# List of top-scoring protein chains for t06-100-30-bys-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 8.55e-08 a.7.12.1 106025 1xwmA 217 4.00e-07 1vctA 205 1.95e-03 1wkbA 810 1.10e-01 2f6hX 419 4.32e-01 2c6cA 707 4.71e-01 2dc3A 193 5.63e-01 1j1vA 94 6.39e-01 a.4.12.2 83981 1woyA 500 8.58e-01 1oq9A 363 1.08e+00 a.25.1.2 87257 1urvA 190 1.09e+00 1dowA 205 1.11e+00 1dovA a.24.9.1 16626 1yozA 116 1.20e+00 1ouvA 273 1.85e+00 a.118.18.1 93570 2ah6A 208 1.88e+00 1dkzA 219 1.90e+00 1dkzA a.8.4.1,b.130.1.1 90345,90346 1cnt1 187 2.04e+00 1cnt3 1o5hA 214 2.08e+00 a.191.1.1 92497 1kgnA 329 2.20e+00 a.25.1.2 68584 1w2yA 229 2.23e+00 a.204.1.1 109140 1z72A 225 2.32e+00 1na3A 91 2.46e+00 k.38.1.1 85481 2c12A 439 2.51e+00 1wphA 201 2.66e+00 1tn6A 382 2.66e+00 2cj4A 150 2.70e+00 2awiA 317 2.92e+00 1n7sA 63 2.99e+00 h.1.15.1 80271 1hw1A 239 3.25e+00 1e2xA a.4.5.6,a.78.1.1 16111,18441 1paqA 189 3.40e+00 a.118.1.14 94413 1x8vA 455 3.48e+00 1ku1A 230 3.74e+00 a.118.3.1 72996 2b7aA 293 3.79e+00 1tffA 234 3.85e+00 d.3.1.11 106854 1n4kA 381 3.95e+00 a.118.22.1,b.42.6.1 79992,79993 1h5uA 842 4.02e+00 1a8i c.87.1.4 60655 2aplA 157 4.37e+00 2fpqA 444 4.42e+00 2btdA 210 4.50e+00 1wy6A 172 4.54e+00 1x9mA 698 4.91e+00 1s4bP 674 5.03e+00 d.92.1.5 105252 2e2aA 105 5.12e+00 a.7.2.1 88499 1spgA 144 5.16e+00 1abwA a.1.1.2 15409 1gw5A 621 5.32e+00 a.118.1.10 70629 1qkrA 188 5.35e+00 1qkrA a.24.9.1 16628 2ayuA 417 5.57e+00 1elrA 131 5.67e+00 1a17 a.118.8.1 19209 1keaA 221 5.73e+00 a.96.1.2 68491 1wixA 164 6.72e+00 1xv5A 401 6.76e+00 1pjr 724 6.91e+00 1pjr c.37.1.19,c.37.1.19 32391,32392 1ka2A 499 7.23e+00 d.92.1.5 77305 2fuqA 747 7.27e+00 2fefA 294 7.28e+00 2dh4A 340 7.36e+00 1jr8A 117 7.49e+00 a.24.15.1 67115 1cuk 203 7.55e+00 1hjp a.5.1.1,a.60.2.1,b.40.4.2 16273,17946,25265 1vls 146 7.69e+00 1vls a.24.2.1 16532 2be3A 226 7.71e+00 1ug3A 339 7.85e+00 2fnoA 248 7.88e+00 1mkiA 330 7.90e+00 e.3.1.2 84994 1s0pA 176 7.93e+00 a.192.1.1 98300 1hz4A 373 8.01e+00 a.118.8.2 65960 2bptA 861 8.01e+00 1txuA 273 8.09e+00 a.222.1.1 107439 1ajsA 412 8.24e+00 1ajsA c.67.1.1 34276 1wwpA 119 8.29e+00 1jdpA 441 8.44e+00 c.93.1.1 62906 1np3A 338 8.72e+00 a.100.1.2,c.2.1.6 85946,85947 2btoA 473 8.85e+00 1siqA 392 8.87e+00 a.29.3.1,e.6.1.1 105585,105586 1n81A 186 8.88e+00 a.185.1.1 85388 2fcwA 109 9.13e+00 1q5nA 454 9.19e+00 a.127.1.1 95901 1k3yA 221 9.57e+00 a.45.1.1,c.47.1.5 77245,77246 1wmuB 146 9.66e+00 a.1.1.2 109417 1nekC 129 9.78e+00 f.21.2.2 80431 1dofA 403 1.02e+01 1c3cA a.127.1.1 19429 2g5cA 281 1.02e+01 2gokA 429 1.03e+01 1vj7A 393 1.04e+01 a.211.1.1,d.218.1.8 100801,100802 1hs6A 611 1.04e+01 1hs6A a.118.1.7,b.98.1.1,d.92.1.13 61233,61234,61235 1h3lA 87 1.04e+01 a.177.1.1 76639 1xqsA 280 1.07e+01 1orjA 130 1.07e+01 a.24.19.1 93456 1g8iA 190 1.10e+01 1rec a.39.1.5 60363 1wucA 250 1.10e+01 1h6gA 256 1.11e+01 1h6gA a.24.9.1,a.24.9.1 60669,60670 1z5hA 780 1.14e+01 1irdA 141 1.16e+01 a.1.1.2 66286 1wleA 501 1.20e+01 1lf6A 684 1.21e+01 a.102.1.5,b.30.5.5 77918,77919 1wovA 250 1.24e+01 1lshA 1056 1.27e+01 a.118.4.1,f.7.1.1,f.7.1.1 74242,74243,74244 1opc 110 1.29e+01 1opc a.4.6.1 16231 1twfA 1733 1.30e+01 1vp7A 100 1.34e+01 1ash 150 1.34e+01 1ash a.1.1.2 15622 1rcwA 231 1.35e+01 a.132.1.4 97299 1tqgA 105 1.37e+01 a.24.10.3 107224 1mtyB 384 1.41e+01 1mtyB a.25.1.2 16740 2b0jA 358 1.41e+01 1eexG 173 1.42e+01 1dioG a.23.2.1 16490 2az0A 73 1.43e+01 1fqiA 147 1.44e+01 1agrE a.91.1.1 18542 1nt2B 258 1.45e+01 a.183.1.1 86150 1vljA 407 1.46e+01 e.22.1.2 108832 1yrcA 414 1.47e+01 1ngnA 155 1.48e+01 a.96.1.2 85697 1q0gA 117 1.49e+01 a.24.22.1 104428 1jsdB 176 1.49e+01 h.3.1.1 63259 1gmjA 84 1.52e+01 h.4.8.1 65310 1cojA 212 1.55e+01 1avmA a.2.11.1,d.44.1.1 15737,38734 1fcyA 236 1.55e+01 2lbd a.123.1.1 19282 1jdhA 529 1.58e+01 a.118.1.1 66549 1qbzA 123 1.60e+01 1qbzA h.3.2.1 45729 1xlyA 234 1.61e+01 1yakA 263 1.62e+01 1ez0A 510 1.65e+01 1eyyA c.82.1.1 35385 1o5kA 306 1.66e+01 c.1.10.1 92504 2bw3A 534 1.71e+01 1upkA 341 1.72e+01 a.118.1.15 99758 1m48A 133 1.73e+01 a.26.1.2 74443 2fmpA 335 1.74e+01 1t0qA 498 1.74e+01 a.25.1.2 106220 1vjxA 157 1.77e+01 a.25.1.1 100837 1odoA 408 1.77e+01 a.104.1.1 92783 1elwA 118 1.79e+01 1a17 a.118.8.1 19207 1xqrA 296 1.79e+01 2cfuA 658 1.82e+01 1oyzA 280 1.88e+01 a.118.1.16 93775 2bnxA 386 1.91e+01 2f1kA 279 1.91e+01 1go3F 107 1.91e+01 a.60.8.2 65407 1po5A 476 1.91e+01 a.104.1.1 94963 1x42A 232 1.95e+01 1nf3A 195 1.95e+01 c.37.1.8 85594 1mhqA 148 1.97e+01 a.118.9.2 84973 1p3qQ 54 1.98e+01 a.5.2.4 87748 2fji1 399 1.98e+01 2cb5A 453 2.01e+01 3gcb d.3.1.1 37035 1wqgA 185 2.08e+01 1zs9A 261 2.08e+01 1hx1B 114 2.11e+01 1hx1B a.7.7.1 61350 2ashA 381 2.12e+01 1jhgA 101 2.16e+01 1jhgA a.4.12.1 19009 1aisB 200 2.24e+01 1aisB a.74.1.2,a.74.1.2 18384,18385 2d5xA 141 2.26e+01 2fupA 168 2.27e+01 1ppjA 446 2.27e+01 d.185.1.1,d.185.1.1 104252,104253 1yyqA 374 2.33e+01 1qsaA 618 2.35e+01 1qsaA a.118.5.1,d.2.1.6 19182,36988 1gqeA 365 2.36e+01 e.38.1.1 70351 1vh6A 145 2.39e+01 a.24.19.1 100644 1cpt 412 2.40e+01 1cpt a.104.1.1 18968 1kf6C 130 2.40e+01 f.21.2.2 72399 2d0tA 406 2.41e+01 1pa7A 130 2.41e+01 a.40.1.1 94410 1z1lA 345 2.41e+01 2amdA 311 2.42e+01 1wlmA 151 2.43e+01 2aqjA 538 2.47e+01 1z0kB 69 2.47e+01 1q5dA 419 2.48e+01 a.104.1.1 95891 1v54A 514 2.52e+01 f.24.1.1 100321 1t33A 224 2.52e+01 a.4.1.9,a.121.1.1 106295,106296 1gntA 553 2.52e+01 e.26.1.1 70290 2a33A 215 2.52e+01 1r9kA 172 2.58e+01 a.168.1.1 104869 1j1jA 240 2.60e+01 a.118.16.1 90762 1nznA 126 2.61e+01 a.118.8.1 92382 1em8B 112 2.61e+01 c.126.1.1 90458 1sgmA 191 2.68e+01 a.4.1.9,a.121.1.1 105537,105538 2es4D 332 2.69e+01 2fbqA 235 2.69e+01 2etdA 171 2.70e+01 1h3nA 878 2.74e+01 a.27.1.1,b.51.1.1,c.26.1.1 76641,76642,76643 1wrrA 301 2.77e+01 1t5oA 351 2.78e+01 c.124.1.5 106459 2fbnA 198 2.79e+01 2b8iA 77 2.86e+01 1mswD 883 2.86e+01 e.8.1.3 79427 1jpzA 473 2.88e+01 a.104.1.1 67069 2gtsA 86 2.92e+01 1ffyA 917 2.95e+01 1qu2A a.27.1.1,b.51.1.1,c.26.1.1 16926,26891,31593 2cwcA 303 2.95e+01 1aoy 78 2.96e+01 1aoy a.4.5.3 16087 1qusA 322 2.98e+01 1ltm d.2.1.6 36991 1vykA 149 3.01e+01 1i5pA 633 3.02e+01 1i5pA b.18.1.3,b.77.2.1,f.1.3.1 61817,61818,61819 1j5wA 298 3.02e+01 d.104.1.1 71589 1n2aA 201 3.06e+01 a.45.1.1,c.47.1.5 91553,91554 1xpcA 248 3.09e+01 1t6uA 117 3.11e+01 a.24.22.1 106584 1kq3A 376 3.16e+01 e.22.1.2 68790 1ir6A 424 3.19e+01 c.107.1.2 71342 1f0yA 302 3.22e+01 2hdhA a.100.1.3,c.2.1.6 18793,30197 1mtyD 512 3.26e+01 1mhyD a.25.1.2 16742 1m7kA 99 3.26e+01 a.7.7.1 74573 2fk8A 318 3.33e+01 1utg 70 3.34e+01 1utg a.101.1.1 18813 2fv1A 377 3.38e+01 1xgkA 352 3.39e+01 1mtyG 162 3.42e+01 1mtyG a.23.3.1 16498 2gsvA 80 3.45e+01 1x9iA 302 3.51e+01 2dbnA 461 3.52e+01 1n97A 389 3.60e+01 a.104.1.1 80335 1ynbA 173 3.67e+01 1o17A 345 3.81e+01 a.46.2.1,c.27.1.1 80765,80766 1f7cA 231 3.81e+01 1f7cA a.116.1.1 19107 1xrsA 516 3.82e+01 1k6iA 352 3.84e+01 c.2.1.2 68223 1ofcX 304 3.85e+01 a.4.1.3,a.4.1.13,a.187.1.1 92826,92827,92828 1aj8A 371 3.86e+01 1aj8A a.103.1.1 18900 1vd5A 377 3.86e+01 a.102.1.7 108518 1lla 628 3.88e+01 1lla a.85.1.1,a.86.1.1,b.1.18.3 18485,18496,21861 1v66A 65 3.88e+01 16vpA 366 3.91e+01 16vpA d.180.1.1 42601 2f6mA 65 3.94e+01 1ornA 226 3.95e+01 a.96.1.1 87342 1sd4A 126 3.96e+01 a.4.5.39 105428 1jk0B 345 4.00e+01 a.25.1.2 63143 1h2kA 349 4.05e+01 b.82.2.6 76572 1gvhA 396 4.10e+01 a.1.1.2,b.43.4.2,c.25.1.5 70601,70602,70603 1q77A 138 4.24e+01 c.26.2.4 96023 1yiiA 320 4.26e+01 2d8dA 90 4.28e+01 1txdA 385 4.29e+01 a.87.1.1,b.55.1.1 107422,107423 1wwjA 105 4.29e+01 1wchA 315 4.30e+01 1yzmA 51 4.31e+01 1v54J 59 4.32e+01 f.23.4.1 100331 1v4xA 144 4.32e+01 a.1.1.2 108363 1zbpA 273 4.33e+01 1b4pA 217 4.35e+01 a.45.1.1,c.47.1.5 83158,83159 1x0vA 354 4.35e+01 1vdkA 466 4.38e+01 a.127.1.1 100561 1t7rA 269 4.42e+01 a.123.1.1 106635 1q9uA 130 4.47e+01 d.129.7.1 96314 1qkmA 255 4.48e+01 3erdA a.123.1.1 19309 2g0dA 409 4.50e+01 1h99A 224 4.51e+01 a.142.1.1,a.142.1.1 60814,60815 2a2fX 325 4.52e+01 1fxxA 482 4.52e+01 1fxxA c.55.3.5 33726 1azsA 220 4.53e+01 1azsA d.58.29.1 39416 1ta3A 274 4.53e+01 c.1.8.5 106731 1v2zA 111 4.54e+01 a.186.1.1 108300 1wy0A 342 4.55e+01 2aa1A 144 4.61e+01 2g8lA 299 4.63e+01 2bk9A 153 4.72e+01 1wcrA 103 4.73e+01 1rzhM 307 4.79e+01 f.26.1.1 98165 1m0kA 262 4.79e+01 f.13.1.1 78344 1gtmA 419 4.83e+01 1hwyA c.2.1.7,c.58.1.1 30223,33871 1rzhL 281 4.89e+01 f.26.1.1 98164 1kvkA 395 4.90e+01 d.14.1.5,d.58.26.3 73060,73061 1wusA 180 4.93e+01 2abk 211 4.94e+01 2abk a.96.1.1 18743 2aeuA 374 4.95e+01 2ch7A 309 4.96e+01 1ulyA 192 5.04e+01 1zc6A 305 5.07e+01 1z82A 335 5.08e+01 1z77A 200 5.09e+01 2c2nA 339 5.10e+01 1yqgA 263 5.14e+01 1pbwA 216 5.22e+01 1pbwA a.116.1.1 19103 2aaxA 275 5.22e+01 1a9xA 1058 5.31e+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 1u7gA 385 5.32e+01 f.44.1.1 107723 1h2sA 225 5.33e+01 f.13.1.1 76578 1p4xA 250 5.45e+01 a.4.5.28,a.4.5.28 87784,87785 1wa5B 530 5.47e+01 1x1tA 260 5.47e+01 2fnaA 357 5.48e+01 2bwbA 46 5.50e+01 1tuaA 191 5.50e+01 d.51.1.1,d.51.1.1 107321,107322 1wrdA 103 5.51e+01 1nkd 65 5.53e+01 1nkd a.30.1.1 16974 2f6mB 109 5.53e+01 1vgmA 378 5.59e+01 1t9iA 163 5.60e+01 1tu9A 134 5.63e+01 a.1.1.2 107320 1bbhA 131 5.66e+01 1bbhA a.24.3.2 16546 2bs3C 256 5.69e+01 2bl2A 156 5.70e+01 1ux5A 411 5.70e+01 a.207.1.1 100144 1r8mE 203 5.70e+01 a.118.3.1 97242 1umnA 165 5.74e+01 a.25.1.1 99607 1r71A 178 5.78e+01 a.4.14.1 104823 1ykhB 132 5.81e+01 1uzeA 589 5.81e+01 d.92.1.5 108174 1dk8A 147 5.83e+01 1agrE a.91.1.1 18548 1cs0A 1073 5.84e+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 1khyA 148 5.92e+01 a.174.1.1 77410 1d2tA 231 5.98e+01 1d2tA a.111.1.1 19052 1xk4A 93 6.03e+01 1tfe 145 6.17e+01 1tfe d.43.1.1 38680 1dvpA 220 6.18e+01 1dvpA a.118.9.2,g.50.1.1 19216,45358 1w9pA 433 6.22e+01 1z6oA 212 6.37e+01 1hxiA 121 6.40e+01 1hxiA a.118.8.1 61366 1vhnA 318 6.42e+01 c.1.4.1 100693 1u7lA 392 6.46e+01 1v4xB 146 6.47e+01 a.1.1.2 108364 1elkA 157 6.55e+01 1dvpA a.118.9.2 19217 2gmyA 153 6.55e+01 1uqtA 482 6.57e+01 c.87.1.6 99794 2bngA 149 6.57e+01 1ldfA 281 6.63e+01 f.19.1.1 73845 1guxB 152 6.65e+01 1guxB a.74.1.3 18389 1xmeA 568 6.67e+01 1qf8A 182 6.71e+01 1qf8A g.41.4.1 45212 2bh7A 261 6.77e+01 1zu0A 529 6.80e+01 1mxrA 375 6.90e+01 a.25.1.2 85197 2a8yA 270 6.92e+01 1ntyA 311 6.95e+01 a.87.1.1,b.55.1.1 103873,103874 2f2bA 246 6.96e+01 1rp4A 389 6.97e+01 a.227.1.1 105027 1y8aA 332 6.98e+01 1pz1A 333 6.99e+01 c.1.7.1 95390 1bx4A 345 7.05e+01 1bx4A c.72.1.1 34935 1b79A 119 7.09e+01 1b79A a.81.1.1 18451 1w68A 390 7.09e+01 a.25.1.2 109216 1jb9A 316 7.17e+01 1fnc b.43.4.2,c.25.1.1 62840,62841 1sflA 238 7.20e+01 1vhcA 224 7.25e+01 c.1.10.1 100661 1axn 323 7.25e+01 1avc a.65.1.1 18149 1xdpA 687 7.31e+01 1yqfA 203 7.39e+01 1ezfA 340 7.42e+01 1ezfA a.128.1.2 19440 1uf2A 1019 7.56e+01 e.28.1.2 99289 1bw0A 416 7.67e+01 1bw0A c.67.1.1 34385 1ho8A 480 7.68e+01 1ho8A a.118.1.9 61107 1i5nA 146 7.69e+01 1i5nA a.24.10.3 61805 1tjoA 182 7.74e+01 1qh4A 380 7.75e+01 1qh4A a.83.1.1,d.128.1.2 18462,41197 1gzsB 165 7.75e+01 a.168.1.1 76425 1e5rA 290 7.85e+01 1e5rA b.82.2.4 59276 1g73A 162 7.85e+01 1fewA a.7.4.1 16332 1w2qA 127 7.88e+01 1o26A 232 7.95e+01 d.207.1.1 86566 1vpdA 299 8.00e+01 1ru3A 732 8.06e+01 e.26.1.3 97835 1x1iA 752 8.08e+01 1lq7A 67 8.16e+01 k.9.1.1 74183 1y10A 407 8.19e+01 1n45A 233 8.26e+01 a.132.1.1 79981 1wwiA 148 8.28e+01 2g40A 224 8.30e+01 1xg2B 153 8.36e+01 1lk9A 448 8.36e+01 c.67.1.1 78057 1u94A 356 8.43e+01 c.37.1.11,d.48.1.1 107743,107744 1k47A 337 8.44e+01 d.14.1.5,d.58.26.4 72040,72041 1u5kA 244 8.45e+01 1u5pA 216 8.46e+01 1lldA 319 8.51e+01 3ldh c.2.1.5,d.162.1.1 30177,42144 1na6A 404 8.63e+01 b.142.1.1,c.52.1.22 91748,91749 1kw4A 89 8.70e+01 a.60.1.2 73077 1eyhA 144 8.82e+01 1eduA a.118.9.1 19214 1eexA 554 8.83e+01 1dioA c.1.19.3 29650 2h1nA 567 8.90e+01 1q7zA 566 8.91e+01 c.1.21.2,c.1.26.1 96090,96091 1nh2D 121 8.92e+01 a.32.1.1,b.56.1.1 91876,91877 1vmgA 95 8.93e+01 1bf6A 291 8.94e+01 1pscA c.1.9.3 29065 1iseA 185 8.94e+01 d.67.3.1 90691 1x0jA 122 8.98e+01