# 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 3.24e-01 3seb b.40.2.2,d.15.6.1 25146,37735 1dyqA 234 5.84e-01 3seb b.40.2.2,d.15.6.1 59140,59141 2rslA 140 8.10e-01 2rslA c.53.1.1 33345 1hyuA 521 1.15e+00 1hyuA c.3.1.5,c.3.1.5,c.47.1.2,c.47.1.2 30547,30548,32779,32780 1zynA 202 1.22e+00 1gdtA 183 1.23e+00 2rslA a.4.1.2,c.53.1.1 16021,33348 1ghtA 105 1.82e+00 2rslA c.53.1.1 60526 1sqsA 242 2.06e+00 c.23.5.5 98968 1iz5A 249 2.37e+00 d.131.1.2,d.131.1.2 83834,83835 2fclA 169 3.17e+00 2ewrA 170 3.17e+00 1agnA 373 4.37e+00 2ohxA b.35.1.2,c.2.1.1 24737,29753 1hqz1 141 4.65e+00 1j5vA 351 5.18e+00 c.72.1.1 71585 1hqz9 141 5.30e+00 1ge8A 249 5.67e+00 1plq d.131.1.2,d.131.1.2 41398,41399 1ydmA 187 7.50e+00 1a0rP 245 7.61e+00 1b9yC c.47.1.6 33054 1xn5A 146 8.09e+00 1repC 251 8.31e+00 1repC a.4.5.10,a.4.5.10 16125,16126 1qhlA 227 8.80e+00 1qhlA c.37.1.12 32382 2afbA 351 9.01e+00 1d2oA 187 1.03e+01 1d2oA b.3.5.1,b.3.5.1 22625,22626 2bg5A 324 1.04e+01 1xewY 172 1.22e+01 5gcnA 166 1.23e+01 1yghA d.108.1.1 40807 1m93A 55 1.27e+01 e.1.1.1 91235 1e9rA 437 1.31e+01 c.37.1.11 64827 1d2pA 373 1.31e+01 1d2oA b.3.5.1,b.3.5.1,b.3.5.1,b.3.5.1 22629,22630,22631,22632 1wspA 84 1.44e+01 1qlmA 316 1.59e+01 1qlmA d.147.1.1 41765 1vddA 228 1.68e+01 e.49.1.1 108519 1o58A 303 1.79e+01 c.79.1.1 92491 1pnsC 206 1.83e+01 i.1.1.1 88170 1rom 403 1.88e+01 1rom a.104.1.1 18963 1fjgC 239 1.89e+01 1fjfC d.52.3.1,d.53.1.1 38831,38839 1cmnA 402 1.90e+01 1rom a.104.1.1 18958 1jfbA 404 1.90e+01 a.104.1.1 66624 1f24A 402 1.91e+01 1rom a.104.1.1 18953 1o57A 291 1.93e+01 a.4.5.40,c.61.1.1 92483,92484 1c7nA 399 1.93e+01 1d2fA c.67.1.3 34413 1hdoA 206 1.97e+01 1he2A c.2.1.2 60965 1he2A 206 2.02e+01 1he2A c.2.1.2 60966 1b25A 619 2.10e+01 1b25A a.110.1.1,d.152.1.1 19044,41796 1y96B 85 2.18e+01 1vjpA 394 2.21e+01 c.2.1.3,d.81.1.3 100828,100829 1ur1A 378 2.26e+01 c.1.8.3 99804 1tiqA 180 2.32e+01 d.108.1.1 107010 1ma3A 253 2.48e+01 c.31.1.5 78883 1xfcA 384 2.50e+01 1gm6A 175 2.50e+01 b.60.1.1 70272 1wmhB 86 2.53e+01 1tluA 130 2.53e+01 d.156.1.2 107139 2fh7A 595 2.63e+01 2b33A 140 2.66e+01 1p8kZ 254 2.73e+01 d.95.2.1,d.95.2.1 94361,94362 1vr7A 142 2.75e+01 1tf1A 198 2.82e+01 d.110.2.2 106826 1j5eC 239 2.89e+01 d.52.3.1,d.53.1.1 71544,71545 1yiyA 429 3.09e+01 1xyfA 436 3.12e+01 1taxA b.42.2.1,c.1.8.3 25577,28909 2b7eA 59 3.12e+01 7reqB 637 3.14e+01 1reqB c.1.19.1,c.23.6.1 29617,31244 1a3wA 500 3.15e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27060,29288,33142 2gfgA 193 3.16e+01 1v0lA 313 3.19e+01 c.1.8.3 108207 1reqD 637 3.19e+01 1reqB c.1.19.1,c.23.6.1 29623,31250 1zp4A 304 3.25e+01 1h72C 296 3.26e+01 d.14.1.5,d.58.26.1 60712,60713 1e0wA 313 3.29e+01 1taxA c.1.8.3 59150 1ockA 412 3.33e+01 c.117.1.1 86802 1od8A 313 3.35e+01 c.1.8.3 86838 1reqB 637 3.36e+01 1reqB c.1.19.1,c.23.6.1 29621,31248 1fwkA 296 3.37e+01 1fwkA d.14.1.5,d.58.26.1 37576,39398 2cxcA 144 3.38e+01 1qg8A 255 3.63e+01 1qg8A c.68.1.1 34505 1zpvA 91 3.70e+01 1vkuA 100 3.73e+01 a.28.1.1 108690 1lnqA 336 3.76e+01 c.2.1.9,f.14.1.1 74049,74050 1b5tA 275 3.78e+01 1b5tA c.1.23.1 29676 1c7qA 445 3.83e+01 2pgi c.80.1.2 35307 1a50B 396 3.91e+01 2tysB c.79.1.1 35280 1audA 101 4.01e+01 1urnA d.58.7.1 39156 1h09A 338 4.02e+01 b.109.1.1,c.1.8.8 83420,83421 1yizA 429 4.16e+01 2wsyB 396 4.17e+01 2tysB c.79.1.1 35288 1o6dA 163 4.27e+01 c.116.1.3 92567 1sr4B 261 4.33e+01 d.151.1.1 105949 1t8qA 336 4.33e+01 c.1.18.3 106669 1fieA 731 4.37e+01 1f13A b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 21879,22167,22168,37109 1m5oC 100 4.38e+01 d.58.7.1 78654 1ys4A 354 4.39e+01 1xhfA 123 4.40e+01 1b0zA 445 4.44e+01 2pgi c.80.1.2 35309 2pgi 445 4.44e+01 2pgi c.80.1.2 35308 1ri7A 171 4.48e+01 a.4.5.32,d.58.4.2 97504,97505 1vfsA 386 4.54e+01 b.49.2.2,c.1.6.1 108584,108585 1no5A 114 4.59e+01 d.218.1.5 92014 1pnsB 234 4.64e+01 i.1.1.1 88169 1c52 131 4.66e+01 1c52 a.3.1.1 15810 1c0dA 358 4.66e+01 1eceA c.1.8.3 28815 2bby 69 4.69e+01 2bby a.4.5.15 16148 1lwjA 441 4.78e+01 b.71.1.1,c.1.8.1 74303,74304 1vcvA 226 4.79e+01 1ydyA 356 4.85e+01 2aefA 234 4.86e+01 1eceA 358 4.90e+01 1eceA c.1.8.3 28813 1j5eB 256 4.92e+01 c.23.15.1 71543 1bksB 397 4.96e+01 2tysB c.79.1.1 35285 2tysB 397 5.00e+01 2tysB c.79.1.1 35272 1ay2 159 5.05e+01 2pil d.24.1.1 38377 1k8yB 396 5.05e+01 c.79.1.1 72184 2ifeA 100 5.06e+01 1tig d.68.1.1 39567 1cx0A 95 5.07e+01 1urnA d.58.7.1 39158 2amhA 207 5.08e+01 1fht 116 5.08e+01 1urnA d.58.7.1 39157 1e0tA 470 5.09e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27064,29292,33146 1a7hA 86 5.24e+01 1amm b.11.1.1 23600 1qopB 396 5.31e+01 2tysB c.79.1.1 35270 1s50A 259 5.38e+01 2pil 159 5.39e+01 2pil d.24.1.1 38376 2ab5A 269 5.41e+01 1f13A 731 5.42e+01 1f13A b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 21877,22163,22164,37107 1bby 69 5.48e+01 2bby a.4.5.15 16149 2gw6A 123 5.55e+01 1bia 321 5.58e+01 1bia a.4.5.1,b.34.1.1,d.104.1.2 16083,24447,40787 1bib 321 5.59e+01 1bia a.4.5.1,b.34.1.1,d.104.1.2 16084,24448,40788 1ifa 158 5.59e+01 1ifa a.26.1.3 16892 1ygs 234 5.61e+01 1ygs b.26.1.1 23907 1urnA 97 5.65e+01 1urnA d.58.7.1 39153 1juk 248 5.70e+01 1a53 c.1.2.4 28567 1tlk 154 5.77e+01 1tlk b.1.1.4 21707 2adbA 148 5.81e+01 1qi9A 556 5.89e+01 1qhbA a.111.1.2 19053 1qdlB 195 5.92e+01 1qdlB c.23.16.1 31437 1larA 575 5.93e+01 1larA c.45.1.2,c.45.1.2 32693,32694 1fhgA 154 5.95e+01 1tlk b.1.1.4 21706 1ycyA 71 6.00e+01 1nf3C 128 6.06e+01 b.36.1.1 85596 2g6tA 306 6.10e+01 1fzqA 181 6.31e+01 1hurA c.37.1.8 32060 1t0aA 159 6.32e+01 1vbvA 105 6.37e+01 1ghr 306 6.44e+01 1aq0A c.1.8.3 28844 1o8uA 257 6.51e+01 c.14.1.3 81194 1pyfA 312 6.51e+01 c.1.7.1 95334 1szoA 257 6.67e+01 c.14.1.3 106164 1nijA 318 6.77e+01 c.37.1.10,d.237.1.1 85741,85742 1ee2A 373 6.90e+01 2ohxA b.35.1.2,c.2.1.1 24663,29679 1ex0A 731 6.92e+01 b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 90465,90466,90467,90468 1gguA 731 6.92e+01 1f13A b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 21885,22179,22180,37115 1ri5A 298 6.97e+01 c.66.1.34 97502 1evuA 731 7.03e+01 1f13A b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 21883,22175,22176,37113 1cf7A 76 7.06e+01 1cf7B a.4.5.17 16151 1pp0A 199 7.08e+01 d.103.1.1 104211 1gyxA 76 7.12e+01 d.80.1.1 76387 2hvm 273 7.13e+01 1cnv c.1.8.5 28985 1tiyA 164 7.15e+01 c.97.1.2 107012 1f76A 336 7.19e+01 c.1.4.1 76160 1of8A 370 7.20e+01 c.1.10.4 92819 1hfbA 370 7.45e+01 c.1.10.4 76706 1qavA 90 7.56e+01 1qauA b.36.1.1 24777 1aogA 485 7.58e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30517,30518,40190 1p9rA 418 7.62e+01 c.37.1.11 94399 1wcdJ 441 7.69e+01 1a8q 274 7.85e+01 1brt c.69.1.12 34702 1hetA 374 7.94e+01 2ohxA b.35.1.2,c.2.1.1 60975,60976 1heuA 374 7.95e+01 2ohxA b.35.1.2,c.2.1.1 60979,60980 1wu3I 161 8.07e+01 1g19A 350 8.09e+01 2reb c.37.1.11,d.48.1.1 32284,38770 1exg 110 8.13e+01 1exg b.2.2.1 22387 2tpt 440 8.14e+01 1brwA a.46.2.1,c.27.1.1,d.41.3.1 17759,31623,38621 1nteA 82 8.25e+01 b.36.1.1 86163 1r6jA 82 8.25e+01 b.36.1.1 97151 1ca1 370 8.42e+01 1ca1 a.124.1.1,b.12.1.3 19340,23648 1fjgB 256 8.54e+01 1fjfB c.23.15.1 31400 1udb 338 8.59e+01 1xel c.2.1.2 29787 1i6lA 328 8.66e+01 c.26.1.1 66041 1i6kA 328 8.71e+01 c.26.1.1 66040 1k7kA 221 8.86e+01 c.51.4.1 72104 1aq0A 306 8.94e+01 1aq0A c.1.8.3 28842