# List of top-scoring protein chains for t2k-100-30-CB_burial_14_7-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 1zq9A 285 1.65e-22 1i4wA 353 6.16e-01 c.66.1.24 66028 1ap4 89 9.26e-01 1ncx a.39.1.5 17253 1w7jB 151 1.93e+00 2bzgA 232 2.74e+00 1ak8 76 2.79e+00 1cll a.39.1.5 17281 1avsA 90 4.55e+00 1cll a.39.1.5 17226 1ahr 146 6.00e+00 1cll a.39.1.5 17287 1fs1B 141 6.80e+00 1vcbB a.157.1.1,d.42.1.1 19252,38664 1m65A 245 7.39e+00 c.6.3.1 84847 1p35A 299 7.68e+00 1p35A b.28.1.1 23925 2mysB 166 8.16e+00 1wdcB a.39.1.5 17308 1yf3A 259 8.27e+00 1b2vA 188 8.87e+00 1b2vA d.35.1.1 38532 1mvwC 147 9.30e+00 i.15.1.1 79525 1o1fC 147 9.30e+00 i.15.1.1 80997 1dk0A 188 9.97e+00 1b2vA d.35.1.1 38530 1q0sA 259 1.09e+01 c.66.1.28 95509 1g2bA 62 1.11e+01 1tud b.34.2.1 24488 1h0hB 214 1.17e+01 d.58.1.5 76437 1m1nB 522 1.22e+01 c.92.2.3 78418 1m46A 148 1.22e+01 a.39.1.5 78599 3minB 522 1.26e+01 1qguB c.92.2.3 35606 1h8dH 260 1.27e+01 5ptp 2minB 522 1.31e+01 1qguB c.92.2.3 35610 1zac 90 1.36e+01 1ncx a.39.1.5 17236 1tud 62 1.41e+01 1tud b.34.2.1 24489 1pczA 191 1.44e+01 1ytbA d.129.1.1,d.129.1.1 41292,41293 1ar1B 298 1.55e+01 2occB b.6.1.2,f.17.2.1 23037,43619 1i58A 189 1.65e+01 1b3qA d.122.1.3 61773 1h6oA 204 1.69e+01 a.146.1.1 60689 1m56B 264 1.69e+01 b.6.1.2,f.17.2.1 74472,74473 3cln 148 1.83e+01 1cll a.39.1.5 17286 1tn4 159 1.86e+01 1ncx a.39.1.5 17248 1hlvA 131 1.95e+01 a.4.1.7,a.4.1.7 65854,65855 1exrA 148 1.95e+01 1cll a.39.1.5 17299 1cfpA 92 1.99e+01 1b4cA a.39.1.2 17172 2f3yA 148 2.02e+01 1v54H 85 2.03e+01 a.51.1.1 100329 2occH 85 2.04e+01 2occH a.51.1.1 17796 1jy5A 212 2.05e+01 d.124.1.1 71940 2cruA 118 2.09e+01 1z77A 200 2.22e+01 1cll 148 2.27e+01 1cll a.39.1.5 17263 1b3qA 379 2.31e+01 1b3qA a.30.2.1,b.40.7.1,d.122.1.3 16993,25454,41112 1osa 148 2.35e+01 1cll a.39.1.5 17300 1ezvI 55 2.37e+01 1be3J f.23.14.1 59553 1kb9I 55 2.37e+01 f.23.14.1 77324 1p4xA 250 2.40e+01 a.4.5.28,a.4.5.28 87784,87785 1sglA 209 2.44e+01 d.124.1.1 105536 1h7wD 1025 2.45e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 15686,28631,30327,30612,39010 1qgrA 876 2.45e+01 1qgrA a.118.1.1 19119 1g4yR 148 2.49e+01 1cll a.39.1.5 60252 1gt8A 1025 2.54e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70418,70419,70420,70421,70422 1aisA 182 2.56e+01 1ytbA d.129.1.1,d.129.1.1 41288,41289 1y02A 120 2.58e+01 1h7xB 1025 2.68e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 15688,28633,30329,30614,39012 1d3uA 181 2.77e+01 1ytbA d.129.1.1,d.129.1.1 41290,41291 2azqA 311 2.78e+01 1mxmA 254 2.85e+01 b.38.1.3,d.58.43.1,f.34.1.1 79647,79648,79649 1cxqA 162 2.88e+01 1cxqA c.55.3.2 33621 1cjl 312 2.94e+01 1cs8A d.3.1.1 37066 1h7xD 1025 2.98e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 15690,28635,30331,30616,39014 1h7xC 1025 3.03e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 15689,28634,30330,30615,39013 1gt8B 1025 3.09e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70423,70424,70425,70426,70427 1gthA 1025 3.10e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70483,70484,70485,70486,70487 1pmmA 466 3.11e+01 c.67.1.6 94901 1gthD 1025 3.12e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70498,70499,70500,70501,70502 2fq4A 192 3.13e+01 1dmhA 311 3.13e+01 1dmhA b.3.6.1 22633 1uiuA 502 3.14e+01 c.94.1.1 99434 1gt8D 1025 3.17e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70433,70434,70435,70436,70437 2astA 159 3.25e+01 1gt8C 1025 3.29e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70428,70429,70430,70431,70432 1i1gA 141 3.29e+01 a.4.5.32,d.58.4.2 65982,65983 1gteD 1025 3.31e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70455,70456,70457,70458,70459 1new 68 3.45e+01 1new a.138.1.1 19664 1aonO 97 3.54e+01 b.35.1.1 24642 2ax3A 502 3.56e+01 1r6jA 82 3.74e+01 b.36.1.1 97151 1gthC 1025 3.78e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70493,70494,70495,70496,70497 1gthB 1025 3.95e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70488,70489,70490,70491,70492 1n9dA 199 4.09e+01 a.26.1.1 85464 2bjcA 62 4.24e+01 1c5lH 259 4.29e+01 5ptp 1asu 162 4.30e+01 1cxqA c.55.3.2 33626 2a9fA 398 4.33e+01 1a2xA 159 4.37e+01 1ncx a.39.1.5 17251 1vsd 152 4.50e+01 1cxqA c.55.3.2 33625 1nteA 82 4.64e+01 b.36.1.1 86163 1cs8A 316 4.64e+01 1cs8A d.3.1.1 37065 1a5v 162 4.79e+01 1cxqA c.55.3.2 33629 1a3aC 148 4.80e+01 1a3aA d.112.1.1 40919 2a0kA 161 4.80e+01 1tmxA 293 4.82e+01 1n13A 52 4.90e+01 d.155.1.2 85248 2f2tA 161 4.90e+01 1h7xA 1025 4.95e+01 1h7wA a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 15687,28632,30328,30613,39011 1uch 230 4.96e+01 1uch d.3.1.6 37129 1pwt 61 5.03e+01 1tud b.34.2.1 24490 2fh5A 185 5.04e+01 1h7wA 1025 5.04e+01 1h7wA a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 15683,28628,30324,30609,39007 1h7wB 1025 5.13e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 15684,28629,30325,30610,39008 1uwoA 92 5.13e+01 4icb a.39.1.2 17174 1j1jA 240 5.15e+01 a.118.16.1 90762 1lw7A 365 5.29e+01 c.26.1.3,c.37.1.1 74295,74296 1citA 89 5.30e+01 2nllB g.39.1.2 45116 1q5dA 419 5.35e+01 a.104.1.1 95891 1z7mA 344 5.37e+01 1xfxO 149 5.39e+01 1m45A 148 5.39e+01 a.39.1.5 78598 1ab6A 125 5.39e+01 3chy c.23.1.1 31054 1hh5A 68 5.46e+01 1new a.138.1.1 61041 1f1zA 273 5.48e+01 1f1zA a.4.5.27,c.52.1.16 16081,33334 2f62A 161 5.51e+01 1dqaC 467 5.51e+01 1dqaA d.58.20.1,d.179.1.1 39366,42587 1onrA 316 5.59e+01 1onrA c.1.10.1 29169 1pk5A 248 5.65e+01 a.123.1.1 88139 5pal 109 5.77e+01 1a75A a.39.1.4 17215 1kijA 390 5.84e+01 d.14.1.3,d.122.1.2 72514,72515 1pt7A 437 5.90e+01 c.123.1.1 95093 1ukkA 142 5.97e+01 d.227.1.1 99491 1zd0A 150 6.06e+01 1i2oA 316 6.07e+01 1onrA c.1.10.1 61574 1ygtA 111 6.30e+01 1y0vH 146 6.31e+01 1gks 78 6.41e+01 1cc5 a.3.1.1 15909 2ba2A 85 6.46e+01 1i17A 107 6.46e+01 1i17A d.6.1.1 61519 1fzaB 328 6.47e+01 3fib d.171.1.1,h.1.8.1 42480,45621 1ahtH 259 6.47e+01 5ptp 1gteA 1025 6.49e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70440,70441,70442,70443,70444 2fi1A 190 6.51e+01 1b3jA 274 6.58e+01 1agdA b.1.1.2,d.19.1.1 20855,38319 1mvwB 145 6.59e+01 i.15.1.1 79524 1f0jA 377 6.70e+01 1f0jA a.211.1.2 19346 2mysC 149 6.70e+01 1wdcC a.39.1.5 17323 2new 68 6.78e+01 1new a.138.1.1 19666 1a7s 221 6.81e+01 1a7s b.47.1.2 26284 1k0hA 117 6.82e+01 b.106.1.2 71975 1onqA 283 6.90e+01 b.1.1.2,d.19.1.1 93365,93366 1womA 271 6.94e+01 1h3lA 87 6.94e+01 a.177.1.1 76639 1t0fA 276 6.99e+01 1z21A 112 7.03e+01 1q7eA 428 7.13e+01 c.123.1.1 96035 1qgpA 77 7.27e+01 1qbjA a.4.5.19 16158 1pauA 147 7.46e+01 1pauA c.17.1.1 30994 1mioB 458 7.51e+01 1qguB c.92.2.3 35602 1shg 62 7.57e+01 1ckaA b.34.2.1 24493 1nxuA 333 7.61e+01 c.122.1.1 86389 2ahyA 110 7.68e+01 1lcdA 51 7.76e+01 1pru a.35.1.5 17111 2ch4A 320 7.77e+01 1elvA 333 7.78e+01 5ptp b.47.1.2,g.18.1.1 59454,59455 1kkeA 210 7.78e+01 b.21.1.2,b.83.1.2 68669,68670 1xwrA 97 7.82e+01 1p5hA 428 8.04e+01 c.123.1.1 87802 1sk7A 198 8.06e+01 a.132.1.2 105671 1snlA 103 8.06e+01 a.39.1.7 105820 1vp2A 208 8.08e+01 1hlrA 907 8.14e+01 1vlbA 907 8.14e+01 a.56.1.1,d.15.4.2,d.41.1.1,d.133.1.1 108739,108740,108741,108742 1a3aA 148 8.29e+01 1a3aA d.112.1.1 40917 1jmsA 381 8.31e+01 a.60.6.1,a.60.12.1,d.218.1.2 66889,75862,75863 1b4cA 92 8.31e+01 1b4cA a.39.1.2 17169 2nllB 103 8.44e+01 2nllB g.39.1.2 45115 1psrA 100 8.46e+01 1psrA a.39.1.2 17180 1eesA 178 8.49e+01 1eesA c.37.1.8 32073 1n0wA 243 8.49e+01 c.37.1.11 79772 2a6hD 1524 8.51e+01 1efaA 333 8.54e+01 1tlfA a.35.1.5,c.93.1.1 17106,35691 2bcqA 335 8.78e+01 1q3eA 207 8.82e+01 b.82.3.2 95669 1soxA 466 8.90e+01 1soxA b.1.18.6,d.120.1.1,d.176.1.1 21947,41090,42563