# List of top-scoring protein chains for t04-100-30-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 1sumB 235 1.44e-06 a.7.12.1 106025 1xwmA 217 1.19e-05 1vctA 205 1.14e-02 1wkbA 810 2.28e-02 1ouvA 273 1.44e-01 a.118.18.1 93570 1oq9A 363 3.18e-01 a.25.1.2 87257 1urvA 190 3.56e-01 1ut0A 190 3.56e-01 a.1.1.2 108012 1afrA 345 3.64e-01 1afrA a.25.1.2 16805 2dc3A 193 4.06e-01 1j1vA 94 4.63e-01 a.4.12.2 83981 1wphA 201 7.13e-01 2f6hX 419 8.18e-01 2ah6A 208 8.19e-01 1h3nA 878 9.72e-01 a.27.1.1,b.51.1.1,c.26.1.1 76641,76642,76643 1ku1A 230 1.16e+00 a.118.3.1 72996 2awiA 317 1.24e+00 1ithA 141 1.56e+00 1ithA a.1.1.2 15623 1keyA 235 2.50e+00 a.118.16.1 72389 1mroA 548 3.01e+00 1mroA a.89.1.1,d.58.31.2 18525,39443 1o5hA 214 3.13e+00 a.191.1.1 92497 1dxrM 323 3.17e+00 6prcM f.26.1.1 43432 1q5nA 454 3.28e+00 a.127.1.1 95901 1sgmA 191 3.78e+00 a.4.1.9,a.121.1.1 105537,105538 1hbnA 549 4.21e+00 1mroA a.89.1.1,d.58.31.2 60898,60899 1w9cA 321 4.54e+00 2c6cA 707 4.96e+00 1wmuB 146 5.29e+00 a.1.1.2 109417 1u13A 455 5.62e+00 a.104.1.1 107578 1v4eA 299 5.73e+00 a.128.1.1 100296 1kgnA 329 5.86e+00 a.25.1.2 68584 1j1jA 240 6.23e+00 a.118.16.1 90762 1x42A 232 6.45e+00 1ir6A 424 6.51e+00 c.107.1.2 71342 1i1iP 681 7.21e+00 1i1iP d.92.1.5 40297 1x8vA 455 7.40e+00 1ohuA 175 7.58e+00 f.1.4.1 93029 2fnoA 248 8.13e+00 2aplA 157 8.16e+00 1vls 146 8.18e+00 1vls a.24.2.1 16532 1wwpA 119 8.91e+00 1pf4A 582 9.16e+00 c.37.1.12,f.37.1.1 88052,88053 1wleA 501 9.30e+00 1e3aA 260 9.34e+00 1ajqA d.153.1.2 41838 1mkiA 330 9.68e+00 e.3.1.2 84994 1n7sA 63 9.95e+00 h.1.15.1 80271 1xqrA 296 1.00e+01 1spgA 144 1.01e+01 1abwA a.1.1.2 15409 1qusA 322 1.07e+01 1ltm d.2.1.6 36991 2db0A 253 1.08e+01 1keaA 221 1.08e+01 a.96.1.2 68491 1e9xA 455 1.09e+01 1ea1A a.104.1.1 18969 1chuA 540 1.10e+01 1chuA a.7.3.1,c.3.1.4,d.168.1.1 16325,30424,42307 1txuA 273 1.12e+01 a.222.1.1 107439 1n81A 186 1.14e+01 a.185.1.1 85388 1mqsA 671 1.17e+01 e.25.1.1 79414 1aisB 200 1.19e+01 1aisB a.74.1.2,a.74.1.2 18384,18385 1c3wA 222 1.19e+01 1c3wA f.13.1.1 43405 1hs6A 611 1.21e+01 1hs6A a.118.1.7,b.98.1.1,d.92.1.13 61233,61234,61235 1i50A 1733 1.26e+01 e.29.1.2 61754 1lf6A 684 1.26e+01 a.102.1.5,b.30.5.5 77918,77919 2ct8A 497 1.28e+01 1zbpA 273 1.29e+01 1gk9A 260 1.29e+01 d.153.1.2 65246 1qlnA 883 1.34e+01 1cezA e.8.1.3 43111 1w2yA 229 1.42e+01 a.204.1.1 109140 1i3dA 146 1.42e+01 a.1.1.2 61587 1orjA 130 1.43e+01 a.24.19.1 93456 1twfA 1733 1.45e+01 1zgmA 248 1.57e+01 1hw1A 239 1.60e+01 1e2xA a.4.5.6,a.78.1.1 16111,18441 1h5zA 455 1.71e+01 a.104.1.1 90622 2bk9A 153 1.71e+01 1wy0A 342 1.72e+01 1irdA 141 1.75e+01 a.1.1.2 66286 1wlmA 151 1.79e+01 2fpqA 444 1.79e+01 1tffA 234 1.81e+01 d.3.1.11 106854 1ash 150 1.85e+01 1ash a.1.1.2 15622 2b05A 246 1.85e+01 1qsaA 618 1.86e+01 1qsaA a.118.5.1,d.2.1.6 19182,36988 1z2cB 383 1.88e+01 1sly 618 1.90e+01 1qsaA a.118.5.1,d.2.1.6 19184,36990 1xk4A 93 2.00e+01 1nm2A 317 2.02e+01 c.19.1.1,d.58.23.1 80654,80655 1ei1A 391 2.05e+01 1aj6 d.14.1.3,d.122.1.2 37570,41104 1siqA 392 2.05e+01 a.29.3.1,e.6.1.1 105585,105586 1np3A 338 2.09e+01 a.100.1.2,c.2.1.6 85946,85947 1xv5A 401 2.10e+01 1zs9A 261 2.11e+01 1eexG 173 2.14e+01 1dioG a.23.2.1 16490 1n00A 321 2.15e+01 a.65.1.1 85241 1n4kA 381 2.16e+01 a.118.22.1,b.42.6.1 79992,79993 1x0vA 354 2.25e+01 1wy6A 172 2.26e+01 1zt2B 212 2.29e+01 1eq1A 166 2.30e+01 a.63.1.1 64910 1k6xA 352 2.36e+01 c.2.1.2 68238 1babA 143 2.39e+01 1abwA a.1.1.2 15235 1xqsA 280 2.47e+01 1sesA 421 2.49e+01 1sesA a.2.7.1,d.104.1.1 15710,40710 1a8h 500 2.51e+01 1a8h a.27.1.1,c.26.1.1 16922,31589 1woyA 500 2.51e+01 2e2aA 105 2.53e+01 a.7.2.1 88499 1tqgA 105 2.54e+01 a.24.10.3 107224 2cj4A 150 2.55e+01 1jdhA 529 2.55e+01 a.118.1.1 66549 1tv9A 335 2.58e+01 1gmjA 84 2.61e+01 h.4.8.1 65310 1g8iA 190 2.62e+01 1rec a.39.1.5 60363 1eexA 554 2.63e+01 1dioA c.1.19.3 29650 1i7wA 538 2.64e+01 3bct a.118.1.1 61909 1or3A 165 2.64e+01 1nfn a.24.1.1 16522 1elrA 131 2.68e+01 1a17 a.118.8.1 19209 1yuwA 554 2.71e+01 1ajsA 412 2.74e+01 1ajsA c.67.1.1 34276 1fgkA 310 2.75e+01 1fgkA d.144.1.7 41693 2aaxA 275 2.76e+01 1kqqA 139 2.80e+01 a.4.3.1 72885 2a5yA 204 2.82e+01 1p9bA 442 2.87e+01 c.37.1.10 94385 2fbnA 198 2.88e+01 1babB 146 2.90e+01 1abwA a.1.1.2 15414 2f31A 233 2.90e+01 1paqA 189 2.94e+01 a.118.1.14 94413 1wcrA 103 2.96e+01 1oaoA 674 3.05e+01 e.26.1.2 86744 1jnrA 643 3.05e+01 a.7.3.1,c.3.1.4,d.168.1.1 66966,66967,66968 1aep 161 3.11e+01 1aep a.63.1.1 18139 1r2fA 319 3.21e+01 1r2fA a.25.1.2 16800 1a9xA 1058 3.21e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18550,31479,31657,31658,41502,41503 1dowA 205 3.22e+01 1dovA a.24.9.1 16626 2fjbA 643 3.25e+01 1cs0A 1073 3.38e+01 a.92.1.1,c.24.1.1,c.30.1.1,c.30.1.1,d.142.1.2,d.142.1.2 18558,31487,31673,31674,41518,41519 1ile 821 3.41e+01 1ile a.27.1.1,b.51.1.1,c.26.1.1 16924,26889,31591 1na3A 91 3.44e+01 k.38.1.1 85481 1v54J 59 3.47e+01 f.23.4.1 100331 1jsdB 176 3.47e+01 h.3.1.1 63259 2bptA 861 3.49e+01 1t33A 224 3.54e+01 a.4.1.9,a.121.1.1 106295,106296 1wixA 164 3.57e+01 1xgkA 352 3.62e+01 1m0kA 262 3.70e+01 f.13.1.1 78344 1iwhA 141 3.71e+01 a.1.1.2 76882 2d5xA 141 3.71e+01 2g8lA 299 3.71e+01 1irdB 146 3.74e+01 a.1.1.2 66287 1cuk 203 3.83e+01 1hjp a.5.1.1,a.60.2.1,b.40.4.2 16273,17946,25265 1bif 469 3.84e+01 1bif c.37.1.7,c.60.1.4 31961,34003 1nf3A 195 3.91e+01 c.37.1.8 85594 1sfjA 238 3.98e+01 1mgtA 174 4.01e+01 1mgtA a.4.2.1,c.55.7.1 16078,33753 1ez0A 510 4.05e+01 1eyyA c.82.1.1 35385 1s0pA 176 4.06e+01 a.192.1.1 98300 2gtrA 261 4.12e+01 2occA 514 4.13e+01 2occA f.24.1.1 43518 1kay 381 4.15e+01 1ba1 c.55.1.1,c.55.1.1 33385,33386 1nvmA 345 4.15e+01 a.5.7.1,c.1.10.5 86249,86250 2avpA 70 4.25e+01 1rzhM 307 4.28e+01 f.26.1.1 98165 1azsA 220 4.29e+01 1azsA d.58.29.1 39416 1vkmA 297 4.30e+01 c.138.1.1 108670 1vp7A 100 4.31e+01 1o9iA 266 4.34e+01 a.25.1.3 92671 1q0gA 117 4.34e+01 a.24.22.1 104428 1wy5A 317 4.37e+01 1mxrA 375 4.40e+01 a.25.1.2 85197 1bupA 386 4.41e+01 1ba1 c.55.1.1,c.55.1.1 33377,33378 1yozA 116 4.44e+01 1q8hA 49 4.56e+01 g.32.1.1 96207 2bs3C 256 4.58e+01 1na6A 404 4.60e+01 b.142.1.1,c.52.1.22 91748,91749 2utgA 70 4.61e+01 1utg a.101.1.1 18814 2fm9A 215 4.69e+01 1gtmA 419 4.71e+01 1hwyA c.2.1.7,c.58.1.1 30223,33871 1utg 70 4.78e+01 1utg a.101.1.1 18813 1vj7A 393 4.86e+01 a.211.1.1,d.218.1.8 100801,100802 1s4bP 674 4.89e+01 d.92.1.5 105252 1nznA 126 4.94e+01 a.118.8.1 92382 1jkvA 266 5.02e+01 a.25.1.3 71719 2ahmE 203 5.03e+01 2az0A 73 5.07e+01 1sflA 238 5.12e+01 1o5kA 306 5.23e+01 c.1.10.1 92504 2abk 211 5.32e+01 2abk a.96.1.1 18743 2gnoA 305 5.35e+01 1vljA 407 5.38e+01 e.22.1.2 108832 1v4xB 146 5.38e+01 a.1.1.2 108364 2d5xB 146 5.40e+01 1xrsA 516 5.43e+01 1jk0B 345 5.49e+01 a.25.1.2 63143 1acvA 189 5.49e+01 1fvkA c.47.1.13 90328 1wqgA 185 5.50e+01 1fvkA 189 5.51e+01 1fvkA c.47.1.13 90351 1obbA 480 5.52e+01 c.2.1.5,d.162.1.2 86760,86761 1nt2B 258 5.53e+01 a.183.1.1 86150 1a17 166 5.58e+01 1a17 a.118.8.1 19206 2be3A 226 5.59e+01 1mtyD 512 5.59e+01 1mhyD a.25.1.2 16742 1qf8A 182 5.67e+01 1qf8A g.41.4.1 45212 1ka2A 499 5.67e+01 d.92.1.5 77305 1v54A 514 5.74e+01 f.24.1.1 100321 2fmpA 335 5.87e+01 1yarO 237 5.87e+01 1gnlA 544 5.87e+01 e.26.1.1 70287 1oshA 232 5.88e+01 a.123.1.1 93496 1x9iA 302 5.94e+01 1x1tA 260 5.95e+01 1tzbA 302 5.99e+01 c.80.1.1 107470 2f1kA 279 6.01e+01 2ch7A 309 6.05e+01 16vpA 366 6.11e+01 16vpA d.180.1.1 42601 1p3qQ 54 6.12e+01 a.5.2.4 87748 1jipA 403 6.18e+01 a.104.1.1 66748 1ffyA 917 6.18e+01 1qu2A a.27.1.1,b.51.1.1,c.26.1.1 16926,26891,31593 2occJ 59 6.26e+01 2occJ f.23.4.1 43524 1pjr 724 6.27e+01 1pjr c.37.1.19,c.37.1.19 32391,32392 1qbzA 123 6.29e+01 1qbzA h.3.2.1 45729 1iwhB 146 6.33e+01 a.1.1.2 76883 1wmbA 260 6.35e+01 1in6A 334 6.37e+01 1hqcA a.4.5.11,c.37.1.20 62601,62602 1q06A 135 6.38e+01 a.6.1.3 95493 1wp1A 474 6.46e+01 2g40A 224 6.47e+01 2ayuA 417 6.51e+01 1i5nA 146 6.54e+01 1i5nA a.24.10.3 61805 2btoA 473 6.55e+01 1fcyA 236 6.61e+01 2lbd a.123.1.1 19282 2gtsA 86 6.76e+01 1dk8A 147 6.76e+01 1agrE a.91.1.1 18548 2bw3A 534 6.77e+01 1mr8A 93 6.79e+01 1b4cA a.39.1.2 17186 1pk5A 248 6.79e+01 a.123.1.1 88139 2gf4A 100 6.80e+01 1ylmA 144 6.83e+01 1giqA 413 6.83e+01 d.166.1.1,d.166.1.1 76224,76225 2az2A 73 6.85e+01 1jboA 162 6.93e+01 a.1.1.3 84150 1jr8A 117 6.96e+01 a.24.15.1 67115 1qkmA 255 7.01e+01 3erdA a.123.1.1 19309 1ofcX 304 7.03e+01 a.4.1.3,a.4.1.13,a.187.1.1 92826,92827,92828 1jq0A 84 7.07e+01 h.3.2.1 71786 2c8vA 288 7.11e+01 1qlaC 256 7.13e+01 1qlaC f.21.2.1 43722 1r9kA 172 7.16e+01 a.168.1.1 104869 1vhnA 318 7.19e+01 c.1.4.1 100693 2cfuA 658 7.39e+01 2gwdA 449 7.43e+01 1j7yA 141 7.43e+01 a.1.1.2 66426 1oz9A 150 7.58e+01 d.92.1.15 93808 1bbhA 131 7.61e+01 1bbhA a.24.3.2 16546 1ohfA 644 7.76e+01 b.121.4.8 93014 1us6A 102 7.82e+01 a.2.13.1 107999 2bh7A 261 7.91e+01 1miwA 404 7.91e+01 a.173.1.1,d.218.1.4 79162,79163 1kq3A 376 7.99e+01 e.22.1.2 68790 1qxoA 388 8.09e+01 d.258.1.1 96539 1fpzA 212 8.15e+01 1fpzA c.45.1.1 59976 1w6sB 74 8.19e+01 1ppjA 446 8.21e+01 d.185.1.1,d.185.1.1 104252,104253 1cnt1 187 8.32e+01 1cnt3 1u61A 138 8.41e+01 a.149.1.1 107696 1omwA 689 8.41e+01 a.91.1.1,b.55.1.1,d.144.1.7 87086,87087,87088 1po5A 476 8.46e+01 a.104.1.1 94963 2b7aA 293 8.53e+01 1l3aA 228 8.76e+01 d.18.1.2 73531 2f23A 156 8.86e+01 1u7gA 385 8.87e+01 f.44.1.1 107723 1t9xA 1049 8.90e+01 1gc0A 398 8.95e+01 c.67.1.3 70168