# List of top-scoring protein chains for t2k-100-30-stride-ebghtl-scores 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 1y8qA 346 2.08e-01 1r3eA 309 8.89e-01 b.122.1.1,d.265.1.2 96907,96908 1is8K 84 1.45e+00 d.205.1.1 66331 1sgvA 316 1.51e+00 b.122.1.1,d.265.1.2 98858,98859 1jq4A 98 1.62e+00 d.15.4.2 67083 1jzuA 157 2.65e+00 b.60.1.1 84271 2faoA 309 3.07e+00 1jg5A 83 3.32e+00 d.205.1.1 66666 1a94A 99 4.68e+00 1fmb b.50.1.1 26599 1y9kA 157 5.09e+00 1a99A 344 5.56e+00 1pot c.94.1.1 35812 1wm3A 72 5.79e+00 1a5r 103 5.86e+00 1a5r d.15.1.1 37597 1nrfA 262 5.94e+00 e.3.1.1 92086 1a7lA 389 6.58e+00 4mbp c.94.1.1 35787 2gtqA 867 6.89e+00 1e5dA 402 6.93e+00 1e5dA c.23.5.1,d.157.1.3 31208,42061 1dazC 99 7.46e+00 1hvc b.50.1.1 26501 1ytvA 366 7.53e+00 1innA 166 8.24e+00 1j98A d.185.1.2 62608 1vjeA 166 8.24e+00 d.185.1.2 100807 1mh3A 421 8.33e+00 a.4.1.1,c.94.1.1 79112,79113 1difA 99 8.45e+00 1fmb b.50.1.1 26503 1anf 370 8.51e+00 4mbp c.94.1.1 35776 1k1tA 99 8.63e+00 b.50.1.1 71995 1ffkI 194 8.70e+00 1ffkI d.12.1.2 37494 1omp 370 8.82e+00 4mbp c.94.1.1 35778 1axaA 99 8.95e+00 1hvc b.50.1.1 26633 1u20A 212 9.01e+00 2cybA 323 9.05e+00 2drpA 66 9.07e+00 2drpA g.37.1.1,g.37.1.1 45026,45027 1zu0A 529 9.43e+00 1a9mA 99 9.51e+00 1hvc b.50.1.1 26642 1t0hB 224 9.58e+00 c.37.1.1 106208 1xgsA 295 9.73e+00 1bn5 a.4.5.25,d.127.1.1 16216,41153 1fyhB 229 9.76e+00 1jrhI b.1.2.1,b.1.2.1 22055,22056 1pzwA 80 1.00e+01 g.39.1.10 95483 1b59A 370 1.04e+01 1bn5 a.4.5.25,d.127.1.1 16225,41162 1j34B 123 1.04e+01 d.169.1.1 84049 1aaqA 99 1.05e+01 1fmb b.50.1.1 26688 2c4wA 176 1.10e+01 1j3mA 129 1.20e+01 d.129.7.1 103836 1k8wA 327 1.24e+01 b.122.1.1,d.265.1.2 83094,90388 1fyvA 161 1.25e+01 1fyvA c.23.2.1 31127 1edoA 244 1.27e+01 1ybvA c.2.1.2 29896 1b6a 478 1.32e+01 1bn5 a.4.5.25,d.127.1.1 16223,41160 1nh0A 99 1.32e+01 b.50.1.1 91869 1bn5 478 1.32e+01 1bn5 a.4.5.25,d.127.1.1 16224,41161 1wj9A 211 1.35e+01 1n9lA 109 1.39e+01 d.110.3.6 85468 2bzoB 79 1.41e+01 1hvc 203 1.42e+01 1hvc b.50.1.1 26614 1va4A 279 1.47e+01 c.69.1.12 108458 2fhzA 109 1.48e+01 1yemA 179 1.49e+01 5hvpA 99 1.50e+01 1fmb b.50.1.1 26605 1f0xA 571 1.53e+01 1f0xA d.58.32.2,d.145.1.1 39483,41746 1xa1A 255 1.60e+01 e.3.1.1 109529 1l1qA 186 1.61e+01 c.61.1.1 77653 1xkzA 255 1.62e+01 1cqa 133 1.64e+01 3nul d.110.1.1 40890 1jdqA 98 1.70e+01 d.68.3.3 66559 104lA 166 1.70e+01 1l92 d.2.1.3 36969 1aidA 99 1.73e+01 1fmb b.50.1.1 26591 1kzkA 99 1.76e+01 b.50.1.1 73371 1ixxB 123 1.77e+01 1ixxB d.169.1.1 42336 1uekA 275 1.78e+01 d.14.1.5,d.58.26.5 88483,88484 1yqfA 203 1.78e+01 1s2oA 244 1.78e+01 1z08A 170 1.80e+01 1eo1A 124 1.89e+01 1eo1A c.55.5.1 33739 1v2yA 105 1.90e+01 d.15.1.1 100275 2cvlA 124 1.92e+01 1f1uA 323 2.00e+01 d.32.1.3,d.32.1.3 83200,83201 2f7fA 494 2.01e+01 1z02A 446 2.03e+01 1ockA 412 2.11e+01 c.117.1.1 86802 1t3lA 337 2.12e+01 b.34.2.1,c.37.1.1 106358,106359 2f20A 240 2.12e+01 1brwA 433 2.18e+01 1brwA a.46.2.1,c.27.1.1,d.41.3.1 17764,31628,38626 1mpb 370 2.18e+01 4mbp c.94.1.1 35780 1oixA 191 2.19e+01 1nb5I 98 2.22e+01 d.17.1.2 80381 2mhr 118 2.27e+01 2mhr a.24.4.1 16581 1vmiA 355 2.30e+01 1se4 239 2.31e+01 3seb b.40.2.2,d.15.6.1 25187,37776 1il8A 72 2.37e+01 1tvxA d.9.1.1 37365 1aps 98 2.41e+01 2acy d.58.10.1 39299 3seb 238 2.46e+01 3seb b.40.2.2,d.15.6.1 25184,37773 1xx6A 191 2.49e+01 1udzA 182 2.52e+01 b.51.1.1 99239 1v9nA 360 2.59e+01 3il8 72 2.63e+01 1tvxA d.9.1.1 37356 1d5mC 239 2.64e+01 3seb b.40.2.2,d.15.6.1 25185,37774 1befA 181 2.64e+01 1befA b.47.1.3 26419 1ukvY 206 2.67e+01 c.37.1.8 107918 1iukA 140 2.68e+01 c.2.1.8 83712 2a4nA 182 2.68e+01 1bi0 226 2.70e+01 1bi0 a.4.5.24,a.76.1.1,b.34.1.2 16202,18408,24453 1n3lA 372 2.71e+01 c.26.1.1 79966 2apoA 357 2.73e+01 1n71A 180 2.73e+01 d.108.1.1 85370 2bcgY 206 2.76e+01 1w41A 101 2.77e+01 1c24A 263 2.83e+01 1c24A d.127.1.1 41148 2matA 264 2.83e+01 1c24A d.127.1.1 41146 1b87A 181 2.86e+01 1b87A d.108.1.1 40797 4matA 278 2.86e+01 1c24A d.127.1.1 41150 2bkrB 77 2.87e+01 2f5gA 133 2.94e+01 1xnzA 264 2.95e+01 2ggcA 263 2.98e+01 1k38A 254 3.02e+01 e.3.1.1 84303 1icwA 72 3.05e+01 1tvxA d.9.1.1 37357 1j8rA 196 3.05e+01 1j8rA b.2.3.3 62745 1f1zA 273 3.06e+01 1f1zA a.4.5.27,c.52.1.16 16081,33334 1f1xA 322 3.06e+01 d.32.1.3,d.32.1.3 83208,83209 2ewcA 126 3.10e+01 1h7mA 102 3.14e+01 d.79.3.1 83485 1o0xA 262 3.15e+01 d.127.1.1 80755 1c5cH 215 3.27e+01 1igtB b.1.1.1,b.1.1.2 20475,21439 1gz6A 319 3.32e+01 c.2.1.2 76410 1x9dA 538 3.34e+01 1a7e 118 3.40e+01 2mhr a.24.4.1 16583 1j0pA 108 3.42e+01 a.138.1.1 90743 1oahA 519 3.47e+01 a.138.1.3 86736 1d3zA 76 3.48e+01 1ubi d.15.1.1 37592 1a66A 178 3.49e+01 1a02N b.2.5.3 22441 1x74A 360 3.54e+01 1ww9A 392 3.58e+01 1cyu 98 3.62e+01 1stfI d.17.1.2 38004 1laxA 370 3.63e+01 c.94.1.1 84576 1nktA 922 3.66e+01 a.162.1.1,a.172.1.1,c.37.1.19,c.37.1.19 85830,85831,85832,85833 1zbqA 327 3.66e+01 1tfb 208 3.66e+01 1tfb a.74.1.2,a.74.1.2 18382,18383 2cthA 107 3.67e+01 3cyr a.138.1.1 19652 1htqA 477 3.69e+01 d.15.9.1,d.128.1.1 71035,71036 1t6aA 126 3.70e+01 d.129.8.1 106555 1jykA 254 3.73e+01 c.68.1.13 67458 1nbfD 76 3.77e+01 d.15.1.1 80390 1konA 249 3.79e+01 e.39.1.1 72823 1o22A 170 3.87e+01 d.238.1.1 86557 1y0bA 197 3.91e+01 1smlA 269 3.98e+01 1smlA d.157.1.1 42053 2aioA 269 3.98e+01 2ao0A 324 4.06e+01 4mbp 370 4.09e+01 4mbp c.94.1.1 35777 1ubi 76 4.20e+01 1ubi d.15.1.1 37584 1ubq 76 4.20e+01 1ubi d.15.1.1 37585 2c1lA 358 4.20e+01 1y60A 169 4.26e+01 1ogwA 76 4.26e+01 d.15.1.1 87001 1vd4A 62 4.35e+01 1e42A 258 4.35e+01 1e42A b.1.10.1,d.105.1.1 22316,40792 1d1dA 262 4.38e+01 1d1dA a.28.3.1,a.73.1.1 16958,18335 1tw7A 99 4.41e+01 1wggA 96 4.49e+01 2bvcA 486 4.52e+01 2d00A 109 4.57e+01 1hr6B 443 4.59e+01 1be3A d.185.1.1,d.185.1.1 61166,61167 1p6oA 161 4.62e+01 c.97.1.2 94185 2dtr 226 4.73e+01 1bi0 a.4.5.24,a.76.1.1,b.34.1.2 16193,18399,24450 1zq1C 633 4.76e+01 2g30A 258 4.78e+01 2bkqA 212 4.82e+01 2gf9A 189 4.90e+01 1fukA 165 4.98e+01 1fukA c.37.1.19 32409 1q5yA 85 5.04e+01 d.58.18.4 95950 1y3jA 77 5.15e+01 1xmpA 170 5.17e+01 2gcfA 73 5.19e+01 1nddA 76 5.21e+01 1ubi d.15.1.1 37599 1nddD 76 5.22e+01 1ubi d.15.1.1 37602 2ftwA 521 5.23e+01 1wnyA 186 5.28e+01 2fi0A 81 5.35e+01 1ju3A 583 5.38e+01 b.18.1.13,c.69.1.21 67300,67301 1je3A 97 5.40e+01 d.68.3.3 71637 1o4vA 183 5.41e+01 c.23.8.1 86628 1qo7A 394 5.44e+01 1qo7A c.69.1.11 34697 1jwwA 80 5.47e+01 d.58.17.1 71919 2bolA 314 5.48e+01 1wvfA 520 5.56e+01 1oivA 191 5.66e+01 c.37.1.8 93076 1cc1L 498 5.67e+01 1h2rL e.18.1.1 43301 2bkrA 212 5.67e+01 1fezA 256 5.70e+01 1fezA c.108.1.3 43343 1rypL 212 5.70e+01 d.153.1.4 41880 1zndA 174 5.71e+01 1gci 269 5.73e+01 1gci c.41.1.1 32503 1o51A 114 5.76e+01 d.58.5.4 92480 1fo3A 460 5.82e+01 1dl2A a.102.2.1 18845 1df3A 162 5.86e+01 1mup b.60.1.1 27134 1g65K 211 5.87e+01 d.153.1.4 41907 1w6uA 302 5.89e+01 1qftA 175 5.96e+01 1qftA b.60.1.1 27151 1mat 264 6.11e+01 1c24A d.127.1.1 41152 1csyA 112 6.15e+01 1lckA d.93.1.1 40519 1wxdA 263 6.16e+01 2gupA 292 6.18e+01 1vmjA 151 6.19e+01 1edn 21 6.24e+01 j.28.1.1 46197 1q67A 231 6.26e+01 b.55.1.7 95960 1qysA 106 6.27e+01 k.41.1.1 96603 2anpA 291 6.29e+01 3grx 82 6.32e+01 1aba c.47.1.1 32769 1xmrA 243 6.37e+01 1jj2T 66 6.40e+01 1ffkR g.39.1.6 63105 1s72U 66 6.40e+01 g.39.1.6 105340 1vqoU 66 6.40e+01 2fb6A 117 6.41e+01 1htoA 477 6.45e+01 d.15.9.1,d.128.1.1 70987,70988 1z1zA 131 6.48e+01 1qloA 34 6.51e+01 1qloA j.35.1.1 46281 1i05A 180 6.60e+01 1mup b.60.1.1 27130 1fyxA 149 6.61e+01 1fyvA c.23.2.1 31128 1ve0A 134 6.64e+01 1g6oA 330 6.65e+01 1g6oA c.37.1.11 32430 1ea0A 1479 6.67e+01 b.80.4.1,c.1.4.1,d.153.1.1 64854,64855,64856 1wyuA 438 6.67e+01 1thtA 305 6.78e+01 1thtA c.69.1.13 34711 1bf6A 291 6.82e+01 1pscA c.1.9.3 29065 1a6jA 163 6.87e+01 1a6jA d.112.1.1 40915 1qy1A 174 6.92e+01 b.60.1.1 96568 1gy8A 397 6.92e+01 c.2.1.2 83376 1czj 111 6.94e+01 3cyr a.138.1.1 19663 2d5cA 263 6.94e+01 2fblA 153 6.96e+01 2cy0A 263 6.97e+01 1a1vA 476 6.99e+01 1heiA c.37.1.14,c.37.1.14 32467,32468 2rgf 97 7.00e+01 1lfdA d.15.1.5 37627 1bkpA 278 7.02e+01 1bkpA d.117.1.1 41029 1l8bA 190 7.05e+01 d.86.1.1 73683 1eysH 259 7.08e+01 6prcH b.41.1.1,f.23.10.1 25484,43517 1vlmA 219 7.09e+01 c.66.1.41 108836 1yj1A 76 7.11e+01 1ej1A 190 7.16e+01 1ejhA d.86.1.1 40144 1b02A 279 7.18e+01 1bkpA d.117.1.1 41035 1gnkA 112 7.21e+01 2pii d.58.5.1 39073 1mwyA 73 7.25e+01 d.58.17.1 79616 1s57A 153 7.29e+01 1k55A 246 7.29e+01 e.3.1.1 68156 1r31A 428 7.31e+01 d.58.20.1,d.179.1.1 96897,96898 2b8tA 223 7.33e+01 1v7oA 165 7.34e+01 d.67.1.2 100480 1o1xA 155 7.34e+01 c.121.1.1 86553 1pmd 675 7.35e+01 1pmd d.11.1.1,d.11.1.1,d.175.1.1,e.3.1.1 37491,37492,42562,42771 1t0fA 276 7.37e+01 2acr 315 7.38e+01 1frb c.1.7.1 28674 1ysqA 193 7.39e+01 1k2eA 156 7.40e+01 d.113.1.1 72010 1k26A 156 7.40e+01 d.113.1.1 72003 2agtA 319 7.45e+01 2eng 210 7.47e+01 2eng b.52.1.1 26895 1ktbA 405 7.51e+01 b.71.1.1,c.1.8.1 72960,72961 1v8gA 329 7.51e+01 a.46.2.1,c.27.1.1 100505,100506 1jv4A 162 7.54e+01 b.60.1.1 67343 1ipcA 217 7.55e+01 d.86.1.1 71257 1dbiA 280 7.58e+01 1gci c.41.1.1 32543 1xuuA 349 7.61e+01 1v4pA 157 7.64e+01 1hd5A 213 7.65e+01 2eng b.52.1.1 26896 1vp8A 201 7.71e+01 2a9sA 171 7.73e+01 1oaqH 121 7.74e+01 b.1.1.1 92707 1rtqA 299 7.77e+01 c.56.5.4 97819 1reqD 637 7.78e+01 1reqB c.1.19.1,c.23.6.1 29623,31250 1z5yE 149 7.78e+01 1rqlA 267 7.80e+01 c.108.1.3 97750 2fexA 188 7.81e+01 2fp7B 172 7.82e+01 1az1 315 7.91e+01 1frb c.1.7.1 28677 1ny1A 240 7.92e+01 c.6.2.3 86395 1sq2N 113 7.92e+01 b.1.1.1 105881 2b3yA 888 7.99e+01 1gmlA 178 8.00e+01 c.8.5.2 70273 2cr5A 109 8.00e+01 1tc5A 194 8.01e+01 c.110.1.1 106752 1zowA 313 8.06e+01 1qh5A 260 8.06e+01 1qh5A d.157.1.2 42057 1ejhA 190 8.08e+01 1ejhA d.86.1.1 40147 1hh1A 143 8.08e+01 1gefA c.52.1.18 61036 1fuxA 166 8.11e+01 1fjjA b.17.1.2 60034 2d8sA 80 8.12e+01 1amp 291 8.13e+01 1amp c.56.5.4 33837 1lokA 291 8.13e+01 c.56.5.4 78122 1v25A 541 8.14e+01 e.23.1.1 108275 1fp2A 352 8.19e+01 1fpxA a.4.5.29,c.66.1.12 59941,59942 1heiA 451 8.21e+01 1heiA c.37.1.14,c.37.1.14 32463,32464 1ayaA 101 8.28e+01 1qadA d.93.1.1 40460 1xt9A 212 8.32e+01 1ipiA 123 8.37e+01 c.52.1.18 66255 2c1gA 431 8.37e+01 1fc4A 401 8.38e+01 1bs0A c.67.1.4 59760 1l0lB 439 8.43e+01 d.185.1.1,d.185.1.1 84484,84485 2cwoA 197 8.62e+01 1k4fA 248 8.65e+01 e.3.1.1 68138 1el3A 316 8.73e+01 1frb c.1.7.1 28672 1cnuA 137 8.73e+01 1cof d.109.1.2 40862 1e0bA 68 8.86e+01 1e0bA b.34.13.2 37476 1wv9A 94 8.88e+01 1pwmA 316 8.88e+01 c.1.7.1 95231 2gaeA 346 8.90e+01 1us0A 316 8.91e+01 c.1.7.1 99850 2ethA 154 8.92e+01 2d1pA 140 8.95e+01 1reqB 637 8.98e+01 1reqB c.1.19.1,c.23.6.1 29621,31248