# List of top-scoring protein chains for t2k-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 1esfA 233 2.68e-01 3seb b.40.2.2,d.15.6.1 25146,37735 1dyqA 234 4.36e-01 3seb b.40.2.2,d.15.6.1 59140,59141 1hyuA 521 4.55e-01 1hyuA c.3.1.5,c.3.1.5,c.47.1.2,c.47.1.2 30547,30548,32779,32780 1zynA 202 5.55e-01 1igs 248 1.31e+00 1a53 c.1.2.4 28565 1a53 247 1.37e+00 1a53 c.1.2.4 28564 1juk 248 1.67e+00 1a53 c.1.2.4 28567 1ockA 412 1.86e+00 c.117.1.1 86802 2rslA 140 2.62e+00 2rslA c.53.1.1 33345 1rwiA 270 2.66e+00 b.68.9.1 97987 2fvtA 135 3.11e+00 1ghtA 105 3.17e+00 2rslA c.53.1.1 60526 2c3zA 222 3.37e+00 1c7nA 399 3.92e+00 1d2fA c.67.1.3 34413 1souA 194 3.99e+00 c.124.1.6 105858 1iz5A 249 4.94e+00 d.131.1.2,d.131.1.2 83834,83835 1gdtA 183 5.16e+00 2rslA a.4.1.2,c.53.1.1 16021,33348 1agnA 373 6.36e+00 2ohxA b.35.1.2,c.2.1.1 24737,29753 1my6A 199 7.23e+00 a.2.11.1,d.44.1.1 85232,85233 1xn5A 146 7.34e+00 1vfsA 386 7.40e+00 b.49.2.2,c.1.6.1 108584,108585 2axwA 134 7.71e+00 1qhlA 227 7.74e+00 1qhlA c.37.1.12 32382 2a2pA 129 8.18e+00 2d1uA 104 8.20e+00 1ge8A 249 9.09e+00 1plq d.131.1.2,d.131.1.2 41398,41399 1m93A 55 1.18e+01 e.1.1.1 91235 1fl2A 310 1.24e+01 1hyuA c.3.1.5,c.3.1.5 59869,59870 1g8lA 411 1.26e+01 1g8lA b.85.6.1,b.103.1.1,c.57.1.2 60365,60366,60367 2cxcA 144 1.29e+01 1ej0A 180 1.43e+01 1ej0A c.66.1.2 34179 1ma3A 253 1.44e+01 c.31.1.5 78883 1h2cA 140 1.64e+01 b.31.1.1 83462 1j5vA 351 1.68e+01 c.72.1.1 71585 2f4mA 295 1.69e+01 1q59A 172 1.89e+01 f.1.4.1 95881 1c0dA 358 1.91e+01 1eceA c.1.8.3 28815 1eceA 358 1.94e+01 1eceA c.1.8.3 28813 1yiyA 429 2.17e+01 1ddf 127 2.22e+01 1ddf a.77.1.2 18423 1ryjA 70 2.30e+01 d.15.3.2 98104 1flcA 432 2.30e+01 1flcA b.19.1.3,c.23.10.2 23837,31337 1vr0A 247 2.32e+01 1xedA 117 2.40e+01 1o58A 303 2.40e+01 c.79.1.1 92491 1smlA 269 2.43e+01 1smlA d.157.1.1 42053 2aioA 269 2.43e+01 1wcdJ 441 2.47e+01 1thg 544 2.53e+01 1thg c.69.1.17 34763 2axpA 173 2.55e+01 1oa2A 218 2.57e+01 b.29.1.11 86721 1a0rP 245 2.66e+01 1b9yC c.47.1.6 33054 1b25A 619 2.70e+01 1b25A a.110.1.1,d.152.1.1 19044,41796 2b33A 140 2.74e+01 1cq3A 233 2.82e+01 1cq3A b.27.1.1 23923 1ri5A 298 2.92e+01 c.66.1.34 97502 1yizA 429 3.01e+01 2fh7A 595 3.07e+01 1t0aA 159 3.14e+01 1es6A 296 3.17e+01 1es6A b.31.1.1,b.31.1.1 83048,83049 1tr9A 341 3.19e+01 1mixA 206 3.20e+01 a.11.2.1,b.55.1.5 79166,79167 1rwzA 245 3.20e+01 d.131.1.2,d.131.1.2 98005,98006 1mm4A 170 3.21e+01 f.4.1.2 79294 1t9bA 677 3.21e+01 1wmhB 86 3.40e+01 1qi9A 556 3.44e+01 1qhbA a.111.1.2 19053 2bg5A 324 3.48e+01 1h8vA 218 3.60e+01 2nlrA b.29.1.11 60795 1bxlA 181 3.67e+01 1maz f.1.4.1 43396 1p9rA 418 3.76e+01 c.37.1.11 94399 2b7eA 59 3.78e+01 1hfbA 370 3.78e+01 c.1.10.4 76706 2awpA 198 3.80e+01 1ay2 159 3.85e+01 2pil d.24.1.1 38377 1p8kZ 254 3.89e+01 d.95.2.1,d.95.2.1 94361,94362 2culA 232 4.01e+01 1bc9 200 4.22e+01 1pbv a.118.3.1 19180 2pil 159 4.23e+01 2pil d.24.1.1 38376 1of8A 370 4.23e+01 c.1.10.4 92819 1ydmA 187 4.31e+01 1tzaA 134 4.34e+01 b.1.23.1 107468 2tpt 440 4.41e+01 1brwA a.46.2.1,c.27.1.1,d.41.3.1 17759,31623,38621 2brcA 214 4.42e+01 1mg2B 131 4.44e+01 g.21.1.1 79060 1fg7A 356 4.44e+01 1gewA c.67.1.1 59819 1vc4A 254 4.47e+01 c.1.2.4 100557 1sqsA 242 4.50e+01 c.23.5.5 98968 1wrjA 156 4.58e+01 2bbkL 125 4.59e+01 2bbkL g.21.1.1 44882 2fj6A 82 4.65e+01 1am1 213 4.69e+01 1yer d.122.1.1 41095 1amw 214 4.72e+01 1yer d.122.1.1 41093 1gewA 356 4.76e+01 1gewA c.67.1.1 60470 1ah6 220 4.81e+01 1yer d.122.1.1 41094 1o6dA 163 4.91e+01 c.116.1.3 92567 1exg 110 4.92e+01 1exg b.2.2.1 22387 1t64A 377 5.01e+01 c.42.1.2 106543 1se4 239 5.18e+01 3seb b.40.2.2,d.15.6.1 25187,37776 1vqzA 341 5.21e+01 1lnqA 336 5.24e+01 c.2.1.9,f.14.1.1 74049,74050 2fclA 169 5.28e+01 2ewrA 170 5.28e+01 1xewY 172 5.35e+01 1zpvA 91 5.40e+01 2myr 501 5.47e+01 2g9iA 249 5.57e+01 1v0lA 313 5.64e+01 c.1.8.3 108207 1nxiA 132 5.73e+01 d.58.47.1 86381 1tlk 154 5.76e+01 1tlk b.1.1.4 21707 1njhA 119 5.77e+01 b.128.1.1 85787 1fhgA 154 5.83e+01 1tlk b.1.1.4 21706 1vddA 228 5.84e+01 e.49.1.1 108519 1e0wA 313 5.92e+01 1taxA c.1.8.3 59150 1e9rA 437 5.96e+01 c.37.1.11 64827 1sek 378 5.96e+01 1sek e.1.1.1 42675 1s4iA 175 5.99e+01 1r77A 103 6.03e+01 1a4h 230 6.07e+01 1yer d.122.1.1 41099 1od8A 313 6.11e+01 c.1.8.3 86838 3seb 238 6.12e+01 3seb b.40.2.2,d.15.6.1 25184,37773 2breA 219 6.14e+01 1u2xA 474 6.15e+01 c.72.1.3 107622 1o57A 291 6.24e+01 a.4.5.40,c.61.1.1 92483,92484 1bc4 111 6.27e+01 1onc d.5.1.1 37279 2aefA 234 6.46e+01 1a7hA 86 6.67e+01 1amm b.11.1.1 23600 1e6qM 501 6.84e+01 1e70M c.1.8.4 28920 1heuA 374 6.84e+01 2ohxA b.35.1.2,c.2.1.1 60979,60980 1hetA 374 6.85e+01 2ohxA b.35.1.2,c.2.1.1 60975,60976 1vphA 149 6.86e+01 1o0pA 104 6.89e+01 d.58.7.1 86535 1e70M 501 6.89e+01 1e70M c.1.8.4 28926 1ee2A 373 6.95e+01 2ohxA b.35.1.2,c.2.1.1 24663,29679 1fht 116 6.99e+01 1urnA d.58.7.1 39157 1e4mM 501 7.03e+01 1e70M c.1.8.4 59226 1woqA 267 7.09e+01 c.55.1.10,c.55.1.10 109462,109463 1regX 122 7.11e+01 1regX d.58.27.1 39406 1nijA 318 7.16e+01 c.37.1.10,d.237.1.1 85741,85742 1c7qA 445 7.26e+01 2pgi c.80.1.2 35307 1aogA 485 7.31e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30517,30518,40190 1tluA 130 7.34e+01 d.156.1.2 107139 1xttA 216 7.34e+01 1n8kA 374 7.36e+01 b.35.1.2,c.2.1.1 80298,80299 1sr4B 261 7.54e+01 d.151.1.1 105949 1a71A 374 7.54e+01 2ohxA b.35.1.2,c.2.1.1 24673,29689 1tq5A 242 7.60e+01 1hqz1 141 7.67e+01 1fwkA 296 7.70e+01 1fwkA d.14.1.5,d.58.26.1 37576,39398 1axgA 374 7.75e+01 2ohxA b.35.1.2,c.2.1.1 24691,29707 2ohxA 374 7.83e+01 2ohxA b.35.1.2,c.2.1.1 24669,29685 1xyfA 436 7.89e+01 1taxA b.42.2.1,c.1.8.3 25577,28909 1axeA 374 7.95e+01 2ohxA b.35.1.2,c.2.1.1 24681,29697 1bia 321 7.98e+01 1bia a.4.5.1,b.34.1.1,d.104.1.2 16083,24447,40787 1d5mC 239 7.98e+01 3seb b.40.2.2,d.15.6.1 25185,37774 2bwfA 77 8.05e+01 1bvb 211 8.09e+01 1bvb a.138.1.3 19683 1bib 321 8.09e+01 1bia a.4.5.1,b.34.1.1,d.104.1.2 16084,24448,40788 2bby 69 8.18e+01 2bby a.4.5.15 16148 8prkB 287 8.21e+01 1wgjA b.40.5.1 25396 1vckA 115 8.25e+01 1n91A 108 8.27e+01 d.206.1.1 80326 1pp0A 199 8.30e+01 d.103.1.1 104211 1e9gA 286 8.32e+01 1wgjA b.40.5.1 59393 8prkA 287 8.33e+01 1wgjA b.40.5.1 25395 2ifeA 100 8.36e+01 1tig d.68.1.1 39567 117eA 286 8.40e+01 1wgjA b.40.5.1 25401 1pbgA 468 8.43e+01 1e70M c.1.8.4 28946 1b5tA 275 8.44e+01 1b5tA c.1.23.1 29676 1nteA 82 8.47e+01 b.36.1.1 86163 1r6jA 82 8.47e+01 b.36.1.1 97151 1u3wA 374 8.50e+01 1ghr 306 8.57e+01 1aq0A c.1.8.3 28844 1pqxA 91 8.58e+01 d.267.1.1 104296 1bby 69 8.74e+01 2bby a.4.5.15 16149 1m07A 111 8.79e+01 d.5.1.1 78328 1g0sA 209 8.84e+01 1g0sA d.113.1.1 60187 1v30A 124 8.96e+01