# List of top-scoring protein chains for T0200.t2k-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 1jn0A 335 5.42e-02 c.2.1.3 66915 d.81.1.1 66916 1pw5A 253 6.55e-02 1vjrA 271 7.72e-02 1jztA 246 8.33e-02 c.104.1.1 63319 1nboA 337 9.64e-02 c.2.1.3 85526 d.81.1.1 85527 1rvxA 327 2.26e-01 1gg4A 452 2.41e-01 1gg4A c.98.1.1 58985 c.59.1.1 33957 c.72.2.1 58986 1ci9A 392 2.76e-01 e.3.1.1 64767 1hp1A 516 4.17e-01 d.114.1.1 70976 d.159.1.2 70977 1hpuA 525 5.16e-01 d.114.1.1 70979 d.159.1.2 70980 1ush 550 5.19e-01 1ush d.114.1.1 40923 d.159.1.2 42079 1ru7A 327 7.00e-01 1kshA 186 1.28e+00 c.37.1.8 72914 1og5A 475 1.32e+00 a.104.1.1 86982 1h1yA 228 3.26e+00 c.1.2.2 76506 1ruzH 328 3.37e+00 1do5A 154 3.71e+00 1mfmA b.1.8.1 22303 1gytA 503 3.84e+00 c.56.5.3 70766 c.50.1.1 70765 1uedA 406 5.07e+00 1grwA 126 5.33e+00 b.1.11.2 70391 2apr 325 5.40e+00 2er7E b.50.1.2 26819 1rvtH 328 5.52e+00 1pex 207 5.66e+00 1gen b.66.1.1 27540 1fzqA 181 6.06e+00 1hurA c.37.1.8 32060 2pjrA 548 6.07e+00 1pjr c.37.1.19 32395 c.37.1.19 32396 1pjr 724 6.52e+00 1pjr c.37.1.19 32391 c.37.1.19 32392 1gm5A 780 6.83e+00 a.29.4.1 65298 b.40.4.9 65299 c.37.1.19 65300 c.37.1.19 65301 1a0tP 413 7.37e+00 1a0tP f.4.3.2 43794 1jr6A 142 7.43e+00 c.37.1.14 71821 1nwpA 128 8.15e+00 1nwpA b.6.1.1 23011 1ogqA 313 8.27e+00 c.10.2.8 86996 1ki9A 192 8.53e+00 c.37.1.1 84404 1rd8A 335 9.64e+00 1qzxA 440 9.73e+00 1vkfA 188 1.03e+01 1vkfD 188 1.03e+01 1sluA 142 1.06e+01 1sluA b.16.1.1 23685 1lmq 129 1.13e+01 3lzt d.2.1.2 36588 1qpdA 278 1.16e+01 1fmk d.144.1.7 41687 1r4aA 165 1.18e+01 1pkhA 204 1.20e+01 1lehA 364 1.22e+01 1bw9A c.2.1.7 30268 c.58.1.1 33916 1nyrA 645 1.24e+01 1qpcA 278 1.26e+01 1fgkA d.144.1.7 41685 1k8kF 168 1.29e+01 d.198.2.1 68312 1bia 321 1.29e+01 1bia a.4.5.1 16083 b.34.1.1 24447 d.104.1.2 40787 1i3kA 348 1.39e+01 1xel c.2.1.2 61595 3lck 270 1.41e+01 1fmk d.144.1.7 41686 1ruyH 328 1.53e+01 1nr6A 473 1.53e+01 1ea0A 1479 1.61e+01 b.80.4.1 64854 c.1.4.1 64855 d.153.1.1 64856 1l3lA 234 1.61e+01 a.4.6.2 73541 d.110.5.1 73542 1s96A 219 1.62e+01 1h30A 422 1.63e+01 b.29.1.4 76604 b.29.1.4 76605 1eyxB 177 1.64e+01 1qgwC a.1.1.3 15670 1b33A 160 1.67e+01 1qgwC a.1.1.3 15649 1hzjA 348 1.68e+01 1xel c.2.1.2 61450 1ek6A 348 1.72e+01 1xel c.2.1.2 29800 1rpxA 230 1.73e+01 1rpxA c.1.2.2 28536 1gjiA 275 1.76e+01 b.1.18.1 70187 b.2.5.3 70188 1rv0H 328 1.78e+01 1ojxA 263 1.79e+01 1ou5A 448 1.84e+01 a.173.1.1 87445 d.218.1.4 87446 1r42A 615 1.87e+01 1fl2A 310 1.95e+01 1hyuA c.3.1.5 59869 c.3.1.5 59870 1j36A 607 2.03e+01 d.92.1.5 84054 1loi 25 2.06e+01 j.51.1.1 46331 1kcxA 518 2.07e+01 1vjgA 218 2.09e+01 1e7uA 961 2.12e+01 1e8xA a.118.1.6 19147 b.7.1.1 23182 d.15.1.5 37630 d.144.1.4 41710 1e7vA 960 2.12e+01 1e8xA a.118.1.6 19149 b.7.1.1 23184 d.15.1.5 37632 d.144.1.4 41712 1gsoA 431 2.16e+01 1gsoA b.84.2.1 28240 c.30.1.1 31647 d.142.1.2 41492 1o7dA 298 2.33e+01 c.6.2.1 86641 1ordA 730 2.35e+01 1ordA c.23.1.4 31274 c.67.1.5 34503 d.125.1.1 41124 1aotF 106 2.38e+01 1lckA d.93.1.1 40458 1he8A 965 2.46e+01 1e8xA a.118.1.6 19154 b.7.1.1 23189 d.15.1.5 37637 d.144.1.4 41717 1orvA 728 2.56e+01 b.70.3.1 87354 c.69.1.24 87355 1uptA 170 2.58e+01 1h0cA 392 2.60e+01 c.67.1.3 83424 1ia9A 280 2.60e+01 1ia9A d.144.1.5 62113 1j04A 392 2.65e+01 1qrqA 325 2.79e+01 1qrqA c.1.7.1 28667 1rn4 104 2.84e+01 9rnt d.1.1.4 36073 1exbA 332 2.87e+01 1qrqA c.1.7.1 28666 1e6wA 260 2.92e+01 1e6wA c.2.1.2 59326 1e3sA 261 2.93e+01 1e6wA c.2.1.2 59201 1e8yA 966 2.93e+01 1e8xA a.118.1.6 19152 b.7.1.1 23187 d.15.1.5 37635 d.144.1.4 41715 1k28A 584 2.94e+01 b.40.8.1 68049 b.108.1.2 68050 d.2.1.3 68051 1crwG 333 2.97e+01 1dssG c.2.1.3 30026 d.81.1.1 39941 1oh2Q 413 2.98e+01 f.4.3.2 87007 1dssG 332 3.05e+01 1dssG c.2.1.3 30022 d.81.1.1 39937 1nuoA 261 3.10e+01 a.123.1.1 86198 1liaB 177 3.12e+01 1qgwC a.1.1.3 15662 1ffyA 917 3.17e+01 1qu2A a.27.1.1 16926 b.51.1.1 26891 c.26.1.1 31593 1ji7A 89 3.26e+01 a.60.1.1 71682 1s2uA 295 3.32e+01 1s2wA 295 3.40e+01 3hohA 104 3.41e+01 9rnt d.1.1.4 36085 1hyuA 521 3.47e+01 1hyuA c.3.1.5 30547 c.3.1.5 30548 c.47.1.2 32779 c.47.1.2 32780 3kinB 117 3.51e+01 3kinB 1odsA 318 3.54e+01 c.69.1.25 86877 1l7aA 318 3.56e+01 c.69.1.25 77772 1odtC 318 3.74e+01 c.69.1.25 86885 1qhhB 273 3.76e+01 1pjr 1ru8A 232 3.90e+01 1f9kA 238 3.90e+01 1led b.29.1.1 59741 1volA 204 3.93e+01 1tfb a.74.1.2 18370 a.74.1.2 18371 1bwyA 132 3.93e+01 1hmt b.60.1.2 27172 1e3wA 261 3.95e+01 1e6wA c.2.1.2 59207