# List of top-scoring protein chains for t2k-100-30-alpha 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 1aayA 90 1.35e-01 1aayA g.37.1.1 45001 g.37.1.1 45002 g.37.1.1 45003 1zaaC 87 1.41e-01 1aayA g.37.1.1 45013 g.37.1.1 45014 g.37.1.1 45015 1a1iA 90 2.03e-01 1aayA g.37.1.1 44998 g.37.1.1 44999 g.37.1.1 45000 1tc5A 194 2.99e-01 c.110.1.1 106752 1g2fC 90 5.19e-01 k.12.1.1 60222 2aw4Z 70 7.47e-01 1xaoA 121 7.65e-01 1tqnA 486 8.43e-01 a.104.1.1 107238 2ashA 381 8.57e-01 1zmbA 290 1.40e+00 1prcC 336 1.57e+00 6prcC a.138.1.2 19674 1hn6A 110 1.67e+00 g.61.1.1 76721 1wthD 391 1.74e+00 1qlaB 239 1.85e+00 1qlaB a.1.2.1 15679 d.15.4.2 37707 1g8oA 310 2.11e+00 1g8oA c.68.1.9 60375 1dxrC 336 2.19e+00 6prcC a.138.1.2 19670 1wf9A 107 2.66e+00 1j1bA 420 2.75e+00 d.144.1.7 90758 1udh 244 2.81e+00 3eugA c.18.1.1 31015 1twdA 256 2.86e+00 c.1.30.1 107397 1mtnC 97 3.03e+00 5ptp 1llmC 88 3.03e+00 g.37.1.1 91059 g.37.1.1 91060 1q41A 424 3.08e+00 d.144.1.7 95774 1yc61 154 3.24e+00 1lzlA 323 3.46e+00 c.69.1.2 78306 1udg 244 3.66e+00 3eugA c.18.1.1 31016 4rxn 54 3.79e+00 1rb9 g.41.5.1 45226 1k28D 391 3.85e+00 b.106.1.1 68052 b.106.1.1 68053 1xxsA 122 3.94e+00 1jnrB 150 4.09e+00 d.58.1.5 66969 2bsdA 264 4.09e+00 1ia9A 280 4.31e+00 1ia9A d.144.1.5 62113 1uyjA 296 4.44e+00 f.8.1.2 108143 2b25A 336 4.64e+00 1plfA 72 4.83e+00 1tvxA d.9.1.1 37373 1gg6C 97 4.90e+00 5ptp 1agy 200 5.38e+00 1cex c.69.1.30 31286 2a9mL 110 5.41e+00 1k1gA 131 5.85e+00 d.51.1.1 68015 1g0hA 252 5.96e+00 1dk4A e.7.1.1 60171 1ois 223 5.97e+00 1a36A e.15.1.1 43267 1ffa 214 6.04e+00 1cex c.69.1.30 31289 1lldA 319 6.13e+00 3ldh c.2.1.5 30177 d.162.1.1 42144 2cszA 76 6.18e+00 1ab9C 97 6.32e+00 5ptp 1cex 214 6.35e+00 1cex c.69.1.30 31285 1vqvA 306 6.61e+00 1ujnA 348 6.68e+00 e.22.1.1 99460 1dk4A 252 6.95e+00 1dk4A e.7.1.1 42970 1zcjA 463 7.20e+00 1vr7A 142 7.66e+00 6prcC 336 7.94e+00 6prcC a.138.1.2 19671 1tfi 50 7.98e+00 1tfi g.41.3.1 45204 1cc1S 283 8.04e+00 2frvA e.19.1.1 43313 1yk3A 210 8.11e+00 1iq0A 592 8.16e+00 a.27.1.1 66257 c.26.1.1 66258 d.67.2.1 66259 1ny6A 267 8.19e+00 c.37.1.20 92321 1cus 200 8.43e+00 1cex c.69.1.30 31287 1qydA 313 8.81e+00 c.2.1.2 96583 1vggA 161 9.25e+00 1xauA 122 9.49e+00 1bn5 478 1.03e+01 1bn5 a.4.5.25 16224 d.127.1.1 41161 1mfn 185 1.03e+01 1qr4B b.1.2.1 21984 b.1.2.1 21985 2bl5A 140 1.05e+01 1i81A 83 1.11e+01 1d3bB b.38.1.1 61930 1iro 54 1.11e+01 1rb9 g.41.5.1 45223 1fonA 240 1.11e+01 5ptp b.47.1.2 26231 1ui0A 205 1.12e+01 c.18.1.2 99411 1de6A 426 1.14e+01 1de5A c.1.15.2 29398 1y4lA 121 1.16e+01 1tluA 130 1.16e+01 d.156.1.2 107139 1de5A 426 1.18e+01 1de5A c.1.15.2 29402 1k92A 455 1.20e+01 c.26.2.1 68325 d.210.1.1 68326 1yaiA 151 1.20e+01 1yaiA b.1.8.1 22289 1rlyA 60 1.21e+01 g.41.3.1 104988 2cgaA 245 1.26e+01 5ptp b.47.1.2 26028 1gtdA 85 1.32e+01 d.284.1.1 76344 1lwdA 413 1.37e+01 c.77.1.1 78265 1elt 236 1.39e+01 5ptp b.47.1.2 26281 1clc 639 1.40e+01 1clc a.102.1.2 18835 b.1.18.2 21872 1hzdA 272 1.41e+01 c.14.1.3 65969 1a0hA 159 1.43e+01 1a0hA b.47.1.2 26229 g.14.1.1 44655 1ddgA 374 1.46e+01 1amoA b.43.4.1 25671 c.25.1.4 31559 1tzpA 255 1.47e+01 d.65.1.3 107520 2a3nA 355 1.48e+01 1nbcA 155 1.49e+01 1nbcA b.2.2.2 22390 1ncg 110 1.49e+01 1edhA b.1.6.1 22193 1wgeA 83 1.49e+01 1ff9A 450 1.50e+01 1ff9A c.2.1.3 30039 d.81.1.2 39954 2cs3A 93 1.50e+01 1cuj 214 1.51e+01 1cex c.69.1.30 31294 1jpdX 324 1.51e+01 c.1.11.2 67014 d.54.1.1 67015 1kjvB 100 1.52e+01 b.1.1.2 77423 1b6a 478 1.52e+01 1bn5 a.4.5.25 16223 d.127.1.1 41160 1atlA 202 1.52e+01 1atlA d.92.1.9 40322 1k2i1 245 1.53e+01 1e1oA 504 1.54e+01 1lylA b.40.4.1 25258 d.104.1.1 40714 1mgqA 83 1.54e+01 b.38.1.1 79099 1dthA 203 1.57e+01 1atlA d.92.1.9 40324 1dl6A 58 1.57e+01 1dl6A g.41.3.1 45207 1m3sA 186 1.62e+01 c.80.1.3 78573 1eia 207 1.66e+01 1eia a.28.3.1 16951 a.73.1.1 18331 1s8iA 121 1.66e+01 a.133.1.2 98735 1kyhA 276 1.69e+01 c.72.1.4 73222 2f4lA 297 1.73e+01 1wq8A 110 1.73e+01 1p9hA 226 1.77e+01 b.81.3.1 94389 1oalA 151 1.78e+01 b.1.8.1 86739 1kmqA 184 1.80e+01 c.37.1.8 84412 1mnnA 340 1.80e+01 b.2.5.7 79324 1u3wA 374 2.00e+01 2a4hA 126 2.02e+01 2d27A 149 2.03e+01 1uxtA 501 2.03e+01 c.82.1.1 108125 1jndA 420 2.04e+01 c.1.8.5 71757 d.26.3.1 71758 1lylA 504 2.14e+01 1lylA b.40.4.1 25261 d.104.1.1 40717 1rzfL 213 2.23e+01 b.1.1.1 98152 b.1.1.2 98153 1nyoA 163 2.25e+01 b.118.1.1 92345 2eiaB 206 2.28e+01 1eia a.28.3.1 16950 a.73.1.1 18330 1iznA 286 2.29e+01 e.43.1.1 83847 1x8mA 288 2.33e+01 b.82.1.13 109516 2a9uA 144 2.33e+01 1iqyA 638 2.33e+01 b.30.2.1 76763 d.17.2.1 76764 d.17.2.1 76765 1qq8A 214 2.34e+01 1qq8A 1mc2A 122 2.34e+01 a.133.1.2 74622 1o7qA 289 2.39e+01 c.68.1.9 92626 3cyr 107 2.45e+01 3cyr a.138.1.1 19648 1zfuA 40 2.46e+01 1up9A 107 2.47e+01 1n45A 233 2.47e+01 a.132.1.1 79981 1avk 638 2.51e+01 1a2vA b.30.2.1 24410 d.17.2.1 38047 d.17.2.1 38048 1mn4A 282 2.55e+01 b.2.5.7 79313 1t3nA 388 2.56e+01 d.240.1.1 106363 e.8.1.7 106364 1erp 38 2.72e+01 2erl a.10.1.1 16363 1siiA 646 2.73e+01 b.30.2.1 105578 d.17.2.1 105579 d.17.2.1 105580 1ui8A 638 2.80e+01 b.30.2.1 99419 d.17.2.1 99420 d.17.2.1 99421 1ui7A 638 2.84e+01 b.30.2.1 99413 d.17.2.1 99414 d.17.2.1 99415 1f20A 435 3.00e+01 b.43.4.1 64932 c.25.1.4 64933 1nciA 110 3.02e+01 1edhA b.1.6.1 22191 1zroA 602 3.10e+01 1w6gA 646 3.14e+01 1y7qA 98 3.18e+01 1yc5A 246 3.20e+01 1jtaA 361 3.22e+01 b.80.1.1 71859 1zetA 388 3.24e+01 1m6uA 272 3.28e+01 b.2.5.7 78706 1h70A 255 3.29e+01 1h70A d.126.1.3 60711 2b9hA 353 3.29e+01 1ivwA 638 3.29e+01 b.30.2.1 71456 d.17.2.1 71457 d.17.2.1 71458 1tllA 688 3.33e+01 b.43.4.1 107128 c.23.5.2 107129 c.25.1.4 107130 1ppa 121 3.38e+01 1poa a.133.1.2 19550 1rjoA 646 3.38e+01 1xipA 388 3.40e+01 1cghA 224 3.49e+01 1a7s b.47.1.2 26290 1ff4A 65 3.51e+01 g.7.1.1 83251 1v0eA 666 3.52e+01 1gnhA 206 3.68e+01 1sacA b.29.1.5 24252 1u6rA 380 3.68e+01 1vm9A 111 3.69e+01 b.33.1.1 108886 1qw2A 102 3.71e+01 d.249.1.1 96456 1xjzA 233 3.75e+01 1b6rA 355 3.81e+01 1b6rA b.84.2.1 28241 c.30.1.1 31648 d.142.1.2 41493 3pbgA 468 3.82e+01 1e70M c.1.8.4 28951 1bu8A 452 3.83e+01 1gpl b.12.1.2 23647 c.69.1.19 34795 1b5fB 87 3.83e+01 1b5fB 1pe9A 361 3.87e+01 b.80.1.1 94595 1tx4B 178 3.88e+01 1ctqA c.37.1.8 32045 1w36C 1122 3.94e+01 1owfB 94 3.95e+01 a.55.1.1 87488 1h9hE 223 3.96e+01 b.47.1.2 103810