# List of top-scoring protein chains for t04-100-30-str2-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 1klxA 138 8.31e-01 a.118.18.1 77440 1cpt 412 1.80e+00 1cpt a.104.1.1 18968 1josA 128 2.35e+00 d.52.7.1 84191 2cunA 410 3.56e+00 1io1A 398 3.74e+00 1io1A e.32.1.1 62611 1sz9A 144 4.57e+00 a.118.9.4 106139 1b0b 142 6.10e+00 2fal a.1.1.2 15010 1z3xA 238 7.28e+00 2d7vA 162 7.39e+00 2cy7A 396 7.39e+00 1qi7A 253 7.70e+00 1qi7A d.165.1.1 42210 1tmxA 293 7.87e+00 1ytzT 107 8.09e+00 1fjgI 128 8.77e+00 1fjfI d.14.1.1 37559 1knqA 175 9.21e+00 c.37.1.17 72786 2cwyA 94 9.25e+00 2sas 185 9.63e+00 2sas a.39.1.5 17258 1umgA 362 1.00e+01 d.280.1.1 107956 1opoA 348 1.06e+01 b.121.4.7 87240 1ewqA 765 1.14e+01 1ewqA a.113.1.1,c.37.1.12,c.55.6.1,d.75.2.1 19069,32383,33740,39743 1oneA 436 1.18e+01 4enl c.1.11.1,d.54.1.1 29200,38844 2mgg 154 1.23e+01 1a6m a.1.1.2 15069 1qbjA 81 1.29e+01 1qbjA a.4.5.19 16155 1g24A 211 1.36e+01 1g24A d.166.1.1 42270 2a9kB 223 1.36e+01 1q3eA 207 1.40e+01 b.82.3.2 95669 2b7eA 59 1.45e+01 2al1A 436 1.45e+01 1yviA 149 1.47e+01 1sglA 209 1.48e+01 d.124.1.1 105536 1y1xA 191 1.49e+01 1e9gA 286 1.54e+01 1wgjA b.40.5.1 59393 1c02A 166 1.58e+01 1qspA a.24.10.2 16633 1f3aA 222 1.60e+01 1pgtA a.45.1.1,c.47.1.5 17701,32995 1hh8A 213 1.61e+01 1e96B a.118.8.1 61042 1mod 154 1.62e+01 1a6m a.1.1.2 15107 1wm5A 208 1.66e+01 3nul 130 1.79e+01 3nul d.110.1.1 40891 1f52A 468 1.81e+01 1lgr d.15.9.1,d.128.1.1 37839,41169 2al2A 436 1.85e+01 1b4pA 217 1.86e+01 a.45.1.1,c.47.1.5 83158,83159 1g8pA 350 1.87e+01 1g8pA c.37.1.20 60376 3lynA 136 1.88e+01 1lis a.19.1.1 16413 1fo4A 1332 1.91e+01 a.56.1.1,d.15.4.2,d.41.1.1,d.87.2.1,d.133.1.1,d.145.1.3 17910,37695,38586,40227,41416,41758 1mll 154 1.93e+01 1a6m a.1.1.2 15057 2spl 154 1.95e+01 1a6m a.1.1.2 15047 1i1rB 181 1.98e+01 1i1rB a.26.1.1 61548 1ytaA 180 2.00e+01 1v97A 1332 2.05e+01 a.56.1.1,d.15.4.2,d.41.1.1,d.87.2.1,d.133.1.1,d.145.1.3 108436,108437,108438,108439,108440,108441 103m 154 2.09e+01 1a6m a.1.1.2 15124 1fzcA 87 2.10e+01 1fzcA h.1.8.1 45590 4enl 436 2.21e+01 4enl c.1.11.1,d.54.1.1 29202,38846 1alvA 173 2.23e+01 1alvA a.39.1.8 17370 1efyA 350 2.24e+01 1a26 a.41.1.1,d.166.1.2 17413,42275 1qr6A 584 2.26e+01 1qr6A c.2.1.7,c.58.1.3 30293,33941 1eg3A 261 2.26e+01 1eg3A a.39.1.7,a.39.1.7,b.72.1.1 17376,17377,27805 1mym 154 2.28e+01 1a6m a.1.1.2 15054 1feuA 206 2.33e+01 1feuA b.53.1.1 59801 1dc1A 323 2.36e+01 1dc1A c.52.1.11 33321 1e39A 571 2.40e+01 1qjdA a.138.1.3,c.3.1.4,d.168.1.1 19694,30431,42314 1mlg 154 2.46e+01 1a6m a.1.1.2 15104 1wpuA 147 2.49e+01 2c5uA 375 2.49e+01 1psrA 100 2.51e+01 1psrA a.39.1.2 17180 1s35A 214 2.52e+01 a.7.1.1,a.7.1.1 98420,98421 1p68A 102 2.57e+01 k.8.1.1 94158 1p2hA 571 2.59e+01 a.138.1.3,c.3.1.4,d.168.1.1 93930,93931,93932 1bzpA 153 2.61e+01 1a6m a.1.1.2 15020 2mgb 154 2.64e+01 1a6m a.1.1.2 15102 1q9iA 571 2.66e+01 a.138.1.3,c.3.1.4,d.168.1.1 96273,96274,96275 1y0pA 571 2.68e+01 1kssA 571 2.70e+01 a.138.1.3,c.3.1.4,d.168.1.1 72928,72929,72930 1atiA 505 2.70e+01 1atiA c.51.1.1,d.104.1.1 33196,40745 2gh1A 301 2.74e+01 2ezvA 269 2.74e+01 1mlo 154 2.77e+01 1a6m a.1.1.2 15085 1k8kD 300 2.83e+01 d.198.2.1,d.198.2.1 68309,68310 1wpbA 172 2.83e+01 1or7A 194 2.84e+01 a.4.13.2,a.177.1.1 87332,87333 2c0rA 362 2.90e+01 2d2sA 235 2.99e+01 1wmqA 147 3.00e+01 1xvhA 129 3.03e+01 1k47A 337 3.05e+01 d.14.1.5,d.58.26.4 72040,72041 1mv8A 436 3.05e+01 a.100.1.4,c.2.1.6,c.26.3.1 85128,85129,85130 1q47A 495 3.15e+01 b.69.12.1 104532 1okcA 297 3.17e+01 f.42.1.1 93248 1hw1A 239 3.25e+01 1e2xA a.4.5.6,a.78.1.1 16111,18441 1bf5A 545 3.29e+01 1bg1A a.47.1.1,b.2.5.5,d.93.1.1 17766,22460,40526 1w3uA 362 3.33e+01 2c6qA 351 3.33e+01 2trcP 217 3.38e+01 1b9yC c.47.1.6 33051 1ab4 477 3.42e+01 1ab4 e.11.1.1 43251 1xq8A 140 3.53e+01 1r6uA 437 3.53e+01 c.26.1.1 97163 1mla 309 3.67e+01 1mla c.19.1.1,d.58.23.1 31031,39383 1qwnA 1045 3.73e+01 a.8.3.1,b.30.5.6,c.6.2.1 96487,96488,96489 1dlwA 116 3.75e+01 1dlyA a.1.1.1 14982 1wkoA 180 3.78e+01 1k0dA 260 3.79e+01 a.45.1.1,c.47.1.5 67930,67931 1xk4C 113 3.80e+01 1fiqB 350 3.84e+01 1fiqB d.87.2.1,d.145.1.3 40229,41760 1rtxA 123 3.97e+01 a.1.1.1 97827 1y21A 282 3.99e+01 1cojA 212 4.00e+01 1avmA a.2.11.1,d.44.1.1 15737,38734 1y9qA 192 4.02e+01 1s69A 124 4.06e+01 a.1.1.1 105305 1na6A 404 4.08e+01 b.142.1.1,c.52.1.22 91748,91749 1w33A 181 4.11e+01 2ezk 99 4.12e+01 2ezk a.4.1.2 16027 1htyA 1015 4.22e+01 a.8.3.1,b.30.5.6,c.6.2.1 83064,83065,83066 1ee4A 423 4.25e+01 1ee4A a.118.1.1 19128 1quqB 121 4.31e+01 1quqB b.40.4.3 25305 1ymmA 191 4.35e+01 1a6m 151 4.37e+01 1a6m a.1.1.2 15018 2c4jA 218 4.39e+01 2a6hA 315 4.60e+01 1ly2A 130 4.61e+01 g.18.1.1,g.18.1.1 74335,74336 1icrA 217 4.61e+01 1vfrA d.90.1.1 62274 1gpjA 404 4.62e+01 a.151.1.1,c.2.1.7,d.58.39.1 65451,65452,65453 1dk0A 188 4.64e+01 1b2vA d.35.1.1 38530 1utuA 108 4.64e+01 1ghqB 134 4.65e+01 1ghqB g.18.1.1,g.18.1.1 60522,60523 1as4B 37 4.71e+01 1as4B 1guxA 218 4.71e+01 1guxA a.74.1.3 18388 1ykiA 217 4.75e+01 1l9lA 74 4.78e+01 a.64.1.1 77827 1z2iA 358 4.90e+01 1rrmA 386 4.91e+01 e.22.1.2 105081 1tu9A 134 4.93e+01 a.1.1.2 107320 1vcsA 102 5.01e+01 1rsy 152 5.02e+01 1rsy b.7.1.2 23192 1si6X 282 5.04e+01 5csmA 256 5.05e+01 5csmA a.130.1.2 19494 2bivA 243 5.22e+01 1vqwA 457 5.27e+01 1fs7A 485 5.27e+01 1qdbA a.138.1.3 19691 1pa7A 130 5.36e+01 a.40.1.1 94410 1pdz 434 5.39e+01 4enl c.1.11.1,d.54.1.1 29215,38859 2bgiA 272 5.41e+01 1k9uA 78 5.41e+01 a.39.1.10 84348 1h6qA 168 5.56e+01 1h6qA b.88.1.2 60692 1cl1A 395 5.65e+01 1cl2A c.67.1.3 34395 1i5pA 633 5.65e+01 1i5pA b.18.1.3,b.77.2.1,f.1.3.1 61817,61818,61819 1v9dA 340 5.66e+01 a.207.1.1 100535 1hssA 124 5.70e+01 1bea a.52.1.2 17819 1u6zA 513 5.71e+01 1t3tA 1303 5.72e+01 a.5.10.1,c.23.16.1,d.284.1.2,d.79.4.1,d.79.4.1,d.139.1.1,d.139.1.1 106381,106382,106383,106384,106385,106386,106387 2acjA 66 5.82e+01 1l5aA 436 5.86e+01 c.43.1.2,c.43.1.2 75923,75924 1ofcX 304 5.92e+01 a.4.1.3,a.4.1.13,a.187.1.1 92826,92827,92828 1w6kA 732 5.92e+01 1zx4A 192 5.93e+01 1xw5A 217 6.01e+01 1tcrA 202 6.03e+01 1tcrA b.1.1.1,b.1.1.2 20605,21549 1k78A 149 6.10e+01 a.4.1.5,a.4.1.5 68255,68256 1cb8A 678 6.15e+01 1cb8A a.102.3.2,b.24.1.1,b.30.5.2 18849,23898,24422 1s9rA 410 6.21e+01 d.126.1.4 98758 1y74B 50 6.25e+01 1veaA 148 6.28e+01 d.275.1.1 108529 1k3yA 221 6.30e+01 a.45.1.1,c.47.1.5 77245,77246 1q6hA 224 6.35e+01 d.26.1.1 95975 1rjdA 334 6.38e+01 c.66.1.37 97558 1uurA 473 6.40e+01 a.47.1.1,b.2.5.5,d.93.1.1 100016,100017,100018 1s7zA 117 6.41e+01 a.159.3.1 98715 1xizA 159 6.42e+01 1q6uA 245 6.47e+01 d.26.1.1 95998 1pbv 195 6.50e+01 1pbv a.118.3.1 19179 1wa5B 530 6.54e+01 1yw4A 341 6.54e+01 1nc7A 138 6.54e+01 b.123.1.1 85549 1t0qA 498 6.56e+01 a.25.1.2 106220 1tkkA 366 6.63e+01 c.1.11.2,d.54.1.1 107089,107090 1ru3A 732 6.75e+01 e.26.1.3 97835 1xj4A 119 6.92e+01 1jpmA 366 7.09e+01 c.1.11.2,d.54.1.1 67031,67032 1qo7A 394 7.10e+01 1qo7A c.69.1.11 34697 1ad3A 452 7.20e+01 1ad3A c.82.1.1 35335 1dgnA 89 7.24e+01 1dgnA a.77.1.3 18436 1b4fA 82 7.27e+01 1b4fA a.60.1.2 17934 1koqA 253 7.30e+01 2cba b.74.1.1 27964 1xyn 178 7.33e+01 1axkA b.29.1.11 24322 1r8sE 203 7.36e+01 a.118.3.1 97248 1cc1L 498 7.39e+01 1h2rL e.18.1.1 43301 1hy7A 173 7.44e+01 d.92.1.11 65957 1t7lA 766 7.44e+01 1r8mE 203 7.51e+01 a.118.3.1 97242 1mrzA 293 7.56e+01 b.43.5.1,c.26.1.3 91452,91453 1np8A 159 7.58e+01 a.39.1.8 92022 1g1tA 157 7.63e+01 d.169.1.1,g.3.11.1 65104,65105 1vr8A 142 7.69e+01 1hfs 160 7.72e+01 1hfc d.92.1.11 40370 1wwzA 159 7.83e+01 1zm0A 114 7.86e+01 1lswA 131 7.94e+01 d.110.3.2 78181 2fp1A 166 7.97e+01 1t7pA 698 8.08e+01 1t7pA c.55.3.5,e.8.1.1 33712,43005 2f6lA 166 8.23e+01 1x1iA 752 8.24e+01 1yi8A 351 8.35e+01 1oi1A 221 8.35e+01 b.34.9.3,b.34.9.3 87037,87038 1n08A 163 8.36e+01 b.43.5.1 79730 2bduA 297 8.36e+01 1ois 223 8.39e+01 1a36A e.15.1.1 43267 1w27A 714 8.51e+01 2hddA 61 8.55e+01 2hddA a.4.1.1 15971 1m8aA 70 8.57e+01 d.9.1.1 74579 1t6uA 117 8.60e+01 a.24.22.1 106584 1udxA 416 8.63e+01 b.117.1.1,c.37.1.8,d.242.1.1 99228,99229,99230 1brt 277 8.65e+01 1brt c.69.1.12 34699 2g09A 297 8.70e+01 1iomA 377 8.74e+01 a.103.1.1 83698 2bkfA 87 8.78e+01 1vp4A 425 8.92e+01 1br9 194 8.93e+01 1br9 b.40.3.1 25235