# List of top-scoring protein chains for t2k-100-30-dssp-ehl2-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 1pft 50 4.50e-03 1pft g.41.3.1 45206 1ww8A 439 5.70e-01 1s72Z 73 6.44e-01 g.41.8.1 105345 2ct7A 86 7.30e-01 1vqoZ 83 8.90e-01 1ffkW 73 1.14e+00 1ffkW g.41.8.1 45315 1vk6A 269 2.21e+00 d.113.1.4,d.113.1.4 100851,100852 1odhA 174 2.92e+00 d.239.1.1 86850 1jj2Y 73 3.94e+00 1ffkW g.41.8.1 63110 2a8mA 420 4.55e+00 2aq4A 434 4.70e+00 1qvbA 481 4.88e+00 1qvbA c.1.8.4 28983 1wd2A 60 5.97e+00 g.44.1.1 109232 1vckA 115 6.08e+00 1x75A 132 7.45e+00 2a8jA 420 8.02e+00 1adn 92 8.02e+00 1adn g.48.1.1 45348 1yovA 537 8.14e+00 1dgfA 497 8.42e+00 1cf9A e.5.1.1 42782 1dghB 498 8.45e+00 1cf9A e.5.1.1 42791 1e4uA 78 9.87e+00 1e4uA g.44.1.1 59231 1rlyA 60 1.09e+01 g.41.3.1 104988 1jm7A 112 1.15e+01 g.44.1.1 66880 1zgwA 139 1.17e+01 1k81A 36 1.18e+01 g.59.1.1 72136 1jm1A 204 1.18e+01 b.33.1.1 71745 1dsvA 31 1.20e+01 1dsvA g.40.1.1 45174 1hvyA 288 1.24e+01 1bkpA d.117.1.1 41049 1wpkA 146 1.25e+01 1neeA 138 1.30e+01 d.241.1.1,g.59.1.1 91841,91842 1tr9A 341 1.44e+01 1qxfA 66 1.47e+01 g.41.8.4 96527 1plr 258 1.53e+01 1plq d.131.1.2,d.131.1.2 41390,41391 7catA 506 1.54e+01 1cf9A e.5.1.1 42781 2a9fA 398 1.70e+01 1dl6A 58 1.74e+01 1dl6A g.41.3.1 45207 1yk4A 52 1.76e+01 1ptq 50 1.76e+01 1ptq g.49.1.1 45349 1i5hW 50 1.88e+01 1i5hW b.72.1.1 61785 2a1rA 430 1.92e+01 1ogdA 131 1.92e+01 c.133.1.1 92893 1bor 56 1.96e+01 1bor g.44.1.1 45324 1c76A 136 1.97e+01 2sak d.15.5.1 37718 2a20A 62 2.02e+01 1mswD 883 2.15e+01 e.8.1.3 79427 4rxn 54 2.21e+01 1rb9 g.41.5.1 45226 5rxn 54 2.21e+01 1rb9 g.41.5.1 45225 1tz9A 367 2.24e+01 c.1.15.6 107466 1wrvA 308 2.29e+01 1fp0A 88 2.30e+01 1fp0A g.50.1.2 45361 1ypvA 313 2.46e+01 1n9dA 199 2.48e+01 a.26.1.1 85464 1ajw 145 2.52e+01 1rhoA b.1.18.8 21905 1bc8C 93 2.59e+01 1awcA a.4.5.21 16168 1f62A 51 2.66e+01 1f62A g.50.1.2 45360 1h38C 883 2.69e+01 e.8.1.3 76627 1qdlA 422 2.69e+01 1qdlA d.161.1.1 42088 1h38D 883 2.70e+01 e.8.1.3 76628 1h38B 883 2.70e+01 e.8.1.3 76626 1ee8A 266 2.77e+01 1ee8A a.156.1.2,b.113.1.1,g.39.1.8 75823,75824,75825 1exkA 79 2.79e+01 1exkA g.54.1.1 45384 1gnf 46 2.80e+01 1gatA g.39.1.1 45107 830cA 168 2.82e+01 1ck7A d.92.1.11 40400 1nx8A 273 3.05e+01 b.82.2.8 86374 1iro 54 3.09e+01 1rb9 g.41.5.1 45223 2tscA 264 3.09e+01 1bkpA d.117.1.1 40952 1xxoA 147 3.10e+01 1dl0A 37 3.18e+01 1dl0A g.3.6.2 44112 1ssn 136 3.20e+01 2sak d.15.5.1 37720 1w9aA 147 3.20e+01 1etc 110 3.24e+01 1awcA a.4.5.21 16162 1b2jA 54 3.28e+01 1rb9 g.41.5.1 45231 1rb9 53 3.33e+01 1rb9 g.41.5.1 45214 1d0qA 103 3.36e+01 1d0qA g.41.3.2 45208 1qyp 57 3.42e+01 1qyp g.41.3.1 45205 1i76A 163 3.43e+01 1hfc d.92.1.11 61877 1j6uA 469 3.44e+01 c.5.1.1,c.59.1.1,c.72.2.1 77094,77095,77096 1vd4A 62 3.44e+01 1bzsA 165 3.45e+01 1hfc d.92.1.11 40348 8rxnA 52 3.50e+01 1rb9 g.41.5.1 45215 1uby 367 3.53e+01 1uby a.128.1.1 19435 1sp1 29 3.58e+01 g.37.1.1 45051 1g25A 65 3.61e+01 1g25A g.44.1.1 45325 1far 52 3.65e+01 1far g.49.1.1 45351 1fps 348 3.66e+01 1uby a.128.1.1 19436 1theB 260 3.71e+01 1theB d.3.1.1 37057 1jgsA 138 3.72e+01 a.4.5.28 66683 1jfrA 262 3.72e+01 1jfrA c.69.1.16 34724 1m22A 503 3.75e+01 c.117.1.1 78464 1theA 260 3.78e+01 1theB d.3.1.1 37056 1q35A 320 3.80e+01 c.94.1.1 95661 1faq 52 3.90e+01 1far g.49.1.1 45352 2aq6A 147 3.92e+01 1dx8A 70 3.94e+01 1rb9 g.41.5.1 45243 1a85A 158 4.04e+01 1hfc d.92.1.11 40355 1rutX 188 4.04e+01 1ys4A 354 4.11e+01 1plq 258 4.13e+01 1plq d.131.1.2,d.131.1.2 41388,41389 1p9rA 418 4.14e+01 c.37.1.11 94399 1z4rA 168 4.19e+01 1l1oC 181 4.22e+01 b.40.4.3 73480 1fujA 221 4.22e+01 1a7s b.47.1.2 26349 1iq3A 110 4.23e+01 1iq3A a.39.1.6 62640 1ab4 477 4.30e+01 1ab4 e.11.1.1 43251 1ur6B 52 4.32e+01 g.44.1.1 99812 1e53A 59 4.33e+01 1e53A g.49.1.2 45356 1tbn 82 4.34e+01 1ptq g.49.1.1 45354 3eugA 229 4.49e+01 3eugA c.18.1.1 31018 1eugA 229 4.52e+01 3eugA c.18.1.1 31021 4eugA 229 4.52e+01 3eugA c.18.1.1 31019 2sak 121 4.58e+01 2sak d.15.5.1 37711 1flzA 228 4.61e+01 3eugA c.18.1.1 31027 1euiA 228 4.68e+01 3eugA c.18.1.1 31028 1rhoC 145 4.73e+01 1rhoA b.1.18.8 21901 1a67 108 4.79e+01 1cewI d.17.1.2 38000 1v87A 114 4.83e+01 g.44.1.1 108422 1a90 108 4.86e+01 1cewI d.17.1.2 38001 1utyA 187 4.88e+01 b.147.1.1 108036 1k3eA 156 4.94e+01 d.198.1.1 68103 1ywzA 175 4.96e+01 1gatA 60 4.96e+01 1gatA g.39.1.1 45106 1cxvA 164 5.06e+01 1ck7A d.92.1.11 40404 1kkeA 210 5.12e+01 b.21.1.2,b.83.1.2 68669,68670 1rdg 53 5.17e+01 1rb9 g.41.5.1 45221 1ty9A 222 5.21e+01 1r6lA 239 5.24e+01 d.14.1.4,d.101.1.1 97153,97154 2gatA 66 5.27e+01 1gatA g.39.1.1 45102 3gatA 66 5.27e+01 1gatA g.39.1.1 45103 1t0bA 252 5.29e+01 c.23.16.6 106199 1z92B 219 5.34e+01 1oahA 519 5.42e+01 a.138.1.3 86736 1wwcA 118 5.56e+01 1wwcA b.1.1.4 21778 1gvjA 146 5.57e+01 a.4.5.21 90525 2g8mA 264 5.73e+01 1yl35 60 5.74e+01 1aiqA 264 5.77e+01 1bkpA d.117.1.1 40967 1wxiA 275 5.77e+01 1qbjA 81 5.79e+01 1qbjA a.4.5.19 16155 1qqqA 264 5.80e+01 1bkpA d.117.1.1 40931 1mea 28 5.83e+01 g.41.1.1 45176 1zzpA 130 5.91e+01 1j6zA 376 5.96e+01 1yagA c.55.1.1,c.55.1.1 62667,62668 1vor2 58 6.02e+01 1wijA 140 6.13e+01 1rhoA 145 6.13e+01 1rhoA b.1.18.8 21899 1evfA 264 6.14e+01 1bkpA d.117.1.1 40932 1p5vA 235 6.37e+01 b.1.11.1,b.7.2.1 87812,87813 1jbjA 186 6.40e+01 b.1.1.4,b.1.1.4 66482,66483 1qz5A 375 6.44e+01 c.55.1.1,c.55.1.1 96614,96615 1m2kA 249 6.48e+01 c.31.1.5 84754 2b5iD 217 6.51e+01 1vq0A 302 6.55e+01 1l8dA 112 6.57e+01 h.4.12.1 73687 1k0mA 241 6.65e+01 a.45.1.1,c.47.1.5 67949,67950 1cokA 68 6.78e+01 1cokA a.60.1.2 17945 2bx9A 53 6.78e+01 1bq8A 54 6.93e+01 1rb9 g.41.5.1 45237 1bq9A 54 6.93e+01 1rb9 g.41.5.1 45238 1u79A 129 6.95e+01 d.26.1.1 107714 2acjA 66 7.01e+01 1q68B 29 7.06e+01 j.108.1.1 95963 1f4lA 551 7.06e+01 1qqtA a.27.1.1,c.26.1.1,g.41.1.1 59648,59649,59650 1jx4A 352 7.08e+01 d.240.1.1,e.8.1.7 90378,90379 1pfvA 551 7.12e+01 a.27.1.1,c.26.1.1,g.41.1.1 94660,94661,94662 1frvA 264 7.17e+01 2frvA e.19.1.1 43308 1kmtA 141 7.20e+01 b.1.18.8 77442 1gp1A 198 7.21e+01 1gp1A c.47.1.10 33059 1qqtA 551 7.22e+01 1qqtA a.27.1.1,c.26.1.1,g.41.1.1 16923,31590,45175 1brfA 53 7.24e+01 1rb9 g.41.5.1 45236 1fsoA 139 7.34e+01 1rhoA b.1.18.8 60007 1y9wA 140 7.34e+01 1yub 245 7.37e+01 2ercA c.66.1.24 34219 1mr1C 99 7.38e+01 d.217.1.2 79420 5gcnA 166 7.45e+01 1yghA d.108.1.1 40807 2g8yA 385 7.50e+01 1ojaA 520 7.53e+01 c.3.1.2,d.16.1.5 93096,93097 2cgpA 210 7.55e+01 2cgpA a.4.5.4,b.82.3.2 16102,28141 1s3eA 520 7.55e+01 c.3.1.2,d.16.1.5 98426,98427 1yagA 375 7.58e+01 1yagA c.55.1.1,c.55.1.1 33449,33450 1b13A 54 7.82e+01 1rb9 g.41.5.1 45227 1dpo 223 7.92e+01 5ptp b.47.1.2 25975 2a8lA 420 7.94e+01 2c1xA 456 8.00e+01 1g6nA 210 8.13e+01 2cgpA a.4.5.4,b.82.3.2 16100,28139 1mo2A 294 8.15e+01 c.69.1.22 79331 1zs7A 190 8.38e+01 2cx1A 187 8.42e+01 2bydA 323 8.43e+01 1a78A 134 8.44e+01 1c1lA b.29.1.3 24212 1u8bA 133 8.51e+01 1iciA 256 8.59e+01 1iciA c.31.1.5 62266 1c3hA 137 8.71e+01 b.22.1.1 90405 1qlnA 883 8.73e+01 1cezA e.8.1.3 43111 1yc5A 246 8.77e+01 1axwA 265 8.86e+01 1bkpA d.117.1.1 40938 2aegA 268 8.88e+01 6rxn 46 8.93e+01 1rb9 g.41.5.1 45222 1chc 68 8.97e+01 1chc g.44.1.1 45323