# List of top-scoring protein chains for t04-100-30-stride-ebghtl-scores 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 2ah5A 210 3.21e-03 2fnaA 357 6.91e-01 1pu6A 218 1.54e+00 a.96.1.5 95123 1pgtA 210 1.55e+00 1pgtA a.45.1.1,c.47.1.5 17515,32809 2b49A 287 1.58e+00 1lbkA 208 1.62e+00 a.45.1.1,c.47.1.5 73809,73810 1o08A 221 1.90e+00 c.108.1.6 86525 1y37A 304 1.90e+00 1izmA 184 2.34e+00 a.199.1.1 90725 1k0dA 260 2.95e+00 a.45.1.1,c.47.1.5 67930,67931 1zkrA 153 4.24e+00 1ku1A 230 5.38e+00 a.118.3.1 72996 1bhdA 118 5.71e+00 1bkrA a.40.1.1 17398 2f2eA 146 6.05e+00 5pal 109 6.63e+00 1a75A a.39.1.4 17215 1e19A 314 6.92e+00 1b7bA c.73.1.1 34967 1m5yA 408 7.19e+00 a.167.1.1,d.26.1.1,d.26.1.1 78664,78665,78666 1uc8A 280 7.75e+00 c.30.1.6,d.142.1.7 99165,99166 1uhnA 189 7.98e+00 a.39.1.5 99399 1kblA 873 8.14e+00 c.1.12.2,c.8.1.1,d.142.1.5 68384,68385,68386 1h2rL 534 8.15e+00 1h2rL e.18.1.1 43298 1ecmA 109 8.35e+00 1ecmA a.130.1.1 19492 1wuiL 534 8.50e+00 1dik 874 8.71e+00 1dik c.1.12.2,c.8.1.1,d.142.1.5 29304,30702,41572 1ubkL 534 9.11e+00 e.18.1.1 88422 1ug7A 128 9.18e+00 a.24.24.1 107824 2g7sA 194 9.54e+00 2f1kA 279 1.02e+01 1xvjA 109 1.03e+01 1jr8A 117 1.07e+01 a.24.15.1 67115 1g4yB 101 1.10e+01 1g4yB f.15.1.1 60251 1ygtA 111 1.15e+01 1ofcX 304 1.23e+01 a.4.1.3,a.4.1.13,a.187.1.1 92826,92827,92828 2go7A 207 1.24e+01 1t5oA 351 1.29e+01 c.124.1.5 106459 1rwyA 109 1.31e+01 a.39.1.4 98002 1es5A 262 1.32e+01 1skf e.3.1.1 42679 1esiA 262 1.34e+01 1skf e.3.1.1 42682 1f1eA 154 1.34e+01 a.22.1.2 64927 1qf5A 431 1.35e+01 1adeA c.37.1.10 32212 1bkrA 109 1.38e+01 1bkrA a.40.1.1 17394 1q1fA 151 1.49e+01 a.1.1.2 104476 1kzuB 41 1.49e+01 1kzuB f.3.1.1 43728 1nkzB 41 1.49e+01 f.3.1.1 80612 1cg5B 141 1.52e+01 1cg5B a.1.1.2 15585 1h97A 147 1.54e+01 1h97A a.1.1.2 60812 1fezA 256 1.57e+01 1fezA c.108.1.3 43343 1owfB 94 1.58e+01 a.55.1.1 87488 1wkuA 254 1.62e+01 2ftzA 284 1.64e+01 1z8uA 102 1.69e+01 1i7dA 659 1.70e+01 1d6mA e.10.1.1 61886 1pysA 350 1.78e+01 1pysA d.104.1.1 40775 1z9hA 290 1.81e+01 1j09A 468 1.91e+01 a.97.1.1,c.26.1.1 77025,77026 1agjA 242 1.93e+01 1agjA b.47.1.1 25827 1miwA 404 2.00e+01 a.173.1.1,d.218.1.4 79162,79163 1o06A 20 2.00e+01 j.105.1.1 86524 2baa 243 2.03e+01 1cnsA d.2.1.1 36243 1b7yA 350 2.04e+01 1pysA d.104.1.1 40776 1sz9A 144 2.08e+01 a.118.9.4 106139 1dxjA 242 2.14e+01 1cnsA d.2.1.1 36244 1dw0A 112 2.16e+01 1dw0A a.3.1.1 15911 1rypF 233 2.21e+01 1rypF d.153.1.4 41937 1pbv 195 2.24e+01 1pbv a.118.3.1 19179 1gln 468 2.26e+01 1gln a.97.1.1,c.26.1.1 18752,31588 2be4A 272 2.27e+01 2fji1 399 2.31e+01 1npyA 271 2.33e+01 c.2.1.7,c.58.1.5 85995,85996 1z83A 196 2.38e+01 1f0lA 535 2.43e+01 1ddt b.2.1.1,d.166.1.1,f.1.2.1 22377,42239,43382 1z6gA 218 2.44e+01 1ez3A 127 2.48e+01 1dn1B a.47.2.1 17768 2gtsA 86 2.55e+01 1rro 108 2.55e+01 1a75A a.39.1.4 17195 119l 164 2.57e+01 1l92 d.2.1.3 36622 1r8sE 203 2.61e+01 a.118.3.1 97248 1a48 306 2.68e+01 1a48 d.143.1.1 41590 1zwwA 256 2.72e+01 1p36A 164 2.73e+01 d.2.1.3 93978 1oj6A 151 2.74e+01 a.1.1.2 93088 1obdA 306 2.76e+01 d.143.1.1 86767 2axtJ 40 2.77e+01 1lw9A 164 2.78e+01 d.2.1.3 84727 1x0lA 333 2.79e+01 2a2dA 478 2.84e+01 1cfr 285 2.86e+01 1cfr c.52.1.7 33312 1vhnA 318 2.87e+01 c.1.4.1 100693 1ic8A 194 2.88e+01 a.4.1.1,a.35.1.1 76740,76741 1sz2A 332 2.91e+01 1q77A 138 2.92e+01 c.26.2.4 96023 2genA 197 2.93e+01 1t3tA 1303 2.93e+01 a.5.10.1,c.23.16.1,d.284.1.2,d.79.4.1,d.79.4.1,d.139.1.1,d.139.1.1 106381,106382,106383,106384,106385,106386,106387 2f6lA 166 2.96e+01 1r8mE 203 2.97e+01 a.118.3.1 97242 2fp1A 166 2.97e+01 1puoA 170 2.99e+01 a.101.1.1,a.101.1.1 95134,95135 1cpt 412 3.02e+01 1cpt a.104.1.1 18968 2fuqA 747 3.03e+01 1rpa 342 3.09e+01 1cviA c.60.1.2 33983 1vgoA 253 3.20e+01 1tfjA 219 3.27e+01 1wbeA 209 3.27e+01 2b25A 336 3.27e+01 2aq4A 434 3.35e+01 1hdiA 413 3.38e+01 16pk c.86.1.1 60964 1wb9A 800 3.45e+01 2fdrA 229 3.47e+01 1v4eA 299 3.47e+01 a.128.1.1 100296 1rl4A 188 3.51e+01 d.167.1.1 97636 1zccA 248 3.51e+01 1sf8A 126 3.52e+01 d.271.1.1 105472 1vkjA 285 3.58e+01 c.37.1.5 108666 1odfA 290 3.58e+01 c.37.1.6 92782 1rqlA 267 3.58e+01 c.108.1.3 97750 1alvA 173 3.59e+01 1alvA a.39.1.8 17370 1i40A 175 3.61e+01 b.40.5.1 66024 1p77A 272 3.72e+01 c.2.1.7,c.58.1.5 94214,94215 1ezwA 349 3.80e+01 1ezwA c.1.16.3 29558 1wzzA 334 3.98e+01 1sctB 151 3.98e+01 3sdhA a.1.1.2 15003 1ppjB 439 4.01e+01 d.185.1.1,d.185.1.1 104254,104255 1zgmA 248 4.03e+01 2a2cA 478 4.04e+01 2grrB 170 4.06e+01 2fbqA 235 4.08e+01 2f8lA 344 4.10e+01 1vflA 356 4.19e+01 2a07F 93 4.22e+01 1anv 356 4.24e+01 1anv a.54.1.1,g.51.1.1,g.51.1.1 17890,45365,45371 1unlD 208 4.25e+01 1q18A 332 4.25e+01 c.55.1.7,c.55.1.7 104470,104471 1rh6A 55 4.28e+01 a.6.1.7 104935 1wy0A 342 4.30e+01 2fnoA 248 4.31e+01 1xezA 721 4.33e+01 1pm6A 72 4.42e+01 a.6.1.7 94894 1php 394 4.45e+01 16pk c.86.1.1 35452 1e3mA 800 4.52e+01 1ewqA a.113.1.1,c.37.1.12,c.55.6.1,d.75.2.1 19075,32389,33746,39747 1z6oA 212 4.54e+01 2cbiA 594 4.54e+01 1dmtA 696 4.57e+01 1dmtA d.92.1.4 40296 1wa8B 95 4.67e+01 1adt 356 4.68e+01 1anv a.54.1.1,g.51.1.1,g.51.1.1 17887,45362,45368 1brwA 433 4.79e+01 1brwA a.46.2.1,c.27.1.1,d.41.3.1 17764,31628,38626 2ez3A 302 4.91e+01 1wtyA 119 4.94e+01 1h4lD 147 4.96e+01 a.74.1.1 70873 2a2fX 325 4.98e+01 1kv9A 668 5.00e+01 a.3.1.6,b.70.1.1 73056,73057 2ilk 160 5.18e+01 2ilk a.26.1.3 16885 1b4pA 217 5.19e+01 a.45.1.1,c.47.1.5 83158,83159 1l2tA 235 5.23e+01 c.37.1.12 73514 1fpzA 212 5.48e+01 1fpzA c.45.1.1 59976 1aquA 297 5.48e+01 1aquA c.37.1.5 31942 1n2zA 245 5.50e+01 c.92.2.2 79865 1lfkA 398 5.57e+01 a.104.1.1 77926 1g4yR 148 5.58e+01 1cll a.39.1.5 60252 1np8A 159 5.62e+01 a.39.1.8 92022 2gk3A 256 5.64e+01 1jhgA 101 5.78e+01 1jhgA a.4.12.1 19009 1ww8A 439 5.82e+01 5ukdA 194 5.91e+01 1zin c.37.1.1 31851 1x79A 98 5.94e+01 1aisB 200 6.04e+01 1aisB a.74.1.2,a.74.1.2 18384,18385 1qf9A 194 6.05e+01 1zin c.37.1.1 31848 2bolA 314 6.08e+01 1a59 378 6.10e+01 1aj8A a.103.1.1 18902 1k4nA 192 6.12e+01 d.32.1.5 72059 1w0bA 102 6.17e+01 a.7.11.1 108985 1fc4A 401 6.18e+01 1bs0A c.67.1.4 59760 1swvA 267 6.18e+01 1y01A 102 6.19e+01 1jnrA 643 6.28e+01 a.7.3.1,c.3.1.4,d.168.1.1 66966,66967,66968 1z5zA 271 6.29e+01 1mtyG 162 6.29e+01 1mtyG a.23.3.1 16498 2bcqA 335 6.30e+01 4cpv 109 6.30e+01 1a75A a.39.1.4 17198 1nm8A 616 6.32e+01 c.43.1.3,c.43.1.3 85872,85873 1nrlA 316 6.32e+01 a.123.1.1 92091 2dkaA 544 6.35e+01 2a7kA 250 6.35e+01 1bqbA 301 6.37e+01 1hyt d.92.1.2 58962 1qi9A 556 6.39e+01 1qhbA a.111.1.2 19053 1ybzA 91 6.43e+01 1h5wA 309 6.46e+01 e.27.1.1 65635 1kpsB 171 6.48e+01 a.118.12.1 68787 1oz9A 150 6.50e+01 d.92.1.15 93808 2b6cA 220 6.51e+01 1tadA 324 6.55e+01 1cipA a.66.1.1,c.37.1.8 18194,32077 1omrA 201 6.64e+01 a.39.1.5 93349 2pvbA 107 6.67e+01 1a75A a.39.1.4 17205 1kv4A 42 6.69e+01 j.4.1.3 73051 1vhqA 232 6.73e+01 c.23.16.2 100696 1w33A 181 6.73e+01 1wmuA 141 6.75e+01 a.1.1.2 109416 1vp8A 201 6.77e+01 1sxvA 172 6.82e+01 2fjbA 643 6.86e+01 1wdcB 156 6.97e+01 1wdcB a.39.1.5 17302 1rztA 331 6.98e+01 a.60.6.1,a.60.12.1,d.218.1.2 98224,98225,98226 2b7aA 293 7.01e+01 1uedA 406 7.02e+01 a.104.1.1 99256 1yrlA 491 7.04e+01 1rec 201 7.15e+01 1rec a.39.1.5 17326 1egpA 45 7.17e+01 1egpA d.40.1.1 38561 1nhyA 219 7.17e+01 a.45.1.1,c.47.1.5 80520,80521 1pbyA 489 7.19e+01 a.3.1.7,a.3.1.7,b.1.18.14,b.1.18.14,b.61.4.1 94417,94418,94419,94420,94421 1t06A 235 7.21e+01 a.118.1.17 106194 2c4jA 218 7.21e+01 1bj4A 470 7.25e+01 1bj4A c.67.1.4 34479 1pot 325 7.27e+01 1pot c.94.1.1 35807 1w1iE 357 7.31e+01 c.1.9.1 109051 1fkx 349 7.33e+01 1a4mA c.1.9.1 29018 1gl2A 65 7.34e+01 h.1.15.1 65278 1s1hM 132 7.40e+01 i.1.1.1 105165 1pvaA 110 7.46e+01 1a75A a.39.1.4 17207 1fehA 574 7.58e+01 1fehA c.96.1.1,d.15.4.2,d.58.1.5 36015,37690,38998 1rv3A 483 7.61e+01 c.67.1.4 105101 1eexA 554 7.63e+01 1dioA c.1.19.3 29650 1n7oA 721 7.63e+01 a.102.3.2,b.24.1.1,b.30.5.2 80259,80260,80261 1xnfA 275 7.68e+01 1iufA 144 7.69e+01 a.4.1.7,a.4.1.7 71439,71440 1jgsA 138 7.76e+01 a.4.5.28 66683 2cr9A 139 7.78e+01 1qusA 322 7.85e+01 1ltm d.2.1.6 36991 1wmwA 330 7.98e+01 1tag 324 8.00e+01 1cipA a.66.1.1,c.37.1.8 18197,32080 1orjA 130 8.05e+01 a.24.19.1 93456 2f3yA 148 8.07e+01 1mw7A 240 8.17e+01 e.39.1.1 79557 1jnyA 435 8.18e+01 b.43.3.1,b.44.1.1,c.37.1.8 66982,66983,66984 2tct 207 8.23e+01 2tct a.4.1.9,a.121.1.1 16063,19240 2ct8A 497 8.23e+01 1nxuA 333 8.32e+01 c.122.1.1 86389 1e4yA 214 8.33e+01 1zin c.37.1.1,g.41.2.1 31901,45181 2btoA 473 8.47e+01 1upkA 341 8.47e+01 a.118.1.15 99758 1xszA 356 8.47e+01 2cdnA 201 8.47e+01 2fg9A 178 8.49e+01 1s8nA 205 8.50e+01 c.23.1.1 105374 1e94F 449 8.56e+01 1do0A c.37.1.20 32443 1w36C 1122 8.58e+01 1qwkA 317 8.58e+01 c.1.7.1 96482 1bd3A 243 8.65e+01 1bd3A c.61.1.1 34098 1v32A 101 8.74e+01 a.42.1.1 100277 1zj8A 566 8.79e+01 1lbu 213 8.90e+01 1lbu a.20.1.1,d.65.1.1 16416,39549 1pq1A 196 8.94e+01 f.1.4.1 94986 3fapB 94 8.97e+01 1nsgB a.24.7.1 16612 1ytzT 107 8.98e+01 1v7bA 185 8.99e+01