# List of top-scoring protein chains for t06-100-30-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 1a3aA 148 9.26e-02 1a3aA d.112.1.1 40917 1j8uA 325 1.44e-01 d.178.1.1 71611 1dk0A 188 2.09e-01 1b2vA d.35.1.1 38530 1cnzA 363 2.31e-01 1cnzA c.77.1.1 35061 1fs1B 141 2.56e-01 1vcbB a.157.1.1,d.42.1.1 19252,38664 1g8kA 825 3.74e-01 1g8jA b.52.2.2,c.81.1.1 26920,35328 1i58A 189 4.34e-01 1b3qA d.122.1.3 61773 1m7yA 435 4.69e-01 c.67.1.4 78761 1i4wA 353 5.44e-01 c.66.1.24 66028 1cy5A 97 6.83e-01 1cy5A a.77.1.3 18430 2bjfA 329 7.85e-01 1nxuA 333 9.39e-01 c.122.1.1 86389 1t4hA 290 9.50e-01 d.144.1.7 106420 1dp3A 55 9.78e-01 1dp3A a.55.1.2 59128 1kwfA 363 1.00e+00 a.102.1.2 73078 1hlvA 131 1.16e+00 a.4.1.7,a.4.1.7 65854,65855 1abv 134 1.42e+00 1abv a.70.1.1 18317 1ctj 89 1.92e+00 1ctj a.3.1.1 15798 1p1mA 406 1.93e+00 b.92.1.4,c.1.9.9 87696,87697 1mgtA 174 2.24e+00 1mgtA a.4.2.1,c.55.7.1 16078,33753 1eljA 381 2.29e+00 4mbp c.94.1.1 35791 1jalA 363 2.40e+00 c.37.1.8,d.15.10.2 84138,84139 1fiqC 763 2.40e+00 1fiqC d.41.1.1,d.133.1.1 38588,41418 1a4pA 96 2.60e+00 1b4cA a.39.1.2 17176 1xqoA 256 2.60e+00 1m65A 245 2.69e+00 c.6.3.1 84847 1i5nA 146 2.84e+00 1i5nA a.24.10.3 61805 1it2A 146 3.24e+00 a.1.1.2 66365 1gcvB 136 3.60e+00 1cg5B a.1.1.2 15589 1h3lA 87 3.63e+00 a.177.1.1 76639 1vljA 407 3.88e+00 e.22.1.2 108832 1j6rA 214 3.93e+00 d.173.1.2 71598 1a7s 221 4.17e+00 1a7s b.47.1.2 26284 1g2nA 264 4.19e+00 1lbd a.123.1.1 60227 1fnnA 389 4.20e+00 1fnnA a.4.5.11,c.37.1.20 16129,32426 1dmhA 311 4.46e+00 1dmhA b.3.6.1 22633 1g6hA 257 4.76e+00 1gajA c.37.1.12 60318 1cxqA 162 4.79e+00 1cxqA c.55.3.2 33621 1h8dH 260 5.00e+00 5ptp 1wmhB 86 5.12e+00 1jmsA 381 5.56e+00 a.60.6.1,a.60.12.1,d.218.1.2 66889,75862,75863 1ockA 412 5.61e+00 c.117.1.1 86802 1pyoB 105 5.62e+00 1j75A 67 5.66e+00 a.4.5.19 62673 1h8eD 482 5.89e+00 1skyE a.69.1.1,b.49.1.1,c.37.1.11 60747,60748,60749 1ng6A 148 6.88e+00 a.182.1.1 85670 1byrA 155 6.92e+00 1byrA d.136.1.1 41450 1fexA 59 6.97e+00 a.4.1.3 59803 1s2wA 295 7.14e+00 c.1.12.7 98407 1i7dA 659 7.26e+00 1d6mA e.10.1.1 61886 1gr0A 367 7.80e+00 c.2.1.3,d.81.1.3 70379,70380 1lqtA 456 8.25e+00 c.3.1.1,c.4.1.1 74198,74199 1ddgA 374 8.74e+00 1amoA b.43.4.1,c.25.1.4 25671,31559 1q0rA 298 9.42e+00 c.69.1.28 95508 1oxjA 173 9.44e+00 a.60.1.2,a.118.1.13 87517,87518 1e3oC 160 1.05e+01 1au7A a.4.1.1,a.35.1.1 59197,59198 1ym3A 215 1.12e+01 1fcyA 236 1.16e+01 2lbd a.123.1.1 19282 1aquA 297 1.16e+01 1aquA c.37.1.5 31942 1u60A 310 1.19e+01 e.3.1.2 107692 1guxB 152 1.21e+01 1guxB a.74.1.3 18389 1qe3A 489 1.22e+01 2bce c.69.1.1 34630 1wvfA 520 1.27e+01 1pvmA 184 1.27e+01 d.37.1.1,d.37.1.1,g.41.13.1 95171,95172,95173 1sgwA 214 1.31e+01 c.37.1.12 105541 1g3qA 237 1.33e+01 1hyqA c.37.1.10 60237 1g2cB 43 1.40e+01 1g2cB 1ydyA 356 1.41e+01 1ihgA 370 1.43e+01 2cpl a.118.8.1,b.62.1.1 62380,62381 1alvA 173 1.43e+01 1alvA a.39.1.8 17370 1g73A 162 1.43e+01 1fewA a.7.4.1 16332 1eo1A 124 1.44e+01 1eo1A c.55.5.1 33739 1c02A 166 1.46e+01 1qspA a.24.10.2 16633 1go3F 107 1.47e+01 a.60.8.2 65407 1qy1A 174 1.48e+01 b.60.1.1 96568 1iugA 352 1.48e+01 c.67.1.3 90699 1a6m 151 1.51e+01 1a6m a.1.1.2 15018 1ojrA 274 1.53e+01 c.74.1.1 93147 1tqhA 247 1.54e+01 c.69.1.29 107225 1b4pA 217 1.60e+01 a.45.1.1,c.47.1.5 83158,83159 1jy5A 212 1.63e+01 d.124.1.1 71940 1dugA 234 1.67e+01 1b8xA a.45.1.1,c.47.1.5 17718,33012 1kaeA 434 1.72e+01 c.82.1.2 72247 2evaA 307 1.75e+01 1qwgA 251 1.77e+01 c.1.27.1 96473 1senA 164 1.82e+01 c.47.1.1 105465 1f20A 435 1.83e+01 b.43.4.1,c.25.1.4 64932,64933 1mtyB 384 1.91e+01 1mtyB a.25.1.2 16740 1mr7A 209 1.96e+01 b.81.1.3 91430 1wmaA 276 1.99e+01 1dkzA 219 2.02e+01 1dkzA a.8.4.1,b.130.1.1 90345,90346 1h54A 754 2.07e+01 a.102.1.4,b.30.5.3 60634,60635 1nox 205 2.11e+01 1nox d.90.1.1 40242 1ddjA 247 2.12e+01 5ptp b.47.1.2 26362 1efnB 152 2.13e+01 1efnB d.102.1.1 40699 1izcA 339 2.13e+01 c.1.12.5 83838 1jkmB 361 2.14e+01 1jkmA c.69.1.2 34634 1jdpA 441 2.18e+01 c.93.1.1 62906 1hufA 140 2.24e+01 1hufA d.195.1.1 61272 1fp2A 352 2.25e+01 1fpxA a.4.5.29,c.66.1.12 59941,59942 1eteA 134 2.25e+01 1eteA a.26.1.2 16869 1im5A 180 2.29e+01 c.33.1.3 66211 1khcA 147 2.35e+01 b.34.9.2 68608 1i4fA 275 2.38e+01 1agdA b.1.1.2,d.19.1.1 61687,61688 1p5zB 263 2.43e+01 c.37.1.1 87815 1c7nA 399 2.43e+01 1d2fA c.67.1.3 34413 1ee4A 423 2.44e+01 1ee4A a.118.1.1 19128 1b3aA 67 2.45e+01 1b3aA d.9.1.1 37410 1pyfA 312 2.47e+01 c.1.7.1 95334 1vjvA 415 2.48e+01 d.3.1.9 108632 1k5nA 276 2.49e+01 b.1.1.2,d.19.1.1 77266,77267 1g4yB 101 2.55e+01 1g4yB f.15.1.1 60251 1k94A 165 2.67e+01 a.39.1.8 68333 1ccr 112 2.69e+01 1ycc a.3.1.1 15877 3seb 238 2.70e+01 3seb b.40.2.2,d.15.6.1 25184,37773 1c52 131 2.72e+01 1c52 a.3.1.1 15810 1hw1A 239 2.80e+01 1e2xA a.4.5.6,a.78.1.1 16111,18441 1eemA 241 2.80e+01 1eemA a.45.1.1,c.47.1.5 17717,33011 1h6gA 256 2.89e+01 1h6gA a.24.9.1,a.24.9.1 60669,60670 1eg3A 261 2.89e+01 1eg3A a.39.1.7,a.39.1.7,b.72.1.1 17376,17377,27805 1ejxA 100 2.90e+01 d.8.1.1 83182 1dywA 173 2.91e+01 2cpl b.62.1.1 27505 1exrA 148 2.99e+01 1cll a.39.1.5 17299 1bob 320 3.06e+01 1bob d.108.1.1 40816 1oywA 523 3.07e+01 a.4.5.43,c.37.1.19,c.37.1.19 93760,93761,93762 1ggzA 148 3.08e+01 a.39.1.5 70176 1h3nA 878 3.11e+01 a.27.1.1,b.51.1.1,c.26.1.1 76641,76642,76643 1bgp 309 3.14e+01 1bgp a.93.1.1 18690 1cb8A 678 3.17e+01 1cb8A a.102.3.2,b.24.1.1,b.30.5.2 18849,23898,24422 2nlrA 234 3.18e+01 2nlrA b.29.1.11 24344 1v5vA 401 3.23e+01 1elkA 157 3.28e+01 1dvpA a.118.9.2 19217 1j99A 293 3.33e+01 c.37.1.5 71618 1avsA 90 3.39e+01 1cll a.39.1.5 17226 1ooeA 236 3.39e+01 c.2.1.2 87196 1e6cA 173 3.44e+01 1shkA c.37.1.2 59296 1rkqA 282 3.45e+01 c.108.1.10 97621 1bqbA 301 3.47e+01 1hyt d.92.1.2 58962 1h0hB 214 3.47e+01 d.58.1.5 76437 1fadA 99 3.50e+01 1fadA a.77.1.2 18428 1ls9A 91 3.50e+01 a.3.1.1 78177 1a8o 70 3.50e+01 1a8o a.28.3.1 16953 1bueA 265 3.51e+01 1btl e.3.1.1 42727 1jflA 228 3.53e+01 c.78.2.1,c.78.2.1 71656,71657 1kyhA 276 3.54e+01 c.72.1.4 73222 1uwkA 557 3.56e+01 e.51.1.1 108065 1l5oA 356 3.62e+01 c.39.1.1 77711 1elvA 333 3.65e+01 5ptp b.47.1.2,g.18.1.1 59454,59455 1gxmA 332 3.69e+01 a.102.5.1 76371 1rrmA 386 3.69e+01 e.22.1.2 105081 1gtmA 419 3.71e+01 1hwyA c.2.1.7,c.58.1.1 30223,33871 1geqA 248 3.79e+01 2tysA c.1.2.4 28589 1r5lA 262 3.80e+01 a.5.3.1,c.13.1.1 97099,97100 1bkrA 109 3.87e+01 1bkrA a.40.1.1 17394 1tu9A 134 3.92e+01 a.1.1.2 107320 1jeoA 180 3.95e+01 c.80.1.3 66611 1o54A 277 3.99e+01 c.66.1.13 92482 1dz3A 130 4.03e+01 1dz3A c.23.1.1 31105 1bx1A 314 4.04e+01 1fnc b.43.4.2,c.25.1.1 25629,31519 1mzbA 136 4.06e+01 a.4.5.42 91497 1e4cP 215 4.07e+01 2fua c.74.1.1 34969 1gc0A 398 4.09e+01 c.67.1.3 70168 1gpeA 587 4.09e+01 1gpeA c.3.1.2,d.16.1.1 30387,37951 1j4aA 333 4.09e+01 c.2.1.4,c.23.12.1 71502,71503 1gjnA 153 4.11e+01 a.1.1.2 70191 1huw 166 4.11e+01 1huw a.26.1.1 16831 1qxyA 252 4.13e+01 d.127.1.1 96565 1fehA 574 4.19e+01 1fehA c.96.1.1,d.15.4.2,d.58.1.5 36015,37690,38998 1g5aA 628 4.19e+01 b.71.1.1,c.1.8.1 65152,65153 1gk9B 557 4.22e+01 1lwbA 122 4.25e+01 a.133.1.3 84728 1dq3A 454 4.32e+01 1dq3A b.86.1.2,d.50.3.1,d.95.2.2,d.95.2.2 28380,38798,40585,40586 1b0uA 262 4.44e+01 1b0uA c.37.1.12 32370 1woqA 267 4.46e+01 c.55.1.10,c.55.1.10 109462,109463 1bu6O 501 4.49e+01 1glcG c.55.1.4,c.55.1.4 33499,33500 1j2zA 270 4.50e+01 b.81.1.1 90805 1eyhA 144 4.51e+01 1eduA a.118.9.1 19214 1ju2A 536 4.53e+01 c.3.1.2,d.16.1.1 77169,77170 1dcs 311 4.54e+01 1dcs b.82.2.1 28124 1fnd 314 4.58e+01 1fnc b.43.4.2,c.25.1.1 25626,31516 1jboB 172 4.58e+01 a.1.1.3 84151 1iyrA 111 4.60e+01 a.164.1.1 76973 1j2gA 319 4.60e+01 d.96.1.4,d.96.1.4,d.96.1.4,d.96.1.4,d.96.1.4 103824,103825,103826,103827,103828 1uj8A 77 4.69e+01 1b3tA 147 4.71e+01 1b3tA d.58.8.1 39228 1xx1A 285 4.71e+01 1c8uA 285 4.81e+01 1c8uA d.38.1.3,d.38.1.3 38547,38548 1cjxA 357 4.85e+01 1cjxA d.32.1.3,d.32.1.3 38516,38517 1guzA 310 4.87e+01 c.2.1.5,d.162.1.1 65586,65587 1dj7A 117 4.90e+01 1dj7A g.36.1.1 44997 1amf 233 4.94e+01 1wod c.94.1.1 35833 1g5hA 454 4.97e+01 1g5hA c.51.1.1,d.104.1.1 60270,60271 1fs7A 485 4.99e+01 1qdbA a.138.1.3 19691 1u55A 188 5.04e+01 d.278.1.1 107677 1buoA 121 5.05e+01 1buoA d.42.1.1 38631 1whzA 70 5.11e+01 1bqk 124 5.12e+01 1bqk b.6.1.1 22889 1mba 147 5.14e+01 2fal a.1.1.2 15149 1jb9A 316 5.22e+01 1fnc b.43.4.2,c.25.1.1 62840,62841 1jcfA 344 5.25e+01 c.55.1.1,c.55.1.1 62878,62879 1pp0A 199 5.38e+01 d.103.1.1 104211 1gvjA 146 5.50e+01 a.4.5.21 90525 1amuA 563 5.51e+01 1amuA e.23.1.1 43351 1ispA 181 5.55e+01 c.69.1.18 76778 1cjcA 460 5.56e+01 1cjcA c.3.1.1,c.4.1.1 30319,30604 1a5t 334 5.57e+01 1a5t a.80.1.1,c.37.1.20 18450,32423 1a0jA 223 5.61e+01 5ptp b.47.1.2 26002 1jfzA 154 5.63e+01 a.149.1.1 66655 1jbkA 195 5.75e+01 c.37.1.20 71631 1olrA 224 5.79e+01 b.29.1.11 93330 4ubpA 101 5.80e+01 1ubpA d.8.1.1 37352 1dp7P 76 5.83e+01 1dp7P a.4.5.20 16159 1x7yA 400 5.92e+01 1xjuA 163 5.96e+01 1gxyA 226 6.03e+01 d.166.1.3 76380 1wy2A 351 6.15e+01 1fh9A 312 6.19e+01 1taxA c.1.8.3 28913 1c7qA 445 6.20e+01 2pgi c.80.1.2 35307 1cz4A 185 6.23e+01 1cz4A b.52.2.3,d.31.1.1 26934,38468 1e1hB 174 6.25e+01 1xkzA 255 6.25e+01 1cpcA 162 6.25e+01 1cpcA a.1.1.3 15643 1c1yB 77 6.28e+01 1c1yB d.15.1.5 37618 1ra0A 430 6.29e+01 1apyA 162 6.29e+01 1apyA d.153.1.5 42004 1b43A 340 6.32e+01 1a76 a.60.7.1,c.120.1.2 18092,33362 1j9lA 247 6.32e+01 c.106.1.1 62762 1tn6A 382 6.36e+01 1dlyA 164 6.43e+01 1dlyA a.1.1.1 14983 1am9A 82 6.45e+01 1am9A a.38.1.1 17140 1jo0A 98 6.48e+01 d.68.4.1 77140 1eg5A 384 6.50e+01 1ecxA c.67.1.3 34429 1ro0A 216 6.57e+01 d.264.1.2 97664 1mqvA 125 6.65e+01 a.24.3.2 79415 1idpA 172 6.67e+01 d.17.4.1 83685 1d2zB 153 6.69e+01 1d2zB a.77.1.2 18439 1pdo 135 6.70e+01 1pdo c.54.1.1 33376 1vmgA 95 6.70e+01 1j30A 144 6.78e+01 a.25.1.1 90806 1mixA 206 6.81e+01 a.11.2.1,b.55.1.5 79166,79167 1ezwA 349 6.83e+01 1ezwA c.1.16.3 29558 2bhuA 602 6.93e+01 1b65A 375 6.96e+01 1b65A d.154.1.1 42020 1jbeA 128 7.00e+01 3chy c.23.1.1 62845 1cunA 213 7.03e+01 1cunA a.7.1.1,a.7.1.1 16313,16314 1m93B 245 7.08e+01 1vrmA 325 7.12e+01 1hr6A 475 7.12e+01 1hr6A d.185.1.1,d.185.1.1 61164,61165 1jk7A 323 7.14e+01 1auiA d.159.1.3 63144 1dzkA 157 7.18e+01 1obpA b.60.1.1 27096 1gtkA 313 7.18e+01 c.94.1.1,d.50.2.1 76346,76347 1p4oA 322 7.27e+01 d.144.1.7 87775 1tl9A 339 7.28e+01 1e7uA 961 7.30e+01 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19147,23182,37630,41710 1ja9A 274 7.40e+01 c.2.1.2 62817 1ixcA 294 7.40e+01 a.4.5.37,c.94.1.1 83764,83765 1idrA 136 7.40e+01 1dlyA a.1.1.1 62301 1afwA 393 7.40e+01 1afwA c.95.1.1,c.95.1.1 35900,35901 1jubA 311 7.43e+01 c.1.4.1 90908 1uptB 60 7.62e+01 a.193.1.1 99768 1io0A 185 7.63e+01 c.10.1.1 76753 1ijxA 127 7.73e+01 1ijxA a.141.1.1 62511 1dw0A 112 7.74e+01 1dw0A a.3.1.1 15911 1fipA 98 7.75e+01 1fipA a.4.1.12 18980 1adt 356 7.76e+01 1anv a.54.1.1,g.51.1.1,g.51.1.1 17887,45362,45368 1d3yA 301 7.79e+01 1d3yA e.12.1.1 43252 1h4rA 314 7.82e+01 a.11.2.1,b.55.1.5,d.15.1.4 65616,65617,65618 1v33A 366 7.87e+01 d.264.1.1 100278 1ep3A 311 7.90e+01 2dorA c.1.4.1 28597 1kveA 63 7.95e+01 1kveA d.70.1.2 39590 1j1jA 240 8.00e+01 a.118.16.1 90762 1llfA 534 8.11e+01 c.69.1.17 78094 1wouA 123 8.25e+01 c.47.1.16 109471 1fqiA 147 8.31e+01 1agrE a.91.1.1 18542 1hbnA 549 8.31e+01 1mroA a.89.1.1,d.58.31.2 60898,60899 1kq3A 376 8.33e+01 e.22.1.2 68790 1c75A 71 8.33e+01 451c a.3.1.1 15796 1xocA 520 8.53e+01 1bw0A 416 8.67e+01 1bw0A c.67.1.1 34385 1cqxA 403 8.68e+01 1cqxA a.1.1.2,b.43.4.2,c.25.1.5 15635,25667,31562 1j79A 347 8.72e+01 1j79A c.1.9.4 62675 2eng 210 8.72e+01 2eng b.52.1.1 26895 1evyA 366 8.78e+01 1evyA a.100.1.6,c.2.1.6 18811,30215 1f1eA 154 8.80e+01 a.22.1.2 64927 1enfA 212 8.83e+01 3seb b.40.2.2,d.15.6.1 25198,37787 1b00A 127 8.86e+01 3chy c.23.1.1 31122 1v4vA 376 8.86e+01 c.87.1.3 100313 1hx1B 114 8.89e+01 1hx1B a.7.7.1 61350 1w2wA 211 8.90e+01 c.124.1.5 109130 1izoA 417 8.91e+01 a.104.1.1 83851