# List of top-scoring protein chains for t2k-100-30-dssp-ehl2 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 1d7yA 408 9.28e-01 1d7yA c.3.1.5 30565 c.3.1.5 30566 d.87.1.1 40204 1s29A 92 1.24e+00 1ndk 155 1.45e+00 1npk d.58.6.1 39118 1f3fA 155 1.60e+00 1npk d.58.6.1 39101 1npk 154 1.77e+00 1npk d.58.6.1 39099 1bcpB 199 2.01e+00 1bcpB b.40.2.1 25120 d.169.1.2 42429 1jx7A 117 2.16e+00 c.114.1.1 77195 1vkfA 188 3.88e+00 1dhpA 292 4.56e+00 1dhpA c.1.10.1 29097 2frvA 264 4.62e+00 2frvA e.19.1.1 43303 1jxhA 288 4.85e+00 c.72.1.2 67415 1m32A 366 4.94e+00 c.67.1.3 78508 1qjcA 158 5.52e+00 1b6tA c.26.1.3 63328 1b6tA 159 9.35e+00 1b6tA c.26.1.3 31600 1a8rA 221 9.65e+00 1a8rA d.96.1.1 40587 1fukA 165 1.11e+01 1fukA c.37.1.19 32409 1iweA 457 1.12e+01 c.37.1.10 71486 1pls 113 1.18e+01 1pls b.55.1.1 26965 1cozA 129 1.20e+01 1cozA c.26.1.2 31598 1sr9A 644 1.29e+01 1k3sA 113 1.37e+01 d.198.1.1 68120 2trxA 108 1.38e+01 1thx c.47.1.1 32719 1l1sA 113 1.38e+01 c.114.1.1 73484 2sniI 83 1.42e+01 2sniI d.40.1.1 38573 1sek 378 1.54e+01 1sek e.1.1.1 42675 1hh1A 143 1.57e+01 1gefA c.52.1.18 61036 1booA 323 1.64e+01 1booA c.66.1.11 34248 1kebA 108 1.72e+01 c.47.1.1 77341 1k9uA 78 1.82e+01 a.39.1.10 84348 1oqjA 97 1.90e+01 2cbf 234 1.90e+01 1cbf c.90.1.1 35588 1k1xA 659 1.94e+01 a.8.3.2 84279 b.30.5.8 84280 c.6.2.2 84281 1rypG 244 1.95e+01 d.153.1.4 41938 1ghtA 105 2.00e+01 2rslA c.53.1.1 60526 3pte 349 2.18e+01 3pte e.3.1.1 42687 1mplA 349 2.19e+01 e.3.1.1 79387 1hvbA 349 2.31e+01 3pte e.3.1.1 42686 1apxA 249 2.32e+01 1ryc a.93.1.1 18669 1f60A 458 2.43e+01 1efcA b.43.3.1 25705 b.44.1.1 25745 c.37.1.8 32140 1gdtA 183 2.45e+01 2rslA a.4.1.2 16021 c.53.1.1 33348 1ggzA 148 2.49e+01 a.39.1.5 70176 1q9uA 130 2.51e+01 1ponB 36 2.56e+01 1ponB 1jnyA 435 2.62e+01 b.43.3.1 66982 b.44.1.1 66983 c.37.1.8 66984 1lniA 96 2.81e+01 d.1.1.2 74046 1e9eA 215 2.84e+01 c.37.1.1 64810 1m5q1 130 2.88e+01 1ne8A 117 2.91e+01 b.34.6.2 80424 1cfyA 143 3.00e+01 1cof d.109.1.2 40858 2dhqA 146 3.01e+01 2dhqA c.23.13.1 31382 1gqoI 143 3.13e+01 c.23.13.1 76303 1gqoO 143 3.13e+01 c.23.13.1 76309 1gqoP 143 3.13e+01 c.23.13.1 76310 1gqoY 143 3.13e+01 c.23.13.1 76318 1oi2A 366 3.23e+01 c.32.1.2 87039 d.79.2.2 87040 1e9cA 215 3.24e+01 c.37.1.1 64808 1gqoF 143 3.27e+01 c.23.13.1 76300 1gqoB 143 3.27e+01 c.23.13.1 76296 1gqoR 143 3.27e+01 c.23.13.1 76312 1gqoH 143 3.33e+01 c.23.13.1 76302 1bcpC 199 3.37e+01 1bcpB b.40.2.1 25121 d.169.1.2 42430 1gqoQ 143 3.38e+01 c.23.13.1 76311 1cof 143 3.39e+01 1cof d.109.1.2 40860 1gqoC 143 3.41e+01 c.23.13.1 76297 1gqoJ 143 3.41e+01 c.23.13.1 76304 1gqoD 143 3.43e+01 c.23.13.1 76298 1gqoU 143 3.43e+01 c.23.13.1 76315 1gqoT 143 3.46e+01 c.23.13.1 76314 1gqoM 143 3.57e+01 c.23.13.1 76307 1gqoE 143 3.57e+01 c.23.13.1 76299 1gqoG 143 3.57e+01 c.23.13.1 76301 1s9rA 410 3.58e+01 1gqoL 143 3.58e+01 c.23.13.1 76306 1gqoS 143 3.58e+01 c.23.13.1 76313 1rgeA 96 3.62e+01 1rgeA d.1.1.2 36028 1ordA 730 3.70e+01 1ordA c.23.1.4 31274 c.67.1.5 34503 d.125.1.1 41124 1im5A 180 3.74e+01 c.33.1.2 66211 1i8vA 96 3.76e+01 d.1.1.2 61985 1l8rA 101 3.77e+01 a.6.1.4 73700 1dqwA 267 3.81e+01 1dqwA c.1.2.3 28551 1r6dA 337 3.82e+01 1ge8A 249 3.87e+01 1plq d.131.1.2 41398 d.131.1.2 41399 1g4yR 148 3.91e+01 1cll a.39.1.5 60252 1h05A 146 3.93e+01 c.23.13.1 76433 1hm6A 346 3.97e+01 1avc a.65.1.1 18147 1jatB 138 3.97e+01 1jatB d.20.1.1 62819