# List of top-scoring protein chains for t2k-100-30-str2 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 1jx7A 117 4.31e-02 c.114.1.1 77195 1l1sA 113 2.35e-01 c.114.1.1 73484 1ndk 155 3.81e-01 1npk d.58.6.1 39118 1gc0A 398 4.15e-01 c.67.1.3 70168 1m32A 366 4.98e-01 c.67.1.3 78508 2cbf 234 5.22e-01 1cbf c.90.1.1 35588 1f3fA 155 6.09e-01 1npk d.58.6.1 39101 1npk 154 6.81e-01 1npk d.58.6.1 39099 1ghtA 105 7.05e-01 2rslA c.53.1.1 60526 1gdtA 183 7.50e-01 2rslA a.4.1.2 16021 c.53.1.1 33348 1im5A 180 1.12e+00 c.33.1.2 66211 1cozA 129 1.14e+00 1cozA c.26.1.2 31598 1iweA 457 1.72e+00 c.37.1.10 71486 1bcpB 199 1.96e+00 1bcpB b.40.2.1 25120 d.169.1.2 42429 2frvA 264 2.23e+00 2frvA e.19.1.1 43303 1jjgA 102 2.35e+00 b.40.4.5 71696 2dhqA 146 2.60e+00 2dhqA c.23.13.1 31382 1cfyA 143 2.82e+00 1cof d.109.1.2 40858 1jxhA 288 3.16e+00 c.72.1.2 67415 1cl1A 395 3.31e+00 1cl2A c.67.1.3 34395 1qjcA 158 3.48e+00 1b6tA c.26.1.3 63328 1cof 143 3.51e+00 1cof d.109.1.2 40860 1ne8A 117 3.81e+00 b.34.6.2 80424 1rypG 244 4.09e+00 d.153.1.4 41938 1cl2A 395 4.38e+00 1cl2A c.67.1.3 34397 1jnyA 435 4.59e+00 b.43.3.1 66982 b.44.1.1 66983 c.37.1.8 66984 1s29A 92 4.59e+00 1jb9A 316 5.29e+00 1fnc b.43.4.2 62840 c.25.1.1 62841 1booA 323 5.36e+00 1booA c.66.1.11 34248 1k7jA 206 5.61e+00 d.115.1.1 72103 1l1qA 186 6.04e+00 c.61.1.1 77653 1deoA 233 6.11e+00 1deoA c.23.10.4 31345 1c7nA 399 6.26e+00 1d2fA c.67.1.3 34413 1ass 159 6.30e+00 1a6dA c.8.5.2 30818 1k7cA 233 6.34e+00 c.23.10.4 68267 1f60A 458 6.35e+00 1efcA b.43.3.1 25705 b.44.1.1 25745 c.37.1.8 32140 1d7yA 408 7.07e+00 1d7yA c.3.1.5 30565 c.3.1.5 30566 d.87.1.1 40204 1qpbA 563 7.43e+00 1zpdA c.31.1.3 31739 c.36.1.5 31781 c.36.1.9 31782 1gqoI 143 7.54e+00 c.23.13.1 76303 1gqoP 143 7.56e+00 c.23.13.1 76310 1ponB 36 7.83e+00 1ponB 1gqoO 143 7.83e+00 c.23.13.1 76309 1gqoY 143 7.83e+00 c.23.13.1 76318 1rpmA 278 7.95e+00 2shpA c.45.1.2 32679 1q5qA 259 7.97e+00 2sniI 83 7.99e+00 2sniI d.40.1.1 38573 1vkfA 188 8.20e+00 1kk9A 221 8.21e+00 d.115.1.1 77432 1gqoJ 143 8.22e+00 c.23.13.1 76304 1gqoT 143 8.25e+00 c.23.13.1 76314 1gqoX 143 8.28e+00 c.23.13.1 76317 1gqoD 143 8.29e+00 c.23.13.1 76298 1gqoB 143 8.29e+00 c.23.13.1 76296 1gqoF 143 8.31e+00 c.23.13.1 76300 1gqoR 143 8.32e+00 c.23.13.1 76312 1gqoC 143 8.35e+00 c.23.13.1 76297 1gqoH 143 8.35e+00 c.23.13.1 76302 1gqoU 143 8.38e+00 c.23.13.1 76315 1gqoG 143 8.56e+00 c.23.13.1 76301 1gqoE 143 8.61e+00 c.23.13.1 76299 1gqoS 143 8.62e+00 c.23.13.1 76313 1ffkL 115 8.62e+00 1ffkL c.12.1.1 30881 1gqoV 143 8.67e+00 c.23.13.1 76316 1epxA 370 8.68e+00 1fbaA c.1.10.1 29150 1gqoN 143 8.72e+00 c.23.13.1 76308 1gqoL 143 8.72e+00 c.23.13.1 76306 1m5q1 130 8.84e+00 1gqoM 143 8.93e+00 c.23.13.1 76307 1k07A 263 8.97e+00 d.157.1.1 77218 1fmtB 314 9.02e+00 1fmtA b.46.1.1 25759 c.65.1.1 34175 1gqoQ 143 9.02e+00 c.23.13.1 76311 1gqoK 143 9.16e+00 c.23.13.1 76305 1fmtA 314 9.29e+00 1fmtA b.46.1.1 25758 c.65.1.1 34174 1j2rA 199 9.33e+00 1pvyA 227 9.50e+00 1m7vA 363 9.72e+00 d.174.1.1 78748 1asx 159 9.92e+00 1a6dA c.8.5.2 30821 1dfoA 417 1.04e+01 1bj4A c.67.1.4 34480 1plr 258 1.07e+01 1plq d.131.1.2 41390 d.131.1.2 41391 1hm6A 346 1.09e+01 1avc a.65.1.1 18147 1b6tA 159 1.09e+01 1b6tA c.26.1.3 31600 1h05A 146 1.10e+01 c.23.13.1 76433 1rypC 244 1.11e+01 1rypC d.153.1.4 41934 1psrA 100 1.17e+01 1psrA a.39.1.2 17180 1g57A 217 1.20e+01 1g57A d.115.1.2 60253 1ge8A 249 1.24e+01 1plq d.131.1.2 41398 d.131.1.2 41399 1fdr 248 1.24e+01 1fdr b.43.4.2 25653 c.25.1.1 31543 1jj2N 115 1.24e+01 1ffkL c.12.1.1 63099 1p9bA 442 1.24e+01 1pydA 556 1.28e+01 1zpdA c.31.1.3 31735 c.36.1.5 31773 c.36.1.9 31774 1cbf 285 1.32e+01 1cbf c.90.1.1 35587 1pvdA 537 1.34e+01 1zpdA c.31.1.3 31737 c.36.1.5 31777 c.36.1.9 31778 1bcpC 199 1.38e+01 1bcpB b.40.2.1 25121 d.169.1.2 42430 1bib 321 1.40e+01 1bia a.4.5.1 16084 b.34.1.1 24448 d.104.1.2 40788 1dmr 823 1.41e+01 1dmr b.52.2.2 26904 c.81.1.1 35312 1iz5A 249 1.44e+01 d.131.1.2 83834 d.131.1.2 83835 1cnuA 137 1.51e+01 1cof d.109.1.2 40862 1bo1A 416 1.52e+01 1bo1A d.143.1.2 41591 1gqyA 475 1.56e+01 c.5.1.1 83305 c.59.1.1 83306 c.72.2.1 83307 1p3dA 475 1.58e+01 c.5.1.1 87728 c.59.1.1 87729 c.72.2.1 87730 1f3uA 118 1.59e+01 1f3uA b.65.1.1 27521 1b5pA 385 1.59e+01 1o4uA 285 1.60e+01 c.1.17.1 86624 d.41.2.1 86625 1php 394 1.63e+01 16pk c.86.1.1 35452 1k9uA 78 1.64e+01 a.39.1.10 84348 1nrkA 328 1.64e+01 1ej0A 180 1.65e+01 1ej0A c.66.1.2 34179 1cc1S 283 1.71e+01 2frvA e.19.1.1 43313 1bw0A 416 1.72e+01 1bw0A c.67.1.1 34385 1r6dA 337 1.73e+01 1ru4A 400 1.78e+01 1neu 124 1.79e+01 1neu b.1.1.1 19704 1sr9A 644 1.90e+01 1g6oA 330 1.91e+01 1g6oA c.37.1.11 32430 1bjwA 382 1.91e+01 1bjwA c.67.1.1 34349 1adeA 431 1.93e+01 1adeA c.37.1.10 32213 1g8fA 511 1.94e+01 1g8fA b.122.1.3 60348 c.26.1.5 60349 c.37.1.15 60350 1kq3A 376 1.96e+01 e.22.1.2 68790 1pls 113 1.99e+01 1pls b.55.1.1 26965 1o1xA 155 1.99e+01 c.121.1.1 86553 1sek 378 2.01e+01 1sek e.1.1.1 42675 1ro2A 216 2.02e+01 2trxA 108 2.04e+01 1thx c.47.1.1 32719 2viuA 328 2.07e+01 1hgeA b.19.1.2 23797 1p9rA 418 2.07e+01 1a8p 258 2.08e+01 1fdr b.43.4.2 25654 c.25.1.1 31544 1r8sA 164 2.08e+01 1uae 419 2.08e+01 1uae d.68.2.2 39574 1hgeA 328 2.09e+01 1hgeA b.19.1.2 23816 1c25 161 2.10e+01 1c25 c.46.1.1 32698 1pms 136 2.11e+01 1awe b.55.1.1 26966 1dhpA 292 2.14e+01 1dhpA c.1.10.1 29097 1isiA 265 2.17e+01 e.4.1.1 71394 1h10A 125 2.18e+01 b.55.1.1 83446 1qb0A 211 2.25e+01 1c25 c.46.1.1 32699 1oejA 193 2.27e+01 1larA 575 2.27e+01 1larA c.45.1.2 32693 c.45.1.2 32694 1fukA 165 2.27e+01 1fukA c.37.1.19 32409 1m56B 264 2.33e+01 b.6.1.2 74472 f.17.2.1 74473 1g4yR 148 2.35e+01 1cll a.39.1.5 60252 1ub3A 220 2.36e+01 c.1.10.1 88395 1dbhA 354 2.43e+01 1awe a.87.1.1 18514 b.55.1.1 26967 1pmaP 211 2.47e+01 1pmaP d.153.1.4 41863 1l3iA 192 2.51e+01 c.66.1.22 77676 1eeoA 321 2.52e+01 1pty c.45.1.2 32655 2fcbA 173 2.64e+01 2fcbA b.1.1.4 21781 b.1.1.4 21782 1fzcA 87 2.66e+01 1fzcA h.1.8.1 45590 1no5A 114 2.73e+01 1jv1A 505 2.75e+01 c.68.1.5 71892 1tin 69 2.75e+01 2sniI d.40.1.1 38580 3mag 307 2.76e+01 3mag c.66.1.25 34205 1fzgD 87 2.78e+01 1fzgD h.1.8.1 45605 1svy 114 2.79e+01 1svy d.109.1.1 40831 1qzgA 187 2.79e+01 1exrA 148 2.85e+01 1cll a.39.1.5 17299 1amuA 563 2.85e+01 1amuA e.23.1.1 43351 2hnp 321 2.86e+01 1pty c.45.1.2 32678 1ggzA 148 2.87e+01 a.39.1.5 70176 1vpt 348 2.90e+01 3mag c.66.1.25 34207 1ptvA 321 2.91e+01 1pty c.45.1.2 32665 1o5zA 442 3.00e+01 1eu1A 780 3.01e+01 1dmr b.52.2.2 26903 c.81.1.1 35311 1pjqA 457 3.02e+01 1m6yA 301 3.04e+01 a.60.13.1 78716 c.66.1.23 78717 1kl1A 419 3.05e+01 c.67.1.4 72663 1kkjA 419 3.06e+01 c.67.1.4 72647 1top 162 3.07e+01 1ncx a.39.1.5 17223 1xnb 185 3.13e+01 1axkA b.29.1.11 24308 1ncx 162 3.16e+01 1ncx a.39.1.5 17222 1i4nA 251 3.19e+01 c.1.2.4 71114 1k4iA 233 3.21e+01 d.115.1.2 72056 1uag 437 3.26e+01 4uagA c.5.1.1 30653 c.59.1.1 33954 c.72.2.1 34957 1l8rA 101 3.28e+01 a.6.1.4 73700 1o6dA 163 3.31e+01 1avsA 90 3.35e+01 1cll a.39.1.5 17226 1dts 221 3.37e+01 1byi c.37.1.10 32200 1a8y 367 3.39e+01 1a8y c.47.1.3 32781 c.47.1.3 32782 c.47.1.3 32783 1zac 90 3.39e+01 1ncx a.39.1.5 17236 1dbs 224 3.39e+01 1byi c.37.1.10 32209 1oruA 195 3.41e+01 1s9rA 410 3.44e+01 1lxyA 409 3.49e+01 1i2aA 219 3.50e+01 1v39 322 3.52e+01 3mag c.66.1.25 34206 1vp9 322 3.52e+01 3mag c.66.1.25 34210 1r6xA 395 3.56e+01 3ullA 132 3.59e+01 3ullA b.40.4.3 25282 1lw6I 64 3.60e+01 d.40.1.1 74294 1ej2A 181 3.61e+01 1f9aA c.26.1.3 59414 1bob 320 3.71e+01 1bob d.108.1.1 40816 1f9aA 168 3.72e+01 1f9aA c.26.1.3 31602 1ji0A 240 3.73e+01 c.37.1.12 71665 1ly1A 181 3.75e+01 c.37.1.1 74334 1wdcC 156 3.83e+01 1wdcC a.39.1.5 17317 1ubkS 267 3.83e+01 e.19.1.1 88423 1osa 148 3.84e+01 1cll a.39.1.5 17300 1byi 224 3.91e+01 1byi c.37.1.10 32199 1a6dA 545 3.95e+01 1a6dA a.129.1.2 19488 c.8.5.2 30819 d.56.1.2 38936 1dad 224 3.97e+01 1byi c.37.1.10 32204 1pty 321 3.97e+01 1pty c.45.1.2 32656 1exmA 405 4.00e+01 1efcA b.43.3.1 25696 b.44.1.1 25736 c.37.1.8 32131