# List of top-scoring protein chains for t2k-100-30-n_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 1wnyA 186 1.00e+00 1aqn 275 1.54e+00 1gci c.41.1.1 32514 1ak9 275 1.89e+00 1gci c.41.1.1 32517 1s01 283 2.62e+00 1gci c.41.1.1 32511 1cs1C 386 3.23e+00 1ibjA c.67.1.3 34401 1w0dA 337 3.87e+00 1ile 821 3.93e+00 1ile a.27.1.1,b.51.1.1,c.26.1.1 16924,26889,31591 1jchA 551 4.40e+00 b.101.1.1,b.110.1.1,h.4.9.1 66491,66492,66493 1jchC 551 4.40e+00 b.101.1.1,b.110.1.1,h.4.9.1 66495,66496,66497 1zk7A 467 4.52e+00 117eA 286 4.62e+00 1wgjA b.40.5.1 25401 1pieA 419 4.67e+00 d.14.1.5,d.58.26.7 94706,94707 1xaa 345 4.75e+00 1cnzA c.77.1.1 35033 1ta8A 332 4.76e+00 1ihp 438 5.80e+00 1ihp c.60.1.2 33993 1fcjA 322 5.87e+00 1oasA c.79.1.1 35289 1d2tA 231 6.03e+00 1d2tA a.111.1.1 19052 1m0qA 433 6.06e+00 c.67.1.4 78350 1gosA 520 6.31e+00 c.3.1.2,d.16.1.5 65425,65426 1hqsA 423 6.34e+00 1iso c.77.1.1 61154 1riqA 465 6.42e+00 a.203.1.1,d.104.1.1 97516,97517 1e79D 482 6.50e+00 1skyE a.69.1.1,b.49.1.1,c.37.1.11 18272,26437,32317 1eulA 994 6.77e+00 1eulA 1kblA 873 7.31e+00 c.1.12.2,c.8.1.1,d.142.1.5 68384,68385,68386 1ipd 345 7.40e+00 1cnzA c.77.1.1 35038 1e4cP 215 7.61e+00 2fua c.74.1.1 34969 1hyoA 421 7.77e+00 1qcnA b.34.8.1,d.177.1.1 59001,59002 1a31A 538 8.38e+00 1a36A d.163.1.2,e.15.1.1 42170,43263 1hp5A 512 8.49e+00 1hp4A c.1.8.6,d.92.2.1 61113,61114 1jakA 512 8.61e+00 c.1.8.6,d.92.2.1 66472,66473 1a36A 592 9.01e+00 1a36A a.2.8.1,d.163.1.2,e.15.1.1 15715,42173,43266 2btfA 375 9.27e+00 1yagA c.55.1.1,c.55.1.1 33429,33430 1ea7A 310 9.64e+00 c.41.1.1 70086 1wpgA 994 1.02e+01 1u69A 163 1.10e+01 d.32.1.7 107699 1n4kA 381 1.19e+01 a.118.22.1,b.42.6.1 79992,79993 1yppA 286 1.30e+01 1wgjA b.40.5.1 25407 1qorA 327 1.32e+01 1qorA b.35.1.2,c.2.1.1 24766,29782 1fua 215 1.33e+01 2fua c.74.1.1 34973 1nozA 388 1.34e+01 1clqA c.55.3.5 33715 1d8cA 723 1.43e+01 1d8cA c.1.13.1 29325 1b65A 375 1.50e+01 1b65A d.154.1.1 42020 1nnjA 271 1.54e+01 a.156.1.2,b.113.1.1,g.39.1.8 80669,80670,80671 1evuA 731 1.64e+01 1f13A b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 21883,22175,22176,37113 1djxB 624 1.69e+01 1djxB a.39.1.7,b.7.1.1,c.1.18.1 17343,23160,29588 2gjgA 248 1.72e+01 1crkA 380 1.72e+01 1qh4A a.83.1.1,d.128.1.2 18458,41193 1ve5A 311 1.74e+01 2d0iA 333 1.75e+01 1ecfB 504 1.79e+01 1ecfB c.61.1.1,d.153.1.1 34054,41821 2f2hA 773 1.82e+01 1rg9A 383 1.85e+01 d.130.1.1,d.130.1.1,d.130.1.1 97427,97428,97429 1nksA 194 1.90e+01 1nksA c.37.1.1 31886 1ftrA 296 1.91e+01 1ftrA d.58.33.1,d.58.33.1 39485,39486 1xxsA 122 1.95e+01 1ecfA 504 1.97e+01 1ecfB c.61.1.1,d.153.1.1 34053,41820 2b59B 172 1.98e+01 1j8wB 273 1.99e+01 1d7uA 433 1.99e+01 2dkb c.67.1.4 34439 1gppA 237 2.01e+01 b.86.1.2 76262 1v25A 541 2.01e+01 e.23.1.1 108275 1xwvA 129 2.04e+01 1tl0D 103 2.07e+01 1ir3A 306 2.08e+01 1fmk d.144.1.7 41702 1cjaA 342 2.13e+01 1cjaA d.144.1.3 41708 1n1mA 728 2.16e+01 b.70.3.1,c.69.1.24 79815,79816 1xipA 388 2.19e+01 1nnfA 309 2.21e+01 c.94.1.1 85903 2frvB 536 2.22e+01 1h2rL e.18.1.1 43291 1y5iA 1246 2.24e+01 1jsmB 176 2.25e+01 h.3.1.1 63265 1kpmA 121 2.25e+01 a.133.1.2 72844 1a1x 108 2.29e+01 1a1x b.63.1.1 27514 1d4xG 126 2.35e+01 1d0nA d.109.1.1 59109 1pixA 587 2.46e+01 c.14.1.4 94708 6tmnE 316 2.49e+01 1hyt d.92.1.2 59071 1or0B 528 2.51e+01 1ex0A 731 2.53e+01 b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 90465,90466,90467,90468 1e79A 510 2.54e+01 1skyB a.69.1.1,b.49.1.1,c.37.1.11 18269,26434,32314 1tml 286 2.61e+01 1tml c.6.1.1 30656 2gl5A 410 2.69e+01 1mnd 762 2.71e+01 1lvk b.34.3.1,c.37.1.9 24591,32188 1gc0A 398 2.73e+01 c.67.1.3 70168 1xdwA 331 2.76e+01 1j5eK 129 2.82e+01 c.55.4.1 71554 1fcdA 401 2.84e+01 1fcdA c.3.1.5,c.3.1.5,d.87.1.1 30593,30594,40218 2ganA 190 2.85e+01 1nq7A 244 2.85e+01 a.123.1.1 92047 1ne7A 289 2.90e+01 c.124.1.1 91833 1vjpA 394 3.05e+01 c.2.1.3,d.81.1.3 100828,100829 2b34A 199 3.11e+01 2ck3A 510 3.32e+01 2eu9A 355 3.36e+01 1vhsA 175 3.45e+01 d.108.1.1 100698 2a2kA 175 3.49e+01 2cvzA 289 3.50e+01 1ll1 590 3.60e+01 1lla a.85.1.1,a.86.1.1,b.1.18.3 18488,18499,21864 1k4wA 252 3.61e+01 a.123.1.1 72068 2bodX 286 3.70e+01 1pbtA 244 3.72e+01 c.124.1.1 94416 1anv 356 3.72e+01 1anv a.54.1.1,g.51.1.1,g.51.1.1 17890,45365,45371 1y0pA 571 3.83e+01 2d0oA 610 3.84e+01 1pzxA 289 3.86e+01 c.119.1.1 95484 1zxmA 400 3.86e+01 1g8oA 310 4.01e+01 1g8oA c.68.1.9 60375 1a48 306 4.04e+01 1a48 d.143.1.1 41590 1b4vA 504 4.09e+01 1b8sA c.3.1.2,d.16.1.1 30334,37865 1xa0A 328 4.20e+01 1si6X 282 4.26e+01 1r30A 369 4.29e+01 c.1.28.1 96895 1fohA 664 4.33e+01 1fohA c.3.1.2,c.47.1.10,d.16.1.2 30381,33078,37900 1itcA 516 4.35e+01 b.3.1.1,c.1.8.1 83705,83706 1ej6B 1275 4.36e+01 i.7.1.1 45968 1h8eA 510 4.47e+01 1skyB a.69.1.1,b.49.1.1,c.37.1.11 60738,60739,60740 1obbA 480 4.49e+01 c.2.1.5,d.162.1.2 86760,86761 1jvsA 400 4.51e+01 a.69.3.1,c.2.1.3,d.81.1.3 77187,77188,77189 1aisA 182 4.51e+01 1ytbA d.129.1.1,d.129.1.1 41288,41289 1jr7A 311 4.54e+01 b.82.2.3 63255 2fymA 431 4.62e+01 1txnA 328 4.67e+01 1nqkA 381 4.71e+01 c.1.16.4 92050 1zcdA 388 4.74e+01 1b0uA 262 4.81e+01 1b0uA c.37.1.12 32370 2gd9A 189 4.91e+01 2cpl 165 4.97e+01 2cpl b.62.1.1 27420 1gycA 499 5.03e+01 b.6.1.3,b.6.1.3,b.6.1.3 70748,70749,70750 1iyxA 432 5.08e+01 c.1.11.1,d.54.1.1 83815,83816 1mqoA 227 5.12e+01 d.157.1.1 103846 1h2aL 567 5.13e+01 1h2rL e.18.1.1 43299 2b8nA 429 5.17e+01 1d9tA 289 5.27e+01 1deaA 1pedA 351 5.32e+01 1pedA b.35.1.2,c.2.1.1 24753,29769 1j09A 468 5.34e+01 a.97.1.1,c.26.1.1 77025,77026 2bogX 286 5.35e+01 1kqfB 294 5.39e+01 d.58.1.5,f.23.22.1 75900,75901 5bcaA 516 5.55e+01 1b9zA b.3.1.1,c.1.8.1 22529,28799 1gt91 357 5.55e+01 1qhxA 178 5.63e+01 1qhsA c.37.1.3 31936 1tyv 542 5.82e+01 1tyv b.80.1.6 28038 1alq 266 5.89e+01 1btl e.3.1.1 42707 3vub 101 6.08e+01 3vub b.34.6.1 24613 1wbpA 397 6.09e+01 1lml 478 6.15e+01 1lml d.92.1.3 40295 1ah2 269 6.18e+01 1gci c.41.1.1 32542 1z63A 500 6.19e+01 1m3sA 186 6.21e+01 c.80.1.3 78573 1t2wA 145 6.22e+01 b.100.1.1 106289 1djrD 103 6.25e+01 3chbD b.40.2.1 24865 1vplA 256 6.26e+01 1fukA 165 6.27e+01 1fukA c.37.1.19 32409 1c8uA 285 6.29e+01 1c8uA d.38.1.3,d.38.1.3 38547,38548 1u4gA 301 6.31e+01 d.92.1.2 107670 1efiD 103 6.31e+01 3chbD b.40.2.1 24870 1t1gA 364 6.44e+01 c.41.1.2 106246 1yagG 125 6.56e+01 1d0nA d.109.1.1 40846 2amdA 311 6.68e+01 1zybA 232 6.68e+01 2furA 209 6.70e+01 1gox 370 6.74e+01 1gox c.1.4.1 28607 1y791 680 6.82e+01 1se8A 301 6.83e+01 b.40.4.3 105448 1d2oA 187 7.00e+01 1d2oA b.3.5.1,b.3.5.1 22625,22626 1cq3A 233 7.05e+01 1cq3A b.27.1.1 23923 1dxkA 227 7.06e+01 1a7tA d.157.1.1 42036 1ppjA 446 7.07e+01 d.185.1.1,d.185.1.1 104252,104253 1ty0A 211 7.09e+01 b.40.2.2,d.15.6.1 107440,107441 1pvyA 227 7.18e+01 d.115.1.2 95195 1nm1G 125 7.19e+01 d.109.1.1 80653 2b7oA 464 7.19e+01 1zgdA 312 7.31e+01 1ebdA 455 7.31e+01 1lvl c.3.1.5,c.3.1.5,d.87.1.1 30577,30578,40210 1mvfA 135 7.32e+01 b.1.1.1 85141 2a5kA 307 7.33e+01 1jf0A 195 7.35e+01 1ej3A a.39.1.5 62926 1agjA 242 7.40e+01 1agjA b.47.1.1 25827 1j7gA 144 7.40e+01 c.110.1.1 84130 1q2wA 308 7.44e+01 b.47.1.4 88355 1fe8A 196 7.51e+01 1atzA c.62.1.1 59783 1evyA 366 7.56e+01 1evyA a.100.1.6,c.2.1.6 18811,30215 1vgjA 184 7.60e+01 1w1oA 534 7.61e+01 d.58.32.4,d.145.1.1 109071,109072 1qvbA 481 7.61e+01 1qvbA c.1.8.4 28983 1mjc 69 7.61e+01 1mjc b.40.4.5 25319 1u1jA 765 7.62e+01 c.1.22.2,c.1.22.2 107590,107591 2gvkA 317 7.63e+01 1l5oA 356 7.65e+01 c.39.1.1 77711 1b8pA 329 7.65e+01 1bmdA c.2.1.5,d.162.1.1 30147,42114 1u1hA 765 7.73e+01 c.1.22.2,c.1.22.2 107580,107581 2b4gA 317 7.77e+01 1ceo 343 7.80e+01 1ceo c.1.8.3 28808 2ceyA 306 7.82e+01 1kf6A 602 7.86e+01 a.7.3.1,c.3.1.4,d.168.1.1 72394,72395,72396 1jdw 423 7.95e+01 1jdw d.126.1.2 41129 1gupA 348 8.02e+01 1guqA d.13.1.2,d.13.1.2 37534,37535 1f4tA 368 8.05e+01 1f4tA a.104.1.1 18973 1l6nA 289 8.10e+01 a.61.1.1,a.73.1.1 73624,73625 1f3eA 386 8.13e+01 1pud c.1.20.1 29661 1kl7A 514 8.19e+01 c.79.1.1 72678 1thjA 214 8.27e+01 1qreA b.81.1.5 28072 1l2uA 245 8.29e+01 c.1.2.3 73516 1w6tA 444 8.33e+01 1cnzA 363 8.44e+01 1cnzA c.77.1.1 35061 1xc1A 309 8.47e+01 c.94.1.1 109543 1ntyA 311 8.61e+01 a.87.1.1,b.55.1.1 103873,103874 1wwzA 159 8.66e+01 1g0uG 252 8.68e+01 d.153.1.4 41952 1lehA 364 8.83e+01 1bw9A c.2.1.7,c.58.1.1 30268,33916 1e96B 203 8.96e+01 1e96B a.118.8.1 19211