# List of top-scoring protein chains for t04-100-30-str2 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 1jx7A 117 4.92e-02 c.114.1.1 77195 1zpdA 568 2.95e-01 1zpdA c.31.1.3 31741 c.36.1.5 31785 c.36.1.9 31786 1m32A 366 6.06e-01 c.67.1.3 78508 1pvdA 537 7.22e-01 1zpdA c.31.1.3 31737 c.36.1.5 31777 c.36.1.9 31778 1l1sA 113 7.42e-01 c.114.1.1 73484 1ri5A 298 9.27e-01 1c0pA 363 1.36e+00 1an9A c.4.1.2 30647 d.16.1.3 37934 1d7yA 408 1.80e+00 1d7yA c.3.1.5 30565 c.3.1.5 30566 d.87.1.1 40204 1gc0A 398 2.01e+00 c.67.1.3 70168 2dhqA 146 2.36e+00 2dhqA c.23.13.1 31382 1np6A 174 2.89e+00 c.37.1.10 85954 1l1qA 186 2.97e+00 c.61.1.1 77653 1kmvA 186 3.14e+00 c.71.1.1 72757 1amuA 563 3.72e+00 1amuA e.23.1.1 43351 1epxA 370 3.92e+00 1fbaA c.1.10.1 29150 1q1gA 276 3.99e+00 1m6yA 301 4.40e+00 a.60.13.1 78716 c.66.1.23 78717 1h05A 146 4.56e+00 c.23.13.1 76433 1ofuA 320 4.59e+00 c.32.1.1 86972 d.79.2.1 86973 1l3iA 192 4.84e+00 c.66.1.22 77676 1jnyA 435 4.99e+00 b.43.3.1 66982 b.44.1.1 66983 c.37.1.8 66984 1ass 159 5.12e+00 1a6dA c.8.5.2 30818 1t9kA 347 6.15e+00 1f60A 458 6.34e+00 1efcA b.43.3.1 25705 b.44.1.1 25745 c.37.1.8 32140 1lw6I 64 6.37e+00 d.40.1.1 74294 1fukA 165 6.40e+00 1fukA c.37.1.19 32409 1an9A 340 6.42e+00 1an9A c.4.1.2 30617 d.16.1.3 37904 1cozA 129 6.83e+00 1cozA c.26.1.2 31598 1a8y 367 7.04e+00 1a8y c.47.1.3 32781 c.47.1.3 32782 c.47.1.3 32783 8dfr 189 7.06e+00 1aoeA c.71.1.1 34895 1juvA 193 7.14e+00 1fds 327 7.18e+00 1fds c.2.1.2 29838 1jtvA 327 7.34e+00 c.2.1.2 84230 1su8A 636 7.44e+00 1ii7A 333 7.89e+00 1ii7A d.159.1.4 62415 1o4uA 285 8.18e+00 c.1.17.1 86624 d.41.2.1 86625 1jjyA 636 8.58e+00 1jjyA e.26.1.2 63141 1df7A 159 8.98e+00 3dfr c.71.1.1 34885 1npk 154 9.89e+00 1npk d.58.6.1 39099 1m6sA 347 1.00e+01 c.67.1.1 78701 1jg8A 347 1.01e+01 1jg8A c.67.1.1 62946 1r64A 481 1.02e+01 1cbf 285 1.06e+01 1cbf c.90.1.1 35587 3tmkA 216 1.07e+01 3tmkA c.37.1.1 31920 1nw3A 416 1.09e+01 c.66.1.31 86288 1ve9A 347 1.11e+01 1qdeA 224 1.15e+01 1qvaA c.37.1.19 32410 1dqsA 393 1.26e+01 1dqsA e.22.1.1 43347 1kyqA 274 1.29e+01 c.2.1.11 73281 e.37.1.1 73282 1upaA 573 1.38e+01 1im5A 180 1.40e+01 c.33.1.2 66211 1kekA 1231 1.42e+01 c.36.1.8 68524 c.36.1.12 68525 c.48.1.3 68526 c.64.1.1 68527 d.58.1.5 68528 1aa8A 347 1.45e+01 1an9A c.4.1.2 30619 d.16.1.3 37906 1fecA 490 1.47e+01 3grs c.3.1.5 30489 c.3.1.5 30490 d.87.1.1 40176 1p9bA 442 1.49e+01 1q1rA 431 1.51e+01 1h2rS 267 1.56e+01 2frvA e.19.1.1 43310 1oaoC 729 1.59e+01 e.26.1.3 86746 1npyA 271 1.72e+01 c.2.1.7 85995 c.58.1.5 85996 1ek6A 348 1.75e+01 1xel c.2.1.2 29800 1ga8A 311 1.80e+01 1ga8A c.68.1.4 34516 1ogdA 131 1.80e+01 1ubkS 267 1.80e+01 e.19.1.1 88423 1ne2A 200 1.81e+01 c.66.1.32 85586 1vizA 240 1.82e+01 1jayA 212 1.84e+01 c.2.1.6 66478 1ub3A 220 1.88e+01 c.1.10.1 88395 1cseE 274 1.94e+01 1gci c.41.1.1 32481 1ml4A 308 1.99e+01 c.78.1.1 79255 c.78.1.1 79256 1ptvA 321 2.05e+01 1pty c.45.1.2 32665 1miwA 404 2.12e+01 a.173.1.1 79162 d.218.1.4 79163 1vi2A 300 2.15e+01 1uwzA 136 2.22e+01 1vhoA 346 2.24e+01 1p1cA 199 2.27e+01 c.66.1.16 87669 1b0pA 1231 2.30e+01 c.36.1.8 31831 c.36.1.12 31832 c.48.1.3 33104 c.64.1.1 34157 d.58.1.5 39003 1nytA 271 2.31e+01 c.2.1.7 86417 c.58.1.5 86418 1jtkA 136 2.40e+01 c.97.1.1 71862 1fzqA 181 2.52e+01 1hurA c.37.1.8 32060 1d2fA 390 2.60e+01 1d2fA c.67.1.3 34411 1h2eA 207 2.63e+01 c.60.1.1 70857 1r0rE 274 2.63e+01 1h80A 464 2.63e+01 b.80.1.8 65714 1bhe 376 2.68e+01 1bhe b.80.1.3 28030 1mzhA 225 2.69e+01 c.1.10.1 79698 1ypcI 64 2.75e+01 2sniI d.40.1.1 38570 1ko7A 314 2.83e+01 c.98.2.1 72797 c.91.1.2 72798 1jl1A 155 2.89e+01 c.55.3.1 66821 1ujnA 348 2.89e+01 1dhpA 292 2.93e+01 1dhpA c.1.10.1 29097 1pa1A 310 2.94e+01 1luaA 287 2.95e+01 c.2.1.7 78216 c.58.1.4 78217 1nnlA 225 3.01e+01 c.108.1.4 85906 1f21A 155 3.03e+01 2rn2 c.55.3.1 33550 1k7jA 206 3.11e+01 d.115.1.1 72103 1my7A 114 3.20e+01 b.1.18.1 79675 1udc 338 3.21e+01 1xel c.2.1.2 29785 1bw0A 416 3.25e+01 1bw0A c.67.1.1 34385 1xel 338 3.26e+01 1xel c.2.1.2 29786 1nuuA 252 3.30e+01 c.26.1.3 86209 4uagA 437 3.30e+01 4uagA c.5.1.1 30651 c.59.1.1 33952 c.72.2.1 34955 1vid 221 3.41e+01 1vid c.66.1.1 34178 1pswA 348 3.45e+01 c.87.1.7 88287 1kjwA 295 3.63e+01 b.34.2.1 68643 c.37.1.1 68644 1o1xA 155 3.68e+01 c.121.1.1 86553 1ru3A 732 3.70e+01 1k07A 263 3.70e+01 d.157.1.1 77218 1ro2A 216 3.84e+01 1epaA 164 3.96e+01 1epaA b.60.1.1 27128 1lw6E 281 3.97e+01 c.41.1.1 74293