# 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 3.49e-01 3seb b.40.2.2,d.15.6.1 25146,37735 1dyqA 234 6.04e-01 3seb b.40.2.2,d.15.6.1 59140,59141 2rslA 140 1.02e+00 2rslA c.53.1.1 33345 1hyuA 521 1.04e+00 1hyuA c.3.1.5,c.3.1.5,c.47.1.2,c.47.1.2 30547,30548,32779,32780 1zynA 202 1.08e+00 1gdtA 183 1.55e+00 2rslA a.4.1.2,c.53.1.1 16021,33348 1ghtA 105 2.14e+00 2rslA c.53.1.1 60526 2fclA 169 2.20e+00 2ewrA 170 2.20e+00 1iz5A 249 2.71e+00 d.131.1.2,d.131.1.2 83834,83835 1sqsA 242 4.64e+00 c.23.5.5 98968 1xn5A 146 5.68e+00 1agnA 373 5.78e+00 2ohxA b.35.1.2,c.2.1.1 24737,29753 1ge8A 249 6.13e+00 1plq d.131.1.2,d.131.1.2 41398,41399 1j5vA 351 6.37e+00 c.72.1.1 71585 1hqz1 141 8.20e+00 1a0rP 245 9.02e+00 1b9yC c.47.1.6 33054 1repC 251 9.88e+00 1repC a.4.5.10,a.4.5.10 16125,16126 2afbA 351 1.01e+01 1ydmA 187 1.01e+01 1hqz9 141 1.01e+01 1o58A 303 1.03e+01 c.79.1.1 92491 1qhlA 227 1.08e+01 1qhlA c.37.1.12 32382 1d2oA 187 1.24e+01 1d2oA b.3.5.1,b.3.5.1 22625,22626 1ockA 412 1.25e+01 c.117.1.1 86802 1sr4B 261 1.31e+01 d.151.1.1 105949 1p8kZ 254 1.43e+01 d.95.2.1,d.95.2.1 94361,94362 5gcnA 166 1.46e+01 1yghA d.108.1.1 40807 1d2pA 373 1.53e+01 1d2oA b.3.5.1,b.3.5.1,b.3.5.1,b.3.5.1 22629,22630,22631,22632 1wspA 84 1.53e+01 2bg5A 324 1.64e+01 1m93A 55 1.66e+01 e.1.1.1 91235 1vddA 228 1.83e+01 e.49.1.1 108519 1qlmA 316 1.86e+01 1qlmA d.147.1.1 41765 1tf1A 198 1.91e+01 d.110.2.2 106826 1rom 403 1.93e+01 1rom a.104.1.1 18963 1cmnA 402 1.93e+01 1rom a.104.1.1 18958 1jfbA 404 1.94e+01 a.104.1.1 66624 1f24A 402 1.95e+01 1rom a.104.1.1 18953 1xewY 172 2.10e+01 1fieA 731 2.22e+01 1f13A b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 21879,22167,22168,37109 1vjpA 394 2.23e+01 c.2.1.3,d.81.1.3 100828,100829 1pnsC 206 2.35e+01 i.1.1.1 88170 1ur1A 378 2.37e+01 c.1.8.3 99804 1y96B 85 2.45e+01 1tluA 130 2.58e+01 d.156.1.2 107139 1of8A 370 2.61e+01 c.1.10.4 92819 1o57A 291 2.65e+01 a.4.5.40,c.61.1.1 92483,92484 1ma3A 253 2.80e+01 c.31.1.5 78883 1c7nA 399 2.80e+01 1d2fA c.67.1.3 34413 1b25A 619 2.83e+01 1b25A a.110.1.1,d.152.1.1 19044,41796 1hfbA 370 2.86e+01 c.1.10.4 76706 1f13A 731 2.89e+01 1f13A b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 21877,22163,22164,37107 1fjgC 239 2.93e+01 1fjfC d.52.3.1,d.53.1.1 38831,38839 2fh7A 595 3.05e+01 1tiqA 180 3.06e+01 d.108.1.1 107010 1wmhB 86 3.07e+01 1vr7A 142 3.13e+01 1gm6A 175 3.14e+01 b.60.1.1 70272 2ifeA 100 3.16e+01 1tig d.68.1.1 39567 1v0lA 313 3.25e+01 c.1.8.3 108207 1audA 101 3.27e+01 1urnA d.58.7.1 39156 1igs 248 3.33e+01 1a53 c.1.2.4 28565 1e0wA 313 3.37e+01 1taxA c.1.8.3 59150 2cxcA 144 3.38e+01 1od8A 313 3.41e+01 c.1.8.3 86838 1ex0A 731 3.42e+01 b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 90465,90466,90467,90468 1gguA 731 3.42e+01 1f13A b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 21885,22179,22180,37115 1evuA 731 3.45e+01 1f13A b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 21883,22175,22176,37113 1e9rA 437 3.49e+01 c.37.1.11 64827 1a53 247 3.54e+01 1a53 c.1.2.4 28564 1p9rA 418 3.55e+01 c.37.1.11 94399 1xyfA 436 3.56e+01 1taxA b.42.2.1,c.1.8.3 25577,28909 1m5oC 100 3.59e+01 d.58.7.1 78654 1qg8A 255 3.61e+01 1qg8A c.68.1.1 34505 1juk 248 3.63e+01 1a53 c.1.2.4 28567 1j5eC 239 3.66e+01 d.52.3.1,d.53.1.1 71544,71545 1x8dA 104 3.69e+01 1reqD 637 3.88e+01 1reqB c.1.19.1,c.23.6.1 29623,31250 7reqB 637 3.88e+01 1reqB c.1.19.1,c.23.6.1 29617,31244 1zp4A 304 3.89e+01 1reqB 637 3.92e+01 1reqB c.1.19.1,c.23.6.1 29621,31248 1qdlB 195 3.93e+01 1qdlB c.23.16.1 31437 1cx0A 95 3.98e+01 1urnA d.58.7.1 39158 1a3wA 500 4.07e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27060,29288,33142 2b7eA 59 4.08e+01 1c7qA 445 4.12e+01 2pgi c.80.1.2 35307 1exg 110 4.17e+01 1exg b.2.2.1 22387 1fht 116 4.19e+01 1urnA d.58.7.1 39157 1c0dA 358 4.31e+01 1eceA c.1.8.3 28815 1a50B 396 4.42e+01 2tysB c.79.1.1 35280 1yiyA 429 4.44e+01 1b5tA 275 4.46e+01 1b5tA c.1.23.1 29676 1eceA 358 4.52e+01 1eceA c.1.8.3 28813 1urnA 97 4.53e+01 1urnA d.58.7.1 39153 1qrkA 731 4.54e+01 1f13A b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 21889,22187,22188,37119 2b33A 140 4.55e+01 2gfgA 193 4.56e+01 2bby 69 4.62e+01 2bby a.4.5.15 16148 2wsyB 396 4.68e+01 2tysB c.79.1.1 35288 1t8qA 336 4.80e+01 c.1.18.3 106669 1ay2 159 4.89e+01 2pil d.24.1.1 38377 1id0A 152 4.94e+01 d.122.1.3 66111 2g6tA 306 4.96e+01 1b0zA 445 4.99e+01 2pgi c.80.1.2 35309 2pgi 445 4.99e+01 2pgi c.80.1.2 35308 1ej0A 180 5.01e+01 1ej0A c.66.1.2 34179 2ab5A 269 5.07e+01 1xhfA 123 5.13e+01 2pil 159 5.14e+01 2pil d.24.1.1 38376 1lwjA 441 5.18e+01 b.71.1.1,c.1.8.1 74303,74304 1o6dA 163 5.24e+01 c.116.1.3 92567 1zpvA 91 5.29e+01 1nijA 318 5.38e+01 c.37.1.10,d.237.1.1 85741,85742 1ifa 158 5.41e+01 1ifa a.26.1.3 16892 1ydyA 356 5.49e+01 1bby 69 5.55e+01 2bby a.4.5.15 16149 1xfcA 384 5.65e+01 1lnqA 336 5.68e+01 c.2.1.9,f.14.1.1 74049,74050 1bksB 397 5.70e+01 2tysB c.79.1.1 35285 1c52 131 5.71e+01 1c52 a.3.1.1 15810 1k7kA 221 5.75e+01 c.51.4.1 72104 1no5A 114 5.76e+01 d.218.1.5 92014 2tysB 397 5.77e+01 2tysB c.79.1.1 35272 1wcdJ 441 5.82e+01 1pnsB 234 5.84e+01 i.1.1.1 88169 1h09A 338 5.85e+01 b.109.1.1,c.1.8.8 83420,83421 1pp0A 199 5.93e+01 d.103.1.1 104211 1a7hA 86 5.98e+01 1amm b.11.1.1 23600 1s50A 259 6.00e+01 1o8uA 257 6.09e+01 c.14.1.3 81194 1j5eB 256 6.15e+01 c.23.15.1 71543 1k8yB 396 6.16e+01 c.79.1.1 72184 1ghr 306 6.16e+01 1aq0A c.1.8.3 28844 2amhA 207 6.22e+01 1bia 321 6.24e+01 1bia a.4.5.1,b.34.1.1,d.104.1.2 16083,24447,40787 1bib 321 6.26e+01 1bia a.4.5.1,b.34.1.1,d.104.1.2 16084,24448,40788 1szoA 257 6.29e+01 c.14.1.3 106164 1vcvA 226 6.32e+01 1yizA 429 6.34e+01 2adbA 148 6.35e+01 1tlk 154 6.37e+01 1tlk b.1.1.4 21707 1i6lA 328 6.43e+01 c.26.1.1 66041 1bc4 111 6.44e+01 1onc d.5.1.1 37279 1i6kA 328 6.46e+01 c.26.1.1 66040 1larA 575 6.50e+01 1larA c.45.1.2,c.45.1.2 32693,32694 1vbvA 105 6.50e+01 1qopB 396 6.53e+01 2tysB c.79.1.1 35270 1fhgA 154 6.54e+01 1tlk b.1.1.4 21706 1d2rA 326 6.54e+01 1d2rB c.26.1.1 31572 1o0pA 104 6.57e+01 d.58.7.1 86535 1ycyA 71 6.59e+01 1ri7A 171 6.59e+01 a.4.5.32,d.58.4.2 97504,97505 1wu3I 161 6.63e+01 1pyfA 312 6.65e+01 c.1.7.1 95334 1ygs 234 6.69e+01 1ygs b.26.1.1 23907 2c3zA 222 6.72e+01 1h72C 296 6.77e+01 d.14.1.5,d.58.26.1 60712,60713 1e0tA 470 6.95e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27064,29292,33146 1qi9A 556 7.12e+01 1qhbA a.111.1.2 19053 2aefA 234 7.19e+01 1fwkA 296 7.45e+01 1fwkA d.14.1.5,d.58.26.1 37576,39398 1gyxA 76 7.45e+01 d.80.1.1 76387 2gw6A 123 7.45e+01 1njhA 119 7.68e+01 b.128.1.1 85787 1fzqA 181 7.77e+01 1hurA c.37.1.8 32060 1ryjA 70 7.86e+01 d.15.3.2 98104 1cf7A 76 7.94e+01 1cf7B a.4.5.17 16151 1d2rB 326 8.00e+01 1d2rB c.26.1.1 31573 1ca1 370 8.02e+01 1ca1 a.124.1.1,b.12.1.3 19340,23648 1ksfX 758 8.16e+01 a.174.1.1,c.37.1.20,c.37.1.20 77522,77523,77524 2g9iA 249 8.17e+01 1ri5A 298 8.19e+01 c.66.1.34 97502 1ee2A 373 8.31e+01 2ohxA b.35.1.2,c.2.1.1 24663,29679 1qavA 90 8.47e+01 1qauA b.36.1.1 24777 1aogA 485 8.59e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30517,30518,40190 1vfsA 386 8.60e+01 b.49.2.2,c.1.6.1 108584,108585 1aq0A 306 8.63e+01 1aq0A c.1.8.3 28842 1a99A 344 8.66e+01 1pot c.94.1.1 35812 1t0aA 159 8.71e+01 1w2iA 91 8.74e+01 d.58.10.1 109127 1quqB 121 8.75e+01 1quqB b.40.4.3 25305 1rwzA 245 8.81e+01 d.131.1.2,d.131.1.2 98005,98006 1f76A 336 8.82e+01 c.1.4.1 76160 2culA 232 8.86e+01 1c7sA 858 8.87e+01 1qba b.1.18.2,b.2.2.3,c.1.8.6,d.92.2.1 21812,22408,29011,40410 1u6bA 98 8.88e+01 d.58.7.1 107703 1ggtB 731 8.95e+01 1f13A b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 21882,22173,22174,37112