# List of top-scoring protein chains for T0316.t2k-w0.5 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 2c5sA 413 5.33e-05 1gpmA 525 7.16e-05 1gpmA c.23.16.1,c.26.2.1,d.52.2.1 31405,31608,38826 1vl2A 421 1.36e-04 c.26.2.1,d.210.1.1 108708,108709 1wy5A 317 4.66e-04 1xngA 268 7.80e-04 1ni5A 433 9.01e-04 c.26.2.5,d.229.1.1 80533,80534 2d13A 227 5.36e-03 1korA 400 1.29e-02 c.26.2.1,d.210.1.1 72824,72825 1k92A 455 1.96e-02 c.26.2.1,d.210.1.1 68325,68326 1ru8A 232 2.57e-02 c.26.2.1 97849 1q15A 503 4.13e-02 c.26.2.1,d.153.1.1 95538,95539 1m1zA 513 1.02e-01 c.26.2.1,d.153.1.1 78457,78458 1kqpA 271 3.95e-01 c.26.2.1 72883 1o89A 345 7.22e-01 b.35.1.2,c.2.1.1 92644,92645 1ct9A 553 7.72e-01 1ct9A c.26.2.1,d.153.1.1 31616,41834 1wxiA 275 1.32e+00 2bpqA 373 1.35e+00 1zvwA 378 1.37e+00 1wqaA 455 2.18e+00 2bxrA 527 2.96e+00 1wwrA 171 3.05e+00 1x6hA 86 4.65e+00 1rpnA 335 4.87e+00 c.2.1.2 97708 1r2zA 274 6.98e+00 a.156.1.2,b.113.1.1,g.39.1.8 96892,96893,96894 1l1zA 274 6.98e+00 a.156.1.2,b.113.1.1,g.39.1.8 75911,75912,75913 2f5qA 274 7.01e+00 2f5nA 274 7.01e+00 1db3A 372 9.13e+00 1db3A c.2.1.2 29813 1naaA 541 9.50e+00 c.3.1.2,d.16.1.1 80365,80366 1kdgA 546 9.54e+00 c.3.1.2,d.16.1.1 77337,77338 1z97A 266 9.54e+00 1o5wA 534 9.78e+00 c.3.1.2,d.16.1.5 92520,92521 1t2aA 375 1.07e+01 c.2.1.2 99078 2todA 425 1.10e+01 7odcA b.49.2.3,c.1.6.1 26489,28651 1z93A 266 1.10e+01 1szrA 425 1.11e+01 1f3tA 425 1.11e+01 7odcA b.49.2.3,c.1.6.1 26493,28655 1njjA 425 1.12e+01 b.49.2.3,c.1.6.1 91905,91906 1dbp 271 1.24e+01 2dri c.93.1.1 35639 1bolA 222 1.28e+01 1bolA d.124.1.1 41120 2c72A 520 1.28e+01 1uj2A 252 1.33e+01 c.37.1.6 99452 1xrjA 261 1.34e+01 2bk5A 520 1.36e+01 1s3eA 520 1.36e+01 c.3.1.2,d.16.1.5 98426,98427 2c76A 520 1.37e+01 1dekA 241 1.55e+01 1dekA c.37.1.1 31842 2gfqA 298 1.77e+01 2adr 60 1.83e+01 2adr g.37.1.1,g.37.1.1 45030,45031 1drj 271 1.92e+01 2dri c.93.1.1 35642 2dri 271 1.93e+01 2dri c.93.1.1 35637 1bccA 446 1.93e+01 1be3A d.185.1.1,d.185.1.1 58946,58947 1drk 271 1.99e+01 2dri c.93.1.1 35638 2c73A 520 2.02e+01 1w17A 263 2.06e+01 1xg5A 279 2.06e+01 2fq1A 287 2.27e+01 1s06A 429 2.27e+01 c.67.1.4 98255 1ds1A 324 2.37e+01 1drtA b.82.2.2 28127 1w1b1 257 2.38e+01 2c75A 520 2.40e+01 1ny1A 240 2.47e+01 c.6.2.3 86395 1s09A 429 2.50e+01 c.67.1.4 98261 1ba2A 271 2.63e+01 2dri c.93.1.1 35640 1qj5A 429 2.64e+01 1dtyA c.67.1.4 34493 1s0aA 429 2.64e+01 c.67.1.4 98263 2a22A 215 2.64e+01 1mgvA 429 2.64e+01 c.67.1.4 79107 1s08A 429 2.66e+01 c.67.1.4 98259 7odcA 424 2.75e+01 7odcA b.49.2.3,c.1.6.1 26488,28650 1dtyA 429 2.78e+01 1dtyA c.67.1.4 34495 1vbkA 307 2.79e+01 2a7vA 490 2.93e+01 1tx2A 297 3.32e+01 c.1.21.1 107420 1wo8A 126 3.32e+01 1sauA 115 3.36e+01 1y89A 238 3.41e+01 1dflW 139 3.61e+01 1wdcB a.39.1.5 17306 2f4iA 197 3.63e+01 1kk8B 139 3.67e+01 a.39.1.5 77430 1zunA 325 3.72e+01 1s07A 429 3.74e+01 c.67.1.4 98257 2ax3A 502 3.86e+01 1scmB 145 3.92e+01 1wdcB a.39.1.5 17304 1x5uA 105 4.01e+01 1vjzA 341 4.04e+01 c.1.8.3 100838 1wdcB 156 4.06e+01 1wdcB a.39.1.5 17302 1kqzA 273 4.11e+01 c.1.8.5 68844 1z1vA 80 4.21e+01 1kr0A 273 4.31e+01 c.1.8.5 68845 1rsgA 516 4.33e+01 1v9nA 360 4.37e+01 1qcrA 446 4.40e+01 1be3A d.185.1.1,d.185.1.1 59025,59026 1ppjA 446 4.42e+01 d.185.1.1,d.185.1.1 104252,104253 1n4nA 47 4.47e+01 g.3.7.5 91620 1sqbA 480 4.55e+01 d.185.1.1,d.185.1.1 105890,105891 1yo5C 97 4.58e+01 1bvuA 418 4.62e+01 1hwyA c.2.1.7,c.58.1.1 30226,33874 1uqvA 85 4.71e+01 a.60.1.2 99798 1x3lA 440 4.97e+01 1kr1A 273 4.99e+01 c.1.8.5 68846 1qnxA 209 5.12e+01 1qnxA d.111.1.1 40914 1wepA 79 5.15e+01 2a8nA 144 5.15e+01 8tfvA 21 5.16e+01 j.3.1.2 46071 1squA 155 5.22e+01 d.252.1.1 98971 1pyqA 144 5.23e+01 b.52.2.1 95372 1wpxA 421 5.23e+01 1y88A 199 5.32e+01 1ryyA 652 5.38e+01 1xkoA 159 5.41e+01 1x6eA 72 5.46e+01 1m06F 431 5.49e+01 b.121.5.1 78326 2b9vA 652 5.50e+01 1usvB 170 5.59e+01 d.83.2.1 99888 1nx9A 652 5.62e+01 b.18.1.13,c.69.1.21 92285,92286 2ebn 289 5.62e+01 2ebn c.1.8.5 28990 1eaxA 241 5.66e+01 b.47.1.2 64889 1usuB 170 5.71e+01 d.83.2.1 99886 1e94A 175 5.73e+01 1nedA d.153.1.4 41977 1ff3A 211 5.75e+01 1fvaA d.58.28.1 39411 2bv1A 145 5.78e+01 1mwvA 714 5.89e+01 a.93.1.3,a.93.1.3 85161,85162 1x7uA 748 5.90e+01 1nedA 183 5.95e+01 1nedA d.153.1.4 41974 1v6bA 118 6.08e+01 b.36.1.1 108394 1ovzA 207 6.24e+01 b.1.1.4,b.1.1.4 87473,87474 1w19A 160 6.24e+01 1d7kA 421 6.27e+01 7odcA b.49.2.3,c.1.6.1 26486,28648 1ulzA 451 6.41e+01 b.84.2.1,c.30.1.1,d.142.1.2 99575,99576,99577 1uctA 218 6.42e+01 b.1.1.4,b.1.1.4 88467,88468 1ionA 243 6.51e+01 c.37.1.10 62633 1jagA 241 6.53e+01 c.37.1.1 66463 1tbhA 314 6.53e+01 1liiA 363 6.54e+01 c.72.1.1 73921 1yy5A 513 6.57e+01 2gm3A 175 6.63e+01 1lioA 363 6.65e+01 c.72.1.1 73924 1izcA 339 6.71e+01 c.1.12.5 83838 1ytkA 398 6.73e+01 2ba0G 259 6.75e+01 5eas 548 6.79e+01 5eat a.102.4.1,a.128.1.3 18852,19444 5eat 548 6.79e+01 5eat a.102.4.1,a.128.1.3 18853,19445 2c4wA 176 6.84e+01 2at2A 300 7.13e+01 3csuA c.78.1.1,c.78.1.1 35196,35197 1y791 680 7.16e+01 1pma1 211 7.18e+01 1ykkB 238 7.21e+01 2cshA 110 7.27e+01 1wruA 379 7.30e+01 2cs4A 95 7.41e+01 1eceA 358 7.43e+01 1eceA c.1.8.3 28813 1tykA 34 7.48e+01 g.3.6.2 107462 1lu8A 35 7.54e+01 g.3.6.2 91125 1yarH 217 7.54e+01 2hvm 273 7.61e+01 1cnv c.1.8.5 28985 1pt0A 144 7.68e+01 b.52.2.1 95082 1bw0A 416 7.78e+01 1bw0A c.67.1.1 34385 1jiaA 122 7.85e+01 1poa a.133.1.2 19528 1nmoA 247 7.98e+01 c.135.1.1 91980 1tqyB 415 7.99e+01 c.95.1.1,c.95.1.1 107247,107248 1c1jA 122 8.03e+01 a.133.1.2 70061 2c57A 180 8.25e+01 1vrxA 358 8.26e+01 1d1nA 99 8.34e+01 1d1nA b.43.3.1 25718 1g3kA 174 8.36e+01 1nedA d.153.1.4 41989 1j79A 347 8.38e+01 1j79A c.1.9.4 62675 1qv9A 283 8.51e+01 c.127.1.1 96356 1nnhA 294 8.51e+01 d.104.1.1 92005 1xgeA 347 8.54e+01 1ee8A 266 8.62e+01 1ee8A a.156.1.2,b.113.1.1,g.39.1.8 75823,75824,75825 2absA 383 8.64e+01 1mzhA 225 8.79e+01 c.1.10.1 79698