# List of top-scoring protein chains for t06-100-30-o_notor2-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 1dyqA 234 5.10e-02 3seb b.40.2.2,d.15.6.1 59140,59141 1wspA 84 2.49e-01 2rslA 140 3.47e-01 2rslA c.53.1.1 33345 1d2oA 187 4.59e-01 1d2oA b.3.5.1,b.3.5.1 22625,22626 1xwvA 129 5.61e-01 1m93A 55 5.80e-01 e.1.1.1 91235 1wrjA 156 5.81e-01 1iz5A 249 7.27e-01 d.131.1.2,d.131.1.2 83834,83835 2b7eA 59 7.33e-01 1qhlA 227 1.07e+00 1qhlA c.37.1.12 32382 1sqsA 242 1.15e+00 c.23.5.5 98968 2fclA 169 1.25e+00 1ma3A 253 1.26e+00 c.31.1.5 78883 2flsA 132 1.97e+00 1repC 251 2.00e+00 1repC a.4.5.10,a.4.5.10 16125,16126 2gfgA 193 2.04e+00 1c52 131 2.19e+00 1c52 a.3.1.1 15810 2cxcA 144 2.20e+00 1bby 69 2.21e+00 2bby a.4.5.15 16149 1svpA 161 2.24e+00 1svpA b.47.1.3 26384 1m4jA 142 2.44e+00 d.109.1.2 78602 1ri6A 343 2.51e+00 b.69.11.1 97503 1e9rA 437 2.62e+00 c.37.1.11 64827 2afbA 351 2.67e+00 1wmqA 147 2.71e+00 1k38A 254 2.76e+00 e.3.1.1 84303 2bg5A 324 2.93e+00 2gw6A 123 3.15e+00 1vr8A 142 3.36e+00 1wpuA 147 3.47e+00 1aisA 182 3.53e+00 1ytbA d.129.1.1,d.129.1.1 41288,41289 1xewY 172 3.56e+00 1u3wA 374 3.73e+00 1kqpA 271 3.74e+00 c.26.2.1 72883 1n8kA 374 3.85e+00 b.35.1.2,c.2.1.1 80298,80299 1vqoI 162 3.93e+00 2etxA 209 4.22e+00 1sr4B 261 4.25e+00 d.151.1.1 105949 1t0hA 132 4.38e+00 b.34.2.1 106207 1exg 110 4.44e+00 1exg b.2.2.1 22387 1ydmA 187 4.58e+00 5nul 138 5.10e+00 5nul c.23.5.1 31191 1hqz1 141 5.16e+00 1bia 321 5.35e+00 1bia a.4.5.1,b.34.1.1,d.104.1.2 16083,24447,40787 1dkuA 317 5.47e+00 1dkuA c.61.1.2,c.61.1.2 34118,34119 2czrA 226 5.56e+00 2amhA 207 5.64e+00 2gh1A 301 5.70e+00 1vkuA 100 5.75e+00 a.28.1.1 108690 1g291 372 5.85e+00 1g291 1tiqA 180 6.22e+00 d.108.1.1 107010 1quqB 121 6.68e+00 1quqB b.40.4.3 25305 1b25A 619 6.89e+00 1b25A a.110.1.1,d.152.1.1 19044,41796 1fhgA 154 6.93e+00 1tlk b.1.1.4 21706 1xn5A 146 7.00e+00 1m07A 111 7.23e+00 d.5.1.1 78328 2g6tA 306 7.27e+00 1qg8A 255 7.34e+00 1qg8A c.68.1.1 34505 1bn8A 420 7.42e+00 1pcl b.80.1.1 28022 1tf1A 198 7.57e+00 d.110.2.2 106826 1yllA 200 7.85e+00 1pvtA 238 7.95e+00 c.74.1.1 95189 1ca1 370 8.10e+00 1ca1 a.124.1.1,b.12.1.3 19340,23648 1kshA 186 8.36e+00 c.37.1.8 72914 1g7nA 131 8.93e+00 b.60.1.2 83274 1vjpA 394 8.99e+00 c.2.1.3,d.81.1.3 100828,100829 1fl2A 310 9.05e+00 1hyuA c.3.1.5,c.3.1.5 59869,59870 1sek 378 9.20e+00 1sek e.1.1.1 42675 1ft5A 211 9.35e+00 1bvb a.138.1.3 19681 1b56 135 9.39e+00 1hmt b.60.1.2 27183 1o6dA 163 1.02e+01 c.116.1.3 92567 1rsy 152 1.02e+01 1rsy b.7.1.2 23192 1i8fA 81 1.03e+01 1i8fA b.38.1.1 61959 1wqaA 455 1.05e+01 1ll2A 333 1.10e+01 c.68.1.14 74005 2fh7A 595 1.11e+01 2culA 232 1.12e+01 1q68A 38 1.14e+01 j.48.1.1 95962 2fgtA 417 1.14e+01 1q8fA 313 1.15e+01 c.70.1.1 96203 1f0lA 535 1.15e+01 1ddt b.2.1.1,d.166.1.1,f.1.2.1 22377,42239,43382 1h72C 296 1.20e+01 d.14.1.5,d.58.26.1 60712,60713 1w94A 156 1.22e+01 1r6jA 82 1.22e+01 b.36.1.1 97151 1qi9A 556 1.23e+01 1qhbA a.111.1.2 19053 1j31A 262 1.24e+01 d.160.1.2 90808 1cby 259 1.30e+01 1cby d.103.1.1 40705 2d4rA 147 1.31e+01 1oj4A 283 1.31e+01 d.14.1.5,d.58.26.5 93083,93084 1o98A 511 1.33e+01 c.105.1.1,c.76.1.3 86684,86685 1njhA 119 1.36e+01 b.128.1.1 85787 1vhqA 232 1.39e+01 c.23.16.2 100696 1ois 223 1.44e+01 1a36A e.15.1.1 43267 1nf3C 128 1.47e+01 b.36.1.1 85596 1no5A 114 1.51e+01 d.218.1.5 92014 2gmqA 118 1.52e+01 1pp0A 199 1.54e+01 d.103.1.1 104211 1y96A 86 1.58e+01 1mixA 206 1.63e+01 a.11.2.1,b.55.1.5 79166,79167 1zthA 258 1.65e+01 1zpvA 91 1.66e+01 1xyiA 66 1.66e+01 1i6lA 328 1.66e+01 c.26.1.1 66041 1gxqA 106 1.70e+01 a.4.6.1 70721 2g9iA 249 1.71e+01 1vp2A 208 1.73e+01 1x8dA 104 1.74e+01 1wmhA 89 1.74e+01 1a99A 344 1.76e+01 1pot c.94.1.1 35812 1opd 85 1.77e+01 1ptf d.94.1.1 40560 1vbvA 105 1.79e+01 1wwhA 119 1.80e+01 1ex0A 731 1.85e+01 b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 90465,90466,90467,90468 1s0pA 176 1.94e+01 a.192.1.1 98300 2trcP 217 1.96e+01 1b9yC c.47.1.6 33051 1epwA 1290 1.98e+01 b.29.1.6,b.42.4.2,d.92.1.7,h.4.2.1 24269,25614,40305,45785 1wcdJ 441 2.00e+01 1xkiA 162 2.00e+01 1rwzA 245 2.04e+01 d.131.1.2,d.131.1.2 98005,98006 1oj8A 105 2.05e+01 d.5.1.1 103975 1dj7B 75 2.07e+01 1dj7B b.34.4.3 24598 1j5xA 342 2.12e+01 c.80.1.1 71591 1ri5A 298 2.13e+01 c.66.1.34 97502 1idk 359 2.17e+01 1qcxA b.80.1.2 28025 1qopB 396 2.19e+01 2tysB c.79.1.1 35270 1xttA 216 2.23e+01 2b2aA 199 2.25e+01 1qavA 90 2.29e+01 1qauA b.36.1.1 24777 1h09A 338 2.32e+01 b.109.1.1,c.1.8.8 83420,83421 1ta8A 332 2.34e+01 1v0lA 313 2.38e+01 c.1.8.3 108207 1u6rA 380 2.40e+01 1ew4A 106 2.45e+01 1ew4A d.82.2.1 40023 1o58A 303 2.45e+01 c.79.1.1 92491 1k9uA 78 2.49e+01 a.39.1.10 84348 1wlzA 105 2.51e+01 2bgiA 272 2.52e+01 1fp1D 372 2.52e+01 1fpqA a.4.5.29,c.66.1.12 59939,59940 1vcvA 226 2.53e+01 1wkqA 164 2.53e+01 c.97.1.2 109393 2bpa1 426 2.53e+01 2bpa1 1jfbA 404 2.54e+01 a.104.1.1 66624 1lj5A 379 2.57e+01 e.1.1.1 73928 1g6gA 127 2.61e+01 1g6gA b.26.1.2 23916 8rucI 123 2.75e+01 1rboC d.73.1.1 39629 2ftbA 125 2.76e+01 1qveA 126 2.83e+01 d.24.1.1 104594 1o1zA 234 2.84e+01 c.1.18.3 86555 1vqoL 165 2.84e+01 1m12A 84 2.85e+01 a.64.1.1 84745 1guiA 155 2.89e+01 b.18.1.14 76351 1x74A 360 2.90e+01 1vr7A 142 2.92e+01 1q3lA 69 2.92e+01 1tyjA 170 2.93e+01 1nijA 318 2.93e+01 c.37.1.10,d.237.1.1 85741,85742 1cjxA 357 3.00e+01 1cjxA d.32.1.3,d.32.1.3 38516,38517 1oygA 447 3.00e+01 b.67.2.2 93726 2cq2A 114 3.03e+01 1b65A 375 3.04e+01 1b65A d.154.1.1 42020 1zp4A 304 3.06e+01 1s55A 156 3.08e+01 1wy6A 172 3.09e+01 1xklA 273 3.13e+01 1cf7B 95 3.15e+01 1cf7B a.4.5.17 16152 2c0nA 203 3.18e+01 1j7xA 302 3.23e+01 c.14.1.2 66425 1wl8A 189 3.24e+01 1fg7A 356 3.25e+01 1gewA c.67.1.1 59819 1s9rA 410 3.26e+01 d.126.1.4 98758 1wlyA 333 3.28e+01 1debA 54 3.28e+01 1debA h.1.18.1 45660 1a53 247 3.29e+01 1a53 c.1.2.4 28564 1vphA 149 3.29e+01 1xdpA 687 3.32e+01 1w9zA 283 3.35e+01 1y96B 85 3.38e+01 1rh9A 373 3.40e+01 1k0hA 117 3.43e+01 b.106.1.2 71975 1i5pA 633 3.45e+01 1i5pA b.18.1.3,b.77.2.1,f.1.3.1 61817,61818,61819 1ukuA 102 3.48e+01 d.58.5.2 99533 1ksiA 642 3.49e+01 1ksiB b.30.2.1,d.17.2.1,d.17.2.1 24408,38043,38044 2dfkA 402 3.53e+01 1i2sA 282 3.54e+01 e.3.1.1 71104 1vr4A 103 3.58e+01 1w2yA 229 3.60e+01 a.204.1.1 109140 2ez6A 221 3.60e+01 1kjwA 295 3.62e+01 b.34.2.1,c.37.1.1 68643,68644 1vrmA 325 3.64e+01 1bdfA 235 3.71e+01 1bdfA d.74.3.1,d.181.1.1 39727,42602 1nrlA 316 3.74e+01 a.123.1.1 92091 2a15A 139 3.77e+01 1rf6A 427 3.77e+01 d.68.2.2 97366 2aefA 234 3.81e+01 2ajuL 216 3.89e+01 1un3A 123 3.90e+01 d.5.1.1 99646 1qzgA 187 3.90e+01 b.40.4.3 96643 1wnyA 186 3.94e+01 1ockA 412 3.95e+01 c.117.1.1 86802 1gs5A 258 3.96e+01 c.73.1.2 70395 1mkmA 249 3.96e+01 a.4.5.33,d.110.2.2 79242,79243 1gw5S 142 3.97e+01 d.110.4.2 70633 1wouA 123 3.97e+01 c.47.1.16 109471 1mdc 133 3.99e+01 1hmt b.60.1.2 27198 1z06A 189 4.00e+01 1tdzA 272 4.01e+01 a.156.1.2,b.113.1.1,g.39.1.8 106787,106788,106789 2c9qA 102 4.03e+01 1shyB 551 4.04e+01 b.69.12.1,g.16.2.1 105565,105566 1a8q 274 4.05e+01 1brt c.69.1.12 34702 2awpA 198 4.10e+01 1ytvA 366 4.13e+01 1mo9A 523 4.15e+01 c.3.1.5,c.3.1.5,d.87.1.1 79341,79342,79343 1udzA 182 4.17e+01 b.51.1.1 99239 1vmeA 410 4.22e+01 c.23.5.1,d.157.1.3 108893,108894 2cwsA 237 4.22e+01 1bg6 359 4.23e+01 1bg6 a.100.1.5,c.2.1.6 18810,30214 1c7sA 858 4.26e+01 1qba b.1.18.2,b.2.2.3,c.1.8.6,d.92.2.1 21812,22408,29011,40410 1edg 380 4.29e+01 1edg c.1.8.3 28807 1iy8A 267 4.31e+01 c.2.1.2 83774 2g64A 140 4.35e+01 2brcA 214 4.35e+01 2g0dA 409 4.36e+01 1uxzA 131 4.37e+01 b.18.1.10 100170 2d9rA 104 4.38e+01 1gca 309 4.38e+01 1gca c.93.1.1 35659 1vl4A 447 4.39e+01 d.283.1.1 108718 1g8lA 411 4.56e+01 1g8lA b.85.6.1,b.103.1.1,c.57.1.2 60365,60366,60367 1wr8A 231 4.60e+01 2bwqA 129 4.62e+01 1s29A 92 4.63e+01 a.4.5.46 98373 1t0aA 159 4.65e+01 1ggzA 148 4.65e+01 a.39.1.5 70176 8dfr 189 4.67e+01 1aoeA c.71.1.1 34895 1pmi 440 4.68e+01 1pmi b.82.1.3 28114 1xcbA 211 4.69e+01 a.4.5.38,c.2.1.12 109552,109553 1kqwA 134 4.71e+01 b.60.1.2 72887 2bwfA 77 4.75e+01 1u9yA 284 4.77e+01 1d4tA 104 4.79e+01 1d4tA d.93.1.1 40537 1regX 122 4.81e+01 1regX d.58.27.1 39406 1fr3A 67 4.88e+01 1fr3A b.40.6.1 25436 1yoaA 159 4.89e+01 2a1fA 247 4.94e+01 1cnv 299 4.99e+01 1cnv c.1.8.5 28989 1rx0A 393 5.01e+01 a.29.3.1,e.6.1.1 98007,98008 1p4xA 250 5.05e+01 a.4.5.28,a.4.5.28 87784,87785 2f4qA 346 5.12e+01 1sheA 103 5.12e+01 d.274.1.1 105551 2bmaA 470 5.12e+01 1l9xA 315 5.14e+01 c.23.16.1 73762 1yiyA 429 5.14e+01 2bbkL 125 5.18e+01 2bbkL g.21.1.1 44882 1x38A 602 5.20e+01 1in0A 163 5.24e+01 d.58.49.1,d.58.49.1 83694,83695 1vetA 124 5.24e+01 d.110.7.1 108553 1wmhB 86 5.27e+01 1e1hB 174 5.32e+01 1uc7A 125 5.34e+01 c.47.1.1 99163 1th7A 81 5.39e+01 7a3hA 303 5.39e+01 7a3hA c.1.8.3 28817 1u00A 227 5.42e+01 1thqA 170 5.43e+01 f.4.1.2 106920 1k6kA 143 5.50e+01 a.174.1.1 77274 1c7gA 456 5.53e+01 c.67.1.2 90415 1h5wA 309 5.61e+01 e.27.1.1 65635 2bv2A 83 5.66e+01 1toaA 313 5.66e+01 1toaA c.92.2.2 35598 1ve6A 582 5.70e+01 1c7qA 445 5.75e+01 2pgi c.80.1.2 35307 1vyfA 135 5.77e+01 b.60.1.2 108902 1j1vA 94 5.77e+01 a.4.12.2 83981 1uwzA 136 5.79e+01 c.97.1.1 108081 2cwkA 160 5.89e+01 1x67A 146 5.91e+01 2awkA 228 5.93e+01 2bwbA 46 5.93e+01 1sznA 417 5.93e+01 b.71.1.1,c.1.8.1 106162,106163 1wyxA 69 5.99e+01 2fnuA 375 6.05e+01 1uldA 150 6.07e+01 b.29.1.3 99545 1r64A 481 6.14e+01 b.18.1.20,c.41.1.1 97140,97141 2gnxA 365 6.15e+01 2fug1 438 6.20e+01 1cfr 285 6.32e+01 1cfr c.52.1.7 33312 1g0sA 209 6.32e+01 1g0sA d.113.1.1 60187 1pwaA 162 6.33e+01 b.42.1.1 95211 1r6lA 239 6.35e+01 d.14.1.4,d.101.1.1 97153,97154 1fvgA 199 6.38e+01 1fvaA d.58.28.1 39408 1r5tA 142 6.38e+01 c.97.1.1 104812 2cxaA 256 6.38e+01 1dxgA 36 6.41e+01 1dxgA g.41.5.2 45247 1nq6A 302 6.47e+01 c.1.8.3 92046 2as9A 210 6.47e+01 2gkeA 274 6.60e+01 1vq3A 94 6.63e+01 1v95A 130 6.64e+01 c.51.1.1 108435 2bz6L 53 6.66e+01 1je0A 236 6.68e+01 c.56.2.1 66581 1l6xA 207 6.75e+01 b.1.1.2,b.1.1.2 73642,73643 2ghpA 292 6.75e+01 1vddA 228 6.87e+01 e.49.1.1 108519 1w9hA 427 6.89e+01 1anf 370 6.96e+01 4mbp c.94.1.1 35776 1z94A 147 6.99e+01 1ljoA 77 7.02e+01 b.38.1.1 73941 1c4rA 182 7.11e+01 1c4rA b.29.1.4 24229 1gd1O 334 7.12e+01 1dssG c.2.1.3,d.81.1.1 29962,39877 1qqp1 213 7.13e+01 1qqp1 1iow 306 7.15e+01 1iow c.30.1.2,d.142.1.1 31713,41481 1h6lA 353 7.16e+01 b.68.3.1 60687 1i8dA 213 7.19e+01 b.43.4.3,b.43.4.3 61953,61954 1vmaA 306 7.22e+01 a.24.13.1,c.37.1.10 108887,108888 1n93X 375 7.22e+01 a.206.1.1 91707 1my6A 199 7.24e+01 a.2.11.1,d.44.1.1 85232,85233 2fk4A 75 7.35e+01 1v04A 355 7.37e+01 b.68.6.2 100240 1efdN 266 7.40e+01 1efdN c.92.2.1 35597 1h7zA 194 7.44e+01 1qhvA b.21.1.1 60733 1tt8A 164 7.45e+01 1yv4A 104 7.45e+01 1z5sD 83 7.47e+01 1iuqA 367 7.49e+01 c.112.1.1 90703 1ngzA 213 7.51e+01 b.1.1.1,b.1.1.2 80500,80501 2g5dA 422 7.52e+01 1evyA 366 7.55e+01 1evyA a.100.1.6,c.2.1.6 18811,30215 1sn4A 64 7.58e+01 1aho g.3.7.1 44136 1xtoA 311 7.62e+01 1zh5A 195 7.63e+01 2cklB 165 7.66e+01 1szoA 257 7.66e+01 c.14.1.3 106164 2d1pA 140 7.73e+01 2bwkA 121 7.81e+01 2hvm 273 7.85e+01 1cnv c.1.8.5 28985 1frrA 95 7.86e+01 1awd d.15.4.1 37674 1ys4A 354 7.87e+01 1l1sA 113 7.90e+01 c.114.1.1 73484 1n8jA 186 7.98e+01 c.47.1.10 85401 1wxiA 275 8.00e+01 2bw0A 329 8.04e+01 1o0yA 260 8.07e+01 c.1.10.1 80756 1kwiA 101 8.08e+01 d.17.1.3 77564 1exrA 148 8.09e+01 1cll a.39.1.5 17299 1yhpA 212 8.10e+01 2bneA 241 8.11e+01 1b43A 340 8.13e+01 1a76 a.60.7.1,c.120.1.2 18092,33362 1wq8A 110 8.21e+01 1woqA 267 8.24e+01 c.55.1.10,c.55.1.10 109462,109463 1ve0A 134 8.27e+01 1jy5A 212 8.27e+01 d.124.1.1 71940 1yloA 348 8.33e+01 1b6g 310 8.34e+01 1b6g c.69.1.8 34661 1oa2A 218 8.34e+01 b.29.1.11 86721 1xszA 356 8.35e+01 1kkhA 317 8.35e+01 d.14.1.5,d.58.26.3 72645,72646 1qx4A 274 8.38e+01 b.43.4.2,c.25.1.1 104624,104625 1cojA 212 8.38e+01 1avmA a.2.11.1,d.44.1.1 15737,38734 1ars 396 8.40e+01 1ajsA c.67.1.1 34287 1yrkA 126 8.43e+01 1iwmA 186 8.44e+01 b.125.1.2 83758 1juvA 193 8.46e+01 c.71.1.1 90912 1hdoA 206 8.50e+01 1he2A c.2.1.2 60965 1pb7A 292 8.64e+01 c.94.1.1 88025 1jfuA 186 8.66e+01 c.47.1.10 62940 1wywA 230 8.66e+01 1ej6D 418 8.66e+01 i.7.1.1 45970 1jjzA 29 8.68e+01 g.3.3.1 71699 1ybiA 288 8.74e+01 1ok7A 366 8.74e+01 d.131.1.1,d.131.1.1,d.131.1.1 103992,103993,103994 1e4mM 501 8.78e+01 1e70M c.1.8.4 59226 1z2uA 150 8.78e+01 2akoA 251 8.83e+01 1z0wA 207 8.87e+01 1st9A 143 8.91e+01 c.47.1.10 98987 1mk0A 97 8.91e+01 d.226.1.1 79216 1n71A 180 8.91e+01 d.108.1.1 85370 2bswA 146 8.93e+01 1v93A 296 9.00e+01 c.1.23.1 100532