# List of top-scoring protein chains for t04-100-30-dssp-ebghstl-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 2cw8A 537 4.04e-01 1mjc 69 5.20e-01 1mjc b.40.4.5 25319 1wkaA 147 6.04e-01 1mwmA 320 2.27e+00 c.55.1.1,c.55.1.1 79580,79581 1xwvA 129 2.86e+00 1bf2 750 2.95e+00 1bf2 b.1.18.2,b.71.1.1,c.1.8.1 21860,27787,28774 2fdiA 211 3.38e+00 1vjvA 415 3.93e+00 d.3.1.9 108632 1t9fA 187 4.19e+00 b.42.6.1 106710 1vjlA 164 4.32e+00 d.257.1.1 100822 2fsrA 195 5.41e+00 1lshA 1056 5.69e+00 a.118.4.1,f.7.1.1,f.7.1.1 74242,74243,74244 1jsdA 319 5.83e+00 b.19.1.2 63258 2fpeA 62 6.24e+00 1v88A 130 6.56e+00 b.55.1.1 108423 1dkuA 317 6.70e+00 1dkuA c.61.1.2,c.61.1.2 34118,34119 1fjgK 129 6.74e+00 1fjfK c.55.4.1 33733 1c9oA 66 6.82e+00 1mjc b.40.4.5 25325 1zk7A 467 6.94e+00 1xn5A 146 7.22e+00 1nekA 588 7.25e+00 a.7.3.1,c.3.1.4,d.168.1.1 80426,80427,80428 1ev7A 317 7.28e+00 1ev7B c.52.1.9 33315 1gt91 357 7.70e+00 1t1gA 364 7.85e+00 c.41.1.2 106246 1tl2A 236 7.97e+00 1tl2A b.67.1.1 27541 1qhxA 178 8.49e+00 1qhsA c.37.1.3 31936 1jsmA 325 8.56e+00 b.19.1.2 63264 1eu3A 210 8.60e+00 1an8 b.40.2.2,d.15.6.1 25206,37795 1cseE 274 8.79e+00 1gci c.41.1.1 32481 1lw6E 281 8.89e+00 c.41.1.1 74293 1sup 275 8.93e+00 1gci c.41.1.1 32510 1fjrA 195 9.06e+00 1fjrA b.102.1.1 59855 1to2E 281 9.11e+00 1ktjA 129 9.21e+00 b.1.18.7 72974 1tdhA 364 9.34e+00 a.156.1.2,b.113.1.1,g.39.1.8 106772,106773,106774 1yfsA 465 1.01e+01 1dgwA 178 1.02e+01 1dgwA b.82.1.2 28090 1vkyA 347 1.03e+01 e.53.1.1 108696 1riqA 465 1.05e+01 a.203.1.1,d.104.1.1 97516,97517 1s8iA 121 1.10e+01 a.133.1.2 98735 1hh8A 213 1.15e+01 1e96B a.118.8.1 61042 1wm5A 208 1.16e+01 1uliA 460 1.16e+01 b.33.1.2,d.129.3.3 107921,107922 1y4lA 121 1.18e+01 1zkpA 268 1.21e+01 1vhsA 175 1.22e+01 d.108.1.1 100698 2f9nA 245 1.23e+01 1c5yB 253 1.23e+01 5ptp 2gfaA 119 1.25e+01 1c8uA 285 1.25e+01 1c8uA d.38.1.3,d.38.1.3 38547,38548 1j9qA 341 1.27e+01 1nif b.6.1.3,b.6.1.3 62765,62766 1snrA 341 1.29e+01 b.6.1.3,b.6.1.3 105823,105824 1sgt 223 1.32e+01 5ptp b.47.1.1 25814 1q38A 89 1.33e+01 b.1.2.1 95663 1wkrA 340 1.33e+01 b.50.1.2 109395 1os8A 223 1.33e+01 b.47.1.1 93481 1txqA 93 1.34e+01 1sf9A 128 1.45e+01 b.34.15.1 98831 1yt5A 258 1.55e+01 1gj7B 253 1.55e+01 1i8kA 107 1.56e+01 b.1.1.1 71130 1lr7A 74 1.62e+01 g.3.11.3,g.68.1.1 84679,84680 1vdwA 254 1.63e+01 e.7.1.1 100569 2viuA 328 1.66e+01 1hgeA b.19.1.2 23797 1mzyA 333 1.66e+01 b.6.1.3,b.6.1.3 103848,103849 2bbvA 363 1.70e+01 2bbvA b.121.4.4 23323 1jovA 270 1.73e+01 b.30.5.7 84192 1d4tA 104 1.81e+01 1d4tA d.93.1.1 40537 1inlA 296 1.82e+01 c.66.1.17 66220 1b12A 248 1.84e+01 1b12A b.87.1.2 28388 1nr4A 71 1.85e+01 d.9.1.1 92077 1o6aA 96 1.85e+01 b.139.1.1 92562 1go7P 462 1.87e+01 b.80.7.1,d.92.1.6 76245,76246 1zxiC 288 1.89e+01 1y1oA 203 1.90e+01 1k7iA 479 1.91e+01 b.80.7.1,d.92.1.6 77281,77282 1zxiF 288 1.92e+01 1ee6A 197 1.98e+01 1ee6A b.80.1.1 28024 1jnuA 104 1.98e+01 d.110.3.6 71762 1eg9A 449 2.05e+01 1ndoA b.33.1.2,d.129.3.3 24443,41322 1mojA 182 2.05e+01 a.25.1.1 91367 1tjoA 182 2.05e+01 1svy 114 2.06e+01 1svy d.109.1.1 40831 1o7nA 449 2.06e+01 b.33.1.2,d.129.3.3 81162,81163 1xxsA 122 2.09e+01 1sv6A 269 2.10e+01 d.177.1.1 106043 3c2c 112 2.11e+01 1ycc a.3.1.1 15885 2mcm 112 2.14e+01 2mcm b.1.7.1 22207 1vqoU 66 2.16e+01 1n7oA 721 2.19e+01 a.102.3.2,b.24.1.1,b.30.5.2 80259,80260,80261 1wdtA 665 2.20e+01 1l1jA 239 2.26e+01 b.47.1.1 84516 1wyxA 69 2.26e+01 1y88A 199 2.27e+01 1tygB 87 2.31e+01 d.15.3.2 107455 1php 394 2.33e+01 16pk c.86.1.1 35452 1h2wA 710 2.36e+01 b.69.7.1,c.69.1.4 76596,76597 1iw8A 231 2.37e+01 a.111.1.1 76866 1ppa 121 2.37e+01 1poa a.133.1.2 19550 2anwA 241 2.38e+01 1vr9A 213 2.43e+01 1t92A 116 2.44e+01 1wjnA 97 2.48e+01 1d2tA 231 2.54e+01 1d2tA a.111.1.1 19052 2anyA 241 2.58e+01 2cxaA 256 2.59e+01 1b0uA 262 2.60e+01 1b0uA c.37.1.12 32370 1f53A 84 2.60e+01 1f53A b.11.1.4 23632 1rqpA 299 2.62e+01 b.141.1.1,c.132.1.1 97754,97755 2a72A 146 2.64e+01 1wwzA 159 2.67e+01 1yb3A 175 2.67e+01 1khoA 370 2.71e+01 a.124.1.1,b.12.1.3 72489,72490 2fikA 287 2.71e+01 1geeA 261 2.73e+01 c.2.1.2 90509 1gcoA 261 2.76e+01 1ybvA c.2.1.2 29884 1n62C 288 2.83e+01 d.87.2.1,d.145.1.3 80094,80095 1vplA 256 2.84e+01 1r0rE 274 2.88e+01 c.41.1.1 96735 1el6A 219 2.90e+01 1el6B d.182.1.1 42606 1ri9A 102 2.93e+01 b.34.2.1 97506 1nnxA 109 2.93e+01 b.40.10.1 92013 1yu6A 275 2.94e+01 1a8q 274 2.95e+01 1brt c.69.1.12 34702 1gycA 499 2.96e+01 b.6.1.3,b.6.1.3,b.6.1.3 70748,70749,70750 1ltoA 245 3.02e+01 b.47.1.2 84707 1p8xA 344 3.08e+01 d.109.1.1,d.109.1.1,d.109.1.1 94365,94366,94367 1wruA 379 3.14e+01 1v6pA 62 3.15e+01 1mr1C 99 3.18e+01 d.217.1.2 79420 1v8bA 479 3.22e+01 1vi4A 174 3.25e+01 c.8.7.1 100731 1jb0D 138 3.34e+01 1jb0D d.187.1.1 62823 1vbkA 307 3.38e+01 1k3sA 113 3.42e+01 d.198.1.1 68120 1ts9A 102 3.46e+01 1sh7A 284 3.48e+01 1go3E 187 3.49e+01 b.40.4.5,d.230.1.1 83054,83055 1e79H 146 3.52e+01 1e79H a.2.10.1,b.93.1.1 15721,28438 1sqhA 312 3.53e+01 d.108.1.5 98966 1ro7A 259 3.54e+01 c.130.1.1 97667 1u9cA 224 3.56e+01 1o0pA 104 3.61e+01 d.58.7.1 86535 1qj2C 285 3.62e+01 1qj2C 1kqfC 217 3.65e+01 f.21.1.1 72874 1wsrA 375 3.66e+01 1ojxA 263 3.70e+01 c.1.10.1 93164 1yoyA 175 3.70e+01 1pv5A 264 3.73e+01 d.251.1.1 95150 1kv7A 488 3.74e+01 b.6.1.3,b.6.1.3,b.6.1.3 68873,68874,68875 1kcqA 104 3.78e+01 d.109.1.1 68449 1nif 340 3.82e+01 1nif b.6.1.3,b.6.1.3 23048,23049 1yhtA 367 3.83e+01 2bwqA 129 3.85e+01 1t0gA 109 3.89e+01 d.120.1.2 99063 1w8sA 263 3.90e+01 1kcbA 340 3.92e+01 b.6.1.3,b.6.1.3 90951,90952 2b1xA 470 3.93e+01 1pne 140 3.94e+01 1pne d.110.1.1 40866 1v5tA 90 3.96e+01 d.15.1.1 108385 1op3H 225 3.97e+01 b.1.1.1,b.1.1.2 87208,87209 1iyeA 309 4.01e+01 e.17.1.1 83786 1o0wA 252 4.05e+01 a.149.1.1,d.50.1.1 80751,80752 1bia 321 4.07e+01 1bia a.4.5.1,b.34.1.1,d.104.1.2 16083,24447,40787 1qfmA 710 4.08e+01 1qfmA b.69.7.1,c.69.1.4 27673,34641 1u2xA 474 4.08e+01 c.72.1.3 107622 1zxtA 76 4.09e+01 1zbqA 327 4.11e+01 1gy7A 125 4.14e+01 d.17.4.2 70738 1yavA 159 4.15e+01 1u79A 129 4.17e+01 d.26.1.1 107714 1hbq 183 4.18e+01 1aqb b.60.1.1 27078 1pkoA 139 4.18e+01 b.1.1.1 88147 1hkyA 86 4.18e+01 g.10.1.3 76714 1vcdA 126 4.18e+01 1vqwA 457 4.18e+01 1udzA 182 4.21e+01 b.51.1.1 99239 1yifA 533 4.21e+01 2akrA 285 4.22e+01 1umzA 278 4.23e+01 b.29.1.2 99639 2f4qA 346 4.28e+01 1mfgA 95 4.30e+01 b.36.1.1 79043 1qwzA 235 4.30e+01 b.100.1.1 96510 1p42A 270 4.33e+01 d.14.1.7,d.14.1.7 87754,87755 1cm9A 74 4.34e+01 1b3aA d.9.1.1 37405 1z64A 26 4.41e+01 1xttA 216 4.43e+01 1cf1A 404 4.52e+01 1cf1A b.1.18.11,b.1.18.11 21907,21908 2bw4A 340 4.53e+01 1dwkA 156 4.57e+01 1dw9A a.35.1.4,d.72.1.1 17075,39606 1wk8A 194 4.66e+01 1krhA 338 4.67e+01 b.43.4.2,c.25.1.2,d.15.4.2 72891,72892,72893 1ydxA 406 4.68e+01 1cv8 174 4.80e+01 1cv8 d.3.1.1 37089 2bs9A 503 4.82e+01 1dg6A 191 4.85e+01 1d4vB b.22.1.1 23883 4ubpA 101 5.04e+01 1ubpA d.8.1.1 37352 1whzA 70 5.07e+01 1jj2R 84 5.10e+01 1ffkP d.12.1.1 63103 1vqoS 85 5.13e+01 1s72S 85 5.16e+01 d.12.1.1 105338 2bfgA 503 5.21e+01 1f35A 162 5.23e+01 1f35A b.94.1.1 59628 1qipA 183 5.25e+01 1qipA d.32.1.1 38470 2fp7A 54 5.28e+01 1k3bA 119 5.28e+01 b.61.5.1 72016 1oruA 195 5.32e+01 b.58.1.2 93464 1uscA 178 5.40e+01 b.45.1.2 99860 1ek4A 418 5.46e+01 1dd8A c.95.1.1,c.95.1.1 59436,59437 1xf1A 926 5.50e+01 2bklA 695 5.50e+01 1h8eH 146 5.51e+01 1e79H b.93.1.1 60757 2ai4A 119 5.54e+01 1r4pB 70 5.59e+01 b.40.2.1 97026 1hpi 71 5.64e+01 1ckuA g.35.1.1 44995 1qexA 288 5.64e+01 1qexA b.32.1.1 24425 1se8A 301 5.66e+01 b.40.4.3 105448 2bywA 418 5.67e+01 1xovA 326 5.73e+01 1yr1A 119 5.73e+01 1wr7A 41 5.78e+01 1n08A 163 5.78e+01 b.43.5.1 79730 1agqA 135 5.81e+01 1agqA g.17.1.2 44789 1mc2A 122 5.85e+01 a.133.1.2 74622 1k2xB 143 5.88e+01 1wggA 96 5.90e+01 1o54A 277 5.97e+01 c.66.1.13 92482 2c43A 323 6.09e+01 1yozA 116 6.19e+01 1eguA 731 6.24e+01 1eguA a.102.3.2,b.24.1.1,b.30.5.2 18850,23899,24423 1hg8A 349 6.28e+01 b.80.1.3 65830 1pqxA 91 6.36e+01 d.267.1.1 104296 1yx1A 264 6.39e+01 2fl4A 149 6.39e+01 1jj2T 66 6.40e+01 1ffkR g.39.1.6 63105 1s72U 66 6.40e+01 g.39.1.6 105340 2fbyA 205 6.49e+01 1bywA 110 6.50e+01 1bywA d.110.3.6 40912 1xm0A 147 6.61e+01 1ikpA 613 6.66e+01 b.29.1.7,d.166.1.1,f.1.5.1 66182,66183,66184 1abrB 267 6.68e+01 1abrB b.42.2.1,b.42.2.1 25563,25564 2bgcA 238 6.71e+01 1qi9A 556 6.74e+01 1qhbA a.111.1.2 19053 1q6uA 245 6.75e+01 d.26.1.1 95998 1o4tA 133 6.76e+01 b.82.1.9 86622 2bmoA 447 6.77e+01 1bm8 99 6.78e+01 1bm8 d.34.1.1 38528 1l7lA 121 6.81e+01 b.18.1.16 77790 1xksA 450 6.84e+01 2bmoB 194 6.85e+01 1g4mA 393 6.86e+01 b.1.18.11,b.1.18.11 65143,65144 1g4iA 123 6.93e+01 1poa a.133.1.2 60241 1o12A 376 6.97e+01 b.92.1.5,c.1.9.10 80758,80759 1yqtA 538 7.03e+01 1sfnA 246 7.07e+01 b.82.1.11 105496 2gd9A 189 7.08e+01 1rds 105 7.08e+01 9rnt d.1.1.4 36236 1vj0A 380 7.10e+01 b.35.1.2,c.2.1.1 100786,100787 1dkgA 197 7.12e+01 1dkgA b.73.1.1,h.1.9.1 27812,45626 1ezm 301 7.18e+01 1hyt d.92.1.2 58980 2f5yA 91 7.23e+01 1ugmA 125 7.28e+01 d.15.1.3 107827 2dg5B 190 7.30e+01 1l3pA 102 7.30e+01 a.24.17.1 84520 1kt6A 183 7.33e+01 b.60.1.1 84466 1wnyA 186 7.36e+01 1mbyA 88 7.36e+01 d.223.1.1 78931 1vp6A 138 7.40e+01 2bydA 323 7.42e+01 1qwrA 319 7.44e+01 b.82.1.3 96491 1bqyA 234 7.49e+01 5ptp b.47.1.2 26332 2b4gA 317 7.50e+01 1jb0A 755 7.50e+01 1jb0A f.29.1.1 62820 1ahsA 126 7.54e+01 1ahsA b.19.1.1 23794 1lw6I 64 7.56e+01 d.40.1.1 74294 1nziA 159 7.60e+01 b.23.1.1,g.3.11.1 86449,86450 1hx0A 496 7.64e+01 b.71.1.1,c.1.8.1 61346,61347 1ojaA 520 7.65e+01 c.3.1.2,d.16.1.5 93096,93097 2gi3A 476 7.67e+01 1u9yA 284 7.72e+01 2sicI 107 7.72e+01 3ssi d.84.1.1 40031 1sluA 142 7.75e+01 1sluA b.16.1.1 23685 1v33A 366 7.75e+01 d.264.1.1 100278 2adgA 214 7.77e+01 1s3eA 520 7.78e+01 c.3.1.2,d.16.1.5 98426,98427 1g4wR 383 7.78e+01 1g4uS a.24.11.1,c.45.1.2 16644,32692 1zzcA 198 7.80e+01 1eaiC 61 7.80e+01 1eaiC g.22.1.1 44894 2ad9A 119 7.88e+01 2evbA 74 7.96e+01 1a3aA 148 8.01e+01 1a3aA d.112.1.1 40917 1tuaA 191 8.04e+01 d.51.1.1,d.51.1.1 107321,107322 1be9A 119 8.10e+01 1pdr b.36.1.1 24774 2cw9A 194 8.11e+01 1w61A 414 8.11e+01 1i8aA 189 8.12e+01 1i82A b.1.9.2 61951 1d4fA 431 8.17e+01 1b3rA c.2.1.4,c.23.12.3 30110,31370 1tcvA 287 8.17e+01 1vqoA 240 8.18e+01 1wdjA 187 8.21e+01 2c5qA 240 8.25e+01 1gtdA 85 8.30e+01 d.284.1.1 76344 1a8y 367 8.32e+01 1a8y c.47.1.3,c.47.1.3,c.47.1.3 32781,32782,32783 1cot 129 8.33e+01 1ycc a.3.1.1 15899 1earA 147 8.34e+01 b.107.1.1,d.58.38.1 64875,64876 1ji6A 589 8.35e+01 b.18.1.3,b.77.2.1,f.1.3.1 63066,63067,63068 1ruwA 69 8.36e+01 1s9aA 257 8.44e+01 b.3.6.1 105379 2freA 200 8.57e+01 1ynbA 173 8.59e+01 1w66A 232 8.59e+01 1tcrA 202 8.61e+01 1tcrA b.1.1.1,b.1.1.2 20605,21549 1rf6A 427 8.64e+01 d.68.2.2 97366 1avaC 181 8.68e+01 1avaC b.42.4.1 25604 1wtyA 119 8.69e+01 1q8rA 120 8.84e+01 d.79.6.1 96225 1gcqC 70 8.89e+01 1gcpA b.34.2.1 60436 2bh4X 134 8.92e+01 1pguA 615 8.93e+01 b.69.4.1,b.69.4.1 88069,88070 1ic6A 279 8.96e+01 1gci c.41.1.1 62257