# List of top-scoring protein chains for T0293.t2k-w0.5 hidden Markov model. # HMM and HMM E-value scores computed by SAM (c) 1992-2001 Regents of the University of California, Santa Cruz # Sequence Alignment and Modeling Software System # http://www.cse.ucsc.edu/research/compbio/sam.html # ----------------- Citations (SAM, SAM-T99, HMMs) -------------------- # R. Hughey, A. Krogh, Hidden Markov models for sequence analysis: # Extension and analysis of the basic method, CABIOS 12:95-107, 1996. # K. Karplus, C. Barrett, R. Hughey, Hidden Markov models for detecting # remote protein homologies, Bioinformatics 14(10):846-856, 1998. # A. Krogh et al., Hidden Markov models in computational biology: # Applications to protein modeling, JMB 235:1501-1531, Feb 1994. # # FSSP representative for each protein chain taken from FSSP: # ------------------Citations (FSSP) ----------------------------------- # L. Holm and C. Sander (1996) Mapping the protein universe. Science 273:595-602. # #SCOP domains found in each protein chain taken from SCOP: # ------------------Citations (SCOP) ----------------------------------- #Murzin A. G., Brenner S. E., Hubbard T., Chothia C. (1995). #SCOP: a structural classification of proteins database for the investigation of sequences and structures. #J. Mol. Biol. 247, 536-540. Sequence_ID Length Target_Evalue FSSP-rep SCOP_domain SCOP_suid 5S 5N 12S 6S 12S 10N 1t43A 277 1.22e-20 c.66.1.30 106392 2b3tA 276 1.23e-20 1sg9A 282 2.98e-18 c.66.1.30 105526 1nv8A 284 2.99e-18 c.66.1.30 86224 1vq1A 294 3.00e-18 1dusA 194 2.60e-10 1dusA c.66.1.4 34182 1ufkA 254 1.29e-09 c.66.1.39 99340 2as0A 396 1.18e-08 1g6q1 328 4.93e-07 1g6q2 1wxxA 382 6.05e-07 1l3iA 192 7.30e-07 c.66.1.22 77676 1ne2A 200 8.58e-07 c.66.1.32 85586 1wy7A 207 1.07e-06 2fytA 340 1.70e-06 1f3lA 321 1.78e-06 1g6q2 c.66.1.6 59630 1ve3A 227 3.71e-06 2esrA 177 8.82e-06 1xxlA 239 1.07e-05 2fhpA 187 1.09e-05 1wznA 252 1.35e-05 1nkvA 256 1.36e-05 c.66.1.21 80577 2admA 421 2.29e-05 2admA c.66.1.27 34238 1aqjA 421 2.29e-05 2admA c.66.1.27 34242 1g38A 393 2.32e-05 2admA c.66.1.27 60235 1or8A 340 2.97e-05 c.66.1.6 93451 1oriA 343 2.97e-05 c.66.1.6 87339 1orhA 353 3.32e-05 c.66.1.6 93455 1jg1A 235 4.35e-05 c.66.1.7 66661 1o54A 277 6.84e-05 c.66.1.13 92482 1ws6A 171 7.23e-05 1dl5A 317 7.99e-05 1dl5A c.66.1.7,d.197.1.1 64720,64721 2gh1A 301 1.23e-04 1jsxA 207 1.51e-04 c.66.1.20 71846 1vl5A 260 1.93e-04 c.66.1.41 108720 2frnA 278 2.03e-04 1qzzA 374 2.85e-04 a.4.5.29,c.66.1.12 96719,96720 1tw3A 360 3.00e-04 a.4.5.29,c.66.1.12 107373,107374 1uwvA 433 5.43e-04 b.40.4.12,c.66.1.40 100128,100129 2b2cA 314 5.82e-04 1xvaA 292 6.53e-04 1xvaA c.66.1.5 34183 1sqgA 429 6.57e-04 a.79.1.3,c.66.1.38 105912,105913 1d2gA 292 7.90e-04 1xvaA c.66.1.5 34187 1vbfA 231 8.46e-04 c.66.1.7 108475 1y8cA 246 9.66e-04 1yub 245 1.01e-03 2ercA c.66.1.24 34219 1r8xA 292 1.49e-03 c.66.1.5 104855 1zq9A 285 1.57e-03 1yzhA 214 2.32e-03 2avnA 260 2.53e-03 1r74A 294 2.97e-03 c.66.1.5 104828 1yb2A 275 3.25e-03 2f8lA 344 4.30e-03 1m6yA 301 5.51e-03 a.60.13.1,c.66.1.23 78716,78717 1vlmA 219 6.80e-03 c.66.1.41 108836 1suiA 247 6.80e-03 1i9gA 280 7.07e-03 c.66.1.13 62090 2fpoA 202 9.10e-03 1ri5A 298 9.31e-03 c.66.1.34 97502 2b25A 336 9.90e-03 2avdA 219 1.11e-02 1i1nA 226 1.18e-02 c.66.1.7 71102 1kpgA 287 1.23e-02 c.66.1.18 68735 1o9gA 250 1.32e-02 c.66.1.29 86692 1o9hA 250 1.45e-02 c.66.1.29 86693 1zdzA 302 1.69e-02 1tpyA 287 2.01e-02 1im8A 244 2.41e-02 c.66.1.14 66212 1p91A 269 2.42e-02 c.66.1.33 94378 1ixkA 315 2.56e-02 c.66.1.38 90716 1inlA 296 3.49e-02 c.66.1.17 66220 1r18A 227 3.58e-02 c.66.1.7 96800 1l1eA 287 3.95e-02 c.66.1.18 73454 1kpiA 302 4.11e-02 c.66.1.18 68743 1xdzA 240 4.47e-02 2fk8A 318 4.62e-02 1jvbA 347 4.89e-02 b.35.1.2,c.2.1.1 77181,77182 1ntoA 347 5.27e-02 b.35.1.2,c.2.1.1 92137,92138 1qamA 244 1.04e-01 2ercA c.66.1.24 34220 1uirA 314 1.18e-01 c.66.1.17 99429 1h1dA 221 1.30e-01 c.66.1.1 83452 1nw8A 319 1.34e-01 c.66.1.11 86292 1eg2A 319 1.51e-01 1eg2A c.66.1.11 34249 1iy9A 275 1.66e-01 c.66.1.17 76943 1mjfA 281 2.57e-01 c.66.1.17 79198 1bc5A 269 2.98e-01 1af7 a.58.1.1,c.66.1.8 17929,34204 1af7 274 3.04e-01 1af7 a.58.1.1,c.66.1.8 17928,34203 1nw3A 416 3.06e-01 c.66.1.31 86288 1g60A 260 3.34e-01 c.66.1.11 70151 1xtpA 254 3.38e-01 1xj5A 334 3.42e-01 2ex4A 241 3.47e-01 1y9kA 157 2.09e+00 1fp2A 352 2.10e+00 1fpxA a.4.5.29,c.66.1.12 59941,59942 1u2zA 433 2.23e+00 c.66.1.31 107626 1booA 323 2.46e+00 1booA c.66.1.11 34248 1h4eA 201 3.48e+00 c.68.1.8 83483 1wg8A 285 3.68e+00 1g55A 343 3.88e+00 1g55A c.66.1.26 34247 2dpmA 284 4.06e+00 2dpmA c.66.1.28 34246 1nytA 271 4.71e+00 c.2.1.7,c.58.1.5 86417,86418 1pl8A 356 4.99e+00 b.35.1.2,c.2.1.1 94878,94879 1h2bA 359 5.70e+00 b.35.1.2,c.2.1.1 90543,90544 2ar0A 541 6.49e+00 1g3kA 174 6.76e+00 1nedA d.153.1.4 41989 2fb7A 95 7.22e+00 1rjdA 334 7.61e+00 c.66.1.37 97558 1x9nA 688 7.77e+00 1fmcA 255 8.33e+00 1cydA c.2.1.2 29856 1b3rA 431 8.54e+00 1b3rA c.2.1.4,c.23.12.3 30106,31366 1xwfA 431 8.58e+00 1lluA 342 9.41e+00 b.35.1.2,c.2.1.1 91064,91065 1zemA 262 9.90e+00 2a14A 263 1.01e+01 1a7aA 432 1.06e+01 1b3rA c.2.1.4,c.23.12.3 30104,31364 1li4A 432 1.07e+01 c.2.1.4,c.23.12.3 84616,84617 1zx0A 236 1.09e+01 2amyA 246 1.10e+01 1ton 235 1.17e+01 5ptp b.47.1.2 26307 1a1s 314 1.22e+01 1othA c.78.1.1,c.78.1.1 35258,35259 1pvvA 315 1.22e+01 c.78.1.1,c.78.1.1 95190,95191 1ej6A 1289 1.33e+01 i.7.1.1 45967 1bdfA 235 1.34e+01 1bdfA d.74.3.1,d.181.1.1 39727,42602 1qo8A 566 1.35e+01 1qjdA a.138.1.3,c.3.1.4,d.168.1.1 19696,30433,42316 1woqA 267 1.39e+01 c.55.1.10,c.55.1.10 109462,109463 1zcjA 463 1.41e+01 1e0jA 289 1.46e+01 1cr1A c.37.1.11 32290 1jqeA 292 1.46e+01 c.66.1.19 71789 1cr1A 296 1.49e+01 1cr1A c.37.1.11 32286 1a71A 374 1.49e+01 2ohxA b.35.1.2,c.2.1.1 24673,29689 1kyzA 365 1.49e+01 a.4.5.29,c.66.1.12 73312,73313 1yvkA 163 1.54e+01 1axgA 374 1.55e+01 2ohxA b.35.1.2,c.2.1.1 24691,29707 1aa6 715 1.57e+01 2napA b.52.2.2,c.81.1.1 26916,35324 2aotA 292 1.60e+01 1fr9A 194 1.68e+01 1fr9A c.68.1.8 34579 1hjjA 201 1.71e+01 c.68.1.8 83487 1hjlA 201 1.74e+01 c.68.1.8 83488 1e5kA 201 1.75e+01 1fr9A c.68.1.8 34578 1h4dA 201 1.76e+01 c.68.1.8 83482 1h4cA 201 1.76e+01 c.68.1.8 83481 1p1cA 199 1.78e+01 c.66.1.16 87669 1khhA 198 1.79e+01 c.66.1.16 68615 1f8fA 371 1.82e+01 b.35.1.2,c.2.1.1 83246,83247 1xclA 235 1.86e+01 1d0vA 356 1.88e+01 1d0vA c.39.1.1 32476 1jbqA 435 1.89e+01 1oasA c.79.1.1 62850 1m54A 363 2.19e+01 c.79.1.1 74463 1pa7A 130 2.28e+01 a.40.1.1 94410 1e3jA 352 2.32e+01 1e3jA b.35.1.2,c.2.1.1 24765,29781 1vkaA 153 2.34e+01 a.40.1.1 108641 1rjwA 339 2.42e+01 b.35.1.2,c.2.1.1 97582,97583 1yf3A 259 2.43e+01 1dabA 539 2.45e+01 1dabA b.80.1.7 28049 1yfjA 259 2.58e+01 2aedA 181 2.64e+01 1q57A 503 2.66e+01 c.37.1.11,e.13.1.2 95867,95868 1jl3A 139 2.80e+01 c.44.1.1 66826 1z0fA 179 2.80e+01 2b8tA 223 2.82e+01 1ikfH 228 2.89e+01 1igtB b.1.1.1,b.1.1.2 20033,21087 1xmrA 243 2.94e+01 1y8zA 402 2.97e+01 1xv5A 401 2.97e+01 1y6fA 403 2.97e+01 1v5kA 115 3.00e+01 a.40.1.1 108377 1ej0A 180 3.03e+01 1ej0A c.66.1.2 34179 1r6aA 295 3.03e+01 c.66.1.25 104817 35c8H 217 3.03e+01 8fabA b.1.1.1,b.1.1.2 20297,21289 1l9kA 305 3.03e+01 c.66.1.25 84569 1sgwA 214 3.04e+01 c.37.1.12 105541 1yw6A 335 3.07e+01 1qv6A 374 3.17e+01 b.35.1.2,c.2.1.1 96348,96349 1b9bA 255 3.20e+01 1amk c.1.1.1 28531 1c7sA 858 3.24e+01 1qba b.1.18.2,b.2.2.3,c.1.8.6,d.92.2.1 21812,22408,29011,40410 1qba 858 3.27e+01 1qba b.1.18.2,b.2.2.3,c.1.8.6,d.92.2.1 21810,22406,29009,40408 1c7tA 858 3.27e+01 1qba b.1.18.2,b.2.2.3,c.1.8.6,d.92.2.1 21813,22409,29012,40411 1q0sA 259 3.32e+01 c.66.1.28 95509 1o0yA 260 3.43e+01 c.1.10.1 80756 1ti3A 113 3.43e+01 1znqO 338 3.54e+01 1u8fO 335 3.58e+01 1ooeA 236 3.76e+01 c.2.1.2 87196 1ee2A 373 3.79e+01 2ohxA b.35.1.2,c.2.1.1 24663,29679 1mgoA 374 3.84e+01 b.35.1.2,c.2.1.1 79094,79095 2b9eA 303 3.85e+01 1fp1D 372 3.90e+01 1fpqA a.4.5.29,c.66.1.12 59939,59940 1axeA 374 3.93e+01 2ohxA b.35.1.2,c.2.1.1 24681,29697 2b30A 301 3.94e+01 1yzfA 195 3.95e+01 2c4wA 176 4.00e+01 1ju9A 374 4.05e+01 b.35.1.2,c.2.1.1 63293,63294 1n8kA 374 4.07e+01 b.35.1.2,c.2.1.1 80298,80299 1qlhA 374 4.07e+01 2ohxA b.35.1.2,c.2.1.1 24685,29701 1heuA 374 4.10e+01 2ohxA b.35.1.2,c.2.1.1 60979,60980 1mvoA 136 4.12e+01 c.23.1.1 79513 1lssA 140 4.16e+01 c.2.1.9 74246 2azjA 289 4.18e+01 1ipeA 259 4.21e+01 c.2.1.2 83700 2ae2A 260 4.22e+01 1bdb c.2.1.2 29945 1wyoA 159 4.23e+01 1d4fA 431 4.24e+01 1b3rA c.2.1.4,c.23.12.3 30110,31370 1u3tA 374 4.25e+01 2azkA 289 4.30e+01 1zjyA 251 4.35e+01 4hb1 108 4.68e+01 4hb1 k.8.1.1 46414 2ag5A 246 4.70e+01 1r5mA 425 4.76e+01 2bgkA 278 4.83e+01 1iirA 415 4.88e+01 1iirA c.87.1.5 62453 1pwkA 91 4.90e+01 d.39.1.1 95229 1qcvA 53 4.96e+01 1rb9 g.41.5.1 45241 1pwjA 89 4.98e+01 d.39.1.1 95228 1f3xA 530 4.98e+01 b.58.1.1,c.1.12.1,c.49.1.1 64958,64959,64960 1a49A 530 4.99e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27026,29255,33109 1f3wA 530 4.99e+01 b.58.1.1,c.1.12.1,c.49.1.1 64934,64935,64936 2ew2A 316 5.03e+01 1sxwA 184 5.10e+01 b.60.1.1 106104 1re6A 94 5.14e+01 d.39.1.1 97320 1jxsA 98 5.18e+01 a.4.5.14 84254 2g50A 530 5.18e+01 2bitX 165 5.26e+01 2bspA 420 5.28e+01 1pcl b.80.1.1 28023 1dysA 348 5.34e+01 1bvwA c.6.1.1 30669 1jj2P 95 5.40e+01 1ffkN b.34.5.1 63101 1vqoQ 96 5.45e+01 2c6yA 111 5.46e+01 1gqoA 143 5.54e+01 c.23.13.1 76295 1s4nA 348 5.67e+01 c.68.1.16 98501 1dxrL 273 5.71e+01 6prcL f.26.1.1 43431 2abxA 74 5.75e+01 1tgxA g.7.1.1 44424 1k7hA 476 5.77e+01 c.76.1.1 72101 2c4vA 167 5.77e+01 1sy3A 184 5.79e+01 b.60.1.1 106110 1px4A 1023 5.83e+01 b.1.4.1,b.1.4.1,b.18.1.5,b.30.5.1,c.1.8.3 104361,104362,104363,104364,104365 1jz2A 1023 5.89e+01 b.1.4.1,b.1.4.1,b.18.1.5,b.30.5.1,c.1.8.3 67710,67711,67712,67713,67714 1f4hA 1021 5.89e+01 b.1.4.1,b.1.4.1,b.18.1.5,b.30.5.1,c.1.8.3 22153,22154,23762,24386,28885 1jz8A 1023 5.90e+01 b.1.4.1,b.1.4.1,b.18.1.5,b.30.5.1,c.1.8.3 67830,67831,67832,67833,67834 1jz7A 1023 5.91e+01 b.1.4.1,b.1.4.1,b.18.1.5,b.30.5.1,c.1.8.3 67810,67811,67812,67813,67814 1zx3A 122 5.92e+01 1uwfA 158 6.16e+01 2c57A 180 6.22e+01 1sy2A 184 6.25e+01 b.60.1.1 106109 2jxrA 329 6.29e+01 1smrA b.50.1.2 26831 1wfdA 93 6.31e+01 1tr7A 164 6.32e+01 2adoA 196 6.40e+01 1dpjA 329 6.53e+01 1smrA b.50.1.2 26828 1g0vA 329 6.59e+01 1smrA b.50.1.2 60189 1afvH 220 6.68e+01 1mfa b.1.1.1,b.1.1.2 20131,21161 2azmA 207 6.69e+01 1n10A 241 6.70e+01 b.7.3.1,b.52.1.3 79774,79775 1bg6 359 6.70e+01 1bg6 a.100.1.5,c.2.1.6 18810,30214 2etxA 209 6.72e+01 1izlB 472 6.83e+01 i.5.1.1 76995 1poiB 260 6.83e+01 1poiB c.124.1.3 34155 2d0oA 610 6.88e+01 1auz 116 6.94e+01 1auz c.13.2.1 30883 1pklA 499 6.95e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27052,29280,33134 1bn8A 420 7.01e+01 1pcl b.80.1.1 28022 1otoA 236 7.03e+01 c.10.2.1 93525 1x8qA 184 7.15e+01 2csfA 101 7.18e+01 1hc9B 74 7.20e+01 g.7.1.1 65787 1d0bA 213 7.27e+01 1d0bA c.10.2.1 30866 1jznA 135 7.32e+01 d.169.1.1 84262 2fgxA 107 7.43e+01 1u3wA 374 7.50e+01 1kuuA 202 7.52e+01 d.153.2.1 73019 1t3gA 159 7.58e+01 1sltA 134 7.62e+01 1c1lA b.29.1.3 24186 1rhwA 89 7.63e+01 d.39.1.1 97490 1wj9A 211 7.65e+01 1jqbA 351 7.67e+01 b.35.1.2,c.2.1.1 77151,77152 1j0xO 332 7.75e+01 c.2.1.3,d.81.1.1 90750,90751 1x5uA 105 8.03e+01 1u5mA 73 8.21e+01 1jcfA 344 8.21e+01 c.55.1.1,c.55.1.1 62878,62879 1fjrA 195 8.27e+01 1fjrA b.102.1.1 59855 1l5oA 356 8.40e+01 c.39.1.1 77711 1h6tA 291 8.41e+01 b.1.18.15,c.10.2.1 65686,65687 1pkm 530 8.56e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27051,29254,33108 1hc9A 74 8.69e+01 g.7.1.1 65786 1w25A 459 8.81e+01 1sy1A 184 8.87e+01 b.60.1.1 106108 1x3kA 152 8.88e+01 1hdyA 374 8.89e+01 2ohxA b.35.1.2,c.2.1.1 24723,29739 1otmA 236 8.92e+01 c.10.2.1 93523 1mioB 458 8.96e+01 1qguB c.92.2.3 35602