# List of top-scoring protein chains for t2k.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.soe.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 2eo0A 147 7.67e-03 1hh1A 143 1.33e-02 1gefA c.52.1.18 61036 1gefA 123 1.73e-02 1gefA c.52.1.18 60465 1y88A 199 7.60e-02 a.60.4.3 116560 c.52.1.30 116561 1cliA 345 9.60e-02 1cliA d.79.4.1 39816 d.139.1.1 41459 1ob8A 135 1.43e-01 c.52.1.18 111627 1dv1A 449 5.42e-01 1bncA b.84.2.1 28234 c.30.1.1 31641 d.142.1.2 41486 1lvwA 295 7.34e-01 c.68.1.6 84723 1dv2A 452 7.74e-01 1bncA b.84.2.1 28238 c.30.1.1 31645 d.142.1.2 41490 2nw5A 360 1.28e+00 2scuB 388 1.40e+00 2scuB c.23.4.1 31141 d.142.1.4 41562 2b25A 336 1.68e+00 c.66.1.13 127699 2p4hX 322 1.81e+00 1sw2A 275 1.96e+00 c.94.1.1 106064 2btuA 346 2.10e+00 1e4eA 343 2.13e+00 1iow c.30.1.2 59221 d.142.1.1 59222 2fomB 185 2.15e+00 b.47.1.3 133884 3ladA 476 2.42e+00 1lvl c.3.1.5 30573 c.3.1.5 30574 d.87.1.1 40208 2ganA 190 2.50e+00 d.108.1.1 134889 2uubD 209 2.91e+00 d.66.1.2 139935 2nu8B 388 3.06e+00 2vqeD 209 3.24e+00 1whzA 70 3.34e+00 d.50.3.2 114656 2pbxA 203 3.42e+00 1j3nA 408 3.42e+00 c.95.1.1 84074 c.95.1.1 84075 2abyA 146 3.59e+00 2b2nA 344 3.63e+00 c.37.1.19 127710 1vr8A 142 3.71e+00 d.312.1.1 120445 1tiiD 99 3.74e+00 1tiiD b.40.2.1 24965 1l1jA 239 3.80e+00 b.47.1.1 84516 1qb5D 99 3.81e+00 b.40.2.1 88357 1iow 306 3.85e+00 1iow 1iowA 306 3.85e+00 c.30.1.2 31713 d.142.1.1 41481 1fjgD 209 3.87e+00 1c05A d.66.1.2 39553 2okfA 140 3.99e+00 1eudB 396 4.10e+00 2scuB c.23.4.1 31150 d.142.1.4 41571 1qxoA 388 4.40e+00 d.258.1.1 96539 2inbA 140 4.55e+00 2j5vA 367 4.75e+00 2i2qA 137 4.82e+00 2v79A 135 4.93e+00 3bs2A 148 5.28e+00 1sjiA 350 6.15e+00 1tz9A 367 6.16e+00 c.1.15.6 107466 2icgA 160 6.28e+00 1dosA 358 6.34e+00 1dosA c.1.10.2 29175 2fp4B 395 6.73e+00 c.23.4.1 133897 d.142.1.4 133898 1ky9A 448 7.02e+00 b.36.1.4 73198 b.47.1.1 73199 2oikA 154 7.09e+00 1hqz1 141 7.26e+00 1suuA 312 7.33e+00 b.68.10.1 99006 1jj2M 186 7.38e+00 1ffkK c.55.4.1 63098 1e9lA 377 7.41e+00 1e9lA c.1.8.5 59395 d.26.3.1 59396 2pb2A 420 7.49e+00 1q7fA 286 8.13e+00 b.68.9.1 96036 1vf8A 377 8.24e+00 c.1.8.5 120029 d.26.3.1 120030 1seiA 130 8.51e+00 1seiA d.140.1.1 41463 1qwoA 442 8.63e+00 c.60.1.2 104620 2bfgA 503 9.16e+00 b.71.1.2 128423 c.1.8.3 128424 2bs9A 503 9.22e+00 b.71.1.2 129062 c.1.8.3 129063 2iruA 303 9.46e+00 1xtoA 311 9.71e+00 d.157.1.6 116030 2pziA 681 9.77e+00 1o0pA 104 9.87e+00 d.58.7.1 86535 1lml 478 1.05e+01 1lml 1lmlA 478 1.05e+01 d.92.1.3 40295 1vqoN 187 1.06e+01 c.55.4.1 120375 1eg9A 449 1.08e+01 1ndoA b.33.1.2 24443 d.129.3.3 41322 2yydA 345 1.10e+01 2zodA 345 1.10e+01 1zthA 258 1.10e+01 2pi6A 361 1.10e+01 1jq4A 98 1.13e+01 d.15.4.2 67083 1dctA 324 1.17e+01 6mhtA c.66.1.26 34244 2j7uA 635 1.20e+01 2jerA 389 1.25e+01 1ndoA 449 1.30e+01 1ndoA b.33.1.2 24444 d.129.3.3 41323 2oodA 475 1.32e+01 1o7nA 449 1.32e+01 b.33.1.2 81162 d.129.3.3 81163 1g0cA 364 1.33e+01 7a3hA c.1.8.3 60165 1xqwA 293 1.35e+01 1hjxA 362 1.36e+01 c.1.8.5 83512 d.26.3.1 83513 2je6A 277 1.39e+01 1ignA 246 1.40e+01 1ignA a.4.1.6 16048 a.4.1.6 16049 1mtzA 293 1.41e+01 c.69.1.7 79467 1yemA 179 1.41e+01 d.63.1.2 116646 1vffA 423 1.42e+01 c.1.8.4 120033 2hz5A 106 1.44e+01 1dgmA 363 1.44e+01 1bx4A c.72.1.1 34936 2v1yA 108 1.50e+01 1sw5A 275 1.53e+01 c.94.1.1 106069 1lenA 181 1.54e+01 1led b.29.1.1 24032 1yr0A 175 1.55e+01 d.108.1.1 123905 2buwB 241 1.56e+01 2o88A 58 1.64e+01 1gvfA 286 1.64e+01 c.1.10.2 70599 2burB 241 1.64e+01 b.3.6.1 129228 2yzkA 178 1.66e+01 3bqxA 150 1.68e+01 2q8zA 342 1.74e+01 2pezA 179 1.75e+01 1ijyA 130 1.75e+01 1ijxA a.141.1.1 62517 1r89A 437 1.76e+01 a.160.1.3 97221 d.218.1.7 97222 d.58.16.2 97223 2a2lA 145 1.77e+01 d.110.9.1 126035 1k1fA 72 1.80e+01 a.147.1.1 68007 2ia2A 265 1.81e+01 1y4oA 104 1.81e+01 1zmyA 142 1.82e+01 1wfwA 74 1.83e+01 b.34.2.1 114595 2anuA 255 1.83e+01 c.6.3.1 127058 1ea2A 131 1.83e+01 d.17.4.3 64860 1dmmA 131 1.84e+01 1opy d.17.4.3 38114 2ostA 151 1.85e+01 1i6uA 130 1.85e+01 d.140.1.1 61850 1konA 249 1.86e+01 e.39.1.1 72823 1ukgA 252 1.88e+01 b.29.1.1 99489 1j31A 262 1.90e+01 d.160.1.2 90808 2e52A 300 1.90e+01 1f9yA 158 1.92e+01 d.58.30.1 83249 1ceo 343 1.92e+01 1ceo 1ceoA 343 1.92e+01 c.1.8.3 28808 1fpqA 372 1.94e+01 1fpqA a.4.5.29 59947 c.66.1.12 59948 1zmdA 474 1.97e+01 1wwtA 88 1.99e+01 1d8cA 723 2.04e+01 1d8cA c.1.13.1 29325 1fe0A 68 2.04e+01 1cc8A d.58.17.1 39345 1iukA 140 2.08e+01 c.2.1.8 83712 2zceA 291 2.13e+01 2oz8A 389 2.17e+01 2fhzA 109 2.19e+01 d.311.1.1 133505 1o12A 376 2.19e+01 b.92.1.5 80758 c.1.9.10 80759 1an7A 136 2.22e+01 1seiA d.140.1.1 41465 2yvyA 278 2.30e+01 1zq7A 207 2.31e+01 d.309.1.1 125501 1bssA 244 2.32e+01 1rvaA c.52.1.2 33256 2q7eA 291 2.35e+01 2fe7A 166 2.35e+01 d.108.1.1 133325 2c5uA 375 2.36e+01 1zuuA 58 2.47e+01 b.34.2.1 125688 3rubS 123 2.48e+01 1rboC d.73.1.1 39616 1y0kA 209 2.53e+01 c.52.1.31 122485 3cxjA 165 2.55e+01 2bb3A 221 2.55e+01 c.90.1.1 128257 1fp1D 372 2.59e+01 1fpqA a.4.5.29 59939 c.66.1.12 59940 2f91A 237 2.60e+01 b.47.1.2 133150 2gvkA 317 2.61e+01 d.58.4.14 135782 2g45A 129 2.61e+01 2ejaA 338 2.64e+01 1ww7A 160 2.65e+01 2b3yA 888 2.67e+01 c.8.2.1 127803 c.83.1.1 127804 1p7tA 731 2.68e+01 c.1.13.1 94319 2j07A 420 2.68e+01 a.99.1.1 137891 c.28.1.1 137892 2uxtA 451 2.80e+01 1bncA 449 2.81e+01 1bncA b.84.2.1 28236 c.30.1.1 31643 d.142.1.2 41488 1brfA 53 2.83e+01 1rb9 g.41.5.1 45236 2ffiA 288 2.83e+01 c.1.9.15 133385 1pmmA 466 2.83e+01 c.67.1.6 94901 1te5A 257 2.85e+01 d.153.1.1 106795 1j5yA 187 2.86e+01 a.4.5.1 71592 d.94.2.1 71593 2dgmA 466 2.87e+01 c.67.1.6 131508 1bq8A 54 2.87e+01 1rb9 g.41.5.1 45237 1n8fA 350 2.91e+01 c.1.10.4 85397 1pv9A 348 2.93e+01 c.55.2.1 95157 d.127.1.1 95158 1ov3A 138 2.94e+01 b.34.2.1 87451 b.34.2.1 87452 1gulA 222 2.96e+01 1pgtA a.45.1.1 17675 c.47.1.5 32969 1btkA 169 2.98e+01 1btkA b.55.1.1 26959 1mzuA 129 2.99e+01 d.110.3.1 79714 1f9zA 135 3.01e+01 1qipA d.32.1.1 38484 1sskA 158 3.02e+01 b.148.1.1 105986 1bq9A 54 3.09e+01 1rb9 g.41.5.1 45238 2uv4A 152 3.11e+01 2jhnA 295 3.12e+01 2hg7A 110 3.15e+01 2bsxA 253 3.15e+01 c.56.2.1 129128 2qz7A 194 3.17e+01 1gg1A 350 3.20e+01 1qr7A c.1.10.4 29187 1u2cA 246 3.22e+01 b.1.6.2 107610 d.272.1.1 107611 2fnuA 375 3.24e+01 c.67.1.4 133831 2ggoA 401 3.25e+01 2f62A 161 3.28e+01 c.23.14.1 133021 1kshA 186 3.29e+01 c.37.1.8 72914 1of5B 184 3.31e+01 d.17.4.2 86934 1ordA 730 3.40e+01 1ordA c.23.1.4 31274 c.67.1.5 34503 d.125.1.1 41124 1nv8A 284 3.41e+01 c.66.1.30 86224 2ax4A 198 3.43e+01 1b96A 244 3.51e+01 1rvaA c.52.1.2 33268 1qr7A 350 3.52e+01 1qr7A c.1.10.4 29191 1i6wA 181 3.56e+01 1i6wA c.69.1.18 61859 2pvxA 54 3.57e+01 1jmxA 494 3.58e+01 a.3.1.7 66901 a.3.1.7 66902 b.1.18.14 66903 b.1.18.14 66904 b.61.4.1 66905 1ispA 181 3.62e+01 c.69.1.18 76778 1owqA 361 3.62e+01 c.1.8.5 104041 d.26.3.1 104042 2re7A 134 3.63e+01 1xmxA 385 3.67e+01 c.52.1.26 115568 1vqsA 116 3.67e+01 d.58.4.13 114019 2ywvA 244 3.74e+01 6rxnA 45 3.74e+01 g.41.5.1 45222 2iz6A 176 3.75e+01 2ex4A 241 3.76e+01 c.66.1.42 132516 2bzeA 153 3.83e+01 1ka9H 200 3.87e+01 c.23.16.1 77308 1t15A 214 3.92e+01 c.15.1.3 99067 c.15.1.3 99068 1nz0A 118 3.93e+01 d.14.1.2 86433 1xvsA 126 3.94e+01 b.1.23.1 116095 1qydA 313 3.99e+01 c.2.1.2 96583 2rauA 354 3.99e+01