# 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 2c1vA 338 9.58e-02 2b0cA 206 1.93e-01 2b81A 323 2.54e-01 2fhpA 187 2.82e-01 1oa8A 133 5.02e-01 b.145.1.1 92698 1zcjA 463 5.10e-01 2eu8A 216 5.29e-01 1xnzA 264 5.40e-01 1zin 217 5.45e-01 1zin c.37.1.1,g.41.2.1 31915,45178 2ggcA 263 5.47e-01 1jbkA 195 7.92e-01 c.37.1.20 71631 1aky 221 8.04e-01 1zin c.37.1.1,g.41.2.1 31896,45197 1omrA 201 1.18e+00 a.39.1.5 93349 1sq5A 308 1.74e+00 c.37.1.6 105882 1eqfA 280 1.76e+00 1eqfA a.29.2.1,a.29.2.1 16972,16973 1vlrA 350 1.79e+00 d.13.1.3,d.246.1.1 108860,108861 2aaoA 166 2.04e+00 1uufA 369 2.08e+00 b.35.1.2,c.2.1.1 100006,100007 2bidA 197 2.42e+00 2bidA f.1.4.1 43398 1kk8B 139 2.45e+00 a.39.1.5 77430 1avsA 90 2.59e+00 1cll a.39.1.5 17226 4tmkA 213 2.60e+00 5tmpA c.37.1.1 31930 2cvzA 289 2.67e+00 1b3uA 588 2.85e+00 1b3uA a.118.1.2 19135 1gu2A 124 2.94e+00 a.3.1.1 76348 1xt8A 292 3.08e+00 1lc0A 294 3.13e+00 c.2.1.3,d.81.1.4 73823,73824 1f0yA 302 3.28e+00 2hdhA a.100.1.3,c.2.1.6 18793,30197 2a7oA 112 3.29e+00 2bl0B 145 3.36e+00 2c3nA 247 3.87e+00 1v0lA 313 4.09e+00 c.1.8.3 108207 2gwhA 298 4.26e+00 1ghpA 258 4.43e+00 1btl e.3.1.1 60520 1n1jA 93 5.21e+00 a.22.1.3 79813 2azeA 155 5.44e+00 1ngkA 128 6.05e+00 a.1.1.1 85673 1w7jB 151 6.08e+00 1ve1A 304 6.14e+00 1m45A 148 6.18e+00 a.39.1.5 78598 2d5xB 146 6.25e+00 1ng6A 148 6.31e+00 a.182.1.1 85670 2a5lA 200 6.67e+00 1t0qA 498 6.78e+00 a.25.1.2 106220 1wdcB 156 6.98e+00 1wdcB a.39.1.5 17302 1k0iA 394 7.26e+00 c.3.1.2,d.16.1.2 67942,67943 1dzfA 215 7.31e+00 1dzfA c.52.3.1,d.78.1.1 33344,39753 2d2eA 250 7.45e+00 1rh5A 436 7.55e+00 f.41.1.1 97464 2ftxB 64 7.89e+00 1hw6A 278 7.97e+00 1frb c.1.7.1 61296 2awiA 317 8.12e+00 2bx6A 350 8.20e+00 1e7lA 157 8.46e+00 1en7A a.140.4.1,d.4.1.5 64728,64729 1r69 69 8.69e+00 1r69 a.35.1.2 17028 2drwA 363 8.69e+00 2d83A 363 8.74e+00 1dv0A 47 8.75e+00 1dv0A a.5.2.1 16289 1qf5A 431 9.23e+00 1adeA c.37.1.10 32212 1a99A 344 9.34e+00 1pot c.94.1.1 35812 1vprA 374 9.62e+00 1vkpA 383 9.66e+00 d.126.1.6 108686 1ss4A 153 9.73e+00 d.32.1.6 105976 1k7kA 221 9.84e+00 c.51.4.1 72104 1wdpA 495 1.03e+01 1wmuA 141 1.03e+01 a.1.1.2 109416 2esrA 177 1.05e+01 1auiB 169 1.06e+01 1auiB a.39.1.5 17325 1oz9A 150 1.07e+01 d.92.1.15 93808 1a8s 273 1.08e+01 1brt c.69.1.12 34710 1mtyB 384 1.10e+01 1mtyB a.25.1.2 16740 1fmjA 351 1.10e+01 c.37.1.5 59879 1orjA 130 1.11e+01 a.24.19.1 93456 2b9wA 424 1.11e+01 1z5hA 780 1.11e+01 1bgc 174 1.13e+01 1bgc a.26.1.1 16822 1gntA 553 1.16e+01 e.26.1.1 70290 1o13A 136 1.19e+01 c.55.5.1 80762 1ekeA 230 1.19e+01 1ekeA c.55.3.1 33572 2ak3A 226 1.21e+01 1zin c.37.1.1,g.41.2.1 31892,45193 1r9lA 309 1.21e+01 c.94.1.1 97262 2f3yA 148 1.26e+01 1ip9A 85 1.27e+01 1ip9A d.15.2.2 62638 1y10A 407 1.27e+01 1bqbA 301 1.28e+01 1hyt d.92.1.2 58962 1yoeA 322 1.30e+01 1ah7 245 1.35e+01 1ah7 a.124.1.1 19339 1nq6A 302 1.36e+01 c.1.8.3 92046 2dfbA 190 1.41e+01 2spcA 107 1.43e+01 2spcA a.7.1.1 16311 2ca6A 386 1.47e+01 2co5A 99 1.48e+01 1v8dA 235 1.53e+01 c.140.1.1 108425 1qe3A 489 1.53e+01 2bce c.69.1.1 34630 2f31A 233 1.54e+01 1ed8A 449 1.54e+01 1b8jA c.76.1.1 34988 1pufB 73 1.58e+01 a.4.1.1 95132 2gzaA 361 1.59e+01 1qe5A 266 1.60e+01 1b8oA c.56.2.1 33784 2a1kA 233 1.62e+01 1v54J 59 1.63e+01 f.23.4.1 100331 1v6zA 228 1.64e+01 1ci4A 89 1.65e+01 1qckA a.60.5.1 17970 1mwqA 101 1.65e+01 d.58.4.7 91481 1jftA 340 1.66e+01 a.35.1.5,c.93.1.1 66652,66653 1w27A 714 1.66e+01 1j09A 468 1.67e+01 a.97.1.1,c.26.1.1 77025,77026 1vhnA 318 1.69e+01 c.1.4.1 100693 1f7uA 607 1.73e+01 1bs2A a.27.1.1,c.26.1.1,d.67.2.1 59673,59674,59675 2czlA 272 1.73e+01 1k92A 455 1.77e+01 c.26.2.1,d.210.1.1 68325,68326 2genA 197 1.78e+01 2b0jA 358 1.79e+01 1rijA 25 1.81e+01 k.32.1.1 104951 2gasA 307 1.87e+01 1jgsA 138 1.89e+01 a.4.5.28 66683 1wf3A 301 1.93e+01 1sgwA 214 1.98e+01 c.37.1.12 105541 1epxA 370 2.01e+01 1fbaA c.1.10.1 29150 3lynA 136 2.03e+01 1lis a.19.1.1 16413 1ymiA 334 2.03e+01 1i58A 189 2.03e+01 1b3qA d.122.1.3 61773 1xknA 355 2.06e+01 2lisA 136 2.06e+01 1lis a.19.1.1 16405 2csbA 519 2.07e+01 1i39A 225 2.10e+01 1ekeA c.55.3.1 61585 1ash 150 2.12e+01 1ash a.1.1.2 15622 16vpA 366 2.15e+01 16vpA d.180.1.1 42601 2fmpA 335 2.15e+01 1lk2A 274 2.19e+01 b.1.1.2,d.19.1.1 91056,91057 1dw0A 112 2.22e+01 1dw0A a.3.1.1 15911 1pmi 440 2.24e+01 1pmi b.82.1.3 28114 1evsA 187 2.26e+01 1evsA a.26.1.1 16845 1yqdA 366 2.30e+01 2jdxA 385 2.37e+01 1jdw d.126.1.2 41139 1ykjA 394 2.40e+01 1xzpB 150 2.43e+01 1e1hB 174 2.43e+01 1elwA 118 2.44e+01 1a17 a.118.8.1 19207 1kjvA 284 2.49e+01 b.1.1.2,d.19.1.1 77421,77422 1xypA 190 2.49e+01 1axkA b.29.1.11 24327 1pp0A 199 2.52e+01 d.103.1.1 104211 1o9rA 162 2.57e+01 a.25.1.1 86706 1wu7A 434 2.58e+01 1dbqA 289 2.59e+01 1qpzA c.93.1.1 35666 1xl7A 612 2.59e+01 1f8fA 371 2.59e+01 b.35.1.2,c.2.1.1 83246,83247 2dbyA 368 2.67e+01 5pal 109 2.73e+01 1a75A a.39.1.4 17215 1bu8A 452 2.75e+01 1gpl b.12.1.2,c.69.1.19 23647,34795 1nqkA 381 2.78e+01 c.1.16.4 92050 1z3eB 73 2.78e+01 1ohlA 342 2.79e+01 c.1.10.3 87035 1ccwB 483 2.83e+01 1cb7B c.1.19.2 29646 1s6cA 183 2.86e+01 a.39.1.5 98594 1bjaA 95 2.86e+01 1bjaA a.4.5.9 16122 1v8yA 170 2.87e+01 1svdA 473 2.90e+01 1m1cA 680 2.92e+01 e.42.1.1 78395 1efyA 350 3.00e+01 1a26 a.41.1.1,d.166.1.2 17413,42275 1wrjA 156 3.02e+01 1uhnA 189 3.12e+01 a.39.1.5 99399 1jdw 423 3.13e+01 1jdw d.126.1.2 41129 1exrA 148 3.15e+01 1cll a.39.1.5 17299 1i3dA 146 3.15e+01 a.1.1.2 61587 2fokA 579 3.16e+01 2fokA a.4.5.12,a.4.5.12,a.4.5.12,c.52.1.12 16131,16132,16133,33323 2bwbA 46 3.19e+01 1g5cA 170 3.22e+01 1g5cA c.53.2.1 60264 1z1dA 103 3.23e+01 2g3bA 208 3.25e+01 1o82A 70 3.26e+01 a.64.2.1 92630 1eca 136 3.30e+01 1flp a.1.1.2 15209 1v2zA 111 3.35e+01 a.186.1.1 108300 2ch4A 320 3.35e+01 1wkuA 254 3.37e+01 1vaxA 287 3.40e+01 2bzlA 325 3.42e+01 2cwyA 94 3.44e+01 1h4pA 408 3.47e+01 c.1.8.3 90617 1knzA 164 3.53e+01 e.34.1.1 68709 1zthA 258 3.55e+01 1bqcA 302 3.64e+01 1bqcA c.1.8.3 28831 1o58A 303 3.65e+01 c.79.1.1 92491 1khtA 192 3.72e+01 c.37.1.1 84401 1y88A 199 3.76e+01 1r5iD 216 3.77e+01 a.202.1.1 97091 1wyuA 438 3.90e+01 1yvhA 329 3.98e+01 1vdkA 466 3.99e+01 a.127.1.1 100561 1dgnA 89 3.99e+01 1dgnA a.77.1.3 18436 1j1nA 492 4.00e+01 c.94.1.1 83978 1fpzA 212 4.01e+01 1fpzA c.45.1.1 59976 1qhfA 240 4.09e+01 1qhfA c.60.1.1 33960 1eq2A 310 4.10e+01 1eq2A c.2.1.2 29814 1p4cA 380 4.11e+01 c.1.4.1 94100 1viaA 175 4.12e+01 c.37.1.2 100754 1pvaA 110 4.14e+01 1a75A a.39.1.4 17207 1pprM 312 4.16e+01 1pprM a.131.1.1,a.131.1.1 19502,19503 1o69A 394 4.19e+01 c.67.1.4 92560 1xdzA 240 4.22e+01 1in4A 334 4.23e+01 1hqcA a.4.5.11,c.37.1.20 62597,62598 1kktA 511 4.23e+01 a.102.2.1 68687 1s14A 194 4.24e+01 d.122.1.2 98329 1qv1A 195 4.26e+01 a.39.1.5 96347 1z00B 84 4.26e+01 1dq3A 454 4.27e+01 1dq3A b.86.1.2,d.50.3.1,d.95.2.2,d.95.2.2 28380,38798,40585,40586 1rqtA 37 4.29e+01 a.108.1.1 97771 1m98A 317 4.31e+01 a.175.1.1,d.17.4.6 78866,78867 1vzyA 291 4.35e+01 1jyrA 96 4.37e+01 d.93.1.1 71969 1wlsA 328 4.42e+01 1ug3A 339 4.42e+01 1musA 477 4.45e+01 c.55.3.4 79494 2beiA 170 4.49e+01 1q1fA 151 4.50e+01 a.1.1.2 104476 1sqsA 242 4.53e+01 c.23.5.5 98968 1ib8A 164 4.60e+01 b.38.2.1,d.52.4.1 71168,71169 1pueE 89 4.64e+01 1awcA a.4.5.21 16165 1zl0A 311 4.69e+01 2b5gA 171 4.69e+01 1wi0A 113 4.70e+01 1dszB 85 4.73e+01 2nllB g.39.1.2 45108 1irdB 146 4.74e+01 a.1.1.2 66287 1b67A 68 4.74e+01 1a7w a.22.1.2 16474 2ev7A 64 4.77e+01 1r8eA 278 4.93e+01 a.6.1.3,d.60.1.1 104843,104844 1wu3I 161 5.02e+01 1kk1A 410 5.04e+01 b.43.3.1,b.44.1.1,c.37.1.8 72634,72635,72636 1wlmA 151 5.08e+01 1cfzA 162 5.12e+01 1cfzA c.56.1.1 33754 1r6uA 437 5.16e+01 c.26.1.1 97163 1xnkA 196 5.17e+01 1sqwA 188 5.17e+01 1tl9A 339 5.18e+01 1iwmA 186 5.29e+01 b.125.1.2 83758 1z02A 446 5.30e+01 1bm9A 122 5.30e+01 1bm9A a.4.5.7 16116 1mp9A 198 5.31e+01 d.129.1.1,d.129.1.1 91385,91386 1zd8A 227 5.36e+01 1iooA 196 5.38e+01 d.124.1.1 71250 1g8iA 190 5.40e+01 1rec a.39.1.5 60363 2f46A 156 5.42e+01 1b25A 619 5.43e+01 1b25A a.110.1.1,d.152.1.1 19044,41796 1t0fC 54 5.43e+01 1ehiA 377 5.47e+01 1iow c.30.1.2,d.142.1.1 31716,41484 1vf6A 83 5.49e+01 a.194.1.1 100600 2f9fA 177 5.50e+01 1repC 251 5.55e+01 1repC a.4.5.10,a.4.5.10 16125,16126 2g9iA 249 5.61e+01 1s1fA 406 5.66e+01 1w4tA 299 5.70e+01 1gx1A 160 5.70e+01 d.79.5.1 70675 2amdA 311 5.71e+01 1d8wA 426 5.79e+01 1de5A c.1.15.2 29394 1ijqA 316 5.82e+01 1ijqA b.68.5.1,g.3.11.1 62506,62507 1kxlA 199 5.83e+01 b.40.4.3 73155 1vd6A 224 5.87e+01 1wzaA 488 5.90e+01 3c2c 112 5.92e+01 1ycc a.3.1.1 15885 1w8iA 156 6.02e+01 1gk7A 39 6.04e+01 h.1.20.1 70212 2fpqA 444 6.10e+01 1hu3A 260 6.15e+01 1hu3A a.118.1.14 19137 1fc4A 401 6.18e+01 1bs0A c.67.1.4 59760 1k7hA 476 6.19e+01 c.76.1.1 72101 1anf 370 6.23e+01 4mbp c.94.1.1 35776 1z83A 196 6.24e+01 2f2gA 221 6.24e+01 1p7tA 731 6.24e+01 c.1.13.1 94319 1v8bA 479 6.26e+01 1k20A 310 6.27e+01 c.107.1.1 68027 2fmlA 273 6.29e+01 1vkeA 133 6.29e+01 a.152.1.2 108650 1riiA 265 6.30e+01 1gsoA 431 6.30e+01 1gsoA b.84.2.1,c.30.1.1,d.142.1.2 28240,31647,41492 2h7bA 105 6.37e+01 1xgkA 352 6.44e+01 1a6s 87 6.49e+01 1a6s a.61.1.4 18134 1epuA 591 6.50e+01 1dn1A e.25.1.1 43358 1sjdA 368 6.52e+01 c.1.11.2,d.54.1.1 105632,105633 1y0uA 96 6.53e+01 1tig 94 6.53e+01 1tig d.68.1.1 39566 1sw6A 327 6.58e+01 1sw6A d.211.1.1 19176 1k4iA 233 6.67e+01 d.115.1.2 72056 2fh7A 595 6.67e+01 1gnwA 211 6.71e+01 1gnwA a.45.1.1,c.47.1.5 17727,33021 1vemA 516 6.72e+01 2g8jA 339 6.77e+01 2napA 723 6.81e+01 2napA b.52.2.2,c.81.1.1 26926,35334 1ggzA 148 6.83e+01 a.39.1.5 70176 1ufwA 95 6.83e+01 d.58.7.1 99358 1g2rA 100 6.84e+01 1g2rA d.192.1.1 60231 1gl2B 65 6.86e+01 h.1.15.1 65279 1q02A 52 6.91e+01 a.5.2.1 95490 1h16A 759 6.98e+01 c.7.1.1 76462 1p9eA 331 7.02e+01 d.157.1.5 104088 1g2oA 268 7.12e+01 1b8oA c.56.2.1 60228 1khdA 345 7.16e+01 a.46.2.1,c.27.1.1 77400,77401 2b7aA 293 7.20e+01 1tn6A 382 7.26e+01 2fcr 173 7.41e+01 1rcf c.23.5.1 31151 1sfe 180 7.44e+01 1sfe a.4.2.1,c.55.7.1 16073,33748 2cwxA 430 7.45e+01 1vhuA 211 7.52e+01 c.50.1.2 100703 1uxy 340 7.54e+01 2mbr d.145.1.2,d.146.1.1 41748,41761 1iyjB 817 7.63e+01 a.170.1.1,a.171.1.1,b.40.4.3,b.40.4.3,b.40.4.3 76948,76949,76950,76951,76952 1k6iA 352 7.63e+01 c.2.1.2 68223 1xx1A 285 7.64e+01 1sczA 233 7.65e+01 c.43.1.1 98802 1iqcA 308 7.70e+01 a.3.1.5,a.3.1.5 66266,66267 1e6yA 569 7.71e+01 1mroA a.89.1.1,d.58.31.2 18529,39447 2gh1A 301 7.74e+01 2bszA 278 7.83e+01 1kafA 108 7.85e+01 d.199.1.1 68372 1uarA 285 7.86e+01 c.46.1.2,c.46.1.2 107762,107763 1uanA 227 7.90e+01 c.134.1.1 99135 1zaiA 363 7.91e+01 1z0kB 69 7.92e+01 1uj6A 227 7.92e+01 c.124.1.4,d.58.40.1 107898,107899 1xpkC 388 8.01e+01 1hufA 140 8.02e+01 1hufA d.195.1.1 61272 1k7wA 468 8.07e+01 a.127.1.1 72130 1uv0A 149 8.08e+01 d.169.1.1 100028 2d1pB 119 8.14e+01 2bo9B 222 8.16e+01 1zljA 78 8.20e+01 1pbyA 489 8.20e+01 a.3.1.7,a.3.1.7,b.1.18.14,b.1.18.14,b.61.4.1 94417,94418,94419,94420,94421 1in6A 334 8.24e+01 1hqcA a.4.5.11,c.37.1.20 62601,62602 1wteA 272 8.24e+01 2d69A 430 8.26e+01 1nw1A 429 8.26e+01 d.144.1.8 86286 2f1kA 279 8.32e+01 1l8dA 112 8.44e+01 h.4.12.1 73687 1z6uA 150 8.51e+01 2azjA 289 8.54e+01 1atlA 202 8.56e+01 1atlA d.92.1.9 40322 1yzmA 51 8.57e+01 1e87A 118 8.64e+01 1b6e d.169.1.1 42327 1i7hA 111 8.66e+01 d.15.4.1 71122 2bcfA 276 8.73e+01 1mkmA 249 8.76e+01 a.4.5.33,d.110.2.2 79242,79243 1vhcA 224 8.80e+01 c.1.10.1 100661 1vk3A 615 8.86e+01 d.79.4.1,d.79.4.1,d.139.1.1,d.139.1.1 100846,100847,100848,100849 1xpmA 396 8.86e+01 1uok 558 8.87e+01 1uok b.71.1.1,c.1.8.1 27801,28788 2d8aA 348 8.87e+01 1a92A 50 8.93e+01 1a92A h.4.6.1 45791 1tu9A 134 8.97e+01 a.1.1.2 107320