# List of top-scoring protein chains for t06-100-30-alpha-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 2c1vA 338 8.30e-02 2b81A 323 2.86e-01 2ggcA 263 2.98e-01 1xnzA 264 3.63e-01 1zin 217 4.42e-01 1zin c.37.1.1,g.41.2.1 31915,45178 2eu8A 216 6.75e-01 1xt8A 292 7.32e-01 1oa8A 133 1.09e+00 b.145.1.1 92698 2b0cA 206 1.12e+00 1uufA 369 1.21e+00 b.35.1.2,c.2.1.1 100006,100007 1omrA 201 1.28e+00 a.39.1.5 93349 1w7jB 151 1.30e+00 2fhpA 187 1.32e+00 1jbkA 195 1.66e+00 c.37.1.20 71631 2azeA 155 1.80e+00 1aky 221 1.89e+00 1zin c.37.1.1,g.41.2.1 31896,45197 1gu2A 124 1.90e+00 a.3.1.1 76348 1vlrA 350 1.93e+00 d.13.1.3,d.246.1.1 108860,108861 1ghpA 258 2.34e+00 1btl e.3.1.1 60520 2cvzA 289 2.46e+00 2a7oA 112 2.46e+00 16vpA 366 2.54e+00 16vpA d.180.1.1 42601 1zcjA 463 2.58e+00 1lc0A 294 2.86e+00 c.2.1.3,d.81.1.4 73823,73824 2bl0B 145 3.08e+00 2d2eA 250 3.15e+00 2csbA 519 3.51e+00 2d5xB 146 3.53e+00 2gwhA 298 3.68e+00 1eqfA 280 3.84e+00 1eqfA a.29.2.1,a.29.2.1 16972,16973 1bqbA 301 4.20e+00 1hyt d.92.1.2 58962 1wdpA 495 4.22e+00 1i39A 225 4.56e+00 1ekeA c.55.3.1 61585 1ng6A 148 4.89e+00 a.182.1.1 85670 1f0yA 302 4.94e+00 2hdhA a.100.1.3,c.2.1.6 18793,30197 1bjaA 95 4.96e+00 1bjaA a.4.5.9 16122 1z5hA 780 4.97e+00 1sq5A 308 5.07e+00 c.37.1.6 105882 1fmjA 351 5.07e+00 c.37.1.5 59879 2gasA 307 5.11e+00 1kk8B 139 5.28e+00 a.39.1.5 77430 1b3uA 588 5.57e+00 1b3uA a.118.1.2 19135 1njhA 119 5.73e+00 b.128.1.1 85787 1t3qA 168 6.12e+00 a.56.1.1,d.15.4.2 106367,106368 1j09A 468 6.20e+00 a.97.1.1,c.26.1.1 77025,77026 1mtyB 384 6.25e+00 1mtyB a.25.1.2 16740 1pp0A 199 6.35e+00 d.103.1.1 104211 1dbqA 289 6.43e+00 1qpzA c.93.1.1 35666 2ca6A 386 6.62e+00 1r9lA 309 6.63e+00 c.94.1.1 97262 2gzaA 361 6.77e+00 2ftxB 64 7.18e+00 1jgsA 138 7.29e+00 a.4.5.28 66683 1m45A 148 7.37e+00 a.39.1.5 78598 1mwqA 101 7.39e+00 d.58.4.7 91481 1m1cA 680 7.56e+00 e.42.1.1 78395 1jftA 340 7.68e+00 a.35.1.5,c.93.1.1 66652,66653 1p4kA 295 7.74e+00 d.153.1.5 87772 4tmkA 213 7.98e+00 5tmpA c.37.1.1 31930 1v54J 59 7.98e+00 f.23.4.1 100331 1ug3A 339 8.18e+00 1wmuA 141 8.24e+00 a.1.1.2 109416 2b0jA 358 8.36e+00 1e7lA 157 8.64e+00 1en7A a.140.4.1,d.4.1.5 64728,64729 1qf5A 431 8.67e+00 1adeA c.37.1.10 32212 2c3nA 247 8.82e+00 1ekeA 230 8.85e+00 1ekeA c.55.3.1 33572 1oz9A 150 8.86e+00 d.92.1.15 93808 1t0qA 498 8.99e+00 a.25.1.2 106220 1avsA 90 9.11e+00 1cll a.39.1.5 17226 1w4vA 119 9.27e+00 1wdcB 156 9.71e+00 1wdcB a.39.1.5 17302 1v0lA 313 9.76e+00 c.1.8.3 108207 1ah7 245 9.82e+00 1ah7 a.124.1.1 19339 1a8s 273 1.01e+01 1brt c.69.1.12 34710 1gntA 553 1.01e+01 e.26.1.1 70290 1pufB 73 1.06e+01 a.4.1.1 95132 2ak3A 226 1.10e+01 1zin c.37.1.1,g.41.2.1 31892,45193 1v2zA 111 1.10e+01 a.186.1.1 108300 1auiB 169 1.11e+01 1auiB a.39.1.5 17325 1wdjA 187 1.14e+01 1r5iD 216 1.16e+01 a.202.1.1 97091 1hw6A 278 1.17e+01 1frb c.1.7.1 61296 2a5lA 200 1.18e+01 1vzyA 291 1.21e+01 1sgwA 214 1.23e+01 c.37.1.12 105541 1i3dA 146 1.24e+01 a.1.1.2 61587 1dw0A 112 1.25e+01 1dw0A a.3.1.1 15911 1ohlA 342 1.26e+01 c.1.10.3 87035 1yemA 179 1.32e+01 1rqtA 37 1.33e+01 a.108.1.1 97771 1wrjA 156 1.34e+01 1wjuA 100 1.42e+01 1dgnA 89 1.43e+01 1dgnA a.77.1.3 18436 1dv0A 47 1.43e+01 1dv0A a.5.2.1 16289 1irdB 146 1.45e+01 a.1.1.2 66287 1p4cA 380 1.46e+01 c.1.4.1 94100 2co5A 99 1.47e+01 2bx6A 350 1.48e+01 1e1hB 174 1.50e+01 1orjA 130 1.53e+01 a.24.19.1 93456 1repC 251 1.54e+01 1repC a.4.5.10,a.4.5.10 16125,16126 1pmi 440 1.56e+01 1pmi b.82.1.3 28114 1z3eB 73 1.59e+01 1bkjA 240 1.60e+01 1bkjA d.90.1.1 40243 1xl7A 612 1.62e+01 1v8dA 235 1.63e+01 c.140.1.1 108425 1n1jA 93 1.64e+01 a.22.1.3 79813 2b7kA 200 1.68e+01 1ss4A 153 1.72e+01 d.32.1.6 105976 1ngkA 128 1.74e+01 a.1.1.1 85673 1uocA 289 1.76e+01 c.55.3.9 99686 1dszB 85 1.77e+01 2nllB g.39.1.2 45108 1jyrA 96 1.78e+01 d.93.1.1 71969 2c4nA 250 1.80e+01 1eca 136 1.82e+01 1flp a.1.1.2 15209 1ccwB 483 1.83e+01 1cb7B c.1.19.2 29646 1m98A 317 1.83e+01 a.175.1.1,d.17.4.6 78866,78867 2f3yA 148 1.86e+01 1bg6 359 1.87e+01 1bg6 a.100.1.5,c.2.1.6 18810,30214 1z1dA 103 1.88e+01 2g3bA 208 1.88e+01 1k6iA 352 1.90e+01 c.2.1.2 68223 2awiA 317 1.97e+01 2h7bA 105 2.00e+01 1zb1A 392 2.07e+01 1p7tA 731 2.07e+01 c.1.13.1 94319 1uhnA 189 2.09e+01 a.39.1.5 99399 1v32A 101 2.13e+01 a.42.1.1 100277 2aaoA 166 2.15e+01 1ykjA 394 2.17e+01 1wyuA 438 2.18e+01 1g5cA 170 2.20e+01 1g5cA c.53.2.1 60264 1lk2A 274 2.20e+01 b.1.1.2,d.19.1.1 91056,91057 1vkpA 383 2.21e+01 d.126.1.6 108686 1n82A 331 2.31e+01 c.1.8.3 91703 2bidA 197 2.33e+01 2bidA f.1.4.1 43398 1z00B 84 2.34e+01 1viaA 175 2.35e+01 c.37.1.2 100754 2esrA 177 2.36e+01 1wlmA 151 2.48e+01 1sczA 233 2.52e+01 c.43.1.1 98802 1svdA 473 2.56e+01 1tf5A 844 2.56e+01 a.162.1.1,a.172.1.1,c.37.1.19,c.37.1.19 106834,106835,106836,106837 1f7uA 607 2.62e+01 1bs2A a.27.1.1,c.26.1.1,d.67.2.1 59673,59674,59675 1qyiA 384 2.68e+01 c.108.1.13 96595 1eq2A 310 2.70e+01 1eq2A c.2.1.2 29814 1vhnA 318 2.73e+01 c.1.4.1 100693 1e6yA 569 2.83e+01 1mroA a.89.1.1,d.58.31.2 18529,39447 1qv1A 195 2.84e+01 a.39.1.5 96347 1xgkA 352 2.89e+01 1ed8A 449 2.90e+01 1b8jA c.76.1.1 34988 1wq3A 322 2.93e+01 1yg2A 179 2.94e+01 1i7dA 659 2.95e+01 1d6mA e.10.1.1 61886 1zx4A 192 2.95e+01 1nq6A 302 2.97e+01 c.1.8.3 92046 1rh5A 436 2.99e+01 f.41.1.1 97464 2gh1A 301 3.01e+01 2fcr 173 3.01e+01 1rcf c.23.5.1 31151 1byi 224 3.02e+01 1byi c.37.1.10 32199 2fcjA 119 3.03e+01 1p9eA 331 3.03e+01 d.157.1.5 104088 1exrA 148 3.04e+01 1cll a.39.1.5 17299 1s1fA 406 3.06e+01 1xknA 355 3.13e+01 2btdA 210 3.16e+01 3lynA 136 3.21e+01 1lis a.19.1.1 16413 2f9dA 125 3.21e+01 1knzA 164 3.23e+01 e.34.1.1 68709 1fxoA 293 3.24e+01 1g0rA c.68.1.6 34524 1v5iB 76 3.25e+01 3thiA 371 3.29e+01 2thiA c.94.1.1 35792 2dc4A 165 3.30e+01 1sx7A 164 3.30e+01 1q1fA 151 3.32e+01 a.1.1.2 104476 1zl0A 311 3.36e+01 1uwkA 557 3.36e+01 e.51.1.1 108065 1ii7A 333 3.37e+01 1ii7A d.159.1.4 62415 1uj6A 227 3.38e+01 c.124.1.4,d.58.40.1 107898,107899 1kjvA 284 3.43e+01 b.1.1.2,d.19.1.1 77421,77422 1zd8A 227 3.45e+01 2fu4A 83 3.48e+01 1xdzA 240 3.49e+01 1rss 151 3.50e+01 1rss a.75.1.1 18392 1gk7A 39 3.57e+01 h.1.20.1 70212 1r69 69 3.60e+01 1r69 a.35.1.2 17028 1g8iA 190 3.63e+01 1rec a.39.1.5 60363 2fueA 262 3.64e+01 1dekA 241 3.68e+01 1dekA c.37.1.1 31842 1ash 150 3.72e+01 1ash a.1.1.2 15622 1sfe 180 3.73e+01 1sfe a.4.2.1,c.55.7.1 16073,33748 2g2kA 170 3.74e+01 1wlsA 328 3.75e+01 2ev7A 64 3.78e+01 2f31A 233 3.78e+01 1zaiA 363 3.85e+01 1v6zA 228 3.88e+01 1gx1A 160 3.88e+01 d.79.5.1 70675 1epxA 370 3.93e+01 1fbaA c.1.10.1 29150 1m40A 263 3.96e+01 e.3.1.1 74437 1fpzA 212 4.01e+01 1fpzA c.45.1.1 59976 1iqcA 308 4.01e+01 a.3.1.5,a.3.1.5 66266,66267 1khtA 192 4.05e+01 c.37.1.1 84401 1khdA 345 4.08e+01 a.46.2.1,c.27.1.1 77400,77401 1k0iA 394 4.16e+01 c.3.1.2,d.16.1.2 67942,67943 1in6A 334 4.17e+01 1hqcA a.4.5.11,c.37.1.20 62601,62602 1o3yA 166 4.18e+01 c.37.1.8 86618 1wi0A 113 4.18e+01 2lisA 136 4.20e+01 1lis a.19.1.1 16405 1fc4A 401 4.21e+01 1bs0A c.67.1.4 59760 2trcP 217 4.24e+01 1b9yC c.47.1.6 33051 1iqqA 200 4.30e+01 d.124.1.1 66274 1r6uA 437 4.33e+01 c.26.1.1 97163 1elwA 118 4.36e+01 1a17 a.118.8.1 19207 1f5mA 180 4.43e+01 1f5mB d.110.2.1 40895 1vprA 374 4.43e+01 2genA 197 4.44e+01 2fokA 579 4.45e+01 2fokA a.4.5.12,a.4.5.12,a.4.5.12,c.52.1.12 16131,16132,16133,33323 1odoA 408 4.48e+01 a.104.1.1 92783 2gakA 391 4.49e+01 1ymqA 261 4.51e+01 1f8fA 371 4.57e+01 b.35.1.2,c.2.1.1 83246,83247 2f2gA 221 4.59e+01 1h4pA 408 4.61e+01 c.1.8.3 90617 1bm9A 122 4.64e+01 1bm9A a.4.5.7 16116 1o69A 394 4.69e+01 c.67.1.4 92560 2cwyA 94 4.72e+01 2bkxA 242 4.76e+01 1pprM 312 4.77e+01 1pprM a.131.1.1,a.131.1.1 19502,19503 1u9yA 284 4.78e+01 1ip9A 85 4.79e+01 1ip9A d.15.2.2 62638 1w94A 156 4.80e+01 1pcxA 810 4.84e+01 a.71.2.1,b.2.8.1,c.62.1.2,d.109.2.1,g.41.10.1 94497,94498,94499,94500,94501 1w53A 84 4.85e+01 a.186.1.2 109175 2a5dA 175 4.90e+01 1yqdA 366 4.90e+01 1fl2A 310 4.92e+01 1hyuA c.3.1.5,c.3.1.5 59869,59870 1uarA 285 4.97e+01 c.46.1.2,c.46.1.2 107762,107763 1a99A 344 4.98e+01 1pot c.94.1.1 35812 1yewA 382 5.04e+01 2fh1A 344 5.07e+01 1in4A 334 5.20e+01 1hqcA a.4.5.11,c.37.1.20 62597,62598 1yoeA 322 5.20e+01 2afdA 88 5.21e+01 1n62A 166 5.21e+01 a.56.1.1,d.15.4.2 80090,80091 1v8yA 170 5.23e+01 1iooA 196 5.24e+01 d.124.1.1 71250 1sc3A 178 5.31e+01 c.17.1.1 105416 5pal 109 5.32e+01 1a75A a.39.1.4 17215 1tjyA 316 5.33e+01 c.93.1.1 107062 1yvhA 329 5.36e+01 2gokA 429 5.36e+01 2a1kA 233 5.39e+01 1iv3A 152 5.41e+01 d.79.5.1 76828 1zthA 258 5.43e+01 1jb0M 31 5.44e+01 1jb0M f.23.19.1 62830 1dzfA 215 5.45e+01 1dzfA c.52.3.1,d.78.1.1 33344,39753 2g9iA 249 5.46e+01 1914 232 5.50e+01 1914 d.49.1.1,d.49.1.1 83028,83029 2aaxA 275 5.50e+01 2bi7A 384 5.52e+01 1ko3A 230 5.53e+01 d.157.1.1 90974 1wi6A 88 5.54e+01 1c52 131 5.55e+01 1c52 a.3.1.1 15810 2bwbA 46 5.56e+01 1kktA 511 5.57e+01 a.102.2.1 68687 1h16A 759 5.57e+01 c.7.1.1 76462 2jdxA 385 5.59e+01 1jdw d.126.1.2 41139 1sjdA 368 5.60e+01 c.1.11.2,d.54.1.1 105632,105633 1y60A 169 5.61e+01 1ppjE 196 5.76e+01 b.33.1.1,f.23.12.1 104260,104261 1t1jA 125 5.77e+01 c.137.1.1 106249 1ov9A 50 5.82e+01 a.155.1.1 93591 2dkaA 544 5.86e+01 1ng7A 60 5.86e+01 a.178.1.1 85671 1hufA 140 5.88e+01 1hufA d.195.1.1 61272 2bzlA 325 5.88e+01 1k7cA 233 5.92e+01 c.23.10.4 68267 1w27A 714 5.95e+01 1k4iA 233 5.97e+01 d.115.1.2 72056 1yc9A 442 5.99e+01 1fviA 297 6.00e+01 1fviA b.40.4.6,d.142.2.1 25364,41578 2b2aA 199 6.04e+01 1wf3A 301 6.05e+01 1ijqA 316 6.07e+01 1ijqA b.68.5.1,g.3.11.1 62506,62507 1mp9A 198 6.13e+01 d.129.1.1,d.129.1.1 91385,91386 1xlyA 234 6.17e+01 1ib8A 164 6.18e+01 b.38.2.1,d.52.4.1 71168,71169 1z6uA 150 6.29e+01 2cyeA 133 6.34e+01 1pvaA 110 6.36e+01 1a75A a.39.1.4 17207 1pueE 89 6.38e+01 1awcA a.4.5.21 16165 1xwwA 157 6.39e+01 1o9rA 162 6.44e+01 a.25.1.1 86706 2fa8A 105 6.47e+01 1r8sA 164 6.47e+01 c.37.1.8 97247 1r3eA 309 6.48e+01 b.122.1.1,d.265.1.2 96907,96908 1w8iA 156 6.48e+01 1vf6A 83 6.50e+01 a.194.1.1 100600 1w7bA 339 6.59e+01 1hb6A 86 6.61e+01 a.11.1.1 70959 2dfbA 190 6.72e+01 2napA 723 6.74e+01 2napA b.52.2.2,c.81.1.1 26926,35334 2fh7A 595 6.74e+01 1u3eM 174 6.75e+01 d.4.1.3,d.285.1.1 107640,107641 1qkrA 188 6.81e+01 1qkrA a.24.9.1 16628 1k92A 455 6.82e+01 c.26.2.1,d.210.1.1 68325,68326 1u2eA 289 6.85e+01 1vaxA 287 6.87e+01 2a6aA 218 6.91e+01 1vdkA 466 6.93e+01 a.127.1.1 100561 1musA 477 6.96e+01 c.55.3.4 79494 2spcA 107 6.98e+01 2spcA a.7.1.1 16311 1t6t1 118 6.99e+01 1vd6A 224 6.99e+01 1y93A 159 7.01e+01 1atlA 202 7.01e+01 1atlA d.92.1.9 40322 1kk1A 410 7.06e+01 b.43.3.1,b.44.1.1,c.37.1.8 72634,72635,72636 2amdA 311 7.11e+01 1dcfA 136 7.11e+01 1dcfA c.23.1.2 31124 1xzpB 150 7.15e+01 1yhtA 367 7.23e+01 1qhfA 240 7.24e+01 1qhfA c.60.1.1 33960 1g2cB 43 7.25e+01 1g2cB 2b9wA 424 7.32e+01 1k7kA 221 7.35e+01 c.51.4.1 72104 1v4xB 146 7.41e+01 a.1.1.2 108364 1xpjA 126 7.46e+01 1m12A 84 7.53e+01 a.64.1.1 84745 1pvmA 184 7.54e+01 d.37.1.1,d.37.1.1,g.41.13.1 95171,95172,95173 1fjhA 257 7.55e+01 1fjhB c.2.1.2 29870 1j99A 293 7.59e+01 c.37.1.5 71618 1t6cA 315 7.61e+01 c.55.1.8,c.55.1.8 106558,106559 1pzlA 237 7.62e+01 a.123.1.1 104393 1g2rA 100 7.63e+01 1g2rA d.192.1.1 60231 2b0tA 738 7.65e+01 2gm6A 208 7.66e+01 1jdw 423 7.67e+01 1jdw d.126.1.2 41129 1irqA 71 7.71e+01 a.43.1.4 66297 1qb2A 109 7.73e+01 1qb2A a.36.1.1 17125 1dg9A 157 7.75e+01 1dg9A c.44.1.1 32637 1bgc 174 7.77e+01 1bgc a.26.1.1 16822 1ci4A 89 7.79e+01 1qckA a.60.5.1 17970 1tdzA 272 7.82e+01 a.156.1.2,b.113.1.1,g.39.1.8 106787,106788,106789 1w5rA 278 7.88e+01 1o58A 303 7.93e+01 c.79.1.1 92491 1tq4A 413 7.97e+01 c.37.1.8 107201 1nz0A 118 7.98e+01 d.14.1.2 86433 2czlA 272 8.09e+01 1vr5A 547 8.09e+01 1t7lA 766 8.12e+01 2fmlA 273 8.15e+01 1li5A 461 8.15e+01 a.27.1.1,c.26.1.1 73912,73913 1tx4A 198 8.17e+01 1tx4A a.116.1.1 19098 1sviA 195 8.19e+01 c.37.1.8 106048 1b25A 619 8.30e+01 1b25A a.110.1.1,d.152.1.1 19044,41796 1bqcA 302 8.31e+01 1bqcA c.1.8.3 28831 1mgqA 83 8.46e+01 b.38.1.1 79099 1qe3A 489 8.51e+01 2bce c.69.1.1 34630 1z83A 196 8.52e+01 1s6cA 183 8.57e+01 a.39.1.5 98594 1wzaA 488 8.59e+01 1nsj 205 8.62e+01 1nsj c.1.2.4 28560 1anf 370 8.63e+01 4mbp c.94.1.1 35776 1ytvA 366 8.64e+01 1sd4A 126 8.64e+01 a.4.5.39 105428 1sqsA 242 8.65e+01 c.23.5.5 98968 1fit 147 8.73e+01 1fit d.13.1.1 37499 1vhuA 211 8.74e+01 c.50.1.2 100703 2drwA 363 8.76e+01 2ftzA 284 8.79e+01 1vh4A 435 8.79e+01 b.80.6.1 100640 1nrvA 105 8.81e+01 d.93.1.1 86126 1ijbA 202 8.82e+01 c.62.1.1 71229 1xccA 220 8.83e+01 2d83A 363 8.88e+01 1nqkA 381 8.89e+01 c.1.16.4 92050 1lddA 74 8.94e+01 a.4.5.34 73841