# List of top-scoring protein chains for t04-100-30-stride-ebghtl 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 1d8hA 311 2.53e-02 1d8iA d.63.1.1 39544 1l7mA 211 2.56e-02 c.108.1.4 73664 1j97A 211 2.95e-02 1f5sA c.108.1.4 62753 1p8kZ 254 3.22e-02 1g8lA 411 2.10e-01 1g8lA b.85.6.1 60365 b.103.1.1 60366 c.57.1.2 60367 1v8cA 168 3.09e-01 1f52A 468 4.44e-01 1lgr d.15.9.1 37839 d.128.1.1 41169 1hn2A 159 4.58e-01 b.60.1.1 65890 1vk6A 269 4.58e-01 1jksA 294 4.98e-01 d.144.1.7 71710 1gt1A 159 5.02e-01 1gt91 357 5.54e-01 1ukuA 102 7.71e-01 1f9zA 135 9.72e-01 1qipA d.32.1.1 38484 1nnhA 294 1.22e+00 1fa8A 135 1.29e+00 1qipA d.32.1.1 38486 1obpA 159 1.31e+00 1obpA b.60.1.1 27092 1i05A 180 1.35e+00 1mup b.60.1.1 27130 1i06A 180 1.36e+00 1mup b.60.1.1 27131 1jv4A 162 1.37e+00 b.60.1.1 67343 1uf2C 421 1.49e+00 1b6rA 355 1.87e+00 1b6rA b.84.2.1 28241 c.30.1.1 31648 d.142.1.2 41493 1nd4A 264 2.68e+00 1ecsA 126 2.71e+00 1ecsA d.32.1.2 59407 1qy1A 174 2.72e+00 1uc8A 280 2.93e+00 1cjbA 231 3.09e+00 1qk3A c.61.1.1 34079 1jfuA 186 3.59e+00 c.47.1.10 62940 1us5A 314 4.03e+00 1atiA 505 4.20e+00 1atiA c.51.1.1 33196 d.104.1.1 40745 1rkqA 282 5.02e+00 1nrlA 316 5.43e+00 1oj4A 283 6.17e+00 1mup 166 6.32e+00 1mup b.60.1.1 27133 1ftrA 296 6.42e+00 1ftrA d.58.33.1 39485 d.58.33.1 39486 1k8kB 394 6.72e+00 c.55.1.1 68307 1mmiA 366 6.89e+00 1dzkA 157 6.91e+00 1obpA b.60.1.1 27096 1l0wA 580 8.09e+00 b.40.4.1 73426 d.74.4.1 73427 d.104.1.1 73428 1l6rA 227 8.68e+00 c.108.1.10 77768 1gx3A 284 9.98e+00 d.3.1.5 70678 1c1yB 77 1.09e+01 1c1yB d.15.1.5 37618 1luzA 88 1.11e+01 b.40.4.5 74271 1lzlA 323 1.20e+01 c.69.1.2 78306 2polA 366 1.22e+01 2polA d.131.1.1 41356 d.131.1.1 41357 d.131.1.1 41358 1kr4A 125 1.27e+01 d.58.5.2 72889 1o5uA 101 1.33e+01 1k7jA 206 1.34e+01 d.115.1.1 72103 1dkuA 317 1.45e+01 1dkuA c.61.1.2 34118 c.61.1.2 34119 1sqsA 242 1.45e+01 1q8yA 373 1.49e+01 1vkfA 188 1.50e+01 1a88A 275 1.56e+01 1brt c.69.1.12 34707 1cjxA 357 1.60e+01 1cjxA d.32.1.3 38516 d.32.1.3 38517 1n0uA 842 1.65e+01 b.43.3.1 79757 c.37.1.8 79758 d.14.1.1 79759 d.58.11.1 79760 d.58.11.1 79761 1su4A 994 1.74e+01 1sgvA 316 1.77e+01 1q8iA 783 1.77e+01 1k07A 263 1.80e+01 d.157.1.1 77218 1sjyA 159 1.81e+01 1dzlA 505 1.86e+01 1dzlA b.121.6.1 23586 1nzjA 298 1.90e+01 1jg8A 347 1.91e+01 1jg8A c.67.1.1 62946 1m6sA 347 1.91e+01 c.67.1.1 78701 1cb0A 283 1.96e+01 1cb0A c.56.2.1 33790 1nmoA 247 1.97e+01 1qqsA 174 1.99e+01 1nglA b.60.1.1 27143 1odfA 290 2.02e+01 1oi7A 288 2.08e+01 c.2.1.8 87049 c.23.4.1 87050 1o6zA 303 2.12e+01 c.2.1.5 81107 d.162.1.1 81108 1qqgA 264 2.13e+01 1qqgA b.55.1.2 26987 b.55.1.2 26988 1kb0A 677 2.19e+01 a.3.1.6 68378 b.70.1.1 68379 1oi2A 366 2.19e+01 c.32.1.2 87039 d.79.2.2 87040 1r72A 211 2.28e+01 2btfA 375 2.32e+01 1yagA c.55.1.1 33429 c.55.1.1 33430 1ja1A 622 2.33e+01 1amoA b.43.4.1 62803 c.23.5.2 62804 c.25.1.4 62805 1ksiA 642 2.37e+01 1ksiB b.30.2.1 24408 d.17.2.1 38043 d.17.2.1 38044 1jg5A 83 2.37e+01 d.205.1.1 66666 1o63A 219 2.47e+01 1kjqA 391 2.49e+01 b.84.2.1 72616 c.30.1.1 72617 d.142.1.2 72618 1g6sA 427 2.50e+01 1eps d.68.2.2 39584 1ixmA 192 2.55e+01 1ixmA d.123.1.1 41114 1k8wA 327 2.57e+01 b.122.1.1 83094 d.58.35.2 68317 d.58.35.2 83095 1o5zA 442 2.58e+01 1howA 373 2.58e+01 1hcl d.144.1.7 41679 1o4uA 285 2.64e+01 c.1.17.1 86624 d.41.2.1 86625 1uch 230 2.65e+01 1uch d.3.1.6 37129 1d4xA 375 2.65e+01 1yagA c.55.1.1 59107 c.55.1.1 59108 1rwzA 245 2.73e+01 1sphA 88 2.75e+01 1ptf d.94.1.1 40544 1pj5A 830 2.81e+01 1fuiA 591 2.87e+01 1fuiA b.43.2.1 25674 c.85.1.1 35444 1nkiA 135 2.88e+01 1o58A 303 2.97e+01 1d6jA 211 3.04e+01 1d6jA c.37.1.4 31940 1nw1A 429 3.11e+01 d.144.1.8 86286 1mwwA 128 3.21e+01 1jmsA 381 3.22e+01 a.60.6.1 66889 a.60.12.1 75862 d.218.1.2 75863 2cb5A 453 3.24e+01 3gcb d.3.1.1 37035 1qs1A 462 3.26e+01 1qs1A d.166.1.1 42260 d.166.1.1 42261 1o0uA 429 3.26e+01 c.118.1.1 80743 1c4kA 730 3.29e+01 1ordA c.23.1.4 31273 c.67.1.5 34502 d.125.1.1 41123 1eulA 994 3.32e+01 1eulA b.82.7.1 75829 c.108.1.7 75830 d.220.1.1 75831 f.33.1.1 75832 1qgvA 142 3.34e+01 1qgvA c.47.1.8 33056 1czyA 168 3.38e+01 1d0aB b.8.1.1 23220 h.1.2.1 45427 1kao 167 3.42e+01 1ctqA c.37.1.8 32014 1dgfA 497 3.49e+01 1cf9A e.5.1.1 42782 1dy9A 187 3.56e+01 1jxpA b.47.1.3 26400 1ah6 220 3.61e+01 1yer d.122.1.1 41094 1nx8A 273 3.66e+01 b.82.2.8 86374 1memA 215 3.70e+01 1cs8A d.3.1.1 37069 1itwA 741 3.81e+01 c.77.1.2 76793 1rlhA 173 3.84e+01 1kllA 130 3.86e+01 d.32.1.2 72720 1gdoA 240 3.87e+01 1gdoA d.153.1.1 41804 1epxA 370 3.87e+01 1fbaA c.1.10.1 29150 1jyhA 157 3.92e+01 d.60.1.3 71956