# List of top-scoring protein chains for t2k-100-30-str 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 1jx6A 342 1.72e-01 c.93.1.1 67406 1iuaA 83 2.14e-01 1h2rS 267 5.68e-01 2frvA e.19.1.1 43310 1h2aS 317 5.69e-01 2frvA e.19.1.1 43311 1gdoB 240 6.32e-01 1gdoA d.153.1.1 41805 1bl8A 97 6.34e-01 1bl8A f.2.1.11 43652 1gdoA 240 6.34e-01 1gdoA d.153.1.1 41804 1aorA 605 1.14e+00 1b25A a.110.1.1 19042 d.152.1.1 41794 1fjhA 257 1.38e+00 1fjhB c.2.1.2 29870 1cxzB 86 1.77e+00 1cxzB a.2.6.1 15705 1k4cC 124 2.40e+00 f.2.1.11 68130 1j95A 125 2.59e+00 1bl8A f.2.1.11 62749 1jm7B 117 2.86e+00 g.44.1.1 66881 1memA 215 3.50e+00 1cs8A d.3.1.1 37069 1fjhB 257 3.98e+00 1fjhB c.2.1.2 29871 1ckuA 85 4.20e+00 1ckuA g.35.1.1 44981 1qagA 226 4.64e+00 1qagA a.40.1.1 17400 a.40.1.1 17401 2abk 211 4.97e+00 2abk a.96.1.1 18743 1hrq 85 5.62e+00 g.35.1.1 44984 1kao 167 6.19e+00 1ctqA c.37.1.8 32014 2occF 98 6.63e+00 2occF g.41.5.3 45256 1is2A 661 6.68e+00 1wer 334 6.79e+00 1wer a.116.1.2 19108 1eg7A 557 8.10e+00 1eg7A c.37.1.10 32241 1mli 96 8.31e+00 1mli d.58.4.1 39070 1iq0A 592 8.41e+00 a.27.1.1 66257 c.26.1.1 66258 d.67.2.1 66259 1ezvF 125 8.97e+00 1be3F f.2.1.8 59550 6cts 433 8.97e+00 1csh a.103.1.1 18891 1csh 435 9.32e+00 1csh a.103.1.1 18880 1hyp 80 9.74e+00 1hyp a.52.1.1 17806 1ermA 263 9.99e+00 1btl e.3.1.1 42690 1bn6A 294 1.02e+01 1bn6A c.69.1.8 34678 1bn7A 294 1.15e+01 1bn6A c.69.1.8 34677 2vhbA 146 1.15e+01 2vhbA a.1.1.2 15629 1cqwA 295 1.17e+01 1b6g c.69.1.8 34679 1jli 112 1.17e+01 1jli a.26.1.2 16884 1dqsA 393 1.20e+01 1dqsA e.22.1.1 43347 1d0yA 761 1.26e+01 1lvk b.34.3.1 24581 c.37.1.9 32178 1bk6A 422 1.30e+01 1bk5A a.118.1.1 19133 1kvkA 395 1.33e+01 1fiqC 763 1.34e+01 1fiqC d.41.1.1 38588 d.133.1.1 41418 1ngr 85 1.42e+01 1ngr a.77.1.1 18422 1dmtA 696 1.42e+01 1dmtA d.92.1.4 40296 1jjsA 50 1.44e+01 a.153.1.1 66773 1lvk 762 1.52e+01 1lvk b.34.3.1 24576 c.37.1.9 32173 1b0yA 85 1.55e+01 1ckuA g.35.1.1 44980 1iioA 84 1.63e+01 a.39.4.1 66150 1hip 85 1.69e+01 g.35.1.1 44983 1jl5A 454 1.79e+01 c.10.2.6 66830 1ois 223 1.80e+01 1a36A e.15.1.1 43267 1btl 263 1.89e+01 1btl e.3.1.1 42691 1alu 186 1.90e+01 1alu a.26.1.1 16826 1bk5A 422 1.90e+01 1bk5A a.118.1.1 19130 1cpcA 162 1.93e+01 1cpcA a.1.1.3 15643 1rypB 250 1.94e+01 1rypB d.153.1.4 41933 1ee4A 423 1.96e+01 1ee4A a.118.1.1 19128 1lis 136 2.03e+01 1lis a.19.1.1 16406 2lisA 136 2.03e+01 1lis a.19.1.1 16405 1mjoA 104 2.05e+01 1cmbA a.43.1.2 17466 1uroA 367 2.05e+01 1uroA c.1.22.1 29675 1fqgA 263 2.06e+01 1btl e.3.1.1 42699 1gv4A 528 2.12e+01 1lox 662 2.14e+01 1lox a.119.1.2 19238 b.12.1.1 23638 1ew2A 513 2.16e+01 1b8jA c.76.1.1 59525 1g9uA 454 2.17e+01 c.10.2.6 65172 1e1dA 553 2.18e+01 1e1dA e.26.1.1 43363 1cmcA 104 2.27e+01 1cmbA a.43.1.2 17462 1gntA 553 2.28e+01 1e2uA 553 2.36e+01 1e1dA e.26.1.1 43362 1f3vA 179 2.37e+01 1f3vA d.58.22.1 39382 1l7uA 263 2.37e+01 1m40A 263 2.37e+01 1iufA 144 2.42e+01 1nal1 297 2.43e+01 1nal3 1krhA 338 2.43e+01 1qr7A 350 2.48e+01 1qr7A c.1.10.4 29191 1g6hA 257 2.49e+01 1gajA c.37.1.12 60318 1epxA 370 2.50e+01 1fbaA c.1.10.1 29150 1reqD 637 2.54e+01 1reqB c.1.19.1 29623 c.23.6.1 31250 1mnd 762 2.55e+01 1lvk b.34.3.1 24591 c.37.1.9 32188 1flcB 175 2.56e+01 1flcB h.3.1.1 45716 1k3bB 164 2.56e+01 1nal3 297 2.58e+01 1nal3 1vom 762 2.68e+01 1lvk b.34.3.1 24577 c.37.1.9 32174 1jnrA 643 2.72e+01 a.7.3.1 66966 c.3.1.4 66967 d.168.1.1 66968 1cmbA 104 2.81e+01 1cmbA a.43.1.2 17460 1gg1A 350 2.84e+01 1qr7A c.1.10.4 29187 1fdyA 297 2.86e+01 1nal3 c.1.10.1 29071 1fexA 59 2.93e+01 a.4.1.3 59803 1irxA 523 2.96e+01 1qgtA 149 3.08e+01 1qgtA a.62.1.1 18135 1kz7A 353 3.09e+01 1jplA 171 3.22e+01 a.118.9.2 67027 1l1zA 274 3.24e+01 1sacA 204 3.25e+01 1sacA b.29.1.5 24237 1bc8C 93 3.32e+01 1awcA a.4.5.21 16168 1fo4A 1332 3.35e+01 a.56.1.1 17910 d.15.4.2 37695 d.41.1.1 38586 d.87.2.1 40227 d.133.1.1 41416 d.145.1.3 41758 1k6iA 352 3.39e+01 c.2.1.2 68223 1mpgA 282 3.40e+01 1mpgA a.96.1.3 18747 d.129.1.2 41296 1khvA 516 3.43e+01 e.8.1.4 68627 1cmaA 104 3.45e+01 1cmbA a.43.1.2 17486 1kw4A 89 3.46e+01 2vhbB 146 3.55e+01 2vhbA a.1.1.2 15630 1e55A 512 3.55e+01 1e70M c.1.8.4 28934 1hiwA 133 3.56e+01 1hiwA a.61.1.1 18122 4aahB 69 3.68e+01 4aahB a.137.2.1 19625 1g8pA 350 3.69e+01 1g8pA c.37.1.13 60376 1dg9A 157 3.70e+01 1dg9A c.44.1.1 32637 2gwxA 267 3.72e+01 2prgA a.123.1.1 19323 1mngA 203 3.76e+01 1avmA a.2.11.1 15776 d.44.1.1 38701 1i39A 225 3.79e+01 1ekeA c.55.3.1 61585 1cc1S 283 3.82e+01 2frvA e.19.1.1 43313 1k1aA 241 3.87e+01 a.118.2.1 67992 1ks9A 291 3.89e+01 a.100.1.7 68857 c.2.1.6 68858 1bksA 268 3.90e+01 2tysA c.1.2.4 28585 1kewA 361 3.94e+01 c.2.1.2 68544