# 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 1esfA 233 2.67e-01 3seb b.40.2.2,d.15.6.1 25146,37735 1zynA 202 2.81e-01 1hyuA 521 4.21e-01 1hyuA c.3.1.5,c.3.1.5,c.47.1.2,c.47.1.2 30547,30548,32779,32780 1dyqA 234 6.91e-01 3seb b.40.2.2,d.15.6.1 59140,59141 2rslA 140 7.12e-01 2rslA c.53.1.1 33345 1gdtA 183 1.27e+00 2rslA a.4.1.2,c.53.1.1 16021,33348 1ghtA 105 2.15e+00 2rslA c.53.1.1 60526 1sqsA 242 2.29e+00 c.23.5.5 98968 1agnA 373 2.99e+00 2ohxA b.35.1.2,c.2.1.1 24737,29753 1iz5A 249 3.06e+00 d.131.1.2,d.131.1.2 83834,83835 2fclA 169 3.62e+00 2ewrA 170 3.63e+00 1repC 251 4.10e+00 1repC a.4.5.10,a.4.5.10 16125,16126 1ge8A 249 4.18e+00 1plq d.131.1.2,d.131.1.2 41398,41399 1j5vA 351 4.52e+00 c.72.1.1 71585 2afbA 351 4.60e+00 1m93A 55 5.52e+00 e.1.1.1 91235 1a0rP 245 7.50e+00 1b9yC c.47.1.6 33054 5gcnA 166 9.45e+00 1yghA d.108.1.1 40807 1qlmA 316 9.87e+00 1qlmA d.147.1.1 41765 1a3wA 500 1.03e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27060,29288,33142 1pnsC 206 1.10e+01 i.1.1.1 88170 1k38A 254 1.19e+01 e.3.1.1 84303 1lwjA 441 1.21e+01 b.71.1.1,c.1.8.1 74303,74304 1qhlA 227 1.29e+01 1qhlA c.37.1.12 32382 2b33A 140 1.33e+01 1c52 131 1.40e+01 1c52 a.3.1.1 15810 1vkuA 100 1.54e+01 a.28.1.1 108690 1ma3A 253 1.59e+01 c.31.1.5 78883 1d2oA 187 1.71e+01 1d2oA b.3.5.1,b.3.5.1 22625,22626 1bby 69 1.74e+01 2bby a.4.5.15 16149 1od8A 313 1.80e+01 c.1.8.3 86838 1xn5A 146 1.83e+01 1d2pA 373 1.84e+01 1d2oA b.3.5.1,b.3.5.1,b.3.5.1,b.3.5.1 22629,22630,22631,22632 1tiqA 180 1.85e+01 d.108.1.1 107010 1j5eC 239 1.90e+01 d.52.3.1,d.53.1.1 71544,71545 1wspA 84 1.92e+01 1sr4B 261 1.99e+01 d.151.1.1 105949 1xhfA 123 2.00e+01 2gfgA 193 2.01e+01 1aogA 485 2.03e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30517,30518,40190 1y96B 85 2.06e+01 1e9rA 437 2.10e+01 c.37.1.11 64827 1h72C 296 2.13e+01 d.14.1.5,d.58.26.1 60712,60713 1fwkA 296 2.15e+01 1fwkA d.14.1.5,d.58.26.1 37576,39398 2bg5A 324 2.17e+01 1ydmA 187 2.17e+01 1hqz9 141 2.21e+01 1ur1A 378 2.35e+01 c.1.8.3 99804 1qdlB 195 2.35e+01 1qdlB c.23.16.1 31437 2gw6A 123 2.44e+01 2wsyB 396 2.47e+01 2tysB c.79.1.1 35288 1hqz1 141 2.48e+01 2bby 69 2.48e+01 2bby a.4.5.15 16148 1v0lA 313 2.56e+01 c.1.8.3 108207 2g6tA 306 2.56e+01 1e0wA 313 2.57e+01 1taxA c.1.8.3 59150 1xyfA 436 2.57e+01 1taxA b.42.2.1,c.1.8.3 25577,28909 1eceA 358 2.72e+01 1eceA c.1.8.3 28813 1c0dA 358 2.72e+01 1eceA c.1.8.3 28815 1qg8A 255 2.74e+01 1qg8A c.68.1.1 34505 2pil 159 2.75e+01 2pil d.24.1.1 38376 1ycyA 71 2.76e+01 2ifeA 100 2.80e+01 1tig d.68.1.1 39567 1xewY 172 2.83e+01 1ay2 159 2.83e+01 2pil d.24.1.1 38377 1vqoI 162 2.94e+01 1cx0A 95 2.94e+01 1urnA d.58.7.1 39158 1ca1 370 2.96e+01 1ca1 a.124.1.1,b.12.1.3 19340,23648 1evuA 731 2.99e+01 1f13A b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 21883,22175,22176,37113 1urnA 97 3.02e+01 1urnA d.58.7.1 39153 1f13A 731 3.07e+01 1f13A b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 21877,22163,22164,37107 1vddA 228 3.08e+01 e.49.1.1 108519 1zp4A 304 3.09e+01 2tysB 397 3.12e+01 2tysB c.79.1.1 35272 1p8kZ 254 3.15e+01 d.95.2.1,d.95.2.1 94361,94362 1ee2A 373 3.20e+01 2ohxA b.35.1.2,c.2.1.1 24663,29679 1a50B 396 3.21e+01 2tysB c.79.1.1 35280 1e0tA 470 3.21e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27064,29292,33146 1bksB 397 3.26e+01 2tysB c.79.1.1 35285 1tluA 130 3.30e+01 d.156.1.2 107139 1k8yB 396 3.34e+01 c.79.1.1 72184 1ex0A 731 3.41e+01 b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 90465,90466,90467,90468 1m5oC 100 3.42e+01 d.58.7.1 78654 1h09A 338 3.43e+01 b.109.1.1,c.1.8.8 83420,83421 1vr7A 142 3.44e+01 1gguA 731 3.44e+01 1f13A b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 21885,22179,22180,37115 1focA 132 3.48e+01 1c52 a.3.1.1 15812 1tf1A 198 3.53e+01 d.110.2.2 106826 1b25A 619 3.57e+01 1b25A a.110.1.1,d.152.1.1 19044,41796 1b5tA 275 3.76e+01 1b5tA c.1.23.1 29676 1jfbA 404 3.88e+01 a.104.1.1 66624 1kfiA 572 3.89e+01 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 68555,68556,68557,68558 1qrkA 731 3.89e+01 1f13A b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 21889,22187,22188,37119 1f24A 402 3.92e+01 1rom a.104.1.1 18953 1fht 116 3.99e+01 1urnA d.58.7.1 39157 1tlk 154 4.26e+01 1tlk b.1.1.4 21707 1yiyA 429 4.31e+01 1heuA 374 4.31e+01 2ohxA b.35.1.2,c.2.1.1 60979,60980 1n8kA 374 4.31e+01 b.35.1.2,c.2.1.1 80298,80299 1o57A 291 4.32e+01 a.4.5.40,c.61.1.1 92483,92484 8adh 374 4.34e+01 2ohxA b.35.1.2,c.2.1.1 24690,29706 1hetA 374 4.39e+01 2ohxA b.35.1.2,c.2.1.1 60975,60976 1a71A 374 4.41e+01 2ohxA b.35.1.2,c.2.1.1 24673,29689 1axgA 374 4.44e+01 2ohxA b.35.1.2,c.2.1.1 24691,29707 1axeA 374 4.45e+01 2ohxA b.35.1.2,c.2.1.1 24681,29697 2ohxA 374 4.46e+01 2ohxA b.35.1.2,c.2.1.1 24669,29685 2fh7A 595 4.47e+01 1larA 575 4.57e+01 1larA c.45.1.2,c.45.1.2 32693,32694 1fhgA 154 4.63e+01 1tlk b.1.1.4 21706 2adoA 196 4.65e+01 1szoA 257 4.68e+01 c.14.1.3 106164 1o8uA 257 4.70e+01 c.14.1.3 81194 2b7eA 59 4.77e+01 1qopB 396 4.82e+01 2tysB c.79.1.1 35270 1no5A 114 5.01e+01 d.218.1.5 92014 1audA 101 5.10e+01 1urnA d.58.7.1 39156 1a99A 344 5.10e+01 1pot c.94.1.1 35812 1bia 321 5.18e+01 1bia a.4.5.1,b.34.1.1,d.104.1.2 16083,24447,40787 1bib 321 5.22e+01 1bia a.4.5.1,b.34.1.1,d.104.1.2 16084,24448,40788 2etxA 209 5.22e+01 1ggtB 731 5.25e+01 1f13A b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 21882,22173,22174,37112 1fieA 731 5.30e+01 1f13A b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 21879,22167,22168,37109 2achA 360 5.36e+01 1c8oA e.1.1.1 42626 5nul 138 5.37e+01 5nul c.23.5.1 31191 4uagA 437 5.38e+01 4uagA c.5.1.1,c.59.1.1,c.72.2.1 30651,33952,34955 1o58A 303 5.39e+01 c.79.1.1 92491 1gm6A 175 5.41e+01 b.60.1.1 70272 1fjgC 239 5.46e+01 1fjfC d.52.3.1,d.53.1.1 38831,38839 2fvx 138 5.46e+01 5nul c.23.5.1 31200 2amhA 207 5.66e+01 2g50A 530 5.67e+01 1tw0A 157 5.69e+01 2cxcA 144 5.88e+01 1ri7A 171 5.88e+01 a.4.5.32,d.58.4.2 97504,97505 3nll 138 5.91e+01 5nul c.23.5.1 31206 1uag 437 5.97e+01 4uagA c.5.1.1,c.59.1.1,c.72.2.1 30653,33954,34957 1nf3C 128 5.98e+01 b.36.1.1 85596 1yizA 429 6.01e+01 1b0zA 445 6.07e+01 2pgi c.80.1.2 35309 2pgi 445 6.07e+01 2pgi c.80.1.2 35308 1juk 248 6.13e+01 1a53 c.1.2.4 28567 1c7nA 399 6.52e+01 1d2fA c.67.1.3 34413 1wqaA 455 6.61e+01 1ih8A 271 6.66e+01 2nsyA c.26.2.1 62377 2nsyA 271 6.71e+01 2nsyA c.26.2.1 31612 1kqpA 271 6.73e+01 c.26.2.1 72883 1pnsB 234 6.74e+01 i.1.1.1 88169 1nsyA 271 6.75e+01 2nsyA c.26.2.1 31614 1ryjA 70 6.78e+01 d.15.3.2 98104 1u3wA 374 6.80e+01 1rwzA 245 6.86e+01 d.131.1.2,d.131.1.2 98005,98006 1ri5A 298 6.91e+01 c.66.1.34 97502 2alzA 390 6.95e+01 1c7qA 445 6.95e+01 2pgi c.80.1.2 35307 1vbvA 105 6.96e+01 1xfcA 384 7.02e+01 1nijA 318 7.08e+01 c.37.1.10,d.237.1.1 85741,85742 1j5eB 256 7.10e+01 c.23.15.1 71543 2g9iA 249 7.11e+01 1cf7A 76 7.14e+01 1cf7B a.4.5.17 16151 1ap0 73 7.23e+01 1ap0 b.34.13.2 37475 1veaA 148 7.23e+01 d.275.1.1 108529 1gh6A 114 7.28e+01 a.2.3.1 65191 1fjgB 256 7.36e+01 1fjfB c.23.15.1 31400 1shsA 147 7.38e+01 1shsA b.15.1.1 23675 1bn8A 420 7.38e+01 1pcl b.80.1.1 28022 1rboC 123 7.40e+01 1rboC d.73.1.1 39634 8rucI 123 7.40e+01 1rboC d.73.1.1 39629 1wmhB 86 7.44e+01 2bspA 420 7.47e+01 1pcl b.80.1.1 28023 1p9rA 418 7.50e+01 c.37.1.11 94399 1mixA 206 7.54e+01 a.11.2.1,b.55.1.5 79166,79167 1vjpA 394 7.56e+01 c.2.1.3,d.81.1.3 100828,100829 1nu4A 97 7.60e+01 d.58.7.1 80731 1cby 259 7.60e+01 1cby d.103.1.1 40705 1a3h 300 7.64e+01 7a3hA c.1.8.3 28819 7a3hA 303 7.68e+01 7a3hA c.1.8.3 28817 1exg 110 7.78e+01 1exg b.2.2.1 22387 2ab5A 269 8.02e+01 1vcvA 226 8.06e+01 1cf7B 95 8.13e+01 1cf7B a.4.5.17 16152 1o6dA 163 8.14e+01 c.116.1.3 92567 1reqB 637 8.18e+01 1reqB c.1.19.1,c.23.6.1 29621,31248 1wcdJ 441 8.23e+01 1ede 310 8.32e+01 1b6g c.69.1.8 34662 1crl 534 8.50e+01 1thg c.69.1.17 34765 1a8q 274 8.52e+01 1brt c.69.1.12 34702 1fzqA 181 8.53e+01 1hurA c.37.1.8 32060 1i6lA 328 8.53e+01 c.26.1.1 66041 1ygs 234 8.55e+01 1ygs b.26.1.1 23907 1k30A 368 8.57e+01 c.112.1.1 68067 1i6kA 328 8.65e+01 c.26.1.1 66040 1pp0A 199 8.67e+01 d.103.1.1 104211 1t8qA 336 8.70e+01 c.1.18.3 106669 2hvm 273 8.70e+01 1cnv c.1.8.5 28985 1d2rA 326 8.94e+01 1d2rB c.26.1.1 31572 1d2rB 326 8.94e+01 1d2rB c.26.1.1 31573