# List of top-scoring protein chains for T0233.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 1khdA 345 9.46e-37 a.46.2.1 77400 c.27.1.1 77401 1v8gA 329 1.14e-35 a.46.2.1 -953 c.27.1.1 -6644 1o17A 345 5.49e-34 a.46.2.1 80765 c.27.1.1 80766 1brwA 433 7.82e-33 1brwA a.46.2.1 17764 c.27.1.1 31628 d.41.3.1 38626 1uouA 474 1.24e-28 a.46.2.1 -951 c.27.1.1 -6642 d.41.3.1 -9715 2tpt 440 3.72e-28 1brwA a.46.2.1 17759 c.27.1.1 31623 d.41.3.1 38621 1vkmA 297 3.74e-01 1o0uA 429 3.37e+00 c.118.1.1 80743 1rw3A 455 3.67e+00 1o89A 345 4.78e+00 b.35.1.2 -3703 c.2.1.1 -5727 1o58A 303 5.98e+00 c.79.1.1 -8503 1hc7A 477 6.97e+00 1hc7A c.51.1.1 60938 d.68.5.1 60940 d.104.1.1 60939 1kv3A 687 7.39e+00 b.1.18.9 73027 b.1.5.1 73028 b.1.5.1 73029 d.3.1.4 73030 1t0iA 191 8.27e+00 1fx0B 498 8.65e+00 a.69.1.1 60083 b.49.1.1 60084 c.37.1.11 60085 1mc3A 296 9.23e+00 c.68.1.6 78943 1mniA 153 9.78e+00 1a6m a.1.1.2 15173 1jfuA 186 1.03e+01 c.47.1.10 62940 1mnjA 153 1.08e+01 1a6m a.1.1.2 15179 1mnkA 153 1.13e+01 1a6m a.1.1.2 15181 1myjA 153 1.19e+01 1a6m a.1.1.2 15171 1lhj 130 1.20e+01 3lzt d.2.1.2 36461 1f88A 348 1.21e+01 1f88A f.13.1.2 43429 1l9hA 349 1.22e+01 f.13.1.2 73720 1ng1 294 1.27e+01 1ng1 a.24.13.1 16961 c.37.1.10 32272 1ls1A 295 1.27e+01 a.24.13.1 78170 c.37.1.10 78171 1jpnA 296 1.28e+01 a.24.13.1 67039 c.37.1.10 67040 1o87A 297 1.29e+01 a.24.13.1 -619 c.37.1.10 -7117 1mwcA 153 1.30e+01 1a6m a.1.1.2 15157 1nrhX 472 1.31e+01 c.2.1.5 -5944 d.162.1.2 -11511 1m6mA 153 1.33e+01 1a6m a.1.1.2 15163 1myhA 153 1.34e+01 1a6m a.1.1.2 15177 1myiA 153 1.38e+01 1a6m a.1.1.2 15175 3hhrA 190 1.40e+01 1huw a.26.1.1 16835 1hwgA 191 1.41e+01 1huw a.26.1.1 16834 1mnh 153 1.45e+01 1a6m a.1.1.2 15187 1huw 191 1.49e+01 1huw a.26.1.1 16831 1i60A 278 1.69e+01 c.1.15.4 71118 1km0A 247 1.80e+01 c.1.2.3 72732 1aua 296 1.81e+01 1aua a.5.3.1 16290 c.13.1.1 30882 1ihuA 589 1.84e+01 c.37.1.10 62394 c.37.1.10 62395 1uz5A 402 2.00e+01 b.85.6.1 -5029 b.103.1.1 -5069 c.57.1.2 -7902 1nmsA 249 2.11e+01 c.17.1.1 85879 1qx3A 257 2.11e+01 c.17.1.1 -7914 2napA 723 2.22e+01 2napA b.52.2.2 26926 c.81.1.1 35334 1q8iA 783 2.22e+01 c.55.3.5 -7635 e.8.1.1 -11885 1mkyA 439 2.25e+01 c.37.1.8 79250 c.37.1.8 79251 d.52.5.1 79252 1ubpA 100 2.30e+01 1ubpA d.8.1.1 37353 4ubpA 101 2.30e+01 1ubpA d.8.1.1 37352 1mg7A 417 2.37e+01 d.14.1.6 84954 d.58.26.6 84955 1cne 270 2.39e+01 1ndh b.43.4.2 25661 c.25.1.1 31551 2cnd 270 2.39e+01 1ndh b.43.4.2 25659 c.25.1.1 31549 1mldA 314 2.40e+01 2cmd c.2.1.5 30122 d.162.1.1 42089 1ip5A 130 2.43e+01 d.2.1.2 66251 1k1gA 131 2.61e+01 d.51.1.1 68015 1q36A 427 2.68e+01 d.68.2.2 -10304 1oe9A 795 2.69e+01 b.34.3.1 -3581 c.37.1.9 -7103 1nmeA 146 2.76e+01 c.17.1.1 85874 1rhjA 147 2.77e+01 c.17.1.1 -7916 1km5A 247 2.77e+01 c.1.2.3 72741 2ng1 293 2.84e+01 1ng1 a.24.13.1 16962 c.37.1.10 32273 1l5jA 865 2.84e+01 a.118.15.1 73592 c.8.2.1 73593 c.83.1.1 73594 1ffh 294 2.84e+01 1ng1 a.24.13.1 16960 c.37.1.10 32271 1rj9B 300 2.91e+01 a.24.13.1 -621 c.37.1.10 -7119 1q0pA 223 2.96e+01 c.62.1.1 -7979 1gytA 503 3.00e+01 c.56.5.3 70766 c.50.1.1 70765 1g6sA 427 3.11e+01 1eps d.68.2.2 39584 1fg7A 356 3.12e+01 1gewA c.67.1.1 59819 1cj2A 391 3.13e+01 1pbe c.3.1.2 30351 d.16.1.2 37882 1mi4A 427 3.15e+01 d.68.2.2 79141 1d7qA 143 3.18e+01 1d7qA b.40.4.5 25331 1s1iF 162 3.20e+01 1eps 427 3.21e+01 1eps d.68.2.2 39586 1iocA 134 3.35e+01 d.2.1.2 76754 2at2A 300 3.37e+01 3csuA c.78.1.1 35196 c.78.1.1 35197 1cp3A 277 3.44e+01 1pauA c.17.1.1 30992 1vimA 200 3.45e+01 c.80.1.3 -8532 1ht6A 405 3.47e+01 b.71.1.1 83629 c.1.8.1 83630 1g5cA 170 3.61e+01 1g5cA c.53.2.1 60264 1d4m3 238 3.65e+01 1aym3 1h10A 125 3.73e+01 b.55.1.1 83446 1fpzA 212 3.73e+01 1fpzA c.45.1.1 59976 1mo0A 275 3.75e+01 c.1.1.1 79329 1oafA 261 3.78e+01 a.93.1.1 86734 1rwbA 261 3.95e+01 c.2.1.2 -5818 1pcqA 524 3.99e+01 a.129.1.1 -1802 c.8.5.1 -6102 d.56.1.1 -9847