# List of top-scoring protein chains for T0238.t04-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 1kt1A 457 6.54e-01 a.118.8.1 77528 d.26.1.1 77529 d.26.1.1 77530 1eluA 390 7.90e-01 1elqA c.67.1.3 34434 1a2f 291 7.92e-01 1ryc a.93.1.1 18619 1n2tA 386 8.30e-01 c.67.1.3 79858 1qviA 840 1.07e+00 b.34.3.1 -3582 c.37.1.9 -7104 1dfkA 830 1.07e+00 1lvk b.34.3.1 24573 c.37.1.9 32170 1kk8A 837 1.07e+00 b.34.3.1 77428 c.37.1.9 77429 1b7tA 835 1.07e+00 1lvk b.34.3.1 24572 c.37.1.9 32169 1dflA 831 1.07e+00 1lvk b.34.3.1 24574 c.37.1.9 32171 1kxmA 290 1.26e+00 a.93.1.1 73156 1kxnA 289 1.27e+00 a.93.1.1 73157 1jdrA 294 1.36e+00 1ryc a.93.1.1 62908 1ebeA 294 1.56e+00 1ryc a.93.1.1 59406 1jciA 294 1.59e+00 a.93.1.1 71632 1ccj 294 1.59e+00 1ryc a.93.1.1 18644 1krjA 294 1.61e+00 a.93.1.1 68852 7ccp 296 1.74e+00 1ryc a.93.1.1 18624 1kokA 294 1.82e+00 a.93.1.1 77473 2cep 296 1.92e+00 1ryc a.93.1.1 18633 1mkrA 294 1.98e+00 a.93.1.1 84997 1ccl 291 1.98e+00 1ryc a.93.1.1 18608 1dj5A 291 2.02e+00 1ryc a.93.1.1 18603 1ac4 294 2.14e+00 1ryc a.93.1.1 18657 1bej 291 2.15e+00 1ryc a.93.1.1 18638 1cpe 296 2.26e+00 1ryc a.93.1.1 18623 4ccp 296 2.34e+00 1ryc a.93.1.1 18626 1bek 291 2.35e+00 1ryc a.93.1.1 18632 1bes 291 2.39e+00 1ryc a.93.1.1 18612 1bj9 291 2.43e+00 1ryc a.93.1.1 18636 1a2g 291 2.43e+00 1ryc a.93.1.1 18620 1dcc 296 2.48e+00 1ryc a.93.1.1 18613 1ryc 294 2.51e+00 1ryc a.93.1.1 18601 3ccx 294 2.51e+00 1ryc a.93.1.1 18637 1bem 291 2.53e+00 1ryc a.93.1.1 18635 1ccp 296 2.55e+00 1ryc a.93.1.1 18614 1ds4A 292 2.61e+00 1ryc a.93.1.1 59129 1ccg 291 2.62e+00 1ryc a.93.1.1 18627 5ccp 296 2.63e+00 1ryc a.93.1.1 18615 3pmgA 561 2.65e+00 3pmgA c.84.1.1 35408 c.84.1.1 35409 c.84.1.1 35410 d.129.2.1 41301 1dseA 292 2.67e+00 1ryc a.93.1.1 59130 1s6vA 294 2.68e+00 a.93.1.1 -1241 1cca 297 2.68e+00 1ryc a.93.1.1 18602 4ccx 294 2.76e+00 1ryc a.93.1.1 18606 1ur1A 378 2.77e+00 c.1.8.3 -5311 6ccp 296 2.79e+00 1ryc a.93.1.1 18617 1cyf 296 2.89e+00 1ryc a.93.1.1 18641 1ccb 297 2.92e+00 1ryc a.93.1.1 18631 1cpg 296 3.01e+00 1ryc a.93.1.1 18628 1cck 291 3.12e+00 1ryc a.93.1.1 18622 1odfA 290 3.29e+00 c.37.1.6 -7045 1bvaA 294 5.54e+00 1ryc a.93.1.1 18604 1s6cA 183 5.82e+00 a.39.1.5 -858 1ii6A 368 5.95e+00 1bg2 c.37.1.9 62413 1q0bA 367 5.95e+00 c.37.1.9 -7105 1gz6A 319 6.48e+00 c.2.1.2 76410 1cjtC 402 7.21e+00 1cipA a.66.1.1 18206 c.37.1.8 32089 1a52A 258 7.44e+00 3erdA a.123.1.1 19296 1br2A 791 8.15e+00 1lvk b.34.3.1 24558 c.37.1.9 32155 1br1A 820 8.43e+00 1lvk b.34.3.1 24564 c.37.1.9 32161 1cmu 294 8.67e+00 1ryc a.93.1.1 18630 2ccp 296 8.73e+00 1ryc a.93.1.1 18610 1t7pA 698 8.96e+00 1t7pA c.55.3.5 33712 e.8.1.1 43005 1ccc 297 9.25e+00 1ryc a.93.1.1 18611 1mwwA 128 1.06e+01 unknown_sccs -10451 1cs4C 394 1.31e+01 1cipA a.66.1.1 18205 c.37.1.8 32088 1azsC 402 1.31e+01 1cipA a.66.1.1 18203 c.37.1.8 32086 1mma 762 1.40e+01 1lvk b.34.3.1 24587 c.37.1.9 32184 1d0yA 761 1.41e+01 1lvk b.34.3.1 24581 c.37.1.9 32178 1jx2A 776 1.42e+01 b.34.3.1 67402 c.37.1.9 67403 1kbjA 412 1.43e+01 c.1.4.1 72280 1n8yC 608 1.52e+01 c.10.2.5 80314 c.10.2.5 80315 g.3.9.1 80316 g.3.9.1 80317 1um8A 376 1.61e+01 c.37.1.20 -7251 1ltdA 506 1.65e+01 1gox c.1.4.1 28618 d.120.1.1 41086 1kbiA 511 1.66e+01 c.1.4.1 72277 d.120.1.1 72278 1avqA 228 1.67e+01 1avqA c.52.1.13 33326 1lcoA 511 1.68e+01 1gox c.1.4.1 28624 d.120.1.1 41088 1q0uA 219 1.74e+01 c.37.1.19 -7205 1vpt 348 1.79e+01 3mag c.66.1.25 34207 1mr3F 181 1.79e+01 c.37.1.8 79422 1t5lA 658 1.81e+01 1dt2A 245 1.85e+01 b.47.1.1 76138 1v39 322 1.91e+01 3mag c.66.1.25 34206 1vp3 348 1.97e+01 3mag c.66.1.25 34209 1p0iA 529 2.07e+01 c.69.1.1 -8291 1d9zA 657 2.09e+01 1d2mA c.37.1.19 32421 c.37.1.19 32422 1r76A 408 2.10e+01 1eysC 382 2.11e+01 6prcC a.138.1.2 19678 1nf2A 268 2.14e+01 c.108.1.10 -6842 1qcwA 410 2.15e+01 1gox c.1.4.1 28622 1qhoA 686 2.20e+01 1cxlA b.1.18.2 21844 b.3.1.1 22513 b.71.1.1 27751 c.1.8.1 28738 1ls6A 295 2.24e+01 c.37.1.5 -7026 1s4eA 352 2.26e+01 d.14.1.5 -9077 unknown_sccs -10122 1kt0A 457 2.38e+01 a.118.8.1 77525 d.26.1.1 77526 d.26.1.1 77527 1v04A 355 2.41e+01 unknown_sccs -4592 1d9xA 658 2.42e+01 1d2mA c.37.1.19 32419 c.37.1.19 32420 1k23A 309 2.52e+01 c.107.1.1 68029 1yagA 375 2.53e+01 1yagA c.55.1.1 33449 c.55.1.1 33450 1jteA 307 2.63e+01 c.66.1.25 71860 1j9lA 247 2.66e+01 c.106.1.1 62762 1fmvA 761 2.69e+01 1lvk b.34.3.1 24580 c.37.1.9 32177 1qtfA 246 2.73e+01 1agjA b.47.1.1 25830 4dcg 307 2.73e+01 3mag c.66.1.25 34208 1i3pA 298 2.77e+01 b.28.1.1 66020 1flcB 175 2.92e+01 1flcB h.3.1.1 45716 1nd7A 374 2.95e+01 d.148.1.1 -11394 1rt8A 513 3.03e+01 1ivhA 394 3.05e+01 3mdeA a.29.3.1 16608 e.6.1.1 42869 1ub9A 100 3.09e+01 a.4.5.28 -231 1jf2A 195 3.11e+01 1ej3A a.39.1.5 62930 1ionA 243 3.21e+01 c.37.1.10 62633 1sa1E 142 3.26e+01 unknown_sccs -2021 1sa0E 143 3.26e+01 unknown_sccs -2020 1v3eA 431 3.36e+01 b.68.1.1 -4584 1culC 380 3.66e+01 1cipA a.66.1.1 18204 c.37.1.8 32087 1s70A 330 3.72e+01 1mmn 762 3.73e+01 1lvk b.34.3.1 24582 c.37.1.9 32179 1mmg 762 3.80e+01 1lvk b.34.3.1 24579 c.37.1.9 32176 1lvk 762 3.96e+01 1lvk b.34.3.1 24576 c.37.1.9 32173 1eamA 307 3.97e+01 3mag c.66.1.25 34212 1sj0A 248 3.97e+01 a.123.1.1 -1667 1d2vC 466 3.98e+01 1mhlC 3mct 297 3.98e+01 3mag c.66.1.25 34215 1yvnA 375 3.98e+01 1yagA c.55.1.1 33451 c.55.1.1 33452 1eqa 297 4.00e+01 3mag c.66.1.25 34216