# List of top-scoring protein chains for t06-100-30-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 8.78e-04 2fnaA 357 5.22e-01 1lbkA 208 6.40e-01 a.45.1.1,c.47.1.5 73809,73810 1o08A 221 7.72e-01 c.108.1.6 86525 1pgtA 210 9.05e-01 1pgtA a.45.1.1,c.47.1.5 17515,32809 1e19A 314 1.28e+00 1b7bA c.73.1.1 34967 2b49A 287 1.38e+00 1zkrA 153 1.54e+00 2f2eA 146 1.79e+00 1ku1A 230 2.23e+00 a.118.3.1 72996 1pu6A 218 2.55e+00 a.96.1.5 95123 2g7sA 194 3.45e+00 1wuiL 534 3.74e+00 1bhdA 118 3.78e+00 1bkrA a.40.1.1 17398 1h97A 147 4.03e+00 1h97A a.1.1.2 60812 1ubkL 534 4.04e+00 e.18.1.1 88422 1t5oA 351 4.10e+00 c.124.1.5 106459 1k0dA 260 4.39e+00 a.45.1.1,c.47.1.5 67930,67931 1ecmA 109 4.49e+00 1ecmA a.130.1.1 19492 1izmA 184 4.97e+00 a.199.1.1 90725 2a2fX 325 6.04e+00 1ygtA 111 6.37e+00 1sz9A 144 6.54e+00 a.118.9.4 106139 1npyA 271 6.96e+00 c.2.1.7,c.58.1.5 85995,85996 1ezwA 349 6.96e+00 1ezwA c.1.16.3 29558 1ofcX 304 8.31e+00 a.4.1.3,a.4.1.13,a.187.1.1 92826,92827,92828 5pal 109 8.37e+00 1a75A a.39.1.4 17215 1vhnA 318 8.59e+00 c.1.4.1 100693 2f1kA 279 8.70e+00 1f1eA 154 9.00e+00 a.22.1.2 64927 1uc8A 280 9.26e+00 c.30.1.6,d.142.1.7 99165,99166 2ftzA 284 9.28e+00 1wkuA 254 9.29e+00 2fdrA 229 9.29e+00 1jr8A 117 9.35e+00 a.24.15.1 67115 1z83A 196 9.64e+00 1p77A 272 9.74e+00 c.2.1.7,c.58.1.5 94214,94215 1bkrA 109 9.78e+00 1bkrA a.40.1.1 17394 1q1fA 151 9.91e+00 a.1.1.2 104476 2go7A 207 9.92e+00 1puoA 170 1.03e+01 a.101.1.1,a.101.1.1 95134,95135 1owfB 94 1.06e+01 a.55.1.1 87488 1r8mE 203 1.07e+01 a.118.3.1 97242 1w33A 181 1.08e+01 1r8sE 203 1.09e+01 a.118.3.1 97248 2fuqA 747 1.14e+01 2genA 197 1.15e+01 1t3tA 1303 1.15e+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 1es5A 262 1.15e+01 1skf e.3.1.1 42679 1kblA 873 1.24e+01 c.1.12.2,c.8.1.1,d.142.1.5 68384,68385,68386 1z9hA 290 1.25e+01 1b0b 142 1.26e+01 2fal a.1.1.2 15010 1fpzA 212 1.28e+01 1fpzA c.45.1.1 59976 1b7yA 350 1.32e+01 1pysA d.104.1.1 40776 2fp1A 166 1.32e+01 1n7oA 721 1.32e+01 a.102.3.2,b.24.1.1,b.30.5.2 80259,80260,80261 1nkzB 41 1.33e+01 f.3.1.1 80612 1odfA 290 1.39e+01 c.37.1.6 92782 1o06A 20 1.39e+01 j.105.1.1 86524 1dxjA 242 1.45e+01 1cnsA d.2.1.1 36244 1rypF 233 1.55e+01 1rypF d.153.1.4 41937 2ez3A 302 1.57e+01 1zwwA 256 1.57e+01 1agjA 242 1.58e+01 1agjA b.47.1.1 25827 1sz2A 332 1.59e+01 1n2zA 245 1.60e+01 c.92.2.2 79865 1ez3A 127 1.62e+01 1dn1B a.47.2.1 17768 1b4pA 217 1.64e+01 a.45.1.1,c.47.1.5 83158,83159 2baa 243 1.70e+01 1cnsA d.2.1.1 36243 1xszA 356 1.96e+01 1rwyA 109 1.98e+01 a.39.1.4 98002 1skvA 69 1.98e+01 a.30.5.1 105690 1dw0A 112 1.99e+01 1dw0A a.3.1.1 15911 1wmwA 330 2.01e+01 1cfr 285 2.05e+01 1cfr c.52.1.7 33312 1vf1A 229 2.07e+01 1mw7A 240 2.08e+01 e.39.1.1 79557 1i40A 175 2.08e+01 b.40.5.1 66024 1obdA 306 2.08e+01 d.143.1.1 86767 1wzzA 334 2.08e+01 1z6oA 212 2.10e+01 2aq4A 434 2.13e+01 1zccA 248 2.17e+01 1nytA 271 2.25e+01 c.2.1.7,c.58.1.5 86417,86418 1mtyG 162 2.29e+01 1mtyG a.23.3.1 16498 1cg5B 141 2.33e+01 1cg5B a.1.1.2 15585 1wbeA 209 2.33e+01 1te2A 226 2.37e+01 c.108.1.6 106792 1qgtA 149 2.41e+01 1qgtA a.62.1.1 18135 1jnyA 435 2.56e+01 b.43.3.1,b.44.1.1,c.37.1.8 66982,66983,66984 1j09A 468 2.58e+01 a.97.1.1,c.26.1.1 77025,77026 1uhnA 189 2.60e+01 a.39.1.5 99399 1vflA 356 2.63e+01 1r1hA 696 2.66e+01 d.92.1.4 104756 2fbqA 235 2.67e+01 1rh6A 55 2.68e+01 a.6.1.7 104935 1ppjB 439 2.75e+01 d.185.1.1,d.185.1.1 104254,104255 1q77A 138 2.77e+01 c.26.2.4 96023 1q1vA 70 2.81e+01 a.159.4.1 104479 2gtsA 86 2.83e+01 1oj5A 132 2.86e+01 d.110.3.8 93087 1ywfA 296 2.88e+01 1nm8A 616 2.89e+01 c.43.1.3,c.43.1.3 85872,85873 1twfC 318 2.96e+01 2axtJ 40 2.99e+01 1wvvA 265 3.08e+01 1qloA 34 3.10e+01 1qloA j.35.1.1 46281 1wmuA 141 3.14e+01 a.1.1.2 109416 1uw4B 248 3.18e+01 a.118.1.14 100072 1wrdA 103 3.22e+01 2ilk 160 3.24e+01 2ilk a.26.1.3 16885 1a59 378 3.25e+01 1aj8A a.103.1.1 18902 2bolA 314 3.30e+01 1m6sA 347 3.32e+01 c.67.1.1 78701 2gk3A 256 3.33e+01 2bcqA 335 3.34e+01 1egpA 45 3.39e+01 1egpA d.40.1.1 38561 2tct 207 3.39e+01 2tct a.4.1.9,a.121.1.1 16063,19240 1h5wA 309 3.39e+01 e.27.1.1 65635 1yo3A 102 3.42e+01 1cpt 412 3.48e+01 1cpt a.104.1.1 18968 1zj8A 566 3.49e+01 1xnfA 275 3.51e+01 1sf8A 126 3.54e+01 d.271.1.1 105472 1orjA 130 3.55e+01 a.24.19.1 93456 1k4nA 192 3.58e+01 d.32.1.5 72059 1eexA 554 3.59e+01 1dioA c.1.19.3 29650 2g0uA 92 3.62e+01 1f0lA 535 3.64e+01 1ddt b.2.1.1,d.166.1.1,f.1.2.1 22377,42239,43382 1vp4A 425 3.70e+01 1cf7B 95 3.77e+01 1cf7B a.4.5.17 16152 2evaA 307 3.78e+01 2a07F 93 3.79e+01 1pbyA 489 3.80e+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 1rro 108 3.83e+01 1a75A a.39.1.4 17195 2a1hA 365 3.99e+01 1php 394 4.02e+01 16pk c.86.1.1 35452 1kv4A 42 4.15e+01 j.4.1.3 73051 1y1pA 342 4.16e+01 1ww8A 439 4.16e+01 1ymtA 246 4.20e+01 1fx2A 235 4.21e+01 1fx2A d.58.29.1 39430 1gl2A 65 4.25e+01 h.1.15.1 65278 2bs3A 656 4.26e+01 2d5cA 263 4.26e+01 1qf5A 431 4.30e+01 1adeA c.37.1.10 32212 1z8uA 102 4.31e+01 2grrB 170 4.37e+01 2amxA 376 4.41e+01 1brwA 433 4.43e+01 1brwA a.46.2.1,c.27.1.1,d.41.3.1 17764,31628,38626 1nh2D 121 4.45e+01 a.32.1.1,b.56.1.1 91876,91877 2aebA 322 4.46e+01 2cbiA 594 4.50e+01 1pmi 440 4.51e+01 1pmi b.82.1.3 28114 1tafA 68 4.52e+01 1tafA a.22.1.3 16481 1cseI 71 4.53e+01 1egpA d.40.1.1 38559 2c4jA 218 4.57e+01 1rl4A 188 4.58e+01 d.167.1.1 97636 1upkA 341 4.67e+01 a.118.1.15 99758 1s8nA 205 4.69e+01 c.23.1.1 105374 1sqwA 188 4.70e+01 1vhqA 232 4.71e+01 c.23.16.2 100696 1aquA 297 4.76e+01 1aquA c.37.1.5 31942 1x79A 98 4.76e+01 1iapA 211 4.82e+01 a.91.1.1 62119 1xjuA 163 4.84e+01 2b6cA 220 4.88e+01 2f7tA 227 4.88e+01 1tm9A 137 4.92e+01 a.225.1.1 107150 1hdiA 413 5.01e+01 16pk c.86.1.1 60964 2cr9A 139 5.01e+01 1e3dB 542 5.01e+01 1h2rL e.18.1.1 59189 1dk0A 188 5.02e+01 1b2vA d.35.1.1 38530 2c8mA 262 5.03e+01 1ldfA 281 5.08e+01 f.19.1.1 73845 1yviA 149 5.08e+01 1sxvA 172 5.11e+01 1v7bA 185 5.12e+01 1n62A 166 5.13e+01 a.56.1.1,d.15.4.2 80090,80091 1rwhA 757 5.17e+01 a.102.3.2,b.24.1.1,b.30.5.2 97984,97985,97986 2cxxA 190 5.20e+01 1vyiA 112 5.23e+01 1k1fA 72 5.35e+01 a.147.1.1 68007 2fg9A 178 5.40e+01 1aisB 200 5.42e+01 1aisB a.74.1.2,a.74.1.2 18384,18385 1v6tA 255 5.44e+01 2fnoA 248 5.44e+01 1ui5A 215 5.49e+01 a.4.1.9,a.121.1.1 107856,107857 2be4A 272 5.53e+01 1vp8A 201 5.56e+01 1cunA 213 5.60e+01 1cunA a.7.1.1,a.7.1.1 16313,16314 1d3vA 323 5.66e+01 1d3vA c.42.1.1 32559 2ayuA 417 5.66e+01 2f4mA 295 5.69e+01 2btzA 394 5.69e+01 1fc4A 401 5.73e+01 1bs0A c.67.1.4 59760 1g4yB 101 5.73e+01 1g4yB f.15.1.1 60251 1x6iA 91 5.82e+01 1qb7A 236 5.84e+01 1qb7A c.61.1.1 34087 1bed 181 5.86e+01 1fvkA c.47.1.13 90330 1kn1B 161 5.90e+01 a.1.1.3 77456 1jsdB 176 5.93e+01 h.3.1.1 63259 1bqbA 301 6.04e+01 1hyt d.92.1.2 58962 2aa1A 144 6.10e+01 1h21A 247 6.11e+01 a.138.1.3 76510 1jfiA 98 6.17e+01 1jfiA a.22.1.3 62936 2aqlA 173 6.23e+01 1wb9A 800 6.27e+01 1ybzA 91 6.40e+01 1wy0A 342 6.40e+01 2bepA 159 6.43e+01 1u4qA 322 6.58e+01 1qf9A 194 6.61e+01 1zin c.37.1.1 31848 3vub 101 6.63e+01 3vub b.34.6.1 24613 2f6mB 109 6.65e+01 1wy9A 147 6.67e+01 1clc 639 6.70e+01 1clc a.102.1.2,b.1.18.2 18835,21872 1adt 356 6.74e+01 1anv a.54.1.1,g.51.1.1,g.51.1.1 17887,45362,45368 1vb3A 428 6.74e+01 1rgxA 114 6.79e+01 g.77.1.1 104932 2a7kA 250 6.79e+01 2f3yA 148 6.82e+01 1tfe 145 6.82e+01 1tfe d.43.1.1 38680 1k94A 165 6.82e+01 a.39.1.8 68333 1irqA 71 6.86e+01 a.43.1.4 66297 1dtjA 76 6.90e+01 1dt4A d.51.1.1 38800 1cpo 299 6.91e+01 1cpo a.39.3.1,a.39.3.1 17390,17391 2b7aA 293 6.91e+01 1jhgA 101 6.95e+01 1jhgA a.4.12.1 19009 1efdN 266 6.97e+01 1efdN c.92.2.1 35597 1gntA 553 6.98e+01 e.26.1.1 70290 1vhxA 150 7.00e+01 c.55.3.8 100712 1rsoB 56 7.03e+01 a.194.1.1 97812 1pot 325 7.05e+01 1pot c.94.1.1 35807 2gx9A 129 7.05e+01 1pbwA 216 7.08e+01 1pbwA a.116.1.1 19103 1sfkA 76 7.09e+01 a.190.1.1 105488 1qusA 322 7.11e+01 1ltm d.2.1.6 36991 1chuA 540 7.12e+01 1chuA a.7.3.1,c.3.1.4,d.168.1.1 16325,30424,42307 1yovA 537 7.22e+01 2fbwA 621 7.26e+01 1qsaA 618 7.27e+01 1qsaA a.118.5.1,d.2.1.6 19182,36988 1rkbA 173 7.28e+01 2bo4A 397 7.31e+01 1alvA 173 7.33e+01 1alvA a.39.1.8 17370 1z90A 469 7.35e+01 1n7sD 66 7.37e+01 h.1.15.1 80274 1ars 396 7.40e+01 1ajsA c.67.1.1 34287 1qq5A 253 7.51e+01 1qq5A c.108.1.1 43327 1g73A 162 7.52e+01 1fewA a.7.4.1 16332 1qwkA 317 7.55e+01 c.1.7.1 96482 1c17M 177 7.55e+01 1c17M f.18.1.1 43648 1xezA 721 7.59e+01 1x46A 150 7.59e+01 1hssA 124 7.67e+01 1bea a.52.1.2 17819 1sjdA 368 7.68e+01 c.1.11.2,d.54.1.1 105632,105633 1swvA 267 7.69e+01 1q0vA 81 7.72e+01 j.105.1.1 95514 2ccjA 205 7.73e+01 1lwbA 122 7.79e+01 a.133.1.3 84728 1vi2A 300 8.07e+01 c.2.1.7,c.58.1.5 100726,100727 2cwcA 303 8.10e+01 1g2nA 264 8.14e+01 1lbd a.123.1.1 60227 1u14A 172 8.14e+01 c.51.4.3 107579 1u5pA 216 8.24e+01 1owfA 99 8.25e+01 a.55.1.1 87487 1wwzA 159 8.26e+01 1wx1A 335 8.30e+01 1nxuA 333 8.34e+01 c.122.1.1 86389 2bl0A 63 8.37e+01 1vhrA 184 8.42e+01 1vhrA c.45.1.1 32651 1ng6A 148 8.45e+01 a.182.1.1 85670 1hlvA 131 8.45e+01 a.4.1.7,a.4.1.7 65854,65855 1sx7A 164 8.47e+01 1pq1A 196 8.48e+01 f.1.4.1 94986 2bidA 197 8.57e+01 2bidA f.1.4.1 43398 2blfB 81 8.57e+01 1jfxA 217 8.57e+01 c.1.8.8 62943 1z00B 84 8.67e+01 1qb2A 109 8.68e+01 1qb2A a.36.1.1 17125 2bb6A 414 8.69e+01 1oz9A 150 8.75e+01 d.92.1.15 93808 1jc4A 148 8.75e+01 1jc4A d.32.1.4 62863 1tfr 305 8.84e+01 1tfr a.60.7.1,c.120.1.2 18081,33351 1nu7D 282 8.86e+01 a.8.6.1,a.8.6.1 92191,92192 1kk8B 139 8.87e+01 a.39.1.5 77430 1pb6A 212 8.94e+01 a.4.1.9,a.121.1.1 88017,88018