# 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 6.60e-02 3seb b.40.2.2,d.15.6.1 59140,59141 1wspA 84 2.54e-01 2rslA 140 3.72e-01 2rslA c.53.1.1 33345 1m93A 55 5.26e-01 e.1.1.1 91235 1d2oA 187 5.32e-01 1d2oA b.3.5.1,b.3.5.1 22625,22626 1wrjA 156 5.62e-01 2b7eA 59 7.12e-01 1m4jA 142 7.80e-01 d.109.1.2 78602 1iz5A 249 8.12e-01 d.131.1.2,d.131.1.2 83834,83835 1xwvA 129 9.05e-01 1sqsA 242 1.02e+00 c.23.5.5 98968 1qhlA 227 1.04e+00 1qhlA c.37.1.12 32382 1svpA 161 1.18e+00 1svpA b.47.1.3 26384 1ma3A 253 1.46e+00 c.31.1.5 78883 2fclA 169 1.63e+00 1e9rA 437 1.66e+00 c.37.1.11 64827 2gfgA 193 1.77e+00 1repC 251 1.86e+00 1repC a.4.5.10,a.4.5.10 16125,16126 1c52 131 1.90e+00 1c52 a.3.1.1 15810 1wmqA 147 2.10e+00 1bby 69 2.22e+00 2bby a.4.5.15 16149 1wpuA 147 2.53e+00 1k38A 254 2.53e+00 e.3.1.1 84303 2gw6A 123 2.61e+00 2cxcA 144 2.62e+00 2flsA 132 2.69e+00 1aisA 182 2.83e+00 1ytbA d.129.1.1,d.129.1.1 41288,41289 2afbA 351 2.92e+00 2bg5A 324 2.93e+00 1xewY 172 3.29e+00 1kqpA 271 3.49e+00 c.26.2.1 72883 1u3wA 374 3.72e+00 1n8kA 374 3.83e+00 b.35.1.2,c.2.1.1 80298,80299 1ri6A 343 3.96e+00 b.69.11.1 97503 2etxA 209 4.07e+00 1vkuA 100 4.21e+00 a.28.1.1 108690 2amhA 207 4.39e+00 1ydmA 187 4.49e+00 1vqoI 162 4.54e+00 5nul 138 4.56e+00 5nul c.23.5.1 31191 1sr4B 261 4.64e+00 d.151.1.1 105949 1vr8A 142 4.86e+00 1dkuA 317 4.86e+00 1dkuA c.61.1.2,c.61.1.2 34118,34119 2gh1A 301 5.45e+00 1g291 372 5.62e+00 1g291 1hqz1 141 5.77e+00 1h72C 296 5.96e+00 d.14.1.5,d.58.26.1 60712,60713 1bia 321 6.27e+00 1bia a.4.5.1,b.34.1.1,d.104.1.2 16083,24447,40787 2czrA 226 6.28e+00 1tiqA 180 6.42e+00 d.108.1.1 107010 1exg 110 6.46e+00 1exg b.2.2.1 22387 1b25A 619 7.00e+00 1b25A a.110.1.1,d.152.1.1 19044,41796 1qg8A 255 7.11e+00 1qg8A c.68.1.1 34505 2g6tA 306 7.17e+00 1bn8A 420 7.61e+00 1pcl b.80.1.1 28022 1ft5A 211 7.77e+00 1bvb a.138.1.3 19681 1vjpA 394 7.93e+00 c.2.1.3,d.81.1.3 100828,100829 1fhgA 154 8.18e+00 1tlk b.1.1.4 21706 1sek 378 8.46e+00 1sek e.1.1.1 42675 1tf1A 198 9.05e+00 d.110.2.2 106826 1t0hA 132 9.11e+00 b.34.2.1 106207 1ca1 370 9.21e+00 1ca1 a.124.1.1,b.12.1.3 19340,23648 1r6jA 82 9.43e+00 b.36.1.1 97151 1wqaA 455 9.67e+00 1i8fA 81 9.70e+00 1i8fA b.38.1.1 61959 1quqB 121 9.98e+00 1quqB b.40.4.3 25305 1xn5A 146 1.03e+01 1ll2A 333 1.03e+01 c.68.1.14 74005 1q68A 38 1.07e+01 j.48.1.1 95962 2fh7A 595 1.09e+01 1o6dA 163 1.11e+01 c.116.1.3 92567 1q8fA 313 1.13e+01 c.70.1.1 96203 2culA 232 1.15e+01 1cby 259 1.18e+01 1cby d.103.1.1 40705 1rsy 152 1.18e+01 1rsy b.7.1.2 23192 1w94A 156 1.20e+01 1o98A 511 1.26e+01 c.105.1.1,c.76.1.3 86684,86685 1qi9A 556 1.29e+01 1qhbA a.111.1.2 19053 1m07A 111 1.31e+01 d.5.1.1 78328 1pvtA 238 1.38e+01 c.74.1.1 95189 1j31A 262 1.42e+01 d.160.1.2 90808 1vp2A 208 1.43e+01 1b56 135 1.45e+01 1hmt b.60.1.2 27183 1no5A 114 1.45e+01 d.218.1.5 92014 1nf3C 128 1.45e+01 b.36.1.1 85596 1wwhA 119 1.49e+01 1pp0A 199 1.51e+01 d.103.1.1 104211 1ois 223 1.54e+01 1a36A e.15.1.1 43267 1mixA 206 1.54e+01 a.11.2.1,b.55.1.5 79166,79167 2gmqA 118 1.55e+01 1zpvA 91 1.56e+01 1s9rA 410 1.58e+01 d.126.1.4 98758 2trcP 217 1.64e+01 1b9yC c.47.1.6 33051 1gxqA 106 1.65e+01 a.4.6.1 70721 1wmhA 89 1.65e+01 1y96A 86 1.69e+01 1opd 85 1.70e+01 1ptf d.94.1.1 40560 1y96B 85 1.70e+01 2g9iA 249 1.71e+01 1s0pA 176 1.72e+01 a.192.1.1 98300 1dj7B 75 1.74e+01 1dj7B b.34.4.3 24598 1a99A 344 1.77e+01 1pot c.94.1.1 35812 1h09A 338 1.81e+01 b.109.1.1,c.1.8.8 83420,83421 1vhqA 232 1.84e+01 c.23.16.2 100696 1vbvA 105 1.88e+01 1idk 359 1.92e+01 1qcxA b.80.1.2 28025 1yllA 200 1.95e+01 1ri5A 298 1.95e+01 c.66.1.34 97502 1qopB 396 1.97e+01 2tysB c.79.1.1 35270 1i6lA 328 2.05e+01 c.26.1.1 66041 1v0lA 313 2.05e+01 c.1.8.3 108207 2d4rA 147 2.05e+01 1xyiA 66 2.05e+01 1wcdJ 441 2.09e+01 2fgtA 417 2.10e+01 1j5xA 342 2.10e+01 c.80.1.1 71591 1wlyA 333 2.19e+01 1kshA 186 2.23e+01 c.37.1.8 72914 1vcvA 226 2.27e+01 1qavA 90 2.30e+01 1qauA b.36.1.1 24777 1x74A 360 2.30e+01 1epwA 1290 2.34e+01 b.29.1.6,b.42.4.2,d.92.1.7,h.4.2.1 24269,25614,40305,45785 1k9uA 78 2.37e+01 a.39.1.10 84348 1zthA 258 2.37e+01 1cjxA 357 2.37e+01 1cjxA d.32.1.3,d.32.1.3 38516,38517 1uwzA 136 2.38e+01 c.97.1.1 108081 1vqoL 165 2.39e+01 1wlzA 105 2.39e+01 1s55A 156 2.40e+01 1oj4A 283 2.44e+01 d.14.1.5,d.58.26.5 93083,93084 1lj5A 379 2.46e+01 e.1.1.1 73928 1jfbA 404 2.48e+01 a.104.1.1 66624 1vr7A 142 2.49e+01 1wkqA 164 2.60e+01 c.97.1.2 109393 1qveA 126 2.66e+01 d.24.1.1 104594 1m12A 84 2.74e+01 a.64.1.1 84745 2ftbA 125 2.76e+01 1xdpA 687 2.77e+01 1xklA 273 2.77e+01 1q3lA 69 2.79e+01 1cf7B 95 2.86e+01 1cf7B a.4.5.17 16152 1wy6A 172 2.92e+01 1kqwA 134 2.92e+01 b.60.1.2 72887 1debA 54 2.93e+01 1debA h.1.18.1 45660 2bgiA 272 2.96e+01 1k0hA 117 3.01e+01 b.106.1.2 71975 1rwzA 245 3.01e+01 d.131.1.2,d.131.1.2 98005,98006 1bdfA 235 3.02e+01 1bdfA d.74.3.1,d.181.1.1 39727,42602 2dfkA 402 3.02e+01 2c0nA 203 3.02e+01 1wnyA 186 3.06e+01 1ukuA 102 3.07e+01 d.58.5.2 99533 2bpa1 426 3.08e+01 2bpa1 1i2sA 282 3.10e+01 e.3.1.1 71104 1o1zA 234 3.14e+01 c.1.18.3 86555 1ew4A 106 3.14e+01 1ew4A d.82.2.1 40023 1udzA 182 3.17e+01 b.51.1.1 99239 8rucI 123 3.19e+01 1rboC d.73.1.1 39629 1guiA 155 3.22e+01 b.18.1.14 76351 1rh9A 373 3.23e+01 1gs5A 258 3.26e+01 c.73.1.2 70395 1zp4A 304 3.27e+01 1vphA 149 3.29e+01 1oj8A 105 3.35e+01 d.5.1.1 103975 1w2yA 229 3.39e+01 a.204.1.1 109140 2a15A 139 3.40e+01 1bg6 359 3.46e+01 1bg6 a.100.1.5,c.2.1.6 18810,30214 1i5pA 633 3.49e+01 1i5pA b.18.1.3,b.77.2.1,f.1.3.1 61817,61818,61819 1kjwA 295 3.53e+01 b.34.2.1,c.37.1.1 68643,68644 2cq2A 114 3.55e+01 1oygA 447 3.55e+01 b.67.2.2 93726 2aefA 234 3.57e+01 1qzgA 187 3.60e+01 b.40.4.3 96643 1g7nA 131 3.62e+01 b.60.1.2 83274 2ajuL 216 3.63e+01 1t0aA 159 3.68e+01 1njhA 119 3.70e+01 b.128.1.1 85787 1mdc 133 3.73e+01 1hmt b.60.1.2 27198 1z06A 189 3.78e+01 1tdzA 272 3.79e+01 a.156.1.2,b.113.1.1,g.39.1.8 106787,106788,106789 1ksiA 642 3.80e+01 1ksiB b.30.2.1,d.17.2.1,d.17.2.1 24408,38043,38044 1gw5S 142 3.84e+01 d.110.4.2 70633 1nrlA 316 3.85e+01 a.123.1.1 92091 2g64A 140 3.90e+01 1xcbA 211 3.92e+01 a.4.5.38,c.2.1.12 109552,109553 1un3A 123 3.98e+01 d.5.1.1 99646 2b2aA 199 4.00e+01 1fg7A 356 4.01e+01 1gewA c.67.1.1 59819 1ex0A 731 4.01e+01 b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 90465,90466,90467,90468 1ytvA 366 4.02e+01 1a8q 274 4.04e+01 1brt c.69.1.12 34702 1iy8A 267 4.07e+01 c.2.1.2 83774 2ez6A 221 4.10e+01 1wouA 123 4.10e+01 c.47.1.16 109471 1vrmA 325 4.12e+01 1regX 122 4.25e+01 1regX d.58.27.1 39406 1pmi 440 4.25e+01 1pmi b.82.1.3 28114 1x8dA 104 4.27e+01 2bv2A 83 4.28e+01 1gca 309 4.31e+01 1gca c.93.1.1 35659 1vl4A 447 4.34e+01 d.283.1.1 108718 1nijA 318 4.35e+01 c.37.1.10,d.237.1.1 85741,85742 1ggzA 148 4.37e+01 a.39.1.5 70176 1s29A 92 4.40e+01 a.4.5.46 98373 1edg 380 4.42e+01 1edg c.1.8.3 28807 1wr8A 231 4.42e+01 2c9qA 102 4.42e+01 2d9rA 104 4.48e+01 1yiyA 429 4.50e+01 1vmeA 410 4.50e+01 c.23.5.1,d.157.1.3 108893,108894 1u9yA 284 4.52e+01 1d4tA 104 4.55e+01 1d4tA d.93.1.1 40537 1ze3C 205 4.58e+01 1wmhB 86 4.59e+01 1p4xA 250 4.62e+01 a.4.5.28,a.4.5.28 87784,87785 1f0lA 535 4.66e+01 1ddt b.2.1.1,d.166.1.1,f.1.2.1 22377,42239,43382 2a1fA 247 4.66e+01 1c7gA 456 4.66e+01 c.67.1.2 90415 1fr3A 67 4.66e+01 1fr3A b.40.6.1 25436 8dfr 189 4.68e+01 1aoeA c.71.1.1 34895 2awpA 198 4.74e+01 1x38A 602 4.74e+01 1u00A 227 4.76e+01 1uc7A 125 4.80e+01 c.47.1.1 99163 1th7A 81 4.80e+01 1in0A 163 4.82e+01 d.58.49.1,d.58.49.1 83694,83695 2bwfA 77 4.84e+01 1ys4A 354 4.88e+01 1k6kA 143 4.95e+01 a.174.1.1 77274 1o58A 303 5.04e+01 c.79.1.1 92491 2fnuA 375 5.08e+01 1a53 247 5.10e+01 1a53 c.1.2.4 28564 2cu3A 64 5.12e+01 1i8dA 213 5.23e+01 b.43.4.3,b.43.4.3 61953,61954 1sznA 417 5.23e+01 b.71.1.1,c.1.8.1 106162,106163 1j1vA 94 5.23e+01 a.4.12.2 83981 1u46A 291 5.39e+01 d.144.1.7 107656 1sheA 103 5.40e+01 d.274.1.1 105551 1yoaA 159 5.42e+01 1wl8A 189 5.44e+01 1uldA 150 5.44e+01 b.29.1.3 99545 2bwbA 46 5.48e+01 1h5wA 309 5.52e+01 e.27.1.1 65635 1toaA 313 5.55e+01 1toaA c.92.2.2 35598 1ckeA 227 5.55e+01 1ckeA c.37.1.1 31846 1uheA 97 5.55e+01 1c7qA 445 5.55e+01 2pgi c.80.1.2 35307 1thqA 170 5.57e+01 f.4.1.2 106920 1rx0A 393 5.60e+01 a.29.3.1,e.6.1.1 98007,98008 1vyfA 135 5.67e+01 b.60.1.2 108902 1g0sA 209 5.80e+01 1g0sA d.113.1.1 60187 2fug1 438 5.86e+01 2bmaA 470 5.89e+01 1wyxA 69 5.89e+01 1ockA 412 5.91e+01 c.117.1.1 86802 2cwkA 160 5.97e+01 1cfr 285 6.06e+01 1cfr c.52.1.7 33312 1je0A 236 6.13e+01 c.56.2.1 66581 1pwaA 162 6.14e+01 b.42.1.1 95211 1qqp1 213 6.15e+01 1qqp1 1z94A 147 6.19e+01 1b65A 375 6.20e+01 1b65A d.154.1.1 42020 1v95A 130 6.21e+01 c.51.1.1 108435 1e1hB 174 6.23e+01 2cwsA 237 6.26e+01 2awkA 228 6.26e+01 1r6lA 239 6.28e+01 d.14.1.4,d.101.1.1 97153,97154 1l6xA 207 6.28e+01 b.1.1.2,b.1.1.2 73642,73643 2brcA 214 6.28e+01 1f3uA 118 6.30e+01 1f3uA b.65.1.1 27521 1vicA 262 6.31e+01 c.68.1.13 100756 1tt8A 164 6.34e+01 1fvgA 199 6.35e+01 1fvaA d.58.28.1 39408 1xtoA 311 6.37e+01 1shyB 551 6.42e+01 b.69.12.1,g.16.2.1 105565,105566 1w9hA 427 6.43e+01 2ghpA 292 6.52e+01 1nq6A 302 6.55e+01 c.1.8.3 92046 1iuqA 367 6.55e+01 c.112.1.1 90703 1fl2A 310 6.55e+01 1hyuA c.3.1.5,c.3.1.5 59869,59870 1mo9A 523 6.56e+01 c.3.1.5,c.3.1.5,d.87.1.1 79341,79342,79343 2fk4A 75 6.57e+01 1ngzA 213 6.58e+01 b.1.1.1,b.1.1.2 80500,80501 2gkeA 274 6.59e+01 2g0dA 409 6.60e+01 1wq8A 110 6.61e+01 1qlwA 328 6.65e+01 1qlwA c.69.1.15 34722 7a3hA 303 6.66e+01 7a3hA c.1.8.3 28817 2d1pA 140 6.74e+01 1x67A 146 6.75e+01 2cxaA 256 6.77e+01 1anf 370 6.78e+01 4mbp c.94.1.1 35776 2as9A 210 6.80e+01 1zh5A 195 6.83e+01 1h7zA 194 6.87e+01 1qhvA b.21.1.1 60733 1kwiA 101 6.90e+01 d.17.1.3 77564 1szoA 257 6.93e+01 c.14.1.3 106164 1b43A 340 6.94e+01 1a76 a.60.7.1,c.120.1.2 18092,33362 1frrA 95 6.99e+01 1awd d.15.4.1 37674 1r64A 481 7.03e+01 b.18.1.20,c.41.1.1 97140,97141 1ve0A 134 7.04e+01 1h6lA 353 7.06e+01 b.68.3.1 60687 1efdN 266 7.07e+01 1efdN c.92.2.1 35597 2bswA 146 7.09e+01 1ptf 88 7.12e+01 1ptf d.94.1.1 40549 1g6gA 127 7.12e+01 1g6gA b.26.1.2 23916 1yizA 429 7.18e+01 1ljoA 77 7.19e+01 b.38.1.1 73941 2cklB 165 7.22e+01 1vetA 124 7.28e+01 d.110.7.1 108553 1jy5A 212 7.30e+01 d.124.1.1 71940 1ars 396 7.31e+01 1ajsA c.67.1.1 34287 1kkhA 317 7.32e+01 d.14.1.5,d.58.26.3 72645,72646 1r5tA 142 7.32e+01 c.97.1.1 104812 2gnxA 365 7.33e+01 1vddA 228 7.35e+01 e.49.1.1 108519 1ukkA 142 7.37e+01 d.227.1.1 99491 1c9oA 66 7.39e+01 1mjc b.40.4.5 25325 1wxiA 275 7.39e+01 1n7eA 97 7.40e+01 b.36.1.1 91691 1o0yA 260 7.40e+01 c.1.10.1 80756 1l1sA 113 7.41e+01 c.114.1.1 73484 2c7hA 86 7.41e+01 1wywA 230 7.42e+01 1qx4A 274 7.59e+01 b.43.4.2,c.25.1.1 104624,104625 1sn4A 64 7.60e+01 1aho g.3.7.1 44136 1exrA 148 7.61e+01 1cll a.39.1.5 17299 2hvm 273 7.64e+01 1cnv c.1.8.5 28985 1ej6D 418 7.70e+01 i.7.1.1 45970 1z5sD 83 7.70e+01 1i58A 189 7.73e+01 1b3qA d.122.1.3 61773 1n8jA 186 7.82e+01 c.47.1.10 85401 1ve6A 582 7.85e+01 1woqA 267 8.02e+01 c.55.1.10,c.55.1.10 109462,109463 2akoA 251 8.02e+01 1dgfA 497 8.07e+01 1cf9A e.5.1.1 42782 1mk0A 97 8.07e+01 d.226.1.1 79216 1pb7A 292 8.09e+01 c.94.1.1 88025 1v93A 296 8.17e+01 c.1.23.1 100532 1g5tA 196 8.17e+01 1g5rA c.37.1.11 32366 1iwmA 186 8.20e+01 b.125.1.2 83758 1yhpA 212 8.23e+01 1lb6A 160 8.24e+01 b.8.1.1 73798 1kk8B 139 8.25e+01 a.39.1.5 77430 1my6A 199 8.28e+01 a.2.11.1,d.44.1.1 85232,85233 1n93X 375 8.29e+01 a.206.1.1 91707 1n71A 180 8.32e+01 d.108.1.1 85370 1w0dA 337 8.36e+01 1ooyA 481 8.37e+01 c.124.1.3,c.124.1.2 93388,93389 1ok7A 366 8.40e+01 d.131.1.1,d.131.1.1,d.131.1.1 103992,103993,103994 1hdoA 206 8.45e+01 1he2A c.2.1.2 60965 1uxzA 131 8.47e+01 b.18.1.10 100170 1juvA 193 8.52e+01 c.71.1.1 90912 1pyfA 312 8.55e+01 c.1.7.1 95334 1st9A 143 8.60e+01 c.47.1.10 98987 1ukfA 188 8.60e+01 d.3.1.10 99488 1bouA 139 8.63e+01 1bouA a.88.1.1 18521 1ybiA 288 8.63e+01 1oruA 195 8.65e+01 b.58.1.2 93464 1cr5A 189 8.65e+01 1cr5A b.52.2.3,d.31.1.1 26931,38465 1ehiA 377 8.71e+01 1iow c.30.1.2,d.142.1.1 31716,41484 2bneA 241 8.71e+01 1xreA 217 8.75e+01 1s14A 194 8.79e+01 d.122.1.2 98329 1vckA 115 8.81e+01 1e4mM 501 8.90e+01 1e70M c.1.8.4 59226 1cojA 212 8.93e+01 1avmA a.2.11.1,d.44.1.1 15737,38734 1i1qB 192 8.93e+01 1qdlB c.23.16.1 61544 2ga9D 469 8.97e+01