# List of top-scoring protein chains for t04-100-30-near-backbone-11-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 2aobA 99 7.91e-01 2b0cA 206 8.97e-01 2a7oA 112 1.39e+00 2eu8A 216 1.61e+00 1rec 201 2.02e+00 1rec a.39.1.5 17326 1c24A 263 2.05e+00 1c24A d.127.1.1 41148 1zfpE 98 2.14e+00 1griA d.93.1.1 40465 1wdcB 156 2.19e+00 1wdcB a.39.1.5 17302 1ohlA 342 2.27e+00 c.1.10.3 87035 1h7nA 342 2.35e+00 1b4kA c.1.10.3 60726 1kk8B 139 2.53e+00 a.39.1.5 77430 1xnzA 264 2.69e+00 1jyrA 96 2.71e+00 d.93.1.1 71969 1omrA 201 3.17e+00 a.39.1.5 93349 1t3qA 168 3.21e+00 a.56.1.1,d.15.4.2 106367,106368 2ggcA 263 3.53e+00 1ug3A 339 3.58e+00 1njhA 119 4.16e+00 b.128.1.1 85787 1a0rP 245 4.21e+00 1b9yC c.47.1.6 33054 1zip 217 4.28e+00 1zin c.37.1.1,g.41.2.1 31916,45179 1zin 217 4.35e+00 1zin c.37.1.1,g.41.2.1 31915,45178 1jbkA 195 4.84e+00 c.37.1.20 71631 2fhpA 187 4.89e+00 2d1pB 119 5.12e+00 2cwyA 94 5.40e+00 2bidA 197 6.48e+00 2bidA f.1.4.1 43398 1oa8A 133 6.69e+00 b.145.1.1 92698 1uufA 369 6.76e+00 b.35.1.2,c.2.1.1 100006,100007 1ng6A 148 7.17e+00 a.182.1.1 85670 1vlrA 350 7.18e+00 d.13.1.3,d.246.1.1 108860,108861 1p4cA 380 7.27e+00 c.1.4.1 94100 2a1kA 233 7.78e+00 1wjuA 100 8.04e+00 1pp0A 199 8.07e+00 d.103.1.1 104211 1aky 221 8.13e+00 1zin c.37.1.1,g.41.2.1 31896,45197 1h4pA 408 8.30e+00 c.1.8.3 90617 1mtyB 384 8.46e+00 1mtyB a.25.1.2 16740 2b0jA 358 8.59e+00 1zb1A 392 8.95e+00 1o08A 221 9.29e+00 c.108.1.6 86525 1th8A 145 9.58e+00 d.122.1.3 106908 1dv0A 47 9.72e+00 1dv0A a.5.2.1 16289 2aucA 126 1.02e+01 1ykjA 394 1.02e+01 1k0iA 394 1.03e+01 c.3.1.2,d.16.1.2 67942,67943 1uc8A 280 1.03e+01 c.30.1.6,d.142.1.7 99165,99166 1pbe 394 1.06e+01 1pbe c.3.1.2,d.16.1.2 30338,37869 1p3jA 217 1.06e+01 c.37.1.1,g.41.2.1 94022,94023 1egaA 301 1.07e+01 1egaA c.37.1.8,d.52.3.1 32150,38836 1r3dA 264 1.08e+01 2esrA 177 1.16e+01 1rqtA 37 1.23e+01 a.108.1.1 97771 1e0wA 313 1.23e+01 1taxA c.1.8.3 59150 1ah7 245 1.41e+01 1ah7 a.124.1.1 19339 1xlyA 234 1.51e+01 1ou0A 207 1.55e+01 c.23.17.1 93536 1z9fA 153 1.77e+01 2trcP 217 1.81e+01 1b9yC c.47.1.6 33051 1ghpA 258 1.81e+01 1btl e.3.1.1 60520 2d2mC 147 1.87e+01 1gu2A 124 1.88e+01 a.3.1.1 76348 1v0lA 313 1.90e+01 c.1.8.3 108207 1uxy 340 1.92e+01 2mbr d.145.1.2,d.146.1.1 41748,41761 1w8gA 234 1.98e+01 1byi 224 2.09e+01 1byi c.37.1.10 32199 2gwdA 449 2.14e+01 2genA 197 2.18e+01 1pufB 73 2.22e+01 a.4.1.1 95132 1yrgA 385 2.23e+01 1yrgA c.10.1.2 30854 1fxrA 64 2.24e+01 1fxd d.58.1.4 38993 2d2mD 145 2.29e+01 1od8A 313 2.31e+01 c.1.8.3 86838 1ty0A 211 2.31e+01 b.40.2.2,d.15.6.1 107440,107441 2b2aA 199 2.32e+01 1xknA 355 2.37e+01 1i39A 225 2.40e+01 1ekeA c.55.3.1 61585 1dbqA 289 2.53e+01 1qpzA c.93.1.1 35666 2ffjA 300 2.56e+01 2f1kA 279 2.66e+01 1wyuA 438 2.68e+01 1z3eB 73 2.83e+01 1o13A 136 2.94e+01 c.55.5.1 80762 2occJ 59 2.96e+01 2occJ f.23.4.1 43524 1xn9A 101 3.02e+01 1oz9A 150 3.05e+01 d.92.1.15 93808 1nrvA 105 3.16e+01 d.93.1.1 86126 1n62A 166 3.19e+01 a.56.1.1,d.15.4.2 80090,80091 1rowA 109 3.20e+01 b.1.11.2 97676 1vqzA 341 3.21e+01 1v54J 59 3.21e+01 f.23.4.1 100331 2cosA 54 3.21e+01 1dpuA 99 3.25e+01 1dpuA a.4.5.16 16150 1yc9A 442 3.30e+01 2c4wA 176 3.38e+01 1uvzA 119 3.45e+01 1bkjA 240 3.49e+01 1bkjA d.90.1.1 40243 2c1vA 338 3.80e+01 1ss4A 153 3.85e+01 d.32.1.6 105976 1ekeA 230 4.02e+01 1ekeA c.55.3.1 33572 2cvhA 220 4.08e+01 1kxpD 458 4.09e+01 a.126.1.1,a.126.1.1,a.126.1.1 73160,73161,73162 2cvzA 289 4.13e+01 1epxA 370 4.16e+01 1fbaA c.1.10.1 29150 2ca6A 386 4.22e+01 2dkaA 544 4.29e+01 1zmbA 290 4.34e+01 1q60A 99 4.43e+01 1sx7A 164 4.48e+01 2azeA 155 4.62e+01 1z77A 200 4.63e+01 1dat 174 4.67e+01 2fha a.25.1.1 16677 1oz7A 131 4.70e+01 d.169.1.1 93806 1swyA 164 4.81e+01 1cdcA 99 4.91e+01 1cdcA b.1.1.1 19746 2ak3A 226 4.91e+01 1zin c.37.1.1,g.41.2.1 31892,45193 2ev7A 64 4.93e+01 1qf5A 431 4.96e+01 1adeA c.37.1.10 32212 1r9lA 309 5.06e+01 c.94.1.1 97262 1rh5A 436 5.06e+01 f.41.1.1 97464 1gl2B 65 5.09e+01 h.1.15.1 65279 1nq6A 302 5.12e+01 c.1.8.3 92046 1bjaA 95 5.17e+01 1bjaA a.4.5.9 16122 1mo1A 87 5.20e+01 d.94.1.1 91363 1dt1A 129 5.24e+01 1c52 a.3.1.1 15811 1gsoA 431 5.27e+01 1gsoA b.84.2.1,c.30.1.1,d.142.1.2 28240,31647,41492 1w1oA 534 5.31e+01 d.58.32.4,d.145.1.1 109071,109072 1914 232 5.33e+01 1914 d.49.1.1,d.49.1.1 83028,83029 1pmi 440 5.34e+01 1pmi b.82.1.3 28114 1sb2A 133 5.34e+01 1k7kA 221 5.42e+01 c.51.4.1 72104 1k92A 455 5.48e+01 c.26.2.1,d.210.1.1 68325,68326 1a92A 50 5.48e+01 1a92A h.4.6.1 45791 1zx4A 192 5.50e+01 1epuA 591 5.50e+01 1dn1A e.25.1.1 43358 1yruB 74 5.60e+01 1nfp 228 5.64e+01 1nfp c.1.16.2 29555 1o7nB 194 5.66e+01 d.17.4.4 81164 1gk7A 39 5.66e+01 h.1.20.1 70212 2gzaA 361 5.66e+01 1pulA 125 5.70e+01 2g3bA 208 5.78e+01 1pcxA 810 5.79e+01 a.71.2.1,b.2.8.1,c.62.1.2,d.109.2.1,g.41.10.1 94497,94498,94499,94500,94501 4tmkA 213 5.82e+01 5tmpA c.37.1.1 31930 1w4vA 119 5.85e+01 2g5cA 281 5.89e+01 1dszB 85 5.91e+01 2nllB g.39.1.2 45108 1yemA 179 5.98e+01 1jgsA 138 6.02e+01 a.4.5.28 66683 1woqA 267 6.03e+01 c.55.1.10,c.55.1.10 109462,109463 1qhxA 178 6.03e+01 1qhsA c.37.1.3 31936 1k28A 584 6.07e+01 b.40.8.1,b.108.1.2,d.2.1.3 68049,68050,68051 2b81A 323 6.13e+01 1ywqA 200 6.15e+01 1mijA 152 6.18e+01 a.4.1.1 79150 1mhyB 395 6.18e+01 1mtyB a.25.1.2 16781 1bftA 101 6.19e+01 1a3qA b.1.18.1 21934 1pg4A 652 6.46e+01 e.23.1.1 88067 1vzyA 291 6.47e+01 1m7bA 184 6.49e+01 c.37.1.8 74572 1j1jA 240 6.61e+01 a.118.16.1 90762 1ufwA 95 6.61e+01 d.58.7.1 99358 1p36A 164 6.61e+01 d.2.1.3 93978 2gnoA 305 6.71e+01 2fh1A 344 6.79e+01 1gln 468 6.87e+01 1gln a.97.1.1,c.26.1.1 18752,31588 1nf1A 333 6.95e+01 1nf1A a.116.1.2 19110 1elwA 118 6.96e+01 1a17 a.118.8.1 19207 1yoeA 322 6.98e+01 1xl7A 612 7.07e+01 1repC 251 7.10e+01 1repC a.4.5.10,a.4.5.10 16125,16126 1ezvA 430 7.13e+01 1be3A d.185.1.1,d.185.1.1 59541,59542 1j09A 468 7.18e+01 a.97.1.1,c.26.1.1 77025,77026 1ci4A 89 7.18e+01 1qckA a.60.5.1 17970 1eg9B 194 7.19e+01 1ndoB d.17.4.4 38120 1p8xA 344 7.24e+01 d.109.1.1,d.109.1.1,d.109.1.1 94365,94366,94367 1nekC 129 7.47e+01 f.21.2.2 80431 1xpxA 163 7.47e+01 1iba 101 7.54e+01 1iba d.95.1.1 40567 1kb9A 431 7.54e+01 d.185.1.1,d.185.1.1 77311,77312 1nnjA 271 7.58e+01 a.156.1.2,b.113.1.1,g.39.1.8 80669,80670,80671 1iooA 196 7.60e+01 d.124.1.1 71250 1lox 662 7.62e+01 1lox a.119.1.2,b.12.1.1 19238,23638 1b7yB 785 7.73e+01 1pysB a.6.1.1,a.6.1.1,b.40.4.4,d.58.13.1,d.104.1.1,d.138.1.1 16301,16302,25312,39311,40780,41456 1pjjA 271 7.81e+01 a.156.1.2,b.113.1.1,g.39.1.8 104164,104165,104166 1fvzA 271 7.96e+01 1fvzA 2gkpA 167 8.03e+01 1v32A 101 8.10e+01 a.42.1.1 100277 1lw9A 164 8.18e+01 d.2.1.3 84727 2guhA 214 8.19e+01 1t6t1 118 8.19e+01 1dssG 333 8.25e+01 1dssG c.2.1.3,d.81.1.1 30022,39937 1my7A 114 8.29e+01 b.1.18.1 79675 1z1dA 103 8.39e+01 1v2zA 111 8.50e+01 a.186.1.1 108300 119l 164 8.55e+01 1l92 d.2.1.3 36622 1q02A 52 8.64e+01 a.5.2.1 95490 1kk1A 410 8.69e+01 b.43.3.1,b.44.1.1,c.37.1.8 72634,72635,72636 1tq4A 413 8.71e+01 c.37.1.8 107201 1z0jB 59 8.81e+01 1wu7A 434 8.91e+01 2a72A 146 8.92e+01 2b9hA 353 8.97e+01 1z00B 84 8.98e+01