# 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 2b0cA 206 1.32e-06 2aucA 126 3.52e-02 1wdcC 156 6.55e-02 1wdcC a.39.1.5 17317 1vkuA 100 3.81e-01 a.28.1.1 108690 2f3yA 148 4.82e-01 1g4yR 148 6.57e-01 1cll a.39.1.5 60252 1fa0A 537 7.45e-01 1fa0B d.58.16.1,a.160.1.1,d.218.1.3 39335,75837,75838 1y0vH 146 7.93e-01 2trcP 217 8.78e-01 1b9yC c.47.1.6 33051 3cln 148 9.26e-01 1cll a.39.1.5 17286 1cll 148 9.47e-01 1cll a.39.1.5 17263 1xfxO 149 9.62e-01 2or1L 69 1.00e+00 1r69 a.35.1.2 17031 1r69 69 1.06e+00 1r69 a.35.1.2 17028 1ggzA 148 1.29e+00 a.39.1.5 70176 1b9yC 246 1.38e+00 1b9yC c.47.1.6 33052 1yruB 74 1.41e+00 1a0rP 245 1.44e+00 1b9yC c.47.1.6 33054 1ahr 146 1.81e+00 1cll a.39.1.5 17287 1b9xC 246 1.91e+00 1b9yC c.47.1.6 33053 1exrA 148 2.27e+00 1cll a.39.1.5 17299 1r5jA 337 2.29e+00 c.77.1.5 97097 1osa 148 2.51e+00 1cll a.39.1.5 17300 1wlzA 105 2.53e+00 1dxsA 80 3.29e+00 1cokA a.60.1.2 17944 1yh6A 179 3.73e+00 2a7oA 112 4.89e+00 1tfzA 424 6.17e+00 d.32.1.3,d.32.1.3 106886,106887 1ct9A 553 6.40e+00 1ct9A c.26.2.1,d.153.1.1 31616,41834 1m45A 148 6.86e+00 a.39.1.5 78598 1m46A 148 7.09e+00 a.39.1.5 78599 1xn9A 101 7.23e+00 1whzA 70 7.50e+00 1pp0A 199 8.03e+00 d.103.1.1 104211 1gtxA 472 8.22e+00 1gtxA 1abv 134 9.30e+00 1abv a.70.1.1 18317 1ohvA 472 1.12e+01 c.67.1.4 93031 1cokA 68 1.18e+01 1cokA a.60.1.2 17945 2bw2A 140 1.25e+01 1broA 277 1.37e+01 1brt c.69.1.12 34700 2bswA 146 1.38e+01 1gz6A 319 1.47e+01 c.2.1.2 76410 1bjaA 95 1.47e+01 1bjaA a.4.5.9 16122 2bykA 140 1.49e+01 1nnvA 110 1.54e+01 d.17.7.1 92012 1ug3A 339 1.77e+01 1tn4 159 1.88e+01 1ncx a.39.1.5 17248 1e4tA 37 1.88e+01 1e4tA g.9.1.1 59230 2ge3A 170 1.91e+01 1m5yA 408 1.97e+01 a.167.1.1,d.26.1.1,d.26.1.1 78664,78665,78666 2blfA 373 2.00e+01 1sb2A 133 2.08e+01 1fa0B 537 2.10e+01 1fa0B d.58.16.1,a.160.1.1,d.218.1.3 39336,75839,75840 1furA 467 2.10e+01 1furA a.127.1.1 19403 2a1xA 308 2.10e+01 1ggwA 140 2.12e+01 1ggwA a.39.1.5 60490 1vqzA 341 2.18e+01 1a92A 50 2.23e+01 1a92A h.4.6.1 45791 1brt 277 2.25e+01 1brt c.69.1.12 34699 1mvwB 145 2.28e+01 i.15.1.1 79524 1a8uA 277 2.28e+01 1brt c.69.1.12 34703 1i1iP 681 2.42e+01 1i1iP d.92.1.5 40297 1bywA 110 2.42e+01 1bywA d.110.3.6 40912 1i1sA 96 2.49e+01 1bjaA a.4.5.9 16124 1uruA 244 2.50e+01 h.4.14.1 99835 1fuqA 472 2.53e+01 1furA a.127.1.1 19405 1v9jA 113 2.54e+01 d.52.6.1 100542 1iq3A 110 2.59e+01 1iq3A a.39.1.6 62640 1vd2A 89 2.60e+01 d.15.2.2 108517 2bl0C 142 2.67e+01 2aobA 99 2.68e+01 2bl0A 63 2.94e+01 1zbqA 327 2.96e+01 1kk8B 139 2.99e+01 a.39.1.5 77430 2ccmA 191 3.05e+01 1u5mA 73 3.14e+01 1ci4A 89 3.22e+01 1qckA a.60.5.1 17970 1qydA 313 3.25e+01 c.2.1.2 96583 1wdcB 156 3.27e+01 1wdcB a.39.1.5 17302 1fuoA 467 3.30e+01 1furA a.127.1.1 19411 1g8yA 279 3.32e+01 1g8yA c.37.1.11 32302 1jfkA 134 3.32e+01 a.39.1.5 66639 1shp 55 3.33e+01 1bpi g.8.1.1 44553 1lfb 99 3.42e+01 1lfb a.4.1.1 15989 1jyrA 96 3.43e+01 d.93.1.1 71969 1thg 544 3.47e+01 1thg c.69.1.17 34763 1sl8A 191 3.53e+01 1wdnA 226 3.58e+01 1lst c.94.1.1 35816 1snlA 103 3.58e+01 a.39.1.7 105820 1tf0B 53 3.59e+01 a.8.1.2 106825 1ebuA 358 3.64e+01 1ebuA c.2.1.3,d.81.1.2 30035,39950 1mijA 152 3.66e+01 a.4.1.1 79150 1wmhA 89 3.69e+01 1scmB 145 3.70e+01 1wdcB a.39.1.5 17304 1pjjA 271 3.78e+01 a.156.1.2,b.113.1.1,g.39.1.8 104164,104165,104166 1psdA 409 3.83e+01 1psdA c.2.1.4,c.23.12.1,d.58.18.1 30097,31357,39354 1sc6A 404 3.87e+01 2h7bA 105 4.01e+01 1mmoB 384 4.01e+01 1mtyB a.25.1.2 16768 1f81A 88 4.15e+01 1f81A g.53.1.1 45383 1top 162 4.16e+01 1ncx a.39.1.5 17223 2d1pB 119 4.18e+01 1fyvA 161 4.34e+01 1fyvA c.23.2.1 31127 1f5xA 208 4.36e+01 1f5xA a.87.1.1 18516 1qc5A 192 4.46e+01 1aoxA c.62.1.1 34147 1x8vA 455 4.46e+01 1ncx 162 4.54e+01 1ncx a.39.1.5 17222 1uw0A 117 4.54e+01 g.39.1.12 108063 1qckA 89 4.56e+01 1qckA a.60.5.1 17976 1rec 201 4.69e+01 1rec a.39.1.5 17326 1mtyB 384 4.69e+01 1mtyB a.25.1.2 16740 1nnjA 271 4.77e+01 a.156.1.2,b.113.1.1,g.39.1.8 80669,80670,80671 1tjlA 151 4.86e+01 a.2.14.1,g.39.1.13 107027,107028 1k78A 149 4.87e+01 a.4.1.5,a.4.1.5 68255,68256 1ip9A 85 4.93e+01 1ip9A d.15.2.2 62638 1pulA 125 5.09e+01 1f80D 81 5.16e+01 1acp a.28.1.1 59686 1a2xA 159 5.23e+01 1ncx a.39.1.5 17251 1xrsA 516 5.25e+01 1eco 136 5.27e+01 1flp a.1.1.2 15208 1ylhA 560 5.28e+01 1tdzA 272 5.30e+01 a.156.1.2,b.113.1.1,g.39.1.8 106787,106788,106789 1vejA 74 5.32e+01 2b4jC 98 5.32e+01 1gab 53 5.36e+01 1gab a.8.1.2 16353 1ecd 136 5.46e+01 1flp a.1.1.2 15211 1iweA 457 5.49e+01 c.37.1.10 71486 1eca 136 5.60e+01 1flp a.1.1.2 15209 1y7qA 98 5.62e+01 1ebfA 358 5.63e+01 1ebuA c.2.1.3,d.81.1.2 30033,39948 1zmbA 290 5.63e+01 2ezxA 89 5.66e+01 1qckA a.60.5.1 17978 1cor 82 5.69e+01 451c a.3.1.1 15903 2fp1A 166 5.74e+01 1ffkM 148 5.84e+01 1ffkM a.94.1.1 18740 1i7kA 179 5.84e+01 1u9aA d.20.1.1 61889 2etjA 250 5.84e+01 1i0uA 82 5.90e+01 1i0uA g.3.11.1,g.3.11.1 61493,61494 1m1eB 81 5.93e+01 a.161.1.1 78400 2bf5A 98 5.97e+01 1fz1C 389 6.00e+01 1mtyB a.25.1.2 16746 1k0iA 394 6.02e+01 c.3.1.2,d.16.1.2 67942,67943 1us7B 265 6.06e+01 a.205.1.1 99858 1nfiA 301 6.07e+01 1a3qA b.1.18.1,b.2.5.3 21942,22455 1zip 217 6.13e+01 1zin c.37.1.1,g.41.2.1 31916,45179 1qstA 160 6.16e+01 1yghA d.108.1.1 40804 3lck 271 6.19e+01 1fmk d.144.1.7 41686 2cmxA 118 6.25e+01 1xvqA 175 6.43e+01 1tzeE 98 6.43e+01 1griA d.93.1.1 40468 1gggA 226 6.54e+01 1lst c.94.1.1 35817 1ej9A 563 6.55e+01 1a36A d.163.1.2,e.15.1.1 42172,43265 1ykjA 394 6.59e+01 1z5yE 149 6.60e+01 1k2xA 177 6.60e+01 d.153.1.5 90929 1atu 374 6.69e+01 1ovaA e.1.1.1 42636 1nfiC 301 6.74e+01 b.1.18.1,b.2.5.3 21943,22456 1lfkA 398 6.82e+01 a.104.1.1 77926 1dpgA 485 6.97e+01 1dpgA c.2.1.3,d.81.1.5 30074,39989 1k4tA 592 7.04e+01 a.2.8.1,d.163.1.2,e.15.1.1 77263,77264,77265 1ndoB 194 7.08e+01 1ndoB d.17.4.4 38121 2es4D 332 7.15e+01 1ve1A 304 7.15e+01 1u0sA 86 7.16e+01 d.58.24.1 107565 5pal 109 7.28e+01 1a75A a.39.1.4 17215 1i39A 225 7.37e+01 1ekeA c.55.3.1 61585 2u2fA 85 7.46e+01 2u2fA d.58.7.1 39167 1trrA 107 7.53e+01 1jhgA a.4.12.1 19017 1sig 339 7.70e+01 1sig a.177.1.1 19068 1sgwA 214 7.73e+01 c.37.1.12 105541 2f6lA 166 7.76e+01 2czlA 272 7.76e+01 1a8s 273 7.98e+01 1brt c.69.1.12 34710 1uouA 474 8.05e+01 a.46.2.1,c.27.1.1,d.41.3.1 99706,99707,99708 1eg9B 194 8.06e+01 1ndoB d.17.4.4 38120 1omrA 201 8.08e+01 a.39.1.5 93349 1zin 217 8.12e+01 1zin c.37.1.1,g.41.2.1 31915,45178 1zfpE 98 8.13e+01 1griA d.93.1.1 40465 2fa8A 105 8.15e+01 1cb7B 483 8.20e+01 1cb7B c.1.19.2 29648 1vjeA 166 8.23e+01 d.185.1.2 100807 1gggB 226 8.36e+01 1lst c.94.1.1 35818 1a36A 592 8.38e+01 1a36A a.2.8.1,d.163.1.2,e.15.1.1 15715,42173,43266 2cszA 76 8.59e+01 1s1hC 192 8.64e+01 i.1.1.1 105156 1ykhB 132 8.66e+01 1ap4 89 8.71e+01 1ncx a.39.1.5 17253 1wu4A 396 8.79e+01 2f6mA 65 8.91e+01 1is1A 185 8.92e+01 d.67.3.1 83704 1w7jB 151 8.92e+01