# 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 2d8sA 80 2.62e+00 1udzA 182 3.18e+00 b.51.1.1 99239 1n9lA 109 3.31e+00 d.110.3.6 85468 1jnuA 104 4.32e+00 d.110.3.6 71762 2cthA 107 5.54e+00 3cyr a.138.1.1 19652 1jg5A 83 5.73e+00 d.205.1.1 66666 1is8K 84 5.94e+00 d.205.1.1 66331 1r1dA 247 6.11e+00 c.69.1.29 96813 1wnyA 186 6.26e+00 1th0A 226 7.69e+00 d.3.1.7 106903 1apyA 162 8.29e+00 1apyA d.153.1.5 42004 1ta3B 303 8.86e+00 c.1.8.3 106732 1y8qA 346 8.87e+00 1jj2T 66 9.42e+00 1ffkR g.39.1.6 63105 1s72U 66 9.42e+00 g.39.1.6 105340 2acy 98 1.03e+01 2acy d.58.10.1 39298 1tqhA 247 1.08e+01 c.69.1.29 107225 1vqoU 66 1.13e+01 2d9kA 75 1.14e+01 1ffkR 66 1.20e+01 1ffkR g.39.1.6 45152 1lgpA 116 1.22e+01 b.26.1.2 73890 155c 135 1.27e+01 1ycc a.3.1.1 15900 1lmt 136 1.30e+01 3lzt d.2.1.2 36416 1qo7A 394 1.39e+01 1qo7A c.69.1.11 34697 1qsoA 149 1.46e+01 1qsmA d.108.1.1 40812 2d1uA 104 1.53e+01 1s62A 106 1.60e+01 1t0hB 224 1.76e+01 c.37.1.1 106208 1uzxA 169 1.89e+01 d.20.1.2 100238 1v93A 296 1.96e+01 c.1.23.1 100532 1l0lA 446 2.07e+01 d.185.1.1,d.185.1.1 84482,84483 2cqeA 98 2.11e+01 1c2rA 116 2.11e+01 1ycc a.3.1.1 15887 1vydA 116 2.15e+01 a.3.1.1 108900 1j0pA 108 2.23e+01 a.138.1.1 90743 2glzA 153 2.36e+01 1c2n 137 2.37e+01 1ycc a.3.1.1 15889 1kagA 173 2.46e+01 c.37.1.2 72249 1qsmA 152 2.55e+01 1qsmA d.108.1.1 40808 2a4hA 126 2.56e+01 1oahA 519 2.83e+01 a.138.1.3 86736 1e9rA 437 2.84e+01 c.37.1.11 64827 2drpA 66 2.89e+01 2drpA g.37.1.1,g.37.1.1 45026,45027 1ldjA 760 2.94e+01 a.4.5.34,a.118.17.1,e.40.1.1 73847,73848,73849 1aps 98 2.95e+01 2acy d.58.10.1 39299 1ffkI 194 3.09e+01 1ffkI d.12.1.2 37494 1cot 129 3.20e+01 1ycc a.3.1.1 15899 1s1hN 36 3.25e+01 i.1.1.1 105166 1mmvB 419 3.38e+01 d.174.1.1 91318 1m4rA 151 3.44e+01 a.26.1.3 84799 1bjt 793 3.46e+01 1bjt e.11.1.1 43249 1srb 21 3.49e+01 j.28.1.1 46201 1rcwA 231 3.49e+01 a.132.1.4 97299 1m3qA 317 3.57e+01 a.96.1.3,d.129.1.2 91184,91185 2faoA 309 3.58e+01 2bh4X 134 3.66e+01 1fe0A 68 3.73e+01 1cc8A d.58.17.1 39345 1t0fC 54 3.79e+01 1hyeA 313 3.87e+01 2cmd c.2.1.5,d.162.1.1 61400,61401 1ebmA 317 3.89e+01 1ebmA a.96.1.3,d.129.1.2 18751,41300 1edn 21 4.11e+01 j.28.1.1 46197 1xreA 217 4.12e+01 1e4uA 78 4.19e+01 1e4uA g.44.1.1 59231 1azsC 388 4.35e+01 1cipA a.66.1.1,c.37.1.8 18203,32086 6prcC 336 4.36e+01 6prcC a.138.1.2 19671 2a3mA 130 4.37e+01 1h7mA 102 4.39e+01 d.79.3.1 83485 1a2s 89 4.45e+01 1ctj a.3.1.1 15800 1fa8A 135 4.54e+01 1qipA d.32.1.1 38486 1d1dA 262 4.54e+01 1d1dA a.28.3.1,a.73.1.1 16958,18335 1igtB 444 4.60e+01 1igtB b.1.1.1,b.1.1.2,b.1.1.2,b.1.1.2 19765,20867,20868,20869 1ipiA 123 4.63e+01 c.52.1.18 66255 1xsvA 113 4.64e+01 1dxrC 336 4.65e+01 6prcC a.138.1.2 19670 2f86B 143 4.66e+01 1d1vA 444 4.68e+01 1nseA d.174.1.1 59101 1edsA 31 4.74e+01 1edsA j.35.1.1 46240 2c5qA 240 4.76e+01 1qpcA 279 4.82e+01 1fgkA d.144.1.7 41685 1om4A 422 4.89e+01 d.174.1.1 87067 1weoA 93 4.92e+01 1j3mA 129 4.94e+01 d.129.7.1 103836 3lck 271 5.00e+01 1fmk d.144.1.7 41686 1idm 343 5.05e+01 1cnzA c.77.1.1 35035 1prcC 336 5.12e+01 6prcC a.138.1.2 19674 1m36A 33 5.17e+01 g.37.1.2 91172 1nqkA 381 5.17e+01 c.1.16.4 92050 2d4pA 141 5.19e+01 1tyyA 339 5.20e+01 2d5xA 141 5.22e+01 2db3A 434 5.25e+01 1ahm 129 5.25e+01 1a9v b.1.18.7 21944 1ed5A 444 5.30e+01 1nseA d.174.1.1 42530 1gpt 47 5.31e+01 1gpt g.3.7.5 44175 1w41A 101 5.32e+01 1otkA 249 5.34e+01 a.25.1.2 93521 1owtA 66 5.36e+01 d.230.3.1 87493 1ppjA 446 5.50e+01 d.185.1.1,d.185.1.1 104252,104253 1lmzA 187 5.60e+01 a.96.1.4 74037 3sgbI 56 5.63e+01 2ovo g.68.1.1 44679 2cybA 323 5.63e+01 1hn6A 110 5.70e+01 g.61.1.1 76721 1hr6B 443 5.71e+01 1be3A d.185.1.1,d.185.1.1 61166,61167 1w85A 368 5.77e+01 1f1xA 322 5.78e+01 d.32.1.3,d.32.1.3 83208,83209 1b9lA 120 5.86e+01 1b9lA d.96.1.3 40665 1abwA 283 5.94e+01 1abwA a.1.1.2,a.1.1.2 15288,15289 2be4A 272 5.95e+01 1d0cA 444 6.03e+01 d.174.1.1 64769 1apj 74 6.07e+01 1apj g.23.1.1 44899 1gefA 123 6.08e+01 1gefA c.52.1.18 60465 1gyxA 76 6.09e+01 d.80.1.1 76387 1ipd 345 6.11e+01 1cnzA c.77.1.1 35038 1jmtA 104 6.12e+01 d.58.7.3 63180 1wohA 305 6.14e+01 c.42.1.1 109446 1iwhA 141 6.16e+01 a.1.1.2 76882 5nseA 444 6.23e+01 d.174.1.1 74644 1wk8A 194 6.30e+01 1ur6B 52 6.32e+01 g.44.1.1 99812 1ytc 112 6.45e+01 1ycc a.3.1.1 15835 1a6bB 40 6.48e+01 1a6bB g.40.1.1 45172 1ln1A 214 6.58e+01 d.129.3.2 74038 1xat 212 6.61e+01 2xat b.81.1.3 28059 1y3jA 77 6.62e+01 1u6pA 56 6.64e+01 1sgpI 51 6.79e+01 2ovo g.68.1.1 44678 2fulA 178 6.83e+01 2aqwA 332 6.94e+01 1ctj 89 7.04e+01 1ctj a.3.1.1 15798 2c7nA 74 7.05e+01 1nseA 444 7.13e+01 1nseA d.174.1.1 42534 1r0rI 51 7.21e+01 g.68.1.1 96736 2xat 212 7.26e+01 2xat b.81.1.3 28058 1h2vZ 156 7.32e+01 d.58.7.1 76595 1a3oA 141 7.41e+01 1abwA a.1.1.2 15274 1ev0A 58 7.50e+01 1ev0A d.71.1.1 39594 1z6eB 52 7.50e+01 1f9zA 135 7.60e+01 1qipA d.32.1.1 38484 2d8qA 70 7.61e+01 1diiC 80 7.67e+01 1diiC a.3.1.1 15925 1vd4A 62 7.68e+01 1z1nX 560 7.84e+01 1nziA 159 7.84e+01 b.23.1.1,g.3.11.1 86449,86450 1p2hA 571 7.88e+01 a.138.1.3,c.3.1.4,d.168.1.1 93930,93931,93932 1nnt 328 7.89e+01 1nnt c.94.1.2 35884 1a31A 538 7.92e+01 1a36A d.163.1.2,e.15.1.1 42170,43263 1l8bA 190 7.99e+01 d.86.1.1 73683 1b24A 188 8.02e+01 1b24A d.95.2.1,d.95.2.1 40573,40574 1sc3B 88 8.10e+01 1c76A 136 8.10e+01 2sak d.15.5.1 37718 1igtD 444 8.13e+01 1igtB b.1.1.1,b.1.1.2,b.1.1.2,b.1.1.2 19767,20871,20872,20873 2sak 121 8.14e+01 2sak d.15.5.1 37711 1cch 82 8.22e+01 451c a.3.1.1 15902 1pdnC 128 8.29e+01 6paxA a.4.1.5 16047 1e39A 571 8.34e+01 1qjdA a.138.1.3,c.3.1.4,d.168.1.1 19694,30431,42314 1qjdA 571 8.40e+01 1qjdA a.138.1.3,c.3.1.4,d.168.1.1 19695,30432,42315 1t4wA 196 8.40e+01 b.2.5.2 106427 1xdnA 277 8.41e+01 1babA 143 8.43e+01 1abwA a.1.1.2 15235 1bmqB 88 8.55e+01 1pauB 2mhr 118 8.70e+01 2mhr a.24.4.1 16581 1v8bA 479 8.77e+01 1pvc2 271 8.84e+01 1aym2 1y0pA 571 8.88e+01 1xqaA 113 8.95e+01