# List of top-scoring protein chains for t2k-100-30-near-backbone-11 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 1gr3A 160 1.77e-22 b.22.1.1 65476 1c28A 135 1.12e-21 1c28A b.22.1.1 23857 1c3hA 137 1.92e-21 b.22.1.1 -3255 1o91A 178 1.07e-20 b.22.1.1 -3282 1pk6C 129 7.68e-18 b.22.1.1 -3293 1pk6B 132 4.37e-16 b.22.1.1 -3290 1pk6A 133 1.72e-15 b.22.1.1 -3287 1kxgA 152 1.58e-03 b.22.1.1 73145 1jh5A 144 2.89e-03 b.22.1.1 66697 1iqaA 160 4.44e-03 b.22.1.1 71274 1d2qA 173 6.55e-03 1d4vB b.22.1.1 23894 1d4vB 163 1.92e-02 1d4vB b.22.1.1 23884 1dg6A 191 2.48e-02 1d4vB b.22.1.1 23883 1rj8A 164 5.49e-02 b.22.1.1 -3263 1tnrA 144 8.90e-02 2tnfA b.22.1.1 23867 1o6uA 403 1.60e-01 a.5.3.1 -366 unknown_sccs -3048 c.13.1.1 -6221 2tnfA 156 3.22e-01 2tnfA b.22.1.1 23880 1a65A 504 3.52e-01 1a65A b.6.1.3 23148 b.6.1.3 23149 b.6.1.3 23150 1hfuA 503 3.68e-01 b.6.1.3 65827 b.6.1.3 65828 b.6.1.3 65829 1tnfA 158 9.97e-01 2tnfA b.22.1.1 23871 1pmd 675 1.01e+00 1pmd d.11.1.1 37491 d.11.1.1 37492 d.175.1.1 42562 e.3.1.1 42771 1aly 146 1.16e+00 1aly b.22.1.1 23856 1aozA 552 2.54e+00 1aozA b.6.1.3 23124 b.6.1.3 23125 b.6.1.3 23126 1a8p 258 3.02e+00 1fdr b.43.4.2 25654 c.25.1.1 31544 1rdzA 337 3.50e+00 1frpA e.7.1.1 42882 1j83A 180 4.05e+00 b.18.1.12 66430 4tsvA 150 4.05e+00 2tnfA b.22.1.1 23860 1p0yA 444 4.47e+00 a.166.1.1 87654 b.85.7.3 87655 1nscA 390 4.66e+00 2qwc b.68.1.1 27591 1nkqA 259 4.67e+00 1gpr 162 5.86e+00 1gpr b.84.3.1 28267 1lslA 113 5.92e+00 g.60.1.1 78178 g.60.1.1 78179 1uxzA 131 6.86e+00 b.18.1.10 -3110 1nuyA 337 6.97e+00 e.7.1.1 86213 1mlvA 444 7.19e+00 a.166.1.1 79283 b.85.7.3 79284 1sv6A 269 8.07e+00 1es2A 262 8.11e+00 1skf e.3.1.1 42680 2ifeA 100 8.79e+00 1tig d.68.1.1 39567 1ujxA 119 9.13e+00 b.26.1.2 -3325 1es5A 262 9.19e+00 1skf e.3.1.1 42679 2rmcA 182 9.25e+00 2cpl b.62.1.1 27491 1esiA 262 9.54e+00 1skf e.3.1.1 42682 1htrB 329 9.75e+00 1smrA 1itpA 77 9.86e+00 d.58.3.2 66371 1gttA 429 1.12e+01 d.177.1.1 70529 d.177.1.1 70530 1l7lA 121 1.19e+01 b.18.1.16 77790 1ihmA 530 1.20e+01 1ihmA b.121.4.3 62385 1skf 262 1.24e+01 1skf e.3.1.1 42684 1es4A 262 1.25e+01 1skf e.3.1.1 42683 1tbaB 180 1.27e+01 1ytbA d.129.1.1 41286 d.129.1.1 41287 1pl8A 356 1.33e+01 b.35.1.2 -3716 c.2.1.1 -5740 1i7oA 429 1.34e+01 1i7oA d.177.1.1 61893 d.177.1.1 61894 1paz 123 1.42e+01 1bqk b.6.1.1 22878 1i18A 97 1.44e+01 b.43.4.3 61520 1a6bB 40 1.45e+01 1a6bB g.40.1.1 45172 1b12A 248 1.52e+01 1b12A b.87.1.2 28388 1rg9A 383 1.62e+01 d.130.1.1 -11057 d.130.1.1 -11058 d.130.1.1 -11059 1bw4 125 1.68e+01 1bw4 b.52.1.2 26900 1h7dA 49 1.69e+01 j.88.1.1 65701 1oj4A 283 1.76e+01 d.14.1.5 -9088 d.58.26.5 -10133 1mo9A 523 1.77e+01 c.3.1.5 79341 c.3.1.5 79342 d.87.1.1 79343 1frpA 335 1.80e+01 1frpA e.7.1.1 42875 1fzaB 328 1.81e+01 3fib d.171.1.1 42480 h.1.8.1 45621 1ofwA 296 1.81e+01 a.138.1.1 -2035 1mj5A 302 1.83e+01 c.69.1.8 -8326 1kz8A 337 1.85e+01 e.7.1.1 77633 1hucA 47 1.92e+01 1hucA d.3.1.1 37049 1oniA 137 1.95e+01 d.79.1.1 87144 1mxb 383 1.99e+01 1mxb d.130.1.1 41329 d.130.1.1 41330 d.130.1.1 41331 1prgA 270 1.99e+01 2prgA a.123.1.1 19314 2pia 321 2.01e+01 2pia b.43.4.2 25663 c.25.1.2 31553 d.15.4.2 37704 1fm9D 272 2.01e+01 2prgA a.123.1.1 19313 1ygs 234 2.03e+01 1ygs b.26.1.1 23907 1et9A 204 2.04e+01 1an8 b.40.2.2 25204 d.15.6.1 37793 1dpjA 329 2.04e+01 1smrA b.50.1.2 26828 1iz7A 295 2.10e+01 c.69.1.8 76982 2cb5A 453 2.15e+01 3gcb d.3.1.1 37035 1o54A 277 2.24e+01 c.66.1.13 -8095 1dlc 584 2.26e+01 1ciy b.18.1.3 23719 b.77.2.1 27976 f.1.3.1 43391 19hcA 292 2.26e+01 19hcA a.138.1.1 19668 1pxqA 35 2.39e+01 1bw3 125 2.39e+01 1bw4 b.52.1.2 26899 1qmeA 702 2.46e+01 1pmd d.11.1.1 37487 d.11.1.1 37488 d.175.1.1 42560 e.3.1.1 42769 1qniA 581 2.49e+01 1qniA b.6.1.4 23042 b.69.3.1 27642 1cv2A 296 2.64e+01 1bn6A c.69.1.8 34680 7odcA 424 2.65e+01 7odcA b.49.2.3 26488 c.1.6.1 28650 1mxa 383 2.65e+01 1mxb d.130.1.1 41326 d.130.1.1 41327 d.130.1.1 41328 2prgA 271 2.73e+01 2prgA a.123.1.1 19311 1ew3A 159 2.75e+01 1mup b.60.1.1 27114 1ytbB 180 3.01e+01 1ytbA d.129.1.1 41278 d.129.1.1 41279 1rfs 139 3.10e+01 1rfs b.33.1.1 24434 1ytbA 180 3.21e+01 1ytbA d.129.1.1 41276 d.129.1.1 41277 1o5kA 306 3.30e+01 c.1.10.1 -5482 1pch 88 3.37e+01 1ptf d.94.1.1 40564 1gcuA 295 3.45e+01 1gcuA c.2.1.3 30063 d.81.1.4 39978 1agnA 373 3.45e+01 2ohxA b.35.1.2 24737 c.2.1.1 29753 1g6gA 127 3.45e+01 1g6gA b.26.1.2 23916 1kn9A 249 3.60e+01 b.87.1.2 68699 1pea 385 3.62e+01 1pea c.93.1.1 35662 3nul 130 3.67e+01 3nul d.110.1.1 40891 1bb9 115 3.68e+01 1bb9 b.34.2.1 24554 1jjyA 636 3.71e+01 1jjyA 1d7kA 421 3.77e+01 7odcA b.49.2.3 26486 c.1.6.1 28648 1ebaA 215 3.97e+01 1eerB b.1.2.1 22015 b.1.2.1 22016 1jv1A 505 3.98e+01 c.68.1.5 71892 1qfoA 119 3.98e+01 1qfoA b.1.1.1 19708 1m4jA 142 3.98e+01 d.109.1.2 78602