# List of top-scoring protein chains for t2k-100-30-dssp-ebghstl-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 2.92e-01 3seb b.40.2.2,d.15.6.1 25146,37735 1dyqA 234 3.32e-01 3seb b.40.2.2,d.15.6.1 59140,59141 1gdtA 183 1.12e+00 2rslA a.4.1.2,c.53.1.1 16021,33348 1zynA 202 1.26e+00 1repC 251 1.27e+00 1repC a.4.5.10,a.4.5.10 16125,16126 2rslA 140 1.57e+00 2rslA c.53.1.1 33345 1agnA 373 1.63e+00 2ohxA b.35.1.2,c.2.1.1 24737,29753 1hyuA 521 1.69e+00 1hyuA c.3.1.5,c.3.1.5,c.47.1.2,c.47.1.2 30547,30548,32779,32780 1iz5A 249 1.77e+00 d.131.1.2,d.131.1.2 83834,83835 1sqsA 242 1.83e+00 c.23.5.5 98968 1hqz9 141 1.89e+00 1ge8A 249 1.99e+00 1plq d.131.1.2,d.131.1.2 41398,41399 1m93A 55 2.71e+00 e.1.1.1 91235 1a0rP 245 2.92e+00 1b9yC c.47.1.6 33054 1y96B 85 3.14e+00 1hqz1 141 3.27e+00 1j5vA 351 4.27e+00 c.72.1.1 71585 1c52 131 4.33e+00 1c52 a.3.1.1 15810 2ewrA 170 4.40e+00 2fclA 169 4.41e+00 1pnsC 206 4.48e+00 i.1.1.1 88170 2afbA 351 4.57e+00 2bg5A 324 4.93e+00 1wspA 84 5.73e+00 1j5eC 239 6.76e+00 d.52.3.1,d.53.1.1 71544,71545 5gcnA 166 8.69e+00 1yghA d.108.1.1 40807 1jfbA 404 9.31e+00 a.104.1.1 66624 1f24A 402 9.40e+00 1rom a.104.1.1 18953 1qlmA 316 9.99e+00 1qlmA d.147.1.1 41765 2gfgA 193 1.06e+01 1xewY 172 1.09e+01 1e9rA 437 1.10e+01 c.37.1.11 64827 1vcvA 226 1.12e+01 1ghtA 105 1.16e+01 2rslA c.53.1.1 60526 1fjgC 239 1.16e+01 1fjfC d.52.3.1,d.53.1.1 38831,38839 2wsyB 396 1.20e+01 2tysB c.79.1.1 35288 1ur1A 378 1.21e+01 c.1.8.3 99804 1ycyA 71 1.28e+01 2b33A 140 1.28e+01 1qhlA 227 1.30e+01 1qhlA c.37.1.12 32382 1k38A 254 1.33e+01 e.3.1.1 84303 1vr7A 142 1.40e+01 1hdoA 206 1.43e+01 1he2A c.2.1.2 60965 1he2A 206 1.43e+01 1he2A c.2.1.2 60966 1vddA 228 1.46e+01 e.49.1.1 108519 1bksB 397 1.51e+01 2tysB c.79.1.1 35285 1lwjA 441 1.54e+01 b.71.1.1,c.1.8.1 74303,74304 1a50B 396 1.54e+01 2tysB c.79.1.1 35280 1a3wA 500 1.56e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27060,29288,33142 2tysB 397 1.60e+01 2tysB c.79.1.1 35272 1tluA 130 1.63e+01 d.156.1.2 107139 1c0dA 358 1.66e+01 1eceA c.1.8.3 28815 1eceA 358 1.68e+01 1eceA c.1.8.3 28813 1e0tA 470 1.71e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27064,29292,33146 1xn5A 146 1.80e+01 1vkuA 100 1.80e+01 a.28.1.1 108690 1k8yB 396 1.83e+01 c.79.1.1 72184 1zp4A 304 1.83e+01 1ockA 412 1.85e+01 c.117.1.1 86802 1gyxA 76 1.89e+01 d.80.1.1 76387 1tiqA 180 1.92e+01 d.108.1.1 107010 1ri7A 171 2.05e+01 a.4.5.32,d.58.4.2 97504,97505 1vjpA 394 2.09e+01 c.2.1.3,d.81.1.3 100828,100829 1pnsB 234 2.25e+01 i.1.1.1 88169 1p8kZ 254 2.33e+01 d.95.2.1,d.95.2.1 94361,94362 1j5eB 256 2.36e+01 c.23.15.1 71543 1qopB 396 2.36e+01 2tysB c.79.1.1 35270 2ifeA 100 2.40e+01 1tig d.68.1.1 39567 1nf3C 128 2.46e+01 b.36.1.1 85596 1ee2A 373 2.47e+01 2ohxA b.35.1.2,c.2.1.1 24663,29679 2g6tA 306 2.58e+01 1o58A 303 2.62e+01 c.79.1.1 92491 1gm6A 175 2.72e+01 b.60.1.1 70272 2g50A 530 2.73e+01 1o0yA 260 2.74e+01 c.1.10.1 80756 1fjgB 256 2.83e+01 1fjfB c.23.15.1 31400 8adh 374 2.93e+01 2ohxA b.35.1.2,c.2.1.1 24690,29706 1tf1A 198 2.97e+01 d.110.2.2 106826 1h72C 296 2.99e+01 d.14.1.5,d.58.26.1 60712,60713 1qavA 90 3.00e+01 1qauA b.36.1.1 24777 1bby 69 3.00e+01 2bby a.4.5.15 16149 1kfiA 572 3.02e+01 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 68555,68556,68557,68558 1n8kA 374 3.03e+01 b.35.1.2,c.2.1.1 80298,80299 2aefA 234 3.04e+01 1sr4B 261 3.04e+01 d.151.1.1 105949 1hetA 374 3.06e+01 2ohxA b.35.1.2,c.2.1.1 60975,60976 1a71A 374 3.06e+01 2ohxA b.35.1.2,c.2.1.1 24673,29689 2ohxA 374 3.06e+01 2ohxA b.35.1.2,c.2.1.1 24669,29685 1axeA 374 3.07e+01 2ohxA b.35.1.2,c.2.1.1 24681,29697 1pyfA 312 3.12e+01 c.1.7.1 95334 1axgA 374 3.14e+01 2ohxA b.35.1.2,c.2.1.1 24691,29707 1b25A 619 3.19e+01 1b25A a.110.1.1,d.152.1.1 19044,41796 2adoA 196 3.19e+01 1ydmA 187 3.19e+01 1heuA 374 3.21e+01 2ohxA b.35.1.2,c.2.1.1 60979,60980 1d2oA 187 3.24e+01 1d2oA b.3.5.1,b.3.5.1 22625,22626 1rom 403 3.27e+01 1rom a.104.1.1 18963 1d2pA 373 3.30e+01 1d2oA b.3.5.1,b.3.5.1,b.3.5.1,b.3.5.1 22629,22630,22631,22632 1s0pA 176 3.30e+01 a.192.1.1 98300 1t0aA 159 3.35e+01 1wrjA 156 3.39e+01 1c7qA 445 3.44e+01 2pgi c.80.1.2 35307 1of8A 370 3.45e+01 c.1.10.4 92819 1od8A 313 3.47e+01 c.1.8.3 86838 1ta3B 303 3.47e+01 c.1.8.3 106732 1fht 116 3.47e+01 1urnA d.58.7.1 39157 1hfbA 370 3.47e+01 c.1.10.4 76706 1h09A 338 3.47e+01 b.109.1.1,c.1.8.8 83420,83421 1cf7A 76 3.57e+01 1cf7B a.4.5.17 16151 1ca1 370 3.68e+01 1ca1 a.124.1.1,b.12.1.3 19340,23648 1focA 132 3.72e+01 1c52 a.3.1.1 15812 1b0zA 445 3.72e+01 2pgi c.80.1.2 35309 2pgi 445 3.72e+01 2pgi c.80.1.2 35308 1fwkA 296 3.76e+01 1fwkA d.14.1.5,d.58.26.1 37576,39398 1cx0A 95 3.82e+01 1urnA d.58.7.1 39158 2pil 159 3.85e+01 2pil d.24.1.1 38376 1v0lA 313 3.86e+01 c.1.8.3 108207 1ay2 159 3.87e+01 2pil d.24.1.1 38377 1bia 321 3.88e+01 1bia a.4.5.1,b.34.1.1,d.104.1.2 16083,24447,40787 1qg8A 255 3.93e+01 1qg8A c.68.1.1 34505 1fzqA 181 3.96e+01 1hurA c.37.1.8 32060 1e0wA 313 3.98e+01 1taxA c.1.8.3 59150 1dkuA 317 4.02e+01 1dkuA c.61.1.2,c.61.1.2 34118,34119 1o57A 291 4.05e+01 a.4.5.40,c.61.1.1 92483,92484 2etxA 209 4.06e+01 1xhfA 123 4.06e+01 1wmhB 86 4.22e+01 1no5A 114 4.34e+01 d.218.1.5 92014 1woqA 267 4.36e+01 c.55.1.10,c.55.1.10 109462,109463 1bib 321 4.39e+01 1bia a.4.5.1,b.34.1.1,d.104.1.2 16084,24448,40788 1vfsA 386 4.39e+01 b.49.2.2,c.1.6.1 108584,108585 1urnA 97 4.41e+01 1urnA d.58.7.1 39153 1xfcA 384 4.45e+01 1ygs 234 4.54e+01 1ygs b.26.1.1 23907 2bby 69 4.60e+01 2bby a.4.5.15 16148 1ma3A 253 4.62e+01 c.31.1.5 78883 1wcdJ 441 4.63e+01 1m5oC 100 4.63e+01 d.58.7.1 78654 1xyfA 436 4.69e+01 1taxA b.42.2.1,c.1.8.3 25577,28909 1yiyA 429 4.77e+01 2fh7A 595 4.91e+01 1larA 575 4.91e+01 1larA c.45.1.2,c.45.1.2 32693,32694 1pkm 530 4.98e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27051,29254,33108 1reqB 637 5.01e+01 1reqB c.1.19.1,c.23.6.1 29621,31248 1ft5A 211 5.06e+01 1bvb a.138.1.3 19681 2ab5A 269 5.13e+01 1u1hA 765 5.19e+01 c.1.22.2,c.1.22.2 107580,107581 1rboC 123 5.24e+01 1rboC d.73.1.1 39634 1tbrR 103 5.26e+01 1tbrR g.68.1.1,g.68.1.1 44707,44708 1bvb 211 5.26e+01 1bvb a.138.1.3 19683 1a99A 344 5.30e+01 1pot c.94.1.1 35812 8rucI 123 5.34e+01 1rboC d.73.1.1 39629 1s50A 259 5.37e+01 1juk 248 5.38e+01 1a53 c.1.2.4 28567 1o6dA 163 5.41e+01 c.116.1.3 92567 1aogA 485 5.44e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30517,30518,40190 1aq0A 306 5.50e+01 1aq0A c.1.8.3 28842 2amhA 207 5.53e+01 1mk0A 97 5.56e+01 d.226.1.1 79216 1te7A 103 5.61e+01 1cby 259 5.63e+01 1cby d.103.1.1 40705 1szoA 257 5.67e+01 c.14.1.3 106164 1o8uA 257 5.73e+01 c.14.1.3 81194 1cf7B 95 5.78e+01 1cf7B a.4.5.17 16152 1josA 128 5.82e+01 d.52.7.1 84191 1c8oA 300 5.84e+01 1c8oA e.1.1.1 42677 1audA 101 5.91e+01 1urnA d.58.7.1 39156 1b5tA 275 5.92e+01 1b5tA c.1.23.1 29676 1a8q 274 5.95e+01 1brt c.69.1.12 34702 1ghr 306 5.96e+01 1aq0A c.1.8.3 28844 1yr2A 741 5.97e+01 1h4vB 421 5.99e+01 1adjA c.51.1.1,d.104.1.1 60624,60625 1enwA 114 6.04e+01 1enwA a.5.4.1 16291 1kqpA 271 6.07e+01 c.26.2.1 72883 1nsyA 271 6.09e+01 2nsyA c.26.2.1 31614 1nijA 318 6.09e+01 c.37.1.10,d.237.1.1 85741,85742 1jhsA 188 6.11e+01 d.107.1.1 84172 2g9iA 249 6.15e+01 1vicA 262 6.18e+01 c.68.1.13 100756 1i8fA 81 6.19e+01 1i8fA b.38.1.1 61959 1cmnA 402 6.20e+01 1rom a.104.1.1 18958 1o1zA 234 6.23e+01 c.1.18.3 86555 1u3wA 374 6.26e+01 1z4rA 168 6.31e+01 2hvm 273 6.35e+01 1cnv c.1.8.5 28985 1vbvA 105 6.39e+01 1ydyA 356 6.40e+01 1adjA 421 6.40e+01 1adjA c.51.1.1,d.104.1.1 33188,40737 1qvaA 223 6.48e+01 1qvaA c.37.1.19 32411 1fw9A 164 6.54e+01 1fw9A d.190.1.1 60059 1tt8A 164 6.54e+01 1ih8A 271 6.54e+01 2nsyA c.26.2.1 62377 1ede 310 6.55e+01 1b6g c.69.1.8 34662 1f13A 731 6.55e+01 1f13A b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 21877,22163,22164,37107 1pp0A 199 6.61e+01 d.103.1.1 104211 1d2rB 326 6.63e+01 1d2rB c.26.1.1 31573 1b9yC 246 6.64e+01 1b9yC c.47.1.6 33052 1h7zA 194 6.66e+01 1qhvA b.21.1.1 60733 1r5jA 337 6.70e+01 c.77.1.5 97097 2nsyA 271 6.75e+01 2nsyA c.26.2.1 31612 1wouA 123 6.82e+01 c.47.1.16 109471 1ois 223 6.84e+01 1a36A e.15.1.1 43267 1qi9A 556 6.87e+01 1qhbA a.111.1.2 19053 1t8qA 336 6.90e+01 c.1.18.3 106669 1b9xC 246 6.98e+01 1b9yC c.47.1.6 33053 1f0cA 305 7.00e+01 1c8oA e.1.1.1 42676 1a49A 530 7.03e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27026,29255,33109 1hbxA 92 7.04e+01 1mnmA d.88.1.1 60930 1iqaA 160 7.05e+01 b.22.1.1 71274 1s55A 156 7.08e+01 2gh1A 301 7.14e+01 1acmA 310 7.17e+01 3csuA c.78.1.1,c.78.1.1 35180,35181 2cxcA 144 7.23e+01 2adbA 148 7.37e+01 1pkn 530 7.40e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27042,29271,33125 1xubA 298 7.42e+01 1wkqA 164 7.49e+01 c.97.1.2 109393 1evuA 731 7.51e+01 1f13A b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 21883,22175,22176,37113 2c3zA 222 7.63e+01 1kvs 338 7.64e+01 1xel c.2.1.2 29799 8atcA 310 7.73e+01 3csuA c.78.1.1,c.78.1.1 35132,35133 1gnf 46 7.76e+01 1gatA g.39.1.1 45107 1oiaA 95 7.79e+01 d.58.7.1 87051 1wu3I 161 7.81e+01 2trcP 217 7.81e+01 1b9yC c.47.1.6 33051 1qlwA 328 7.84e+01 1qlwA c.69.1.15 34722 2b7eA 59 7.92e+01 2awpA 198 7.96e+01 2fkcA 247 7.99e+01 1gewA 356 8.02e+01 1gewA c.67.1.1 60470 1f2tB 148 8.05e+01 1f2tB 1nu4A 97 8.05e+01 d.58.7.1 80731 1tlk 154 8.15e+01 1tlk b.1.1.4 21707 1u1wA 298 8.15e+01 1i6lA 328 8.17e+01 c.26.1.1 66041 1ex0A 731 8.18e+01 b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 90465,90466,90467,90468 1uekA 275 8.22e+01 d.14.1.5,d.58.26.5 88483,88484 1rmi 160 8.25e+01 1ifa a.26.1.3 16891 1i6kA 328 8.25e+01 c.26.1.1 66040 1qdlB 195 8.36e+01 1qdlB c.23.16.1 31437 1ejjA 511 8.36e+01 1ejjA c.105.1.1,c.76.1.3 59422,59423 2achA 360 8.41e+01 1c8oA e.1.1.1 42626 1gguA 731 8.50e+01 1f13A b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 21885,22179,22180,37115 1o98A 511 8.59e+01 c.105.1.1,c.76.1.3 86684,86685 1lnqA 336 8.61e+01 c.2.1.9,f.14.1.1 74049,74050 1b6g 310 8.63e+01 1b6g c.69.1.8 34661 1yizA 429 8.67e+01 1rwzA 245 8.67e+01 d.131.1.2,d.131.1.2 98005,98006 1ur4A 399 8.68e+01 1b1yA 500 8.92e+01 1byb c.1.8.1 28796 3csuA 310 8.96e+01 3csuA c.78.1.1,c.78.1.1 35094,35095