H 99 V 106 G 100 L 107 V 101 T 108 T 102 D 109 V 103 T 110 A 104 T 111 T 105 A 112 A 106 E 113 E 107 L 114 I 108 A 115 A 109 V 116 M 110 S 117 L 111 L 118 L 112 L 119 L 113 L 120 L 114 T 121 G 115 T 122 S 116 C 123 A 117 R 124 R 118 R 125 R 119 L 126 A 120 P 127 G 121 E 128 E 122 A 129 G 123 I 130 E 124 E 131 K 125 E 132 M 126 V 133 I 127 K 134 R 128 N 135 T 129 G 136 R 130 G 137 S 131 W 138 W 132 T 139 P 133 S 140 G 134 W 141 W 135 K 142 E 136 P 143 P 137 L 144 L 138 W 145 E 139 L 146 L 140 C 147 V 141 G 148 G 142 Y 149 E 143 G 150 K 144 L 151 L 145 T 152 D 146 Q 153 N 147 S 154 K 148 T 155 T 149 V 156 L 150 G 157 G 151 I 158 I 152 I 159 Y 153 G 160 G 154 L 161 F 155 G 162 G 156 R 163 S 157 I 164 I 158 G 165 G 159 Q 166 Q 160 A 167 A 161 I 168 L 162 A 169 A 163 R 170 K 164 R 171 R 165 L 172 A 166 K 173 Q 167 P 174 G 168 F 175 F 169 G 176 D 170 V 177 M 171 Q 178 D 172 R 179 I 173 F 180 D 174 L 181 Y 175 Y 182 F 176 T 183 D 177 G 184 T 178 R 185 H 179 Q 186 R 180 P 187 A 181 R 188 S 182 P 189 S 183 E 190 S 184 E 191 D 185 A 192 E 186 A 193 A 187 E 194 S 188 F 195 Y 189 Q 196 Q 190 A 197 A 191 E 198 T 192 F 199 F 193 V 200 H 194 S 201 S 196 T 202 L 197 P 203 D 198 E 204 S 199 L 205 L 200 A 206 L 201 A 207 S 202 Q 208 V 203 S 209 S 204 D 210 Q 205 F 211 F 206 I 212 F 207 V 213 S 208 V 214 L 209 A 215 N 210 C 216 A 211 S 217 P 212 L 218 S 213 T 219 T 214 P 220 P 215 A 221 E 216 T 222 T 217 E 223 R 218 G 224 Y 219 L 225 F 220 C 226 F 221 N 227 N 222 K 228 K 223 D 229 A 224 F 230 T 225 F 231 I 226 Q 232 K 227 K 233 S 228 M 234 L 229 K 235 P 230 E 236 Q 231 T 237 G 232 A 238 A 233 V 239 I 234 F 240 V 235 I 241 V 236 N 242 N 237 I 243 T 238 S 244 A 239 R 245 R 240 G 246 G 241 D 247 D 242 V 248 L 243 V 249 V 244 N 250 D 245 Q 251 N 246 D 252 E 247 D 253 L 248 L 254 V 249 Y 255 V 250 Q 256 A 251 A 257 A 252 L 258 L 253 A 259 E 254 S 260 A 255 G 261 G 256 K 262 R 257 I 263 L 258 A 264 A 259 A 265 Y 260 A 266 A 261 G 267 G 262 L 268 F 263 D 269 D 264 V 270 V 265 T 271 F 266 S 272 A 267 P 273 G 268 E 274 E 269 P 275 P 270 L 276 N 271 T 278 I 272 N 279 N 273 H 280 E 274 P 281 G 275 L 282 Y 276 L 283 Y 277 T 284 D 278 L 285 L 279 K 286 P 280 N 287 N 281 C 288 T 282 V 289 F 283 I 290 L 284 L 291 F 285 P 292 P 286 H 293 H 287 I 294 I 288 G 295 G 289 S 296 S 290 A 297 A 291 T 298 A 292 H 299 T 293 R 300 Q 294 T 301 A 295 R 302 R 296 N 303 E 297 T 304 D 298 M 305 M 299 S 306 A 300 L 307 H 301 L 308 Q 302 A 309 A 303 A 310 N 304 N 311 D 305 N 312 L 306 L 313 I 307 L 314 D 308 A 315 A 309 G 316 L 310 L 317 F 311 R 318 G 312 G 319 G 313 E 320 A 314 P 321 D 315 M 322 M 316 P 323 S 317 L 326 Y 318 K 327 A 319 L 328 L 320 TER END