# List of top-scoring protein chains for T0296.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 1o20A 427 6.76e-02 c.82.1.1 86556 1gwjA 377 3.02e+00 c.1.4.1 70671 1bxkA 355 6.13e+00 1bxkA c.2.1.2 29803 1ib6A 312 8.54e+00 c.2.1.5,d.162.1.1 62146,62147 1zhvA 134 9.43e+00 1mv8A 436 1.05e+01 a.100.1.4,c.2.1.6,c.26.3.1 85128,85129,85130 2cmd 312 1.16e+01 2cmd c.2.1.5,d.162.1.1 30135,42102 1fnuA 221 1.31e+01 3seb b.40.2.2,d.15.6.1 25212,37801 1mjhA 162 1.36e+01 1mjhA c.26.2.4 31639 1uqrA 154 1.90e+01 c.23.13.1 99779 1hl2A 297 1.94e+01 c.1.10.1 83581 1ha5A 218 1.96e+01 b.40.2.2,d.15.6.1 70927,70928 1vpsA 289 2.00e+01 1vpsA b.121.6.1 23336 2ljrA 244 2.03e+01 1ljrA a.45.1.1,c.47.1.5 17709,33003 1cn3A 283 2.10e+01 1vpsA b.121.6.1 23346 1lvl 458 2.48e+01 1lvl c.3.1.5,c.3.1.5,d.87.1.1 30567,30568,40205 1xnaA 183 2.61e+01 1xnaA b.18.1.8 23773 1sidA 383 2.61e+01 1vpsA b.121.6.1 23351 1s3gA 217 3.13e+01 c.37.1.1,g.41.2.1 98433,98434 1j0aA 325 3.19e+01 c.79.1.1 83871 1smkA 326 3.28e+01 1sevA 362 3.32e+01 1wkjA 137 3.35e+01 1fdyA 297 3.45e+01 1nal3 c.1.10.1 29071 1hf2A 210 3.56e+01 1hf2A b.80.3.1,c.102.1.1 60992,60993 1rypK 198 3.61e+01 d.153.1.4 41879 1jweA 114 3.80e+01 1b79A a.81.1.1 18455 2fnaA 357 3.96e+01 1lfpA 249 3.98e+01 e.39.1.1 73885 1nal1 297 3.98e+01 1nal3 1v5vA 401 4.03e+01 1uk8A 282 4.03e+01 c.69.1.10 107907 1pa2A 306 4.06e+01 1bgp a.93.1.1 18693 1l0yB 221 4.19e+01 b.40.2.2,d.15.6.1 73442,73443 1yxoA 328 4.32e+01 1e4yA 214 4.54e+01 1zin c.37.1.1,g.41.2.1 31901,45181 1obdA 306 4.57e+01 d.143.1.1 86767 1e4vA 214 4.65e+01 1zin c.37.1.1,g.41.2.1 31903,45183 1q7zA 566 4.69e+01 c.1.21.2,c.1.26.1 96090,96091 1tv8A 340 4.83e+01 c.1.28.3 107352 1akeA 214 4.96e+01 1zin c.37.1.1,g.41.2.1 31905,45185 1y6zA 263 4.99e+01 1emn 82 5.10e+01 1emn g.3.11.1,g.3.11.1 44322,44323 1wu6A 396 5.19e+01 2d13A 227 5.35e+01 1umyA 407 5.51e+01 c.1.26.1 99635 1lt8A 406 5.54e+01 c.1.26.1 78186 1xvyA 309 5.65e+01 1ufoA 238 5.68e+01 c.69.1.27 99344 1y7mA 164 5.80e+01 1mpyA 307 5.86e+01 1mpyA d.32.1.3,d.32.1.3 38508,38509 1b1zA 219 5.98e+01 3seb b.40.2.2,d.15.6.1 25216,37805 1uupA 221 6.01e+01 b.40.2.2,d.15.6.1 108050,108051 1bt0A 76 6.03e+01 1ubi d.15.1.1 37607 2afbA 351 6.05e+01 2g0tA 350 6.32e+01 1z6tA 591 6.36e+01 1f3jA 182 6.49e+01 1iakA b.1.1.2,d.19.1.1 21645,38219 1oi7A 288 6.50e+01 c.2.1.8,c.23.4.1 87049,87050 1jmg 316 6.56e+01 1bkpA d.117.1.1 41008 1pdo 135 6.60e+01 1pdo c.54.1.1 33376 3pcgM 238 6.60e+01 3pchM b.3.6.1 22742 1vrcA 136 6.60e+01 2c1vA 338 6.61e+01 1es0A 190 6.65e+01 1iakA b.1.1.2,d.19.1.1 21643,38217 3pcdM 238 6.66e+01 3pchM b.3.6.1 22778 1k1xA 659 6.79e+01 a.8.3.2,b.30.5.8,c.6.2.2 84279,84280,84281 1vekA 84 6.90e+01 2iadA 194 6.93e+01 1iakA b.1.1.2,d.19.1.1 21639,38213 1b79A 119 6.98e+01 1b79A a.81.1.1 18451 1euzA 419 7.01e+01 1k89 c.2.1.7,c.58.1.1 59513,59514 1y67A 229 7.11e+01 1vpgA 192 7.23e+01 2bwfA 77 7.35e+01 1bvuA 418 7.38e+01 1hwyA c.2.1.7,c.58.1.1 30226,33874 1s95A 333 7.43e+01 d.159.1.3 105375 1r89A 437 7.48e+01 a.160.1.3,d.218.1.7,d.58.16.2 97221,97222,97223 1wc8A 180 7.57e+01 1iryA 156 7.59e+01 d.113.1.1 90690 1ofhA 310 7.64e+01 c.37.1.20 86948 2c0jA 161 7.65e+01 2cdyA 231 7.82e+01 1ykpB 238 7.84e+01 1xa9A 229 7.84e+01 2a8xA 464 7.87e+01 1lucA 355 7.96e+01 1lucA c.1.16.1 29547 1ykkB 238 8.07e+01 1sz7A 200 8.13e+01 1lehA 364 8.14e+01 1bw9A c.2.1.7,c.58.1.1 30268,33916 1gxjA 186 8.27e+01 d.215.1.1 70707 1ijqA 316 8.46e+01 1ijqA b.68.5.1,g.3.11.1 62506,62507 1kyzA 365 8.51e+01 a.4.5.29,c.66.1.12 73312,73313 1ae2 87 8.60e+01 1gvp b.40.4.7 25382 1yknB 238 8.60e+01 2todA 425 8.68e+01 7odcA b.49.2.3,c.1.6.1 26489,28651 1wc9A 165 8.68e+01 1gxlA 213 8.72e+01 d.215.1.1 70713 1dts 221 8.74e+01 1byi c.37.1.10 32200 1f3tA 425 8.77e+01 7odcA b.49.2.3,c.1.6.1 26493,28655 1tsy 316 8.77e+01 1bkpA d.117.1.1 40990 1njjA 425 8.77e+01 b.49.2.3,c.1.6.1 91905,91906 1zbqA 327 8.83e+01 1szrA 425 8.87e+01 1g3qA 237 8.97e+01 1hyqA c.37.1.10 60237