# List of top-scoring protein chains for t04-100-30-stride-ebghtl-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 2bt2A 161 3.24e-21 2a72A 146 3.55e-21 1fqiA 147 6.34e-21 1agrE a.91.1.1 18542 1dk8A 147 8.40e-18 1agrE a.91.1.1 18548 1omwA 689 2.76e-11 a.91.1.1,b.55.1.1,d.144.1.7 87086,87087,87088 1htjF 210 1.78e-07 1htjF a.91.1.1 61254 1iapA 211 7.44e-04 a.91.1.1 62119 1y3nA 490 1.78e-01 1alu 186 3.57e-01 1alu a.26.1.1 16826 1t46A 313 3.93e-01 d.144.1.7 106397 1wixA 164 4.10e-01 1eljA 381 5.06e-01 4mbp c.94.1.1 35791 1h5uA 842 6.81e-01 1a8i c.87.1.4 60655 1a8i 842 9.81e-01 1a8i c.87.1.4 35490 1k3yA 221 1.31e+00 a.45.1.1,c.47.1.5 77245,77246 1ngnA 155 1.32e+00 a.96.1.2 85697 1mnaA 298 1.40e+00 c.69.1.22 79322 1x3kA 152 1.49e+00 1p32A 209 1.79e+00 1p32A d.25.1.1 38379 1fs7A 485 2.72e+00 1qdbA a.138.1.3 19691 1otkA 249 2.84e+00 a.25.1.2 93521 1mq4A 272 3.57e+00 d.144.1.7 91391 1xx4A 261 4.37e+00 1j1nA 492 4.41e+00 c.94.1.1 83978 1edg 380 4.42e+00 1edg c.1.8.3 28807 2lhb 149 4.92e+00 2fal a.1.1.2 15597 1wozA 177 5.12e+00 2aw5A 541 6.00e+00 1pmzA 86 6.66e+00 a.39.1.10 104195 1n9dA 199 7.48e+00 a.26.1.1 85464 1wa5B 530 7.62e+00 1v9sA 208 7.75e+00 1b25A 619 8.04e+00 1b25A a.110.1.1,d.152.1.1 19044,41796 1f3aA 222 8.09e+00 1pgtA a.45.1.1,c.47.1.5 17701,32995 1lj8A 493 8.50e+00 a.100.1.9,c.2.1.6 90392,90393 1g5hA 454 8.75e+00 1g5hA c.51.1.1,d.104.1.1 60270,60271 1ykuA 136 8.84e+00 1w68A 390 9.25e+00 a.25.1.2 109216 1ywnA 316 9.42e+00 1xm8A 254 9.73e+00 2cb5A 453 1.02e+01 3gcb d.3.1.1 37035 1lrrA 131 1.03e+01 d.228.1.1 78165 1txuA 273 1.03e+01 a.222.1.1 107439 1jk0A 419 1.05e+01 a.25.1.2 63142 1h0oA 390 1.09e+01 a.25.1.2 70845 1ur5A 309 1.10e+01 c.2.1.5,d.162.1.1 99807,99808 1cm5A 759 1.13e+01 1cm5A c.7.1.1 30671 1geqA 248 1.15e+01 2tysA c.1.2.4 28589 1k8kG 151 1.17e+01 a.118.13.1 68313 2azjA 289 1.20e+01 1ee4A 423 1.21e+01 1ee4A a.118.1.1 19128 1z5vA 474 1.26e+01 2bfxA 284 1.27e+01 1h16A 759 1.27e+01 c.7.1.1 76462 1xjjA 644 1.28e+01 1ct9A 553 1.30e+01 1ct9A c.26.2.1,d.153.1.1 31616,41834 1lj2A 110 1.32e+01 h.1.13.2 73926 1tvlA 454 1.39e+01 c.1.16.4 107366 2c7pA 327 1.46e+01 1xjeA 644 1.47e+01 1z1lA 345 1.50e+01 1ayl 541 1.51e+01 1ayl c.91.1.1,c.109.1.1 64718,64719 1ks8A 433 1.54e+01 a.102.1.2 77519 1kv9A 668 1.56e+01 a.3.1.6,b.70.1.1 73056,73057 1l7vA 326 1.63e+01 f.22.1.1 73672 2fflA 756 1.65e+01 1vf1A 229 1.65e+01 6mhtA 327 1.66e+01 6mhtA c.66.1.26 34226 1h4lD 147 1.71e+01 a.74.1.1 70873 1nznA 126 1.71e+01 a.118.8.1 92382 2c12A 439 1.74e+01 1z6aA 500 1.74e+01 1d5tA 433 1.80e+01 1gnd c.3.1.3,d.16.1.6 30422,37986 1xsm 390 1.86e+01 1xsm a.25.1.2 16804 1pvtA 238 1.88e+01 c.74.1.1 95189 1o5oA 221 1.92e+01 c.61.1.1 92509 1vljA 407 2.02e+01 e.22.1.2 108832 1lbkA 208 2.02e+01 a.45.1.1,c.47.1.5 73809,73810 1eswA 500 2.06e+01 1cwyA c.1.8.1 59500 1p99A 295 2.10e+01 c.94.1.1 94384 1uxjA 309 2.11e+01 c.2.1.5,d.162.1.1 108112,108113 2c3nA 247 2.13e+01 1h6gA 256 2.16e+01 1h6gA a.24.9.1,a.24.9.1 60669,60670 2ffeA 311 2.18e+01 1hlb 158 2.25e+01 1hlb a.1.1.2 15625 1eca 136 2.28e+01 1flp a.1.1.2 15209 1a8b 318 2.29e+01 1avc a.65.1.1 18171 2f7fA 494 2.36e+01 1h7sA 365 2.39e+01 d.14.1.3,d.122.1.2 65705,65706 1ln1A 214 2.39e+01 d.129.3.2 74038 1owqA 361 2.39e+01 c.1.8.5,d.26.3.1 104041,104042 1ltqA 301 2.40e+01 c.108.1.9,c.37.1.1 78208,78209 1qlaC 256 2.48e+01 1qlaC f.21.2.1 43722 1bkjA 240 2.48e+01 1bkjA d.90.1.1 40243 1z63A 500 2.50e+01 1rec 201 2.53e+01 1rec a.39.1.5 17326 1hjxA 362 2.59e+01 c.1.8.5,d.26.3.1 83512,83513 1r0pA 312 2.62e+01 d.144.1.7 96734 2bznA 351 2.63e+01 1qh8B 519 2.66e+01 1qguB c.92.2.3 35634 1qlaA 656 2.77e+01 1qlaA a.7.3.1,c.3.1.4,d.168.1.1 16328,30427,42310 1r89A 437 2.79e+01 a.160.1.3,d.218.1.7,d.58.16.2 97221,97222,97223 2ran 316 2.85e+01 1avc a.65.1.1 18170 1a76 326 2.90e+01 1a76 a.60.7.1,c.120.1.2 18091,33361 1u13A 455 2.96e+01 a.104.1.1 107578 1gnd 447 2.97e+01 1gnd c.3.1.3,d.16.1.6 30423,37987 1eu8A 409 2.99e+01 1eu8A c.94.1.1 59502 1v37A 177 3.05e+01 1qzmA 94 3.07e+01 c.37.1.20 96651 1mrg 263 3.12e+01 1mrj d.165.1.1 42183 2bs3A 656 3.21e+01 1p30A 952 3.23e+01 b.121.2.2,b.121.2.2 93964,93965 2ilk 160 3.27e+01 2ilk a.26.1.3 16885 2be4A 272 3.28e+01 1v7bA 185 3.30e+01 1pgtA 210 3.31e+01 1pgtA a.45.1.1,c.47.1.5 17515,32809 1j0fA 100 3.33e+01 c.47.1.14 90739 1hzoA 271 3.34e+01 e.3.1.1 71092 1xkpA 246 3.35e+01 1ruxA 951 3.40e+01 1dhx 1zbqA 327 3.41e+01 1szqA 483 3.42e+01 e.44.1.1 99045 1yovA 537 3.46e+01 1huw 166 3.53e+01 1huw a.26.1.1 16831 1ly1A 181 3.55e+01 c.37.1.1 74334 1p2zA 968 3.57e+01 b.121.2.2,b.121.2.2 93962,93963 1r9kA 172 3.57e+01 a.168.1.1 104869 1na6A 404 3.57e+01 b.142.1.1,c.52.1.22 91748,91749 1zpdA 568 3.61e+01 1zpdA c.31.1.3,c.36.1.5,c.36.1.9 31741,31785,31786 1xocA 520 3.62e+01 1jq5A 370 3.64e+01 e.22.1.2 67084 1cy9A 264 3.76e+01 1ecl e.10.1.1 43236 1f2dA 341 3.76e+01 1f2dA c.79.1.1 35298 1ei1A 391 3.78e+01 1aj6 d.14.1.3,d.122.1.2 37570,41104 1ja1A 622 3.83e+01 1amoA b.43.4.1,c.23.5.2,c.25.1.4 62803,62804,62805 1j0dA 341 3.86e+01 c.79.1.1 83902 1nrfA 262 3.94e+01 e.3.1.1 92086 1ir3A 306 3.94e+01 1fmk d.144.1.7 41702 1f5vA 240 4.05e+01 1bkjA d.90.1.1 40255 2bs3C 256 4.05e+01 1ile 821 4.11e+01 1ile a.27.1.1,b.51.1.1,c.26.1.1 16924,26889,31591 1j2jB 45 4.11e+01 a.7.8.1 84017 1xfxA 777 4.15e+01 1jqeA 292 4.15e+01 c.66.1.19 71789 1ibrB 462 4.16e+01 1qgrA a.118.1.1 19120 1c3cA 429 4.20e+01 1c3cA a.127.1.1 19425 2hbg 147 4.27e+01 2hbg a.1.1.2 15014 1n8vA 112 4.27e+01 a.118.21.1 85457 1qgiA 259 4.38e+01 1qgiA d.2.1.7 37001 1io2A 213 4.44e+01 1ekeA c.55.3.1 62612 1ug3A 339 4.49e+01 1ufkA 254 4.51e+01 c.66.1.39 99340 1ojaA 520 4.52e+01 c.3.1.2,d.16.1.5 93096,93097 1s3eA 520 4.52e+01 c.3.1.2,d.16.1.5 98426,98427 2fbmA 291 4.54e+01 1unlD 208 4.55e+01 1hx0A 496 4.61e+01 b.71.1.1,c.1.8.1 61346,61347 1vd5A 377 4.62e+01 a.102.1.7 108518 1b4pA 217 4.63e+01 a.45.1.1,c.47.1.5 83158,83159 1rcwA 231 4.65e+01 a.132.1.4 97299 1g8fA 511 4.68e+01 1g8fA b.122.1.3,c.26.1.5,c.37.1.15 60348,60349,60350 1e4iA 447 4.70e+01 1e70M c.1.8.4 59225 2b0jA 358 4.71e+01 1mhyB 395 4.72e+01 1mtyB a.25.1.2 16781 1uu3A 310 4.76e+01 d.144.1.7 99999 1yisA 478 4.76e+01 1k0mA 241 4.81e+01 a.45.1.1,c.47.1.5 67949,67950 1n35A 1267 4.88e+01 e.8.1.4 79935 1h1wA 289 4.98e+01 d.144.1.7 83460 1nm2A 317 4.99e+01 c.19.1.1,d.58.23.1 80654,80655 1w8iA 156 5.02e+01 1l5xA 280 5.02e+01 c.106.1.1 77718 1t1vA 93 5.06e+01 c.47.1.14 106278 1rtwA 220 5.10e+01 a.132.1.3 97823 1zr5A 214 5.13e+01 1gz6A 319 5.14e+01 c.2.1.2 76410 1xvhA 129 5.15e+01 1aa7A 158 5.17e+01 1aa7A a.95.1.1 18741 1nriA 306 5.19e+01 c.80.1.3 86123 1a7tA 232 5.19e+01 1a7tA d.157.1.1 42041 1mun 225 5.21e+01 1mun a.96.1.2 18744 1n5uA 585 5.26e+01 a.126.1.1,a.126.1.1,a.126.1.1 85339,85340,85341 1vg0A 650 5.31e+01 c.3.1.3,d.16.1.6 108596,108597 1bcfA 158 5.33e+01 1bcfA a.25.1.1 16648 1u5tC 202 5.34e+01 a.4.5.54,a.4.5.54 107688,107689 1noyA 388 5.35e+01 1clqA c.55.3.5 33713 1vkmA 297 5.41e+01 c.138.1.1 108670 1qhfA 240 5.45e+01 1qhfA c.60.1.1 33960 1dcfA 136 5.46e+01 1dcfA c.23.1.2 31124 1o0sA 605 5.48e+01 c.2.1.7,c.58.1.3 86540,86541 1orsC 132 5.49e+01 f.14.1.1 87353 1yz7A 188 5.59e+01 8tlnE 316 5.62e+01 1hyt d.92.1.2 59075 2tmnE 316 5.64e+01 1hyt d.92.1.2 59055 1bdfA 235 5.65e+01 1bdfA d.74.3.1,d.181.1.1 39727,42602 1fehA 574 5.69e+01 1fehA c.96.1.1,d.15.4.2,d.58.1.5 36015,37690,38998 1oj7A 408 5.78e+01 e.22.1.2 103971 1ovlA 271 5.86e+01 a.123.1.1 87455 2bd0A 244 5.88e+01 1t7lA 766 5.92e+01 1yd9A 193 5.99e+01 2d2eA 250 6.05e+01 1atiA 505 6.09e+01 1atiA c.51.1.1,d.104.1.1 33196,40745 1e8gA 560 6.09e+01 1qltA d.58.32.1,d.145.1.1 39455,41718 1auiB 169 6.15e+01 1auiB a.39.1.5 17325 1tw9A 206 6.18e+01 a.45.1.1,c.47.1.5 107381,107382 1smd 496 6.19e+01 1smd b.71.1.1,c.1.8.1 27768,28755 1qjbA 245 6.29e+01 1qjaA a.118.7.1 19202 1vcvA 226 6.31e+01 1q15A 503 6.33e+01 c.26.2.1,d.153.1.1 95538,95539 1lbeA 258 6.33e+01 1lbeA e.4.1.1 42773 1ncs 47 6.44e+01 1ncs g.37.1.1 45040 1aisB 200 6.44e+01 1aisB a.74.1.2,a.74.1.2 18384,18385 1jk0B 345 6.48e+01 a.25.1.2 63143 1fp1D 372 6.49e+01 1fpqA a.4.5.29,c.66.1.12 59939,59940 1i39A 225 6.55e+01 1ekeA c.55.3.1 61585 1rvgA 305 6.57e+01 c.1.10.2 97920 2bxkA 585 6.62e+01 1n4kA 381 6.63e+01 a.118.22.1,b.42.6.1 79992,79993 1xw5A 217 6.66e+01 2b3oA 532 6.66e+01 1babB 146 6.71e+01 1abwA a.1.1.2 15414 2c4jA 218 6.75e+01 1x6mA 196 6.76e+01 1rt8A 513 6.77e+01 a.40.1.1 105095 1eexA 554 6.83e+01 1dioA c.1.19.3 29650 1vk1A 242 6.85e+01 d.268.1.2 108634 1sazA 381 6.87e+01 1r12A 258 6.92e+01 e.4.1.1 96780 1kmqA 184 6.97e+01 c.37.1.8 84412 2a19B 284 7.02e+01 1a48 306 7.02e+01 1a48 d.143.1.1 41590 1irdB 146 7.07e+01 a.1.1.2 66287 1fpoA 171 7.11e+01 1fpoA a.2.3.1,a.23.1.1 15693,16487 1ieaB 228 7.17e+01 1iakB b.1.1.2,d.19.1.1 21632,38206 1p2fA 220 7.18e+01 a.4.6.1,c.23.1.1 87720,87721 1obdA 306 7.22e+01 d.143.1.1 86767 1qgrA 876 7.24e+01 1qgrA a.118.1.1 19119 1ylqA 96 7.32e+01 1qb7A 236 7.37e+01 1qb7A c.61.1.1 34087 2c5uA 375 7.53e+01 1qhiA 366 7.57e+01 1qhiA c.37.1.1 31860 1nxuA 333 7.64e+01 c.122.1.1 86389 1zbmA 280 7.72e+01 1m2tA 254 7.73e+01 d.165.1.1 84761 1g3mA 294 7.75e+01 c.37.1.5 83268 1y1uA 585 7.92e+01 2fokA 579 8.04e+01 2fokA a.4.5.12,a.4.5.12,a.4.5.12,c.52.1.12 16131,16132,16133,33323 1csn 298 8.09e+01 1csn d.144.1.7 41664 2a6pA 208 8.14e+01 1aj8A 371 8.16e+01 1aj8A a.103.1.1 18900 1ygmA 118 8.23e+01 1bqbA 301 8.24e+01 1hyt d.92.1.2 58962 1v8dA 235 8.24e+01 c.140.1.1 108425 2cfuA 658 8.24e+01 1kinA 366 8.43e+01 1goiA 499 8.44e+01 b.72.2.1,c.1.8.5,d.26.3.1 65413,65414,65415 1jr8A 117 8.55e+01 a.24.15.1 67115 1wvfA 520 8.57e+01 1u7nA 336 8.60e+01 c.77.1.4 107726 1izoA 417 8.68e+01 a.104.1.1 83851 1ovnA 248 8.79e+01 a.71.1.1,c.47.1.7 93602,93603 1o9iA 266 8.82e+01 a.25.1.3 92671 1h8mA 140 8.82e+01 1h8mA d.110.4.1 60782 1z9hA 290 8.83e+01 1gtmA 419 8.96e+01 1hwyA c.2.1.7,c.58.1.1 30223,33871