# List of top-scoring protein chains for t2k-100-30-bys-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 2c46A 241 9.60e-02 1i9sA 210 1.05e-01 1i9sA c.45.1.1 62099 1s1eA 224 1.21e+00 1s6cA 183 1.60e+00 a.39.1.5 98594 1lkxA 697 2.42e+00 c.37.1.9 73981 1x3xA 82 2.73e+00 1db1A 259 5.12e+00 1db1A a.123.1.1 19329 1sqhA 312 6.20e+00 d.108.1.5 98966 1n6bA 473 6.37e+00 a.104.1.1 85359 1x8gA 227 7.35e+00 1vr5A 547 7.45e+00 1g8jB 133 7.62e+00 1g8jB b.33.1.1 24439 1uf2A 1019 7.85e+00 e.28.1.2 99289 1knt 58 7.99e+00 1bpi g.8.1.1 44538 1qbgA 272 8.02e+00 1d4aA c.23.5.3 31227 1kbqA 273 9.49e+00 c.23.5.3 68391 1dd9A 338 1.00e+01 1dd9A e.13.1.1 43254 1jlwA 219 1.07e+01 a.45.1.1,c.47.1.5 71741,71742 1ovnA 248 1.13e+01 a.71.1.1,c.47.1.7 93602,93603 2knt 58 1.14e+01 1bpi g.8.1.1 44537 1d4aA 273 1.16e+01 1d4aA c.23.5.3 31219 2sas 185 1.23e+01 2sas a.39.1.5 17258 1ltdA 506 1.37e+01 1gox c.1.4.1,d.120.1.1 28618,41086 2cohA 202 1.40e+01 1uok 558 1.47e+01 1uok b.71.1.1,c.1.8.1 27801,28788 1zkiA 133 1.52e+01 1q4uA 151 1.53e+01 d.38.1.5 95828 1jr7A 311 1.55e+01 b.82.2.3 63255 2gk9A 426 1.60e+01 1e55A 512 1.61e+01 1e70M c.1.8.4 28934 1h49A 512 1.68e+01 c.1.8.4 83477 1fcbA 511 1.69e+01 1gox c.1.4.1,d.120.1.1 28620,41087 2a1xA 308 1.69e+01 1k8kG 151 1.70e+01 a.118.13.1 68313 1uvzA 119 1.72e+01 1s8nA 205 1.77e+01 c.23.1.1 105374 1jsuC 84 1.78e+01 1jsuC j.55.1.1 46339 1g8kB 133 1.83e+01 1g8jB b.33.1.1 24435 1gvdA 52 1.85e+01 a.4.1.3 83338 1kthA 58 1.86e+01 g.8.1.1 68863 1ddeA 338 1.88e+01 1dd9A e.13.1.1 43255 3rp2A 224 1.96e+01 1a7s b.47.1.2 26298 1ie9A 259 1.99e+01 1db1A a.123.1.1 62318 1w4vA 119 1.99e+01 1dt6A 473 2.15e+01 1dt6A a.104.1.1 18977 2g0qA 173 2.33e+01 1dw9A 156 2.35e+01 1dw9A a.35.1.4,d.72.1.1 17065,39596 2abk 211 2.35e+01 2abk a.96.1.1 18743 1wv2A 265 2.37e+01 1dwkA 156 2.39e+01 1dw9A a.35.1.4,d.72.1.1 17075,39606 1fchA 368 2.48e+01 1fchA a.118.8.1 19212 1uumA 372 2.64e+01 c.1.4.1 100010 1tx4B 178 2.68e+01 1ctqA c.37.1.8 32045 1a4fA 141 2.75e+01 1abwA a.1.1.2 15394 1htqA 477 2.85e+01 d.15.9.1,d.128.1.1 71035,71036 1xw5A 217 2.86e+01 1kmqA 184 2.88e+01 c.37.1.8 84412 2a7kA 250 2.89e+01 2c4jA 218 2.94e+01 1e58A 249 2.94e+01 1qhfA c.60.1.1 59262 1lj0A 92 3.03e+01 d.120.1.1 78019 1f8aB 167 3.05e+01 1pinA b.72.1.1,d.26.1.1 27803,38432 1d3gA 367 3.06e+01 1d3gA c.1.4.1 28600 2d83A 363 3.07e+01 2drwA 363 3.07e+01 1nr6A 473 3.11e+01 a.104.1.1 92085 1t1vA 93 3.11e+01 c.47.1.14 106278 1s5lA 344 3.25e+01 2d5xA 141 3.25e+01 1t00A 112 3.35e+01 2b0mA 393 3.38e+01 1d3hA 367 3.50e+01 1d3gA c.1.4.1 28601 1rtxA 123 3.54e+01 a.1.1.1 97827 1rsgA 516 3.63e+01 1wmuA 141 3.65e+01 a.1.1.2 109416 2es7A 142 3.68e+01 1dmhA 311 3.70e+01 1dmhA b.3.6.1 22633 1fzqA 181 3.71e+01 1hurA c.37.1.8 32060 1jvr 137 3.72e+01 1jvr a.61.1.2 18132 1ba5 53 3.73e+01 1ba5 a.4.1.4 16045 1htoA 477 3.79e+01 d.15.9.1,d.128.1.1 70987,70988 1aqa 94 3.92e+01 1cyo d.120.1.1 41075 2aegA 268 3.95e+01 1tp4A 97 3.97e+01 a.189.1.1 107183 1sbyA 254 4.03e+01 2d0oA 610 4.11e+01 1zzgA 415 4.17e+01 2bvcA 486 4.20e+01 2h79A 269 4.21e+01 1aup 449 4.34e+01 1k89 c.2.1.7,c.58.1.1 30222,33870 2a5vA 213 4.40e+01 1yr1A 119 4.42e+01 1gw5S 142 4.57e+01 d.110.4.2 70633 1x8hA 228 4.61e+01 1ifqA 138 4.62e+01 1ifqA d.110.4.1 62350 1pvyA 227 4.64e+01 d.115.1.2 95195 1tf0B 53 4.73e+01 a.8.1.2 106825 1pinA 163 4.73e+01 1pinA b.72.1.1,d.26.1.1 27802,38431 2hekA 371 4.74e+01 1oohA 126 4.80e+01 a.39.2.1 93383 1zxoA 291 4.86e+01 1k1fA 72 4.89e+01 a.147.1.1 68007 1z08A 170 4.89e+01 2clbA 188 5.04e+01 1q1lA 401 5.11e+01 d.258.1.1 95591 1bgvA 449 5.17e+01 1k89 c.2.1.7,c.58.1.1 30217,33865 1mszA 86 5.23e+01 d.68.7.1 79428 1gmwA 143 5.26e+01 b.107.1.1,d.58.38.1 65347,65348 1hm6A 346 5.38e+01 1avc a.65.1.1 18147 2fcr 173 5.47e+01 1rcf c.23.5.1 31151 1ijtA 128 5.64e+01 1bfg b.42.1.1 62510 1kqfC 217 5.96e+01 f.21.1.1 72874 1snnA 227 6.00e+01 d.115.1.2 105821 1eueA 86 6.03e+01 1cyo d.120.1.1 59504 1jfgA 374 6.05e+01 a.128.1.5 66636 1j0fA 100 6.06e+01 c.47.1.14 90739 1aorA 605 6.10e+01 1b25A a.110.1.1,d.152.1.1 19042,41794 1ef1C 90 6.18e+01 1ef1C a.137.5.1 19642 1ewjA 126 6.29e+01 1ecsA d.32.1.2 59526 1ecsA 126 6.34e+01 1ecsA d.32.1.2 59407 1f7zA 233 6.37e+01 5ptp b.47.1.2 59681 1hrdA 449 6.39e+01 1k89 c.2.1.7,c.58.1.1 30219,33867 1dekA 241 6.42e+01 1dekA c.37.1.1 31842 1mb4A 370 6.48e+01 c.2.1.3,d.81.1.1 78908,78909 1ym3A 215 6.53e+01 2azqA 311 6.53e+01 1delA 241 6.61e+01 1dekA c.37.1.1 31844 1zd7A 159 6.71e+01 1wl9A 440 6.85e+01 1ala 321 6.89e+01 1avc a.65.1.1 18153 1k89 449 6.90e+01 1k89 c.2.1.7,c.58.1.1 30218,33866 1r5zA 323 6.95e+01 f.40.1.1 97135 1ow4A 129 6.97e+01 a.39.2.1 93628 1awpA 92 7.04e+01 1cyo d.120.1.1 41071 2gasA 307 7.11e+01 1e0eA 55 7.11e+01 1wjcA a.4.10.1 59147 2bwvA 440 7.18e+01 2d9bA 109 7.22e+01 1az9 457 7.32e+01 1az9 c.55.2.1,d.127.1.1 33547,41164 1pveA 72 7.35e+01 a.189.1.1 104322 1avc 673 7.36e+01 1avc a.65.1.1,a.65.1.1 18178,18179 1je5A 206 7.38e+01 1je5A b.40.4.7 62909 1gqoB 143 7.40e+01 c.23.13.1 76296 1si7A 369 7.48e+01 d.265.1.4 98883 1al6 437 7.55e+01 1csh a.103.1.1 18885 1qn2A 100 7.57e+01 1ycc a.3.1.1 15882 2ffqA 171 7.59e+01 1owfA 99 7.60e+01 a.55.1.1 87487 1ihfA 99 7.60e+01 1huuA a.55.1.1 17893 1csc 433 7.61e+01 1csh a.103.1.1 18886 1yiiA 320 7.66e+01 1hyp 80 7.70e+01 1hyp a.52.1.1 17806 2gf6A 135 7.73e+01 1a16 440 7.74e+01 1az9 c.55.2.1,d.127.1.1 33548,41165 2glsA 470 7.80e+01 1lgr d.15.9.1,d.128.1.1 37851,41181 1h5wA 309 7.81e+01 e.27.1.1 65635 1y60A 169 7.92e+01 1aii 323 8.00e+01 1avc a.65.1.1 18150 1fo1A 271 8.08e+01 1fo1A c.10.2.3,d.58.7.2 30869,39213 6cts 433 8.17e+01 1csh a.103.1.1 18891 1b5m 84 8.25e+01 1cyo d.120.1.1 41073 1axn 323 8.30e+01 1avc a.65.1.1 18149 1cf7A 76 8.34e+01 1cf7B a.4.5.17 16151 1ihoA 283 8.39e+01 1ihoA c.26.1.4 62390 1ijgA 309 8.40e+01 1fouA e.27.1.1 62493 1j3mA 129 8.41e+01 d.129.7.1 103836 1guuA 52 8.50e+01 a.4.1.3 83332 1ytaA 180 8.52e+01 1ann 318 8.54e+01 1avc a.65.1.1 18151 1xszA 356 8.58e+01 1xg7A 250 8.58e+01 1a4uA 254 8.59e+01 1b16A c.2.1.2 29878 1szwA 379 8.64e+01 d.265.1.4 99047 1djtA 64 8.66e+01 1aho g.3.7.1 44132 1xpxA 163 8.79e+01 1kiyA 374 8.82e+01 a.128.1.5 72555 1b16A 254 8.82e+01 1b16A c.2.1.2 29875 1ncx 162 8.93e+01 1ncx a.39.1.5 17222 1m2dA 110 8.98e+01 c.47.1.11 78476