# List of top-scoring protein chains for t2k-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 1agrE 205 1.98e-21 1agrE a.91.1.1 18538 1eztA 166 2.63e-21 1agrE a.91.1.1 18541 1fqiA 147 1.70e-20 1agrE a.91.1.1 18542 2bt2A 161 2.39e-20 2a72A 146 3.24e-20 1agrH 205 7.10e-20 1agrE a.91.1.1 18539 1dk8A 147 8.20e-17 1agrE a.91.1.1 18548 1omwA 689 5.63e-09 a.91.1.1,b.55.1.1,d.144.1.7 87086,87087,87088 1htjF 210 8.03e-09 1htjF a.91.1.1 61254 1iapA 211 8.83e-04 a.91.1.1 62119 1il6 185 4.04e-01 1alu a.26.1.1 16827 1jfkA 134 9.91e-01 a.39.1.5 66639 1io2A 213 1.27e+00 1ekeA c.55.3.1 62612 1p32A 209 1.47e+00 1p32A d.25.1.1 38379 1k3yA 221 1.67e+00 a.45.1.1,c.47.1.5 77245,77246 1mnaA 298 1.70e+00 c.69.1.22 79322 1alu 186 1.72e+00 1alu a.26.1.1 16826 1p32C 209 2.04e+00 1p32A d.25.1.1 38381 1wixA 164 2.36e+00 1aw9 216 2.72e+00 1gnwA a.45.1.1,c.47.1.5 17736,33030 1lj8A 493 2.95e+00 a.100.1.9,c.2.1.6 90392,90393 1t46A 313 2.99e+00 d.144.1.7 106397 1k3lA 221 3.66e+00 a.45.1.1,c.47.1.5 77229,77230 1gseA 221 3.69e+00 1pgtA a.45.1.1,c.47.1.5 17667,32961 1f3aA 222 3.72e+00 1pgtA a.45.1.1,c.47.1.5 17701,32995 1kobA 387 3.78e+00 1tkiA d.144.1.7 41640 1y3nA 490 4.08e+00 2aw5A 541 4.20e+00 1ngnA 155 4.53e+00 a.96.1.2 85697 2c3nA 247 4.76e+00 1ks8A 433 4.76e+00 a.102.1.2 77519 1qlaA 656 5.08e+00 1qlaA a.7.3.1,c.3.1.4,d.168.1.1 16328,30427,42310 1fs7A 485 5.48e+00 1qdbA a.138.1.3 19691 2b0jA 358 5.60e+00 2bs3A 656 5.65e+00 1mq4A 272 5.78e+00 d.144.1.7 91391 2f2gA 221 6.16e+00 1q4mA 221 6.42e+00 a.132.1.3 95805 1szqA 483 6.74e+00 e.44.1.1 99045 1twfA 1733 7.51e+00 1lk3A 160 8.53e+00 a.26.1.3 73950 1b48A 221 8.54e+00 1pgtA a.45.1.1,c.47.1.5 17703,32997 2btzA 394 8.55e+00 2b3oA 532 9.38e+00 1eu8A 409 9.94e+00 1eu8A c.94.1.1 59502 1gkuB 1054 1.05e+01 c.37.1.16,c.37.1.16,e.10.1.1 65257,65258,65259 1uor 585 1.07e+01 1bj5 a.126.1.1,a.126.1.1,a.126.1.1 19396,19397,19398 1ilk 151 1.10e+01 2ilk a.26.1.3 16886 2ilk 160 1.10e+01 2ilk a.26.1.3 16885 2fbmA 291 1.20e+01 2a6hC 1119 1.22e+01 1wvfA 520 1.26e+01 1n5uA 585 1.27e+01 a.126.1.1,a.126.1.1,a.126.1.1 85339,85340,85341 1z5vA 474 1.28e+01 1iw7C 1119 1.33e+01 e.29.1.1 71474 2akrA 285 1.33e+01 1i50A 1733 1.41e+01 e.29.1.2 61754 2bxkA 585 1.48e+01 1pmzA 86 1.49e+01 a.39.1.10 104195 1qh8B 519 1.52e+01 1qguB c.92.2.3 35634 1lj2A 110 1.60e+01 h.1.13.2 73926 1zr5A 214 1.70e+01 1x3kA 152 1.71e+01 1bj5 585 1.73e+01 1bj5 a.126.1.1,a.126.1.1,a.126.1.1 19369,19370,19371 1ann 318 1.73e+01 1avc a.65.1.1 18151 1cb1 78 1.76e+01 4icb a.39.1.1 17156 1aow 309 1.77e+01 1avc a.65.1.1 18152 1h5uA 842 1.79e+01 1a8i c.87.1.4 60655 1c8kA 842 1.79e+01 1a8i c.87.1.4 35491 1wa5B 530 1.81e+01 1a8i 842 1.81e+01 1a8i c.87.1.4 35490 1qlaC 256 1.88e+01 1qlaC f.21.2.1 43722 1gq2A 555 1.90e+01 c.2.1.7,c.58.1.3 70308,70309 1qguB 519 1.90e+01 1qguB c.92.2.3 35626 1nznA 126 1.95e+01 a.118.8.1 92382 1nm2A 317 1.95e+01 c.19.1.1,d.58.23.1 80654,80655 1kx9A 112 1.96e+01 a.118.21.1 77602 1yyqA 374 2.01e+01 1txuA 273 2.04e+01 a.222.1.1 107439 1dcfA 136 2.31e+01 1dcfA c.23.1.2 31124 1b25A 619 2.35e+01 1b25A a.110.1.1,d.152.1.1 19044,41796 1iygA 133 2.45e+01 a.118.8.1 76947 1w68A 390 2.48e+01 a.25.1.2 109216 1mpxA 615 2.50e+01 b.18.1.13,c.69.1.21 85041,85042 1x6mA 196 2.53e+01 1yd9A 193 2.55e+01 2fw2A 260 2.59e+01 1i39A 225 2.62e+01 1ekeA c.55.3.1 61585 1cd1A 315 2.63e+01 1cd1A b.1.1.2,d.19.1.1 21579,38155 1aisB 200 2.68e+01 1aisB a.74.1.2,a.74.1.2 18384,18385 2bfxA 284 2.69e+01 1wozA 177 2.71e+01 1vljA 407 2.76e+01 e.22.1.2 108832 1ao6A 585 2.79e+01 1bj5 a.126.1.1,a.126.1.1,a.126.1.1 19354,19355,19356 5csmA 256 2.80e+01 5csmA a.130.1.2 19494 1jfgA 374 2.82e+01 a.128.1.5 66636 1isiA 265 2.86e+01 e.4.1.1 71394 1e3oC 160 2.89e+01 1au7A a.4.1.1,a.35.1.1 59197,59198 1gt7A 274 2.90e+01 c.74.1.1 70398 1kiyA 374 2.92e+01 a.128.1.5 72555 1d3uB 201 2.95e+01 1aisB a.74.1.2,a.74.1.2 18386,18387 2cx9A 387 2.98e+01 2bx2L 517 3.02e+01 1ws9A 387 3.03e+01 1ha2A 585 3.07e+01 1bj5 a.126.1.1,a.126.1.1,a.126.1.1 60866,60867,60868 1bc1 319 3.13e+01 1avc a.65.1.1 18173 1eljA 381 3.13e+01 4mbp c.94.1.1 35791 2bs3C 256 3.15e+01 1imbA 277 3.17e+01 1imbA e.7.1.1 42957 1e7aA 585 3.17e+01 1bj5 a.126.1.1,a.126.1.1,a.126.1.1 19360,19361,19362 1qahA 136 3.17e+01 d.79.1.1 96338 1bc3 319 3.19e+01 1avc a.65.1.1 18175 1z5lA 285 3.21e+01 1no7A 604 3.23e+01 e.48.1.1 92016 1znbA 232 3.24e+01 1a7tA d.157.1.1 42039 1bq3B 246 3.27e+01 1qhfA c.60.1.1 33979 2occB 227 3.29e+01 2occB b.6.1.2,f.17.2.1 23027,43519 1h0oA 390 3.30e+01 a.25.1.2 70845 1ojrA 274 3.36e+01 c.74.1.1 93147 1p94A 76 3.39e+01 a.43.1.3 94380 2hhmA 276 3.39e+01 1imbA e.7.1.1 42955 1csmA 256 3.40e+01 5csmA a.130.1.2 19495 1a7tA 232 3.41e+01 1a7tA d.157.1.1 42041 1p2fA 220 3.49e+01 a.4.6.1,c.23.1.1 87720,87721 1l7vA 326 3.55e+01 f.22.1.1 73672 1ln1A 214 3.55e+01 d.129.3.2 74038 1oniA 137 3.58e+01 d.79.1.1 87144 1n8vA 112 3.61e+01 a.118.21.1 85457 1hl2A 297 3.62e+01 c.1.10.1 83581 1ojxA 263 3.65e+01 c.1.10.1 93164 1f37A 110 3.68e+01 1f37A c.47.1.11 33088 1qazA 351 3.71e+01 1qazA a.102.3.1 18848 1eca 136 3.75e+01 1flp a.1.1.2 15209 1n08A 163 3.77e+01 b.43.5.1 79730 1w8sA 263 3.81e+01 1jk0A 419 3.83e+01 a.25.1.2 63142 1ecd 136 3.91e+01 1flp a.1.1.2 15211 1xsm 390 3.92e+01 1xsm a.25.1.2 16804 1eco 136 3.95e+01 1flp a.1.1.2 15208 2d29A 387 4.06e+01 1a8a 318 4.07e+01 1avc a.65.1.1 18169 1bc0 319 4.12e+01 1avc a.65.1.1 18174 1s96A 219 4.13e+01 c.37.1.1 98740 4icb 76 4.14e+01 4icb a.39.1.1 17145 2ran 316 4.21e+01 1avc a.65.1.1 18170 1xm8A 254 4.24e+01 1rtwA 220 4.26e+01 a.132.1.3 97823 3icb 75 4.29e+01 4icb a.39.1.1 17147 1n9dA 199 4.33e+01 a.26.1.1 85464 1g8iA 190 4.35e+01 1rec a.39.1.5 60363 1ignA 246 4.38e+01 1ignA a.4.1.6,a.4.1.6 16048,16049 1pgtA 210 4.42e+01 1pgtA a.45.1.1,c.47.1.5 17515,32809 1ykuA 136 4.56e+01 1vf1A 229 4.60e+01 1a8b 318 4.63e+01 1avc a.65.1.1 18171 2shpA 525 4.68e+01 2shpA c.45.1.2,d.93.1.1,d.93.1.1 32683,40533,40534 1k8kB 394 4.70e+01 c.55.1.1 68307 1mvwA 840 4.72e+01 i.15.1.1 79523 2ah5A 210 4.72e+01 2fpnA 216 4.73e+01 1qhfA 240 4.74e+01 1qhfA c.60.1.1 33960 1ieaB 228 4.89e+01 1iakB b.1.1.2,d.19.1.1 21632,38206 1qdbA 473 4.90e+01 1qdbA a.138.1.3 19688 1bucA 383 5.02e+01 3mdeA a.29.3.1,e.6.1.1 16590,42851 17gsA 210 5.03e+01 1pgtA a.45.1.1,c.47.1.5 17524,32818 1qh8A 478 5.10e+01 1qguA c.92.2.3 35633 1qguA 478 5.11e+01 1qguA c.92.2.3 35625 1oheA 348 5.20e+01 c.45.1.1,c.45.1.1 87013,87014 1aqwA 209 5.27e+01 1pgtA a.45.1.1,c.47.1.5 17517,32811 1td6A 306 5.29e+01 1qb7A 236 5.34e+01 1qb7A c.61.1.1 34087 1gpb 842 5.42e+01 1a8i c.87.1.4 35478 2an9A 207 5.49e+01 1rw6A 210 5.67e+01 a.47.4.1 105113 1dcqA 278 5.71e+01 1dcqA d.211.1.1,g.45.1.1 19178,45326 1f2dA 341 5.74e+01 1f2dA c.79.1.1 35298 1a75B 109 5.89e+01 1a75A a.39.1.4 17217 1a75A 108 5.91e+01 1a75A a.39.1.4 17216 1sa3A 262 5.95e+01 c.52.1.23 105400 1ar1A 558 6.09e+01 2occA f.24.1.1 43618 1i1rB 181 6.09e+01 1i1rB a.26.1.1 61548 2c12A 439 6.10e+01 1h1lA 481 6.11e+01 c.92.2.3 70851 1u13A 455 6.12e+01 a.104.1.1 107578 1ouoA 210 6.13e+01 d.4.1.6 93554 1k8kG 151 6.15e+01 a.118.13.1 68313 1jqnA 883 6.21e+01 c.1.12.3 77159 1p99A 295 6.21e+01 c.94.1.1 94384 1omoA 322 6.22e+01 c.2.1.13 104017 1eg7A 557 6.22e+01 1eg7A c.37.1.10 32241 1xg7A 250 6.35e+01 2gtrA 261 6.38e+01 1r4vA 171 6.51e+01 a.197.1.1 97049 1gtxA 472 6.51e+01 1gtxA 1r5lA 262 6.53e+01 a.5.3.1,c.13.1.1 97099,97100 1lbkA 208 6.53e+01 a.45.1.1,c.47.1.5 73809,73810 1bqbA 301 6.59e+01 1hyt d.92.1.2 58962 1ybhA 590 6.60e+01 1r89A 437 6.65e+01 a.160.1.3,d.218.1.7,d.58.16.2 97221,97222,97223 1kv9A 668 6.67e+01 a.3.1.6,b.70.1.1 73056,73057 1c7qA 445 6.79e+01 2pgi c.80.1.2 35307 1bolA 222 6.83e+01 1bolA d.124.1.1 41120 1b0zA 445 6.84e+01 2pgi c.80.1.2 35309 2pgi 445 6.84e+01 2pgi c.80.1.2 35308 18gsA 210 6.84e+01 1pgtA a.45.1.1,c.47.1.5 17528,32822 1v9sA 208 6.87e+01 1c3cA 429 6.87e+01 1c3cA a.127.1.1 19425 1ir3A 306 6.89e+01 1fmk d.144.1.7 41702 1lmb3 92 6.97e+01 1lmb3 1g8fA 511 6.98e+01 1g8fA b.122.1.3,c.26.1.5,c.37.1.15 60348,60349,60350 1o0sA 605 6.99e+01 c.2.1.7,c.58.1.3 86540,86541 1a48 306 7.04e+01 1a48 d.143.1.1 41590 1bk6A 422 7.04e+01 1bk5A a.118.1.1 19133 1u2xA 474 7.05e+01 c.72.1.3 107622 1obdA 306 7.12e+01 d.143.1.1 86767 1hcuA 503 7.15e+01 a.102.2.1 65796 1bk5A 422 7.19e+01 1bk5A a.118.1.1 19130 1m1nB 522 7.22e+01 c.92.2.3 78418 1v33A 366 7.23e+01 d.264.1.1 100278 1twfB 1224 7.25e+01 1ig5A 75 7.31e+01 4icb a.39.1.1 62363 1m33A 258 7.33e+01 c.69.1.26 78514 1iv8A 720 7.34e+01 b.71.1.1,c.1.8.1 76842,76843 1sr4B 261 7.34e+01 d.151.1.1 105949 1vdxA 184 7.36e+01 2b33A 140 7.36e+01 1wtyA 119 7.37e+01 1vkmA 297 7.44e+01 c.138.1.1 108670 2d68A 82 7.44e+01 1noyA 388 7.48e+01 1clqA c.55.3.5 33713 1cem 363 7.50e+01 1cem a.102.1.2 18826 2tmnE 316 7.51e+01 1hyt d.92.1.2 59055 1octC 156 7.51e+01 1au7A a.4.1.1,a.35.1.1 15991,17017 1eg3A 261 7.55e+01 1eg3A a.39.1.7,a.39.1.7,b.72.1.1 17376,17377,27805 1g5hA 454 7.57e+01 1g5hA c.51.1.1,d.104.1.1 60270,60271 2bg9A 370 7.57e+01 1kwfA 363 7.60e+01 a.102.1.2 73078 1imdA 277 7.61e+01 1imbA e.7.1.1 42968 1jbaA 204 7.65e+01 1rec a.39.1.5 17330 1jm6A 407 7.79e+01 a.29.5.1,d.122.1.4 66876,66877 1hyt 316 7.81e+01 1hyt d.92.1.2 59005 8tlnE 316 7.81e+01 1hyt d.92.1.2 59075 6tmnE 316 7.85e+01 1hyt d.92.1.2 59071 1ig6A 107 7.87e+01 1ig6A a.4.3.1 62364 1vllA 334 7.89e+01 c.2.1.13 108834 1kgnA 329 7.92e+01 a.25.1.2 68584 1chrA 370 7.93e+01 1mucA c.1.11.2,d.54.1.1 29252,38896 1ct9A 553 7.94e+01 1ct9A c.26.2.1,d.153.1.1 31616,41834 1jf4A 147 7.97e+01 a.1.1.2 71643 1uetA 437 7.98e+01 a.160.1.3,d.218.1.7,d.58.16.2 99272,99273,99274 1eh2 106 8.02e+01 1eh2 a.39.1.6 17339 1keiA 316 8.09e+01 d.92.1.2 77349 1g8mA 593 8.24e+01 1g8mA c.24.1.3,c.97.2.1 60371,60372 1m98A 317 8.25e+01 a.175.1.1,d.17.4.6 78866,78867 1x0rA 249 8.26e+01 1m2aA 110 8.27e+01 c.47.1.11 78472 1m2bA 110 8.43e+01 c.47.1.11 78474 1izlC 473 8.45e+01 i.5.1.1 76996 1eb7A 323 8.60e+01 1eb7A a.3.1.5,a.3.1.5 59404,59405 1pqzA 238 8.61e+01 b.1.1.2,d.19.1.1 104297,104298 1yozA 116 8.65e+01 1uu3A 310 8.66e+01 d.144.1.7 99999 1h1wA 289 8.69e+01 d.144.1.7 83460 1pv9A 348 8.71e+01 c.55.2.1,d.127.1.1 95157,95158 1tvlA 454 8.72e+01 c.1.16.4 107366 1hpm 386 8.72e+01 1ba1 c.55.1.1,c.55.1.1 33381,33382 1d9cA 121 8.73e+01 1d9cA a.26.1.3 16901 1a76 326 8.74e+01 1a76 a.60.7.1,c.120.1.2 18091,33361 1is2A 661 8.77e+01 a.29.3.2,a.29.3.2,e.6.1.2 71382,71383,71384 1xkpA 246 8.82e+01 1atr 386 8.82e+01 1ba1 c.55.1.1,c.55.1.1 33421,33422 1um8A 376 8.94e+01 c.37.1.20 99580 1lliA 92 8.95e+01 1lmb3 a.35.1.2 17025 1z2lA 423 8.95e+01 1au7A 146 8.95e+01 1au7A a.4.1.1,a.35.1.1 15995,17021 1k9dA 679 8.96e+01 c.1.8.10,d.92.2.2 77292,77293 1kqfB 294 8.98e+01 d.58.1.5,f.23.22.1 75900,75901