# 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 3.53e-01 3seb b.40.2.2,d.15.6.1 25146,37735 1zynA 202 3.70e-01 1hyuA 521 5.53e-01 1hyuA c.3.1.5,c.3.1.5,c.47.1.2,c.47.1.2 30547,30548,32779,32780 1dyqA 234 9.09e-01 3seb b.40.2.2,d.15.6.1 59140,59141 2rslA 140 9.64e-01 2rslA c.53.1.1 33345 1gdtA 183 1.69e+00 2rslA a.4.1.2,c.53.1.1 16021,33348 1ghtA 105 2.76e+00 2rslA c.53.1.1 60526 1sqsA 242 3.53e+00 c.23.5.5 98968 2fclA 169 3.58e+00 2ewrA 170 3.58e+00 1iz5A 249 3.72e+00 d.131.1.2,d.131.1.2 83834,83835 1agnA 373 4.33e+00 2ohxA b.35.1.2,c.2.1.1 24737,29753 1ge8A 249 5.15e+00 1plq d.131.1.2,d.131.1.2 41398,41399 1repC 251 6.21e+00 1repC a.4.5.10,a.4.5.10 16125,16126 2afbA 351 6.31e+00 1j5vA 351 6.46e+00 c.72.1.1 71585 1m93A 55 7.90e+00 e.1.1.1 91235 1a0rP 245 9.34e+00 1b9yC c.47.1.6 33054 2ifeA 100 1.15e+01 1tig d.68.1.1 39567 5gcnA 166 1.22e+01 1yghA d.108.1.1 40807 1xn5A 146 1.26e+01 1evuA 731 1.36e+01 1f13A b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 21883,22175,22176,37113 1qlmA 316 1.39e+01 1qlmA d.147.1.1 41765 1lwjA 441 1.39e+01 b.71.1.1,c.1.8.1 74303,74304 1f13A 731 1.39e+01 1f13A b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 21877,22163,22164,37107 1sr4B 261 1.42e+01 d.151.1.1 105949 1a3wA 500 1.51e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27060,29288,33142 1ex0A 731 1.53e+01 b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 90465,90466,90467,90468 1gguA 731 1.54e+01 1f13A b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 21885,22179,22180,37115 1k38A 254 1.59e+01 e.3.1.1 84303 1qhlA 227 1.65e+01 1qhlA c.37.1.12 32382 1pnsC 206 1.70e+01 i.1.1.1 88170 1ma3A 253 1.73e+01 c.31.1.5 78883 1qrkA 731 1.74e+01 1f13A b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 21889,22187,22188,37119 1o0pA 104 1.76e+01 d.58.7.1 86535 1wspA 84 1.77e+01 1d2oA 187 1.96e+01 1d2oA b.3.5.1,b.3.5.1 22625,22626 1c52 131 2.04e+01 1c52 a.3.1.1 15810 1d2pA 373 2.11e+01 1d2oA b.3.5.1,b.3.5.1,b.3.5.1,b.3.5.1 22629,22630,22631,22632 1bby 69 2.17e+01 2bby a.4.5.15 16149 1od8A 313 2.24e+01 c.1.8.3 86838 1ggtB 731 2.32e+01 1f13A b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 21882,22173,22174,37112 1fieA 731 2.33e+01 1f13A b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 21879,22167,22168,37109 1cx0A 95 2.35e+01 1urnA d.58.7.1 39158 1eceA 358 2.37e+01 1eceA c.1.8.3 28813 1c0dA 358 2.38e+01 1eceA c.1.8.3 28815 1qdlB 195 2.42e+01 1qdlB c.23.16.1 31437 2b33A 140 2.45e+01 1y96B 85 2.46e+01 1vkuA 100 2.46e+01 a.28.1.1 108690 1xhfA 123 2.46e+01 1p8kZ 254 2.50e+01 d.95.2.1,d.95.2.1 94361,94362 1tiqA 180 2.52e+01 d.108.1.1 107010 1tf1A 198 2.59e+01 d.110.2.2 106826 1urnA 97 2.59e+01 1urnA d.58.7.1 39153 1qg8A 255 2.69e+01 1qg8A c.68.1.1 34505 1ur1A 378 2.75e+01 c.1.8.3 99804 2gfgA 193 2.79e+01 1ca1 370 2.81e+01 1ca1 a.124.1.1,b.12.1.3 19340,23648 1ydmA 187 2.87e+01 1m5oC 100 2.90e+01 d.58.7.1 78654 1j5eC 239 2.91e+01 d.52.3.1,d.53.1.1 71544,71545 2wsyB 396 2.98e+01 2tysB c.79.1.1 35288 1vqoI 162 3.02e+01 2bg5A 324 3.02e+01 2bby 69 3.03e+01 2bby a.4.5.15 16148 1ycyA 71 3.06e+01 2pil 159 3.10e+01 2pil d.24.1.1 38376 1ay2 159 3.16e+01 2pil d.24.1.1 38377 2g6tA 306 3.17e+01 1v0lA 313 3.21e+01 c.1.8.3 108207 1e0wA 313 3.21e+01 1taxA c.1.8.3 59150 1exg 110 3.30e+01 1exg b.2.2.1 22387 1fht 116 3.45e+01 1urnA d.58.7.1 39157 1xyfA 436 3.45e+01 1taxA b.42.2.1,c.1.8.3 25577,28909 1xttA 216 3.61e+01 2gw6A 123 3.62e+01 1zp4A 304 3.63e+01 1vddA 228 3.68e+01 e.49.1.1 108519 1rwzA 245 3.68e+01 d.131.1.2,d.131.1.2 98005,98006 2tysB 397 3.71e+01 2tysB c.79.1.1 35272 1aogA 485 3.71e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30517,30518,40190 1x8dA 104 3.76e+01 1xewY 172 3.78e+01 1a50B 396 3.80e+01 2tysB c.79.1.1 35280 1bksB 397 3.85e+01 2tysB c.79.1.1 35285 1o58A 303 3.88e+01 c.79.1.1 92491 1hqz9 141 3.89e+01 1k8yB 396 3.95e+01 c.79.1.1 72184 1tluA 130 3.95e+01 d.156.1.2 107139 1xfcA 384 4.12e+01 1b25A 619 4.15e+01 1b25A a.110.1.1,d.152.1.1 19044,41796 1audA 101 4.21e+01 1urnA d.58.7.1 39156 1hqz1 141 4.22e+01 1ee2A 373 4.26e+01 2ohxA b.35.1.2,c.2.1.1 24663,29679 1hfbA 370 4.32e+01 c.1.10.4 76706 1of8A 370 4.34e+01 c.1.10.4 92819 1jfbA 404 4.35e+01 a.104.1.1 66624 1nijA 318 4.35e+01 c.37.1.10,d.237.1.1 85741,85742 1tlk 154 4.38e+01 1tlk b.1.1.4 21707 1f24A 402 4.38e+01 1rom a.104.1.1 18953 1vr7A 142 4.47e+01 1e9rA 437 4.56e+01 c.37.1.11 64827 1fhgA 154 4.62e+01 1tlk b.1.1.4 21706 1e0tA 470 4.72e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27064,29292,33146 1b5tA 275 4.75e+01 1b5tA c.1.23.1 29676 1focA 132 4.80e+01 1c52 a.3.1.1 15812 1a99A 344 4.81e+01 1pot c.94.1.1 35812 1h72C 296 4.91e+01 d.14.1.5,d.58.26.1 60712,60713 1larA 575 4.97e+01 1larA c.45.1.2,c.45.1.2 32693,32694 2fh7A 595 5.12e+01 1fl2A 310 5.14e+01 1hyuA c.3.1.5,c.3.1.5 59869,59870 1szoA 257 5.15e+01 c.14.1.3 106164 1o8uA 257 5.16e+01 c.14.1.3 81194 1ryjA 70 5.21e+01 d.15.3.2 98104 1bia 321 5.23e+01 1bia a.4.5.1,b.34.1.1,d.104.1.2 16083,24447,40787 1bib 321 5.24e+01 1bia a.4.5.1,b.34.1.1,d.104.1.2 16084,24448,40788 1kfiA 572 5.33e+01 c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 68555,68556,68557,68558 1yiyA 429 5.36e+01 8adh 374 5.46e+01 2ohxA b.35.1.2,c.2.1.1 24690,29706 1heuA 374 5.47e+01 2ohxA b.35.1.2,c.2.1.1 60979,60980 1n8kA 374 5.50e+01 b.35.1.2,c.2.1.1 80298,80299 1hetA 374 5.55e+01 2ohxA b.35.1.2,c.2.1.1 60975,60976 1a71A 374 5.56e+01 2ohxA b.35.1.2,c.2.1.1 24673,29689 1axgA 374 5.61e+01 2ohxA b.35.1.2,c.2.1.1 24691,29707 1axeA 374 5.66e+01 2ohxA b.35.1.2,c.2.1.1 24681,29697 2ohxA 374 5.68e+01 2ohxA b.35.1.2,c.2.1.1 24669,29685 2cxcA 144 5.73e+01 2adoA 196 5.83e+01 1fwkA 296 5.88e+01 1fwkA d.14.1.5,d.58.26.1 37576,39398 1qopB 396 5.92e+01 2tysB c.79.1.1 35270 2achA 360 6.00e+01 1c8oA e.1.1.1 42626 1no5A 114 6.08e+01 d.218.1.5 92014 2b7eA 59 6.19e+01 1igs 248 6.23e+01 1a53 c.1.2.4 28565 1juk 248 6.42e+01 1a53 c.1.2.4 28567 1a3h 300 6.46e+01 7a3hA c.1.8.3 28819 7a3hA 303 6.48e+01 7a3hA c.1.8.3 28817 1u2xA 474 6.50e+01 c.72.1.3 107622 2etxA 209 6.53e+01 1xwvA 129 6.61e+01 2g9iA 249 6.64e+01 1vbvA 105 6.72e+01 1h09A 338 6.72e+01 b.109.1.1,c.1.8.8 83420,83421 4uagA 437 6.74e+01 4uagA c.5.1.1,c.59.1.1,c.72.2.1 30651,33952,34955 1gm6A 175 6.74e+01 b.60.1.1 70272 5nul 138 6.82e+01 5nul c.23.5.1 31191 1c7sA 858 6.83e+01 1qba b.1.18.2,b.2.2.3,c.1.8.6,d.92.2.1 21812,22408,29011,40410 1qba 858 6.85e+01 1qba b.1.18.2,b.2.2.3,c.1.8.6,d.92.2.1 21810,22406,29009,40408 2fvx 138 6.88e+01 5nul c.23.5.1 31200 1b0zA 445 6.92e+01 2pgi c.80.1.2 35309 2pgi 445 6.92e+01 2pgi c.80.1.2 35308 1f8nA 839 6.93e+01 1yge a.119.1.1,b.12.1.1 59703,59704 1p9rA 418 7.06e+01 c.37.1.11 94399 1rboC 123 7.08e+01 1rboC d.73.1.1 39634 8rucI 123 7.08e+01 1rboC d.73.1.1 39629 2ab5A 269 7.20e+01 1njhA 119 7.22e+01 b.128.1.1 85787 1pp0A 199 7.22e+01 d.103.1.1 104211 1i6lA 328 7.24e+01 c.26.1.1 66041 1o57A 291 7.33e+01 a.4.5.40,c.61.1.1 92483,92484 1i6kA 328 7.33e+01 c.26.1.1 66040 1uag 437 7.34e+01 4uagA c.5.1.1,c.59.1.1,c.72.2.1 30653,33954,34957 1cby 259 7.36e+01 1cby d.103.1.1 40705 1tw0A 157 7.36e+01 1yizA 429 7.39e+01 1id0A 152 7.39e+01 d.122.1.3 66111 1mo9A 523 7.42e+01 c.3.1.5,c.3.1.5,d.87.1.1 79341,79342,79343 2flsA 132 7.53e+01 2amhA 207 7.53e+01 1d2rA 326 7.55e+01 1d2rB c.26.1.1 31572 1d2rB 326 7.55e+01 1d2rB c.26.1.1 31573 1h5vA 304 7.58e+01 c.1.8.3 70898 3nll 138 7.59e+01 5nul c.23.5.1 31206 1ygs 234 7.59e+01 1ygs b.26.1.1 23907 1cf7A 76 7.60e+01 1cf7B a.4.5.17 16151 1c7nA 399 7.60e+01 1d2fA c.67.1.3 34413 1k7kA 221 7.75e+01 c.51.4.1 72104 2alzA 390 7.78e+01 1a53 247 7.81e+01 1a53 c.1.2.4 28564 1nu4A 97 7.86e+01 d.58.7.1 80731 1c7qA 445 7.88e+01 2pgi c.80.1.2 35307 1ri7A 171 7.96e+01 a.4.5.32,d.58.4.2 97504,97505 1ri5A 298 7.96e+01 c.66.1.34 97502 1m07A 111 8.12e+01 d.5.1.1 78328 2g50A 530 8.15e+01 1bc4 111 8.22e+01 1onc d.5.1.1 37279 1ih8A 271 8.29e+01 2nsyA c.26.2.1 62377 1fjgC 239 8.33e+01 1fjfC d.52.3.1,d.53.1.1 38831,38839 2nsyA 271 8.35e+01 2nsyA c.26.2.1 31612 1kqpA 271 8.37e+01 c.26.2.1 72883 1pnsB 234 8.39e+01 i.1.1.1 88169 1nsyA 271 8.41e+01 2nsyA c.26.2.1 31614 1u3wA 374 8.45e+01 1ockA 412 8.74e+01 c.117.1.1 86802 1j5eB 256 8.81e+01 c.23.15.1 71543 1gh6A 114 8.85e+01 a.2.3.1 65191 1wmhB 86 8.86e+01 1bn8A 420 8.90e+01 1pcl b.80.1.1 28022 1mixA 206 8.95e+01 a.11.2.1,b.55.1.5 79166,79167