# List of top-scoring protein chains for t2k-100-30-near-backbone-11-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 1lxjA 104 2.06e+00 d.58.48.1 84736 1xn7A 78 2.89e+00 1wqaA 455 3.20e+00 1lddA 74 3.58e+00 a.4.5.34 73841 1emwA 88 3.72e+00 1emwA d.27.1.1 38448 1eucA 311 3.81e+00 2scuA c.2.1.8,c.23.4.1 30311,31139 1eudA 311 5.08e+00 2scuA c.2.1.8,c.23.4.1 30312,31140 2fcr 173 7.30e+00 1rcf c.23.5.1 31151 1aoxA 203 7.55e+00 1aoxA c.62.1.1 34151 1w1wA 430 7.70e+00 1o6jA 150 8.26e+00 c.47.1.10 81089 1k2fA 190 8.87e+00 b.8.1.2 68054 1v7pC 200 1.04e+01 c.62.1.1 108408 1t6cA 315 1.37e+01 c.55.1.8,c.55.1.8 106558,106559 1i3cA 149 1.56e+01 c.23.1.1 71112 1ub9A 100 1.58e+01 a.4.5.28 99159 1pjbA 361 1.64e+01 1sayA c.2.1.4,c.23.12.2 30103,31363 1fjgP 88 1.66e+01 1emwA d.27.1.1 38444 1klo 162 1.83e+01 1klo g.3.11.2,g.3.11.2,g.3.11.2 44326,44327,44328 1ez0A 510 1.88e+01 1eyyA c.82.1.1 35385 1y02A 120 1.88e+01 1pt6A 213 1.88e+01 c.62.1.1 95091 2u1a 88 2.01e+01 2u1a d.58.7.1 39164 1xt5A 135 2.01e+01 1gw0A 559 2.15e+01 b.6.1.3,b.6.1.3,b.6.1.3 70623,70624,70625 2fsqA 243 2.17e+01 1lvaA 258 2.24e+01 a.4.5.35,a.4.5.35,a.4.5.35,a.4.5.35 74276,74277,74278,74279 1pjcA 361 2.43e+01 1sayA c.2.1.4,c.23.12.2 30101,31361 2cuaA 135 2.45e+01 2cuaA b.6.1.2 23039 1a6q 382 2.48e+01 1a6q a.159.1.1,d.219.1.1 75801,75802 1hu4A 288 2.56e+01 1hu4A 1gteD 1025 2.60e+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 1q1hA 110 2.61e+01 a.4.5.41 95580 1n5dA 288 2.66e+01 c.2.1.2 80030 1vr5A 547 2.68e+01 1h7xA 1025 2.73e+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 1vdyA 140 2.73e+01 1wy0A 342 2.74e+01 1gteA 1025 2.77e+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 1pswA 348 2.87e+01 c.87.1.7 88287 2lbd 267 2.91e+01 2lbd a.123.1.1 19287 1rzuA 485 3.00e+01 c.87.1.8 105140 1txuA 273 3.08e+01 a.222.1.1 107439 1uv7A 110 3.09e+01 d.67.4.1 100040 1gthB 1025 3.14e+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 1ortA 335 3.15e+01 1othA c.78.1.1,c.78.1.1 35204,35205 1gthA 1025 3.17e+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 1sayA 361 3.19e+01 1sayA c.2.1.4,c.23.12.2 30102,31362 1h7wB 1025 3.21e+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 1oaa 259 3.27e+01 1oaa c.2.1.2 29829 2gtsA 86 3.27e+01 1eyyA 510 3.28e+01 1eyyA c.82.1.1 35389 1i5gA 144 3.29e+01 1ewxA c.47.1.10 61784 1h7wA 1025 3.38e+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 1h7xB 1025 3.41e+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 1gt8B 1025 3.42e+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 1gt8D 1025 3.46e+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 1sep 261 3.52e+01 1oaa c.2.1.2 29830 1innA 166 3.53e+01 1j98A d.185.1.2 62608 1ehkB 168 3.53e+01 2cuaA b.6.1.2,f.17.2.1 23041,43625 1h7wD 1025 3.55e+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 1gthD 1025 3.55e+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 1elvA 333 3.61e+01 5ptp b.47.1.2,g.18.1.1 59454,59455 1vjeA 166 3.62e+01 d.185.1.2 100807 1fcyA 236 3.63e+01 2lbd a.123.1.1 19282 1ie9A 259 3.63e+01 1db1A a.123.1.1 62318 1gt8A 1025 3.69e+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 1xmaA 145 3.69e+01 1e2xA 243 3.76e+01 1e2xA a.4.5.6,a.78.1.1 16113,18443 1h7xC 1025 3.77e+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 1h7xD 1025 3.96e+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 1wdyA 285 3.98e+01 1mykA 53 3.98e+01 1bazA a.43.1.1 17425 1dpuA 99 4.03e+01 1dpuA a.4.5.16 16150 1lzjA 292 4.03e+01 c.68.1.9 74352 1parA 53 4.10e+01 1bazA a.43.1.1 17437 2b99A 156 4.14e+01 3fapB 94 4.22e+01 1nsgB a.24.7.1 16612 1gthC 1025 4.23e+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 1hw1A 239 4.27e+01 1e2xA a.4.5.6,a.78.1.1 16111,18441 1qc5A 192 4.29e+01 1aoxA c.62.1.1 34147 1bdtA 53 4.29e+01 1bazA a.43.1.1 17433 1yv5A 374 4.30e+01 2f94F 350 4.38e+01 1ml8A 134 4.43e+01 d.227.1.2 85013 1kzhA 555 4.53e+01 c.89.1.1 73361 1gt8C 1025 4.54e+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 1aqzB 149 4.59e+01 1aqzA d.1.1.3 36239 1hmy 327 4.69e+01 6mhtA c.66.1.26 34229 2apoA 357 4.78e+01 1xq6A 253 4.85e+01 1giqA 413 4.85e+01 d.166.1.1,d.166.1.1 76224,76225 4lbd 267 4.93e+01 2lbd a.123.1.1 19289 1r88A 280 4.96e+01 c.69.1.3 97219 1ekxA 311 4.99e+01 3csuA c.78.1.1,c.78.1.1 35088,35089 1pueE 89 5.05e+01 1awcA a.4.5.21 16165 1aueA 100 5.08e+01 1nsgB a.24.7.1 16615 1s0uA 408 5.12e+01 b.43.3.1,b.44.1.1,c.37.1.8 98302,98303,98304 1ka2A 499 5.12e+01 d.92.1.5 77305 1vi9A 299 5.18e+01 c.72.1.5 100750 1b4pA 217 5.19e+01 a.45.1.1,c.47.1.5 83158,83159 1zc6A 305 5.23e+01 1z1dA 103 5.24e+01 1nkgA 508 5.25e+01 b.3.1.2,b.18.1.25,b.30.5.10 103859,103860,103861 2cj4A 150 5.29e+01 8atcA 310 5.44e+01 3csuA c.78.1.1,c.78.1.1 35132,35133 1e2b 106 5.53e+01 1iibA c.44.2.1 32650 1lccA 51 5.54e+01 1pru a.35.1.5 17110 1db1A 259 5.59e+01 1db1A a.123.1.1 19329 1ki1B 352 5.65e+01 a.87.1.1,b.55.1.1 72497,72498 1sfe 180 5.78e+01 1sfe a.4.2.1,c.55.7.1 16073,33748 1wmaA 276 5.86e+01 1aqzA 149 5.90e+01 1aqzA d.1.1.3 36238 2c5rA 67 5.97e+01 1fapB 95 5.99e+01 1nsgB a.24.7.1 16618 1yq7A 374 6.02e+01 1szqA 483 6.03e+01 e.44.1.1 99045 2cfxA 144 6.11e+01 1k66A 149 6.15e+01 c.23.1.1 90941 1xmkA 79 6.18e+01 1a1z 91 6.18e+01 1a1z a.77.1.4 18427 1at1A 310 6.21e+01 3csuA c.78.1.1,c.78.1.1 35168,35169 1uquA 482 6.28e+01 c.87.1.6 99796 1hbp 183 6.29e+01 1aqb b.60.1.1 27079 1acmA 310 6.40e+01 3csuA c.78.1.1,c.78.1.1 35180,35181 1t9kA 347 6.49e+01 c.124.1.5 106721 2fyxA 143 6.58e+01 1fsz 372 6.58e+01 1fsz c.32.1.1,d.79.2.1 31750,39802 1eiwA 111 6.58e+01 1eiwA c.23.3.1 31130 1k68A 140 6.63e+01 c.23.1.1 90943 2aeuA 374 6.68e+01 1tw4A 125 6.68e+01 1syyA 346 6.70e+01 a.25.1.2 106126 1bazA 53 6.83e+01 1bazA a.43.1.1 17421 1g8oA 310 6.90e+01 1g8oA c.68.1.9 60375 1hbq 183 7.01e+01 1aqb b.60.1.1 27078 2dbyA 368 7.08e+01 1gkpA 458 7.12e+01 b.92.1.3,c.1.9.6 70231,70232 1k4vA 289 7.15e+01 c.68.1.9 72066 6gsvA 217 7.19e+01 1b8xA a.45.1.1,c.47.1.5 17633,32925 1a0rP 245 7.36e+01 1b9yC c.47.1.6 33054 1b8dA 164 7.57e+01 1cpcA a.1.1.3 15665 1v0wA 506 7.70e+01 d.136.1.2,d.136.1.2 108220,108221 2ch8A 201 7.70e+01 1kt6A 183 7.71e+01 b.60.1.1 84466 1mjhA 162 7.72e+01 1mjhA c.26.2.4 31639 1zs9A 261 7.76e+01 3csuA 310 7.82e+01 3csuA c.78.1.1,c.78.1.1 35094,35095 1wohA 305 7.94e+01 c.42.1.1 109446 1i36A 264 8.06e+01 a.100.1.8,c.2.1.6 71108,71109 1ile 821 8.11e+01 1ile a.27.1.1,b.51.1.1,c.26.1.1 16924,26889,31591 1qwrA 319 8.19e+01 b.82.1.3 96491 1viaA 175 8.21e+01 c.37.1.2 100754 1sumB 235 8.28e+01 a.7.12.1 106025 1uqtA 482 8.31e+01 c.87.1.6 99794 1jdfA 447 8.40e+01 c.1.11.2,d.54.1.1 62897,62898 1yemA 179 8.44e+01 1iibA 106 8.47e+01 1iibA c.44.2.1 32648 1d3uB 201 8.52e+01 1aisB a.74.1.2,a.74.1.2 18386,18387 3adk 195 8.55e+01 1zin c.37.1.1 31885 2a61A 145 8.65e+01 2etdA 171 8.75e+01 1nznA 126 8.80e+01 a.118.8.1 92382 1gx4A 289 8.82e+01 c.68.1.9 83362 1xw5A 217 8.84e+01 1lkyA 77 8.86e+01 a.60.1.1 73985