# 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 1y8qA 346 2.99e-01 1sgvA 316 5.50e-01 b.122.1.1,d.265.1.2 98858,98859 1r3eA 309 8.31e-01 b.122.1.1,d.265.1.2 96907,96908 1a99A 344 1.64e+00 1pot c.94.1.1 35812 1jzuA 157 1.72e+00 b.60.1.1 84271 1j34B 123 1.77e+00 d.169.1.1 84049 1y9kA 157 1.78e+00 1jg5A 83 2.60e+00 d.205.1.1 66666 2cybA 323 2.67e+00 1nrfA 262 2.95e+00 e.3.1.1 92086 1ytvA 366 3.93e+00 1anf 370 4.32e+00 4mbp c.94.1.1 35776 1ww9A 392 4.58e+00 1wm3A 72 5.30e+00 2c4wA 176 5.44e+00 2faoA 309 5.58e+00 1z02A 446 6.34e+00 1e5dA 402 7.18e+00 1e5dA c.23.5.1,d.157.1.3 31208,42061 3seb 238 7.31e+00 3seb b.40.2.2,d.15.6.1 25184,37773 1xa1A 255 7.88e+00 e.3.1.1 109529 1omp 370 7.96e+00 4mbp c.94.1.1 35778 1fyhB 229 8.02e+00 1jrhI b.1.2.1,b.1.2.1 22055,22056 2c1lA 358 9.04e+00 1xkzA 255 9.04e+00 1dazC 99 9.07e+00 1hvc b.50.1.1 26501 1vjeA 166 9.19e+00 d.185.1.2 100807 1innA 166 9.23e+00 1j98A d.185.1.2 62608 1oivA 191 9.39e+00 c.37.1.8 93076 1hf2A 210 9.76e+00 1hf2A b.80.3.1,c.102.1.1 60992,60993 1xgsA 295 9.87e+00 1bn5 a.4.5.25,d.127.1.1 16216,41153 1k8wA 327 9.98e+00 b.122.1.1,d.265.1.2 83094,90388 1t0hB 224 1.06e+01 c.37.1.1 106208 2f7fA 494 1.08e+01 1yqfA 203 1.10e+01 2f20A 240 1.10e+01 1oixA 191 1.12e+01 1yemA 179 1.12e+01 2fhzA 109 1.17e+01 1difA 99 1.23e+01 1fmb b.50.1.1 26503 1hr6B 443 1.30e+01 1be3A d.185.1.1,d.185.1.1 61166,61167 1j3mA 129 1.34e+01 d.129.7.1 103836 1wggA 96 1.37e+01 2gupA 292 1.39e+01 1xx6A 191 1.48e+01 1bkpA 278 1.49e+01 1bkpA d.117.1.1 41029 1xmrA 243 1.57e+01 1befA 181 1.58e+01 1befA b.47.1.3 26419 1y60A 169 1.59e+01 1brwA 433 1.62e+01 1brwA a.46.2.1,c.27.1.1,d.41.3.1 17764,31628,38626 1s2oA 244 1.65e+01 1t3lA 337 1.66e+01 b.34.2.1,c.37.1.1 106358,106359 1nh0A 99 1.70e+01 b.50.1.1 91869 1ockA 412 1.73e+01 c.117.1.1 86802 1j8rA 196 1.75e+01 1j8rA b.2.3.3 62745 2b9eA 303 1.80e+01 2bzoB 79 1.82e+01 1yzhA 214 1.82e+01 1vchA 175 1.82e+01 1u20A 212 1.83e+01 1nb5I 98 1.85e+01 d.17.1.2 80381 2gf9A 189 1.88e+01 2cvlA 124 1.91e+01 1eo1A 124 1.92e+01 1eo1A c.55.5.1 33739 1jg1A 235 1.95e+01 c.66.1.7 66661 1vmjA 151 1.96e+01 1fukA 165 1.97e+01 1fukA c.37.1.19 32409 3il8 72 1.99e+01 1tvxA d.9.1.1 37356 1thtA 305 2.00e+01 1thtA c.69.1.13 34711 2ao0A 324 2.02e+01 1n3lA 372 2.03e+01 c.26.1.1 79966 1q5yA 85 2.04e+01 d.58.18.4 95950 1f1zA 273 2.06e+01 1f1zA a.4.5.27,c.52.1.16 16081,33334 1f1uA 323 2.11e+01 d.32.1.3,d.32.1.3 83200,83201 1l8bA 190 2.16e+01 d.86.1.1 73683 2cy0A 263 2.23e+01 1nf2A 268 2.24e+01 c.108.1.10 91849 2d5cA 263 2.24e+01 1qwgA 251 2.28e+01 c.1.27.1 96473 1xuuA 349 2.37e+01 1h7mA 102 2.39e+01 d.79.3.1 83485 1wxdA 263 2.42e+01 1hh2P 344 2.43e+01 b.40.4.5,d.52.3.1,d.52.3.1,d.202.1.1 65835,65836,65837,65838 1ej1A 190 2.45e+01 1ejhA d.86.1.1 40144 1wvfA 520 2.47e+01 1k55A 246 2.49e+01 e.3.1.1 68156 3rabA 169 2.54e+01 1ctqA c.37.1.8 32018 1kzkA 99 2.56e+01 b.50.1.1 73371 1w41A 101 2.57e+01 1f1xA 322 2.61e+01 d.32.1.3,d.32.1.3 83208,83209 1qysA 106 2.62e+01 k.41.1.1 96603 1r31A 428 2.64e+01 d.58.20.1,d.179.1.1 96897,96898 1f0xA 571 2.65e+01 1f0xA d.58.32.2,d.145.1.1 39483,41746 1mup 166 2.66e+01 1mup b.60.1.1 27133 1gz6A 319 2.68e+01 c.2.1.2 76410 1htqA 477 2.70e+01 d.15.9.1,d.128.1.1 71035,71036 1tw7A 99 2.78e+01 1j09A 468 2.79e+01 a.97.1.1,c.26.1.1 77025,77026 2acy 98 2.79e+01 2acy d.58.10.1 39298 1wt9B 123 2.80e+01 1zndA 174 2.84e+01 1qo7A 394 2.85e+01 1qo7A c.69.1.11 34697 2b3yA 888 2.86e+01 1fe0A 68 2.87e+01 1cc8A d.58.17.1 39345 2b8tA 223 2.87e+01 1zu0A 529 2.87e+01 1iukA 140 2.87e+01 c.2.1.8 83712 1reqB 637 2.89e+01 1reqB c.1.19.1,c.23.6.1 29621,31248 1ukvY 206 2.90e+01 c.37.1.8 107918 2ggcA 263 2.90e+01 2bcgY 206 2.92e+01 4mbp 370 2.93e+01 4mbp c.94.1.1 35777 2apoA 357 2.99e+01 1i05A 180 3.07e+01 1mup b.60.1.1 27130 2gcfA 73 3.08e+01 1e3uA 246 3.08e+01 1fofA e.3.1.1 42755 1j6wA 175 3.09e+01 1j98A d.185.1.2 62663 1cc1L 498 3.11e+01 1h2rL e.18.1.1 43301 1wj9A 211 3.18e+01 1ufkA 254 3.22e+01 c.66.1.39 99340 1laxA 370 3.28e+01 c.94.1.1 84576 1qy1A 174 3.30e+01 b.60.1.1 96568 1k38A 254 3.34e+01 e.3.1.1 84303 1v7oA 165 3.35e+01 d.67.1.2 100480 1c24A 263 3.38e+01 1c24A d.127.1.1 41148 1xnzA 264 3.38e+01 1vpqA 273 3.39e+01 1z08A 170 3.39e+01 2gwgA 350 3.40e+01 1n9lA 109 3.42e+01 d.110.3.6 85468 1e42A 258 3.42e+01 1e42A b.1.10.1,d.105.1.1 22316,40792 2bvcA 486 3.42e+01 1ve0A 134 3.46e+01 1vlmA 219 3.48e+01 c.66.1.41 108836 1jv4A 162 3.53e+01 b.60.1.1 67343 2ewcA 126 3.53e+01 1o22A 170 3.54e+01 d.238.1.1 86557 1rxyA 253 3.57e+01 c.56.2.1 98065 1lx7A 253 3.58e+01 c.56.2.1 74329 1tvjA 166 3.65e+01 2g30A 258 3.69e+01 1x1iA 752 3.71e+01 1v25A 541 3.74e+01 e.23.1.1 108275 1s68A 249 3.74e+01 d.142.2.4 98591 2d00A 109 3.78e+01 1b6a 478 3.81e+01 1bn5 a.4.5.25,d.127.1.1 16223,41160 2bkqA 212 3.82e+01 2fp7B 172 3.85e+01 1esmA 316 3.86e+01 1esmA c.37.1.6 31953 1vl5A 260 3.87e+01 c.66.1.41 108720 3chy 128 3.87e+01 3chy c.23.1.1 31038 1v4pA 157 3.90e+01 1o0xA 262 3.94e+01 d.127.1.1 80755 1j3kA 280 3.99e+01 c.71.1.1 84070 1mwyA 73 4.05e+01 d.58.17.1 79616 1e0bA 68 4.05e+01 1e0bA b.34.13.2 37476 2gtqA 867 4.09e+01 1w6uA 302 4.10e+01 2a14A 263 4.18e+01 2b0cA 206 4.24e+01 1udzA 182 4.24e+01 b.51.1.1 99239 1epfA 191 4.26e+01 2ncm b.1.1.4,b.1.1.4 21694,21695 2bkrA 212 4.26e+01 1s57A 153 4.28e+01 1fyxA 149 4.29e+01 1fyvA c.23.2.1 31128 1qloA 34 4.30e+01 1qloA j.35.1.1 46281 1f44A 324 4.31e+01 a.60.9.1,d.163.1.1 64982,64983 1o51A 114 4.33e+01 d.58.5.4 92480 1exqA 154 4.33e+01 1b9dA c.55.3.2 33646 1hyvA 166 4.36e+01 1b9dA c.55.3.2 61424 2f5gA 133 4.43e+01 2d8sA 80 4.44e+01 2fb0A 94 4.47e+01 1ctqA 166 4.49e+01 1ctqA c.37.1.8 31965 1u7lA 392 4.49e+01 1wi1A 126 4.50e+01 1uekA 275 4.52e+01 d.14.1.5,d.58.26.5 88483,88484 1yzbA 182 4.53e+01 2adzA 178 4.54e+01 1y7rA 133 4.57e+01 1qnrA 344 4.60e+01 1qnoA c.1.8.3 28834 1fo4A 1332 4.62e+01 a.56.1.1,d.15.4.2,d.41.1.1,d.87.2.1,d.133.1.1,d.145.1.3 17910,37695,38586,40227,41416,41758 1gci 269 4.72e+01 1gci c.41.1.1 32503 1l5jA 865 4.73e+01 a.118.15.1,c.8.2.1,c.83.1.1 73592,73593,73594 1wcwA 261 4.74e+01 1nbfD 76 4.75e+01 d.15.1.1 80390 1mbyA 88 4.77e+01 d.223.1.1 78931 1ysqA 193 4.81e+01 2mhr 118 4.85e+01 2mhr a.24.4.1 16581 2fi0A 81 4.85e+01 1y3jA 77 4.87e+01 1yqzA 438 4.91e+01 1czaN 917 4.93e+01 1qhaA c.55.1.3,c.55.1.3,c.55.1.3,c.55.1.3 33463,33464,33465,33466 1dq3A 454 4.96e+01 1dq3A b.86.1.2,d.50.3.1,d.95.2.2,d.95.2.2 28380,38798,40585,40586 1h2rL 534 4.96e+01 1h2rL e.18.1.1 43298 1o4wA 147 4.99e+01 c.120.1.1 86629 1xt9A 212 5.02e+01 1cjaA 342 5.03e+01 1cjaA d.144.1.3 41708 1v8gA 329 5.03e+01 a.46.2.1,c.27.1.1 100505,100506 2bkrB 77 5.09e+01 1aw7A 194 5.17e+01 1aw7A b.40.2.2,d.15.6.1 25164,37753 1ju3A 583 5.21e+01 b.18.1.13,c.69.1.21 67300,67301 1ubi 76 5.21e+01 1ubi d.15.1.1 37584 1n6zA 105 5.21e+01 d.263.1.1 85369 1v2yA 105 5.23e+01 d.15.1.1 100275 2gcc 70 5.23e+01 2gcc d.10.1.2 37484 1dl5A 317 5.23e+01 1dl5A c.66.1.7,d.197.1.1 64720,64721 1l7yA 94 5.26e+01 d.15.1.6 73676 1e25A 282 5.27e+01 1e25A e.3.1.1 42731 1fezA 256 5.29e+01 1fezA c.108.1.3 43343 1ogwA 76 5.36e+01 d.15.1.1 87001 1wzcA 249 5.37e+01 1im5A 180 5.38e+01 c.33.1.3 66211 1m6kA 251 5.38e+01 e.3.1.1 78695 1qh5A 260 5.39e+01 1qh5A d.157.1.2 42057 1hh1A 143 5.41e+01 1gefA c.52.1.18 61036 1fmb 104 5.47e+01 1fmb b.50.1.1 26777 1kq6A 141 5.48e+01 d.189.1.1 91020 1klrA 30 5.50e+01 g.37.1.1 72722 1j97A 211 5.50e+01 1f5sA c.108.1.4 62753 1z0jA 170 5.54e+01 1sqiA 393 5.55e+01 d.32.1.3,d.32.1.3 105914,105915 2acaA 189 5.56e+01 1gnkA 112 5.56e+01 2pii d.58.5.1 39073 1ta0A 197 5.69e+01 c.108.1.16 106729 2c1gA 431 5.71e+01 2bpsA 81 5.71e+01 2aqjA 538 5.72e+01 1k2eA 156 5.76e+01 d.113.1.1 72010 1l1qA 186 5.77e+01 c.61.1.1 77653 1zbqA 327 5.79e+01 1xmpA 170 5.80e+01 1jj2T 66 5.81e+01 1ffkR g.39.1.6 63105 1s72U 66 5.81e+01 g.39.1.6 105340 1vqoU 66 5.81e+01 1oahA 519 5.81e+01 a.138.1.3 86736 2fblA 153 5.83e+01 1wv9A 94 5.84e+01 1edn 21 5.85e+01 j.28.1.1 46197 1va4A 279 5.97e+01 c.69.1.12 108458 1pg5A 299 5.98e+01 c.78.1.1,c.78.1.1 104146,104147 1x74A 360 6.02e+01 1uohA 226 6.05e+01 d.211.1.1 99690 1vmiA 355 6.08e+01 2bolA 314 6.09e+01 1rypL 212 6.12e+01 d.153.1.4 41880 1mkiA 330 6.15e+01 e.3.1.2 84994 1dgaA 375 6.16e+01 1yagA 1vd4A 62 6.18e+01 2agtA 319 6.20e+01 1gefA 123 6.23e+01 1gefA c.52.1.18 60465 1ucnA 152 6.23e+01 d.58.6.1 99183 2fomB 185 6.24e+01 1j5yA 187 6.26e+01 a.4.5.1,d.94.2.1 71592,71593 1r1qA 100 6.26e+01 d.93.1.1 104763 1c5cH 215 6.29e+01 1igtB b.1.1.1,b.1.1.2 20475,21439 1heiA 451 6.39e+01 1heiA c.37.1.14,c.37.1.14 32463,32464 1ny1A 240 6.43e+01 c.6.2.3 86395 1a6q 382 6.51e+01 1a6q a.159.1.1,d.219.1.1 75801,75802 1vf8A 377 6.58e+01 1ayaA 101 6.59e+01 1qadA d.93.1.1 40460 1wuiL 534 6.60e+01 1i4uA 181 6.62e+01 b.60.1.1 61732 1xc3A 302 6.63e+01 1ubkL 534 6.66e+01 e.18.1.1 88422 1h75A 81 6.67e+01 1h75A c.47.1.1 60716 1l7mA 211 6.71e+01 c.108.1.4 73664 1m36A 33 6.76e+01 g.37.1.2 91172 1z5yE 149 6.79e+01 1vgjA 184 6.82e+01 1p8kZ 254 6.82e+01 d.95.2.1,d.95.2.1 94361,94362 1yxmA 303 6.89e+01 1wd7A 261 6.91e+01 2gi9A 56 7.06e+01 1wriA 93 7.08e+01 1ltqA 301 7.15e+01 c.108.1.9,c.37.1.1 78208,78209 1o7kA 131 7.16e+01 d.189.1.1 81144 1qe3A 489 7.16e+01 2bce c.69.1.1 34630 1itg 166 7.17e+01 1b9dA c.55.3.2 33661 1x9dA 538 7.25e+01 1vdxA 184 7.25e+01 1j6qA 136 7.29e+01 b.40.9.1 77091 1opjA 293 7.31e+01 d.144.1.7 87230 1a6bB 40 7.31e+01 1a6bB g.40.1.1 45172 2a5jA 191 7.33e+01 1pzxA 289 7.42e+01 c.119.1.1 95484 1dzkA 157 7.42e+01 1obpA b.60.1.1 27096 1zoiA 276 7.43e+01 3tss 194 7.44e+01 1aw7A b.40.2.2,d.15.6.1 25160,37749 1jbeA 128 7.50e+01 3chy c.23.1.1 62845 1pwmA 316 7.53e+01 c.1.7.1 95231 1us0A 316 7.56e+01 c.1.7.1 99850 2ethA 154 7.61e+01 1ads 315 7.64e+01 1frb c.1.7.1 28671 1s72H 171 7.65e+01 d.41.4.1 105327 1k1xA 659 7.70e+01 a.8.3.2,b.30.5.8,c.6.2.2 84279,84280,84281 1o1xA 155 7.80e+01 c.121.1.1 86553 1jykA 254 7.81e+01 c.68.1.13 67458 1ey4A 149 7.86e+01 1snc b.40.1.1 24815 1mp9A 198 7.90e+01 d.129.1.1,d.129.1.1 91385,91386 1cqqA 180 7.93e+01 1cqqA b.47.1.4 26422 2bgkA 278 7.94e+01 2g9zA 348 8.03e+01 1t6aA 126 8.03e+01 d.129.8.1 106555 1x0rA 249 8.06e+01 1kngA 156 8.07e+01 c.47.1.10 72777 1yj1A 76 8.07e+01 1hdmB 193 8.09e+01 1hdmB b.1.1.2,d.19.1.1 21584,38158 2bgcA 238 8.09e+01 1rqlA 267 8.10e+01 c.108.1.3 97750 1j0pA 108 8.11e+01 a.138.1.1 90743 1ryt 190 8.12e+01 1ryt a.25.1.1,g.41.5.1 16646,45245 2bwqA 129 8.17e+01 1lkoA 191 8.17e+01 a.25.1.1,g.41.5.1 78063,78064 1m6eX 359 8.25e+01 c.66.1.35 91188 1zbfA 142 8.29e+01 1fiqC 763 8.30e+01 1fiqC d.41.1.1,d.133.1.1 38588,41418 1fm0E 150 8.31e+01 1fmaE d.41.5.1 38629 1k07A 263 8.33e+01 d.157.1.1 77218 2a4nA 182 8.36e+01 1nddA 76 8.38e+01 1ubi d.15.1.1 37599 1zq1C 633 8.39e+01 1ois 223 8.41e+01 1a36A e.15.1.1 43267 1b71A 191 8.41e+01 1ryt a.25.1.1,g.41.5.1 16647,45246 2agaA 190 8.41e+01 1qh3A 260 8.42e+01 1qh5A d.157.1.2 42059 1n71A 180 8.44e+01 d.108.1.1 85370 2anpA 291 8.45e+01 1o4vA 183 8.45e+01 c.23.8.1 86628 1vkyA 347 8.50e+01 e.53.1.1 108696 1i06A 180 8.55e+01 1mup b.60.1.1 27131 1czj 111 8.56e+01 3cyr a.138.1.1 19663 1jnyA 435 8.58e+01 b.43.3.1,b.44.1.1,c.37.1.8 66982,66983,66984 1v9nA 360 8.64e+01 2fexA 188 8.64e+01 1i8oA 114 8.72e+01 1ycc a.3.1.1 61979 1yq7A 374 8.73e+01 1nrjA 158 8.75e+01 d.110.4.4 86124 1z2aA 168 8.75e+01 1u6pA 56 8.82e+01 1nr4A 71 8.83e+01 d.9.1.1 92077 2a9sA 171 8.87e+01 1b87A 181 8.90e+01 1b87A d.108.1.1 40797 1vkdA 338 8.90e+01 b.67.2.4 108644 1l7dA 384 8.92e+01 c.2.1.4,c.23.12.2 77774,77775 2dtr 226 8.93e+01 1bi0 a.4.5.24,a.76.1.1,b.34.1.2 16193,18399,24450 1w6tA 444 8.94e+01 1q67A 231 8.95e+01 b.55.1.7 95960 1ktbA 405 8.95e+01 b.71.1.1,c.1.8.1 72960,72961 2cr5A 109 8.96e+01 1j1uA 306 8.96e+01 c.26.1.1 83980 1eyqA 222 8.97e+01 1eypA d.36.1.1 38534