# List of top-scoring protein chains for t2k-100-30-stride-ebghtl-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 1pft 50 2.47e-02 1pft g.41.3.1 45206 1s72Z 73 5.79e-01 g.41.8.1 105345 1vqoZ 83 5.92e-01 1vk6A 269 7.60e-01 d.113.1.4,d.113.1.4 100851,100852 2ct7A 86 9.61e-01 1ffkW 73 1.05e+00 1ffkW g.41.8.1 45315 1jj2Y 73 3.05e+00 1ffkW g.41.8.1 63110 2g2kA 170 3.20e+00 1neeA 138 3.38e+00 d.241.1.1,g.59.1.1 91841,91842 1rlyA 60 3.42e+00 g.41.3.1 104988 1odhA 174 3.66e+00 d.239.1.1 86850 1ww8A 439 3.74e+00 1vckA 115 4.72e+00 1kmtA 141 5.75e+00 b.1.18.8 77442 1rhoA 145 6.16e+00 1rhoA b.1.18.8 21899 1wpkA 146 6.23e+00 1bc8C 93 6.23e+00 1awcA a.4.5.21 16168 1u8bA 133 6.25e+00 1jm1A 204 6.44e+00 b.33.1.1 71745 1jm7A 112 6.50e+00 g.44.1.1 66880 1fsoA 139 6.51e+00 1rhoA b.1.18.8 60007 1rhoC 145 6.61e+00 1rhoA b.1.18.8 21901 2bydA 323 6.96e+00 1dl6A 58 7.68e+00 1dl6A g.41.3.1 45207 1zgwA 139 8.80e+00 1l1oC 181 8.86e+00 b.40.4.3 73480 1nykA 165 9.15e+00 b.33.1.1 86408 1wd2A 60 9.51e+00 g.44.1.1 109232 1lxyA 409 1.01e+01 d.126.1.4 91154 1s9rA 410 1.02e+01 d.126.1.4 98758 1rfs 139 1.04e+01 1rfs b.33.1.1 24434 1i5hW 50 1.12e+01 1i5hW b.72.1.1 61785 1x75A 132 1.16e+01 1qxfA 66 1.17e+01 g.41.8.4 96527 1fp0A 88 1.21e+01 1fp0A g.50.1.2 45361 1g25A 65 1.21e+01 1g25A g.44.1.1 45325 1exkA 79 1.24e+01 1exkA g.54.1.1 45384 1bor 56 1.26e+01 1bor g.44.1.1 45324 1vd4A 62 1.42e+01 1wxiA 275 1.61e+01 4rxn 54 1.61e+01 1rb9 g.41.5.1 45226 5rxn 54 1.61e+01 1rb9 g.41.5.1 45225 1k0mA 241 1.63e+01 a.45.1.1,c.47.1.5 67949,67950 1yk4A 52 1.74e+01 1etc 110 1.75e+01 1awcA a.4.5.21 16162 1n9dA 199 1.76e+01 a.26.1.1 85464 1j6uA 469 1.83e+01 c.5.1.1,c.59.1.1,c.72.2.1 77094,77095,77096 1ogdA 131 1.91e+01 c.133.1.1 92893 1d0qA 103 2.00e+01 1d0qA g.41.3.2 45208 1k0nA 241 2.00e+01 a.45.1.1,c.47.1.5 67953,67954 1pfvA 551 2.04e+01 a.27.1.1,c.26.1.1,g.41.1.1 94660,94661,94662 1f4lA 551 2.05e+01 1qqtA a.27.1.1,c.26.1.1,g.41.1.1 59648,59649,59650 1xxoA 147 2.12e+01 1w9aA 147 2.12e+01 1k81A 36 2.14e+01 g.59.1.1 72136 1ab4 477 2.18e+01 1ab4 e.11.1.1 43251 2c43A 323 2.32e+01 1iro 54 2.40e+01 1rb9 g.41.5.1 45223 1qqtA 551 2.40e+01 1qqtA a.27.1.1,c.26.1.1,g.41.1.1 16923,31590,45175 1plr 258 2.42e+01 1plq d.131.1.2,d.131.1.2 41390,41391 2bwfA 77 2.44e+01 1qyp 57 2.51e+01 1qyp g.41.3.1 45205 1b2jA 54 2.58e+01 1rb9 g.41.5.1 45231 1f62A 51 2.65e+01 1f62A g.50.1.2 45360 1zxzA 197 2.69e+01 1ajw 145 2.73e+01 1rhoA b.1.18.8 21905 1wrvA 308 2.74e+01 1dsvA 31 2.74e+01 1dsvA g.40.1.1 45174 1frvA 264 2.80e+01 2frvA e.19.1.1 43308 1rb9 53 2.86e+01 1rb9 g.41.5.1 45214 1weoA 93 2.92e+01 1mr1C 99 2.97e+01 d.217.1.2 79420 1a67 108 2.99e+01 1cewI d.17.1.2 38000 1mswD 883 2.99e+01 e.8.1.3 79427 8rxnA 52 3.02e+01 1rb9 g.41.5.1 45215 1ee8A 266 3.15e+01 1ee8A a.156.1.2,b.113.1.1,g.39.1.8 75823,75824,75825 1gvjA 146 3.23e+01 a.4.5.21 90525 1k7hA 476 3.28e+01 c.76.1.1 72101 1g47A 77 3.29e+01 1g47A g.39.1.3,g.39.1.3 45147,45148 1fe8A 196 3.36e+01 1atzA c.62.1.1 59783 1oahA 519 3.41e+01 a.138.1.3 86736 1upiA 225 3.42e+01 b.82.1.1 99757 2bx9A 53 3.64e+01 1t0bA 252 3.73e+01 c.23.16.6 106199 1ao3A 187 3.76e+01 1atzA c.62.1.1 34134 2fe5A 94 3.83e+01 2btfA 375 3.90e+01 1yagA c.55.1.1,c.55.1.1 33429,33430 1deoA 233 3.91e+01 1deoA c.23.10.4 31345 1wijA 140 3.93e+01 1zzpA 130 3.94e+01 1vfyA 73 4.00e+01 1vfyA g.50.1.1 45357 1ur6B 52 4.05e+01 g.44.1.1 99812 1ux6A 350 4.10e+01 b.29.1.16,g.75.1.1 100145,100146 1ji1A 637 4.19e+01 b.1.18.2,b.71.1.1,c.1.8.1 71666,71667,71668 1uh4A 637 4.20e+01 b.1.18.2,b.71.1.1,c.1.8.1 99391,99392,99393 1zetA 388 4.23e+01 1uby 367 4.23e+01 1uby a.128.1.1 19435 2a20A 62 4.26e+01 2cjsC 62 4.28e+01 2aheA 267 4.31e+01 1kxiA 62 4.42e+01 1tgxA g.7.1.1 44417 1fujA 221 4.43e+01 1a7s b.47.1.2 26349 1a90 108 4.50e+01 1cewI d.17.1.2 38001 1c3hA 137 4.50e+01 b.22.1.1 90405 1vor2 58 4.53e+01 1zy1B 197 4.59e+01 1ak2 233 4.60e+01 1zin c.37.1.1,g.41.2.1 31894,45195 1zs7A 190 4.61e+01 1mea 28 4.78e+01 g.41.1.1 45176 1ctl 85 4.81e+01 g.39.1.3,g.39.1.3 45133,45134 1e53A 59 4.83e+01 1e53A g.49.1.2 45356 1sp1 29 4.85e+01 g.37.1.1 45051 1adn 92 4.92e+01 1adn g.48.1.1 45348 1yl35 60 4.93e+01 1h38C 883 5.02e+01 e.8.1.3 76627 1h38D 883 5.03e+01 e.8.1.3 76628 1h38B 883 5.05e+01 e.8.1.3 76626 1b77A 228 5.12e+01 1b77A d.131.1.2,d.131.1.2 41362,41363 2aaiB 262 5.14e+01 1abrB b.42.2.1,b.42.2.1 25561,25562 1fps 348 5.20e+01 1uby a.128.1.1 19436 1atzB 189 5.22e+01 1atzA c.62.1.1 34133 1zbdB 134 5.25e+01 1zbdB g.50.1.1 45359 1g4iA 123 5.35e+01 1poa a.133.1.2 60241 2aq6A 147 5.37e+01 1e4uA 78 5.44e+01 1e4uA g.44.1.1 59231 1v87A 114 5.54e+01 g.44.1.1 108422 1pk6C 129 5.64e+01 b.22.1.1 94803 1m1qA 91 5.67e+01 a.138.1.3 74419 1b13A 54 5.73e+01 1rb9 g.41.5.1 45227 1yovA 537 5.76e+01 1aky 221 5.83e+01 1zin c.37.1.1,g.41.2.1 31896,45197 1faq 52 5.84e+01 1far g.49.1.1 45352 1k7cA 233 5.85e+01 c.23.10.4 68267 1dvpA 220 5.85e+01 1dvpA a.118.9.2,g.50.1.1 19216,45358 2awpA 198 5.87e+01 1v54D 147 5.94e+01 f.23.1.1 100325 1ocrD 147 5.96e+01 1ocrD f.23.1.1 43541 2occD 147 5.99e+01 1ocrD f.23.1.1 43521 1vhqA 232 6.02e+01 c.23.16.2 100696 1i50L 70 6.08e+01 g.41.9.2 61766 1z6uA 150 6.15e+01 1g8kB 133 6.16e+01 1g8jB b.33.1.1 24435 1i69A 219 6.21e+01 c.94.1.1 61825 1rck 106 6.28e+01 9rnt d.1.1.4 36053 1xpa 122 6.29e+01 1xpa a.6.1.2,g.39.1.5 16308,45151 1chc 68 6.42e+01 1chc g.44.1.1 45323 1rdg 53 6.48e+01 1rb9 g.41.5.1 45221 1dx8A 70 6.54e+01 1rb9 g.41.5.1 45243 1w8kA 447 6.59e+01 1g8jB 133 6.70e+01 1g8jB b.33.1.1 24439 1en7A 157 6.84e+01 1en7A a.140.4.1,d.4.1.5 64733,64734 1c28A 135 6.88e+01 1c28A b.22.1.1 23857 1pc0A 61 7.03e+01 b.137.1.1 94426 1dl0A 37 7.13e+01 1dl0A g.3.6.2 44112 2cdqA 510 7.15e+01 1jzxM 60 7.16e+01 i.1.1.2 67887 2cx1A 187 7.18e+01 1e7lA 157 7.19e+01 1en7A a.140.4.1,d.4.1.5 64728,64729 1uayA 242 7.47e+01 c.2.1.2 88390 1fus 106 7.51e+01 9rnt d.1.1.4 36050 1zx2A 147 7.60e+01 1dgfA 497 7.61e+01 1cf9A e.5.1.1 42782 1ww9A 392 7.61e+01 1v7oA 165 7.62e+01 d.67.1.2 100480 1fjgS 93 7.62e+01 1qkfA d.28.1.1 38451 1azzA 226 7.67e+01 5ptp b.47.1.2 26072 1dxgA 36 7.80e+01 1dxgA g.41.5.2 45247 1bq9A 54 7.85e+01 1rb9 g.41.5.1 45238 1m2tB 263 7.87e+01 b.42.2.1,b.42.2.1 84762,84763 1far 52 7.91e+01 1far g.49.1.1 45351 1pueE 89 8.09e+01 1awcA a.4.5.21 16165 2drpA 66 8.11e+01 2drpA g.37.1.1,g.37.1.1 45026,45027 1bxsA 501 8.11e+01 1bpwA c.82.1.1 35357 1bq8A 54 8.12e+01 1rb9 g.41.5.1 45237 1pvc2 271 8.18e+01 1aym2 2booA 247 8.22e+01 1q35A 320 8.32e+01 c.94.1.1 95661 6rxn 46 8.35e+01 1rb9 g.41.5.1 45222 1mku 123 8.36e+01 1poa a.133.1.2 19590 1r5mA 425 8.40e+01 2b9dA 52 8.45e+01 1brfA 53 8.45e+01 1rb9 g.41.5.1 45236 1qli 113 8.46e+01 1iml g.39.1.3,g.39.1.3 45141,45142 1b8tA 192 8.57e+01 1b8tA g.39.1.3,g.39.1.3,g.39.1.3,g.39.1.3 45135,45136,45137,45138 1hd5A 213 8.59e+01 2eng b.52.1.1 26896 1vq0A 302 8.59e+01 1yuf 50 8.59e+01 3tgf g.3.11.1 44295 1kyqA 274 8.64e+01 c.2.1.11,e.37.1.1 73281,73282 1oy1A 228 8.64e+01 c.23.16.2 87548 1a7cA 379 8.73e+01 1sek e.1.1.1 42660 1gw5B 591 8.75e+01 a.118.1.10 70630 1hyuA 521 8.81e+01 1hyuA c.3.1.5,c.3.1.5,c.47.1.2,c.47.1.2 30547,30548,32779,32780 1une 123 8.83e+01 1poa a.133.1.2 19583 1zin 217 8.84e+01 1zin c.37.1.1,g.41.2.1 31915,45178 2dasA 62 8.99e+01