# List of top-scoring protein chains for T0296.t06-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 1.04e-02 c.82.1.1 86556 1gwjA 377 9.70e-01 c.1.4.1 70671 1bxkA 355 2.39e+00 1bxkA c.2.1.2 29803 1ib6A 312 3.41e+00 c.2.1.5,d.162.1.1 62146,62147 1zhvA 134 3.96e+00 1mv8A 436 4.38e+00 a.100.1.4,c.2.1.6,c.26.3.1 85128,85129,85130 2cmd 312 4.92e+00 2cmd c.2.1.5,d.162.1.1 30135,42102 1fnuA 221 5.35e+00 3seb b.40.2.2,d.15.6.1 25212,37801 1mjhA 162 6.05e+00 1mjhA c.26.2.4 31639 1uqrA 154 8.54e+00 c.23.13.1 99779 1ha5A 218 8.64e+00 b.40.2.2,d.15.6.1 70927,70928 1hl2A 297 9.13e+00 c.1.10.1 83581 2ljrA 244 9.51e+00 1ljrA a.45.1.1,c.47.1.5 17709,33003 1vpsA 289 9.53e+00 1vpsA b.121.6.1 23336 1cn3A 283 1.00e+01 1vpsA b.121.6.1 23346 1lvl 458 1.21e+01 1lvl c.3.1.5,c.3.1.5,d.87.1.1 30567,30568,40205 1xnaA 183 1.28e+01 1xnaA b.18.1.8 23773 1sidA 383 1.31e+01 1vpsA b.121.6.1 23351 1s3gA 217 1.55e+01 c.37.1.1,g.41.2.1 98433,98434 1smkA 326 1.63e+01 1sevA 362 1.66e+01 1j0aA 325 1.68e+01 c.79.1.1 83871 1wkjA 137 1.72e+01 1fdyA 297 1.80e+01 1nal3 c.1.10.1 29071 1hf2A 210 1.88e+01 1hf2A b.80.3.1,c.102.1.1 60992,60993 1rypK 198 1.95e+01 d.153.1.4 41879 1l0yB 221 2.09e+01 b.40.2.2,d.15.6.1 73442,73443 1pa2A 306 2.10e+01 1bgp a.93.1.1 18693 1lfpA 249 2.11e+01 e.39.1.1 73885 1uk8A 282 2.13e+01 c.69.1.10 107907 1nal1 297 2.13e+01 1nal3 1v5vA 401 2.15e+01 2fnaA 357 2.20e+01 1jweA 114 2.20e+01 1b79A a.81.1.1 18455 1yxoA 328 2.36e+01 1e4yA 214 2.44e+01 1zin c.37.1.1,g.41.2.1 31901,45181 1obdA 306 2.45e+01 d.143.1.1 86767 1e4vA 214 2.51e+01 1zin c.37.1.1,g.41.2.1 31903,45183 1q7zA 566 2.52e+01 c.1.21.2,c.1.26.1 96090,96091 1tv8A 340 2.64e+01 c.1.28.3 107352 1y6zA 263 2.64e+01 1akeA 214 2.71e+01 1zin c.37.1.1,g.41.2.1 31905,45185 1emn 82 2.81e+01 1emn g.3.11.1,g.3.11.1 44322,44323 1wu6A 396 2.86e+01 2d13A 227 2.93e+01 1umyA 407 3.06e+01 c.1.26.1 99635 1lt8A 406 3.09e+01 c.1.26.1 78186 1b1zA 219 3.17e+01 3seb b.40.2.2,d.15.6.1 25216,37805 2a8xA 464 3.18e+01 1uupA 221 3.20e+01 b.40.2.2,d.15.6.1 108050,108051 1xvyA 309 3.21e+01 1y7mA 164 3.26e+01 1ufoA 238 3.28e+01 c.69.1.27 99344 1bt0A 76 3.34e+01 1ubi d.15.1.1 37607 2afbA 351 3.36e+01 1mpyA 307 3.51e+01 1mpyA d.32.1.3,d.32.1.3 38508,38509 2c1vA 338 3.58e+01 2g0tA 350 3.58e+01 1z6tA 591 3.64e+01 1oi7A 288 3.71e+01 c.2.1.8,c.23.4.1 87049,87050 1f3jA 182 3.72e+01 1iakA b.1.1.2,d.19.1.1 21645,38219 1jmg 316 3.77e+01 1bkpA d.117.1.1 41008 3pcgM 238 3.79e+01 3pchM b.3.6.1 22742 1vrcA 136 3.79e+01 1pdo 135 3.79e+01 1pdo c.54.1.1 33376 1es0A 190 3.82e+01 1iakA b.1.1.2,d.19.1.1 21643,38217 3pcdM 238 3.84e+01 3pchM b.3.6.1 22778 1vekA 84 3.98e+01 1s95A 333 4.01e+01 d.159.1.3 105375 2iadA 194 4.01e+01 1iakA b.1.1.2,d.19.1.1 21639,38213 1k1xA 659 4.02e+01 a.8.3.2,b.30.5.8,c.6.2.2 84279,84280,84281 1y67A 229 4.03e+01 1euzA 419 4.04e+01 1k89 c.2.1.7,c.58.1.1 59513,59514 1bvuA 418 4.16e+01 1hwyA c.2.1.7,c.58.1.1 30226,33874 2bwfA 77 4.27e+01 1vpgA 192 4.28e+01 1b79A 119 4.50e+01 1b79A a.81.1.1 18451 1iryA 156 4.51e+01 d.113.1.1 90690 2c0jA 161 4.52e+01 1wc8A 180 4.52e+01 2cdyA 231 4.53e+01 1lucA 355 4.54e+01 1lucA c.1.16.1 29547 1xa9A 229 4.55e+01 1r89A 437 4.59e+01 a.160.1.3,d.218.1.7,d.58.16.2 97221,97222,97223 1ykpB 238 4.63e+01 1ofhA 310 4.72e+01 c.37.1.20 86948 1ykkB 238 4.80e+01 1sz7A 200 4.96e+01 1kyzA 365 5.02e+01 a.4.5.29,c.66.1.12 73312,73313 1gxjA 186 5.09e+01 d.215.1.1 70707 1ijqA 316 5.10e+01 1ijqA b.68.5.1,g.3.11.1 62506,62507 1lehA 364 5.11e+01 1bw9A c.2.1.7,c.58.1.1 30268,33916 1yknB 238 5.14e+01 1ae2 87 5.18e+01 1gvp b.40.4.7 25382 2todA 425 5.19e+01 7odcA b.49.2.3,c.1.6.1 26489,28651 1wc9A 165 5.24e+01 1f3tA 425 5.26e+01 7odcA b.49.2.3,c.1.6.1 26493,28655 1njjA 425 5.27e+01 b.49.2.3,c.1.6.1 91905,91906 1zbqA 327 5.28e+01 1tsy 316 5.28e+01 1bkpA d.117.1.1 40990 1wao1 477 5.30e+01 1szrA 425 5.33e+01 1xaeA 229 5.35e+01 1dts 221 5.36e+01 1byi c.37.1.10 32200 1gxlA 213 5.44e+01 d.215.1.1 70713 1wloA 136 5.47e+01 1vqe 87 5.57e+01 1gvp b.40.4.7 25380 1i60A 278 5.57e+01 c.1.15.4 71118 1glqA 209 5.60e+01 1pgtA a.45.1.1,c.47.1.5 17588,32882 1o58A 303 5.60e+01 c.79.1.1 92491 1g3qA 237 5.65e+01 1hyqA c.37.1.10 60237 1o5oA 221 5.65e+01 c.61.1.1 92509 1l1jA 239 5.84e+01 b.47.1.1 84516 1vqc 87 5.90e+01 1gvp b.40.4.7 25378 1vqd 87 6.24e+01 1gvp b.40.4.7 25375 1kn6A 90 6.27e+01 d.58.3.3 72770 1efpA 307 6.43e+01 1efvA c.26.2.3,c.31.1.2 31635,31729 1othA 321 6.53e+01 1othA c.78.1.1,c.78.1.1 35260,35261 1i8tA 367 6.55e+01 c.4.1.3,d.16.1.7 66094,66095 1vza 316 6.57e+01 1bkpA d.117.1.1 41017 1wi0A 113 6.57e+01 1nt2B 258 6.72e+01 a.183.1.1 86150 1wu4A 396 6.86e+01 1vze 316 6.95e+01 1bkpA d.117.1.1 41003 1vqf 87 7.01e+01 1gvp b.40.4.7 25372 1gesA 450 7.18e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30473,30474,40168 1k6dA 220 7.22e+01 c.124.1.2 72082 2g89A 316 7.23e+01 1vorO 114 7.23e+01 1vqj 87 7.28e+01 1gvp b.40.4.7 25374 1nkwL 116 7.28e+01 i.1.1.2 80597 1vm6A 228 7.32e+01 c.2.1.3,d.81.1.3 108876,108877 1yb0A 159 7.49e+01 1otkA 249 7.51e+01 a.25.1.2 93521 1bo8A 316 7.62e+01 1bkpA d.117.1.1 40994 1tdb 315 7.62e+01 1bkpA d.117.1.1 41025 1nje 316 7.62e+01 1bkpA d.117.1.1 41001 2g8dA 316 7.69e+01 2g86A 316 7.79e+01 2g8aA 316 7.80e+01 1njd 316 7.80e+01 1bkpA d.117.1.1 41004 1wfoA 130 7.87e+01 1qgjA 300 7.90e+01 1bgp a.93.1.1 18691 1vmkA 277 7.92e+01 1dhs 361 7.93e+01 1dhs c.31.1.1 31727 1rlzA 369 8.01e+01 c.31.1.1 104989 1ib2A 349 8.25e+01 1ib2A a.118.1.8 62141 1en5A 205 8.40e+01 1avmA a.2.11.1,d.44.1.1 59465,59466 1ix9A 205 8.40e+01 a.2.11.1,d.44.1.1 76899,76900 1bp0A 316 8.44e+01 1bkpA d.117.1.1 40993 1d5nA 205 8.48e+01 1avmA a.2.11.1,d.44.1.1 15762,38687 1gerA 450 8.59e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30477,30478,40170 1i08A 205 8.63e+01 1avmA a.2.11.1,d.44.1.1 15770,38695 1tvv 316 8.67e+01 1bkpA d.117.1.1 40998 1f66C 128 8.76e+01 1aoiC a.22.1.1 16442 1o9iA 266 8.80e+01 a.25.1.3 92671 1jkvA 266 8.85e+01 a.25.1.3 71719 1jmi 316 8.95e+01 1bkpA d.117.1.1 41006 1jmf 316 8.95e+01 1bkpA d.117.1.1 41007 1jmh 316 8.98e+01 1bkpA d.117.1.1 41009