# 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 1fp1D 372 1.57e-01 1fpqA a.4.5.29,c.66.1.12 59939,59940 1atg 231 3.21e-01 1atg c.94.1.1 35834 1i6wA 181 8.86e-01 1i6wA c.69.1.18 61859 1ispA 181 1.01e+00 c.69.1.18 76778 1cydA 244 1.18e+00 1cydA c.2.1.2 29825 2f9sA 151 1.97e+00 1p9qC 256 2.39e+00 a.5.8.1,d.235.1.2,d.58.11.3 104093,104094,104095 1vjvA 415 2.47e+00 d.3.1.9 108632 1u0sA 86 2.57e+00 d.58.24.1 107565 1tib 269 2.58e+00 3tgl c.69.1.17 34738 1zghA 260 2.66e+00 2a10A 125 2.70e+00 1xg9A 260 2.72e+00 1sxgA 280 2.77e+00 1xocA 520 2.92e+00 1xkqA 280 3.24e+00 1g6oA 330 3.32e+00 1g6oA c.37.1.11 32430 1t6nA 220 4.16e+00 c.37.1.19 106576 2g6tA 306 4.53e+00 1amf 233 4.94e+00 1wod c.94.1.1 35833 1st9A 143 5.47e+00 c.47.1.10 98987 1es9A 232 5.70e+00 1wab c.23.10.3 31340 1t95A 240 5.75e+00 a.5.8.1,d.235.1.2,d.58.11.3 106705,106706,106707 1z5nA 242 5.86e+00 1wod 233 5.96e+00 1wod c.94.1.1 35832 1h4vB 421 6.11e+00 1adjA c.51.1.1,d.104.1.1 60624,60625 1pbjA 125 6.11e+00 d.37.1.1,d.37.1.1 94414,94415 1k87A 669 6.15e+00 a.176.1.1,c.1.23.2 77286,77287 2g0wA 296 6.19e+00 1gt6A 269 6.19e+00 c.69.1.17 76342 2a9fA 398 6.25e+00 1qlmA 316 6.27e+00 1qlmA d.147.1.1 41765 1rg9A 383 6.57e+00 d.130.1.1,d.130.1.1,d.130.1.1 97427,97428,97429 1elqA 390 6.73e+00 1elqA c.67.1.3 34436 2cg4A 152 6.75e+00 1eluA 390 6.75e+00 1elqA c.67.1.3 34434 1z5oA 242 7.15e+00 1vjrA 271 7.19e+00 c.108.1.14 100832 1xhlA 297 7.35e+00 c.2.1.2 109591 1qtqA 553 7.54e+00 1gtrA b.53.1.2,c.26.1.1 26940,31579 1xu9A 286 7.70e+00 1xseA 295 8.16e+00 1wekA 217 8.31e+00 1pdo 135 8.79e+00 1pdo c.54.1.1 33376 1k68A 140 1.04e+01 c.23.1.1 90943 1zavA 180 1.09e+01 2f4iA 197 1.12e+01 1tzbA 302 1.14e+01 c.80.1.1 107470 2bkkA 264 1.14e+01 1x9iA 302 1.16e+01 2b4vA 468 1.17e+01 1wab 232 1.19e+01 1wab c.23.10.3 31341 1luaA 287 1.20e+01 c.2.1.7,c.58.1.4 78216,78217 1nh8A 304 1.21e+01 c.94.1.1,d.58.5.3 80507,80508 1spxA 278 1.24e+01 c.2.1.2 98958 1whvA 100 1.25e+01 1iugA 352 1.32e+01 c.67.1.3 90699 2g40A 224 1.41e+01 1v25A 541 1.41e+01 e.23.1.1 108275 1fxlA 167 1.47e+01 1b7fA d.58.7.1,d.58.7.1 39183,39184 2c2xA 281 1.47e+01 1o4sA 389 1.49e+01 c.67.1.1 86620 1zn6A 227 1.50e+01 1cznA 169 1.52e+01 1rcf c.23.5.1 31181 1qu9A 128 1.54e+01 1qu9A d.79.1.1 39755 2a3nA 355 1.54e+01 1sc3A 178 1.54e+01 c.17.1.1 105416 1rwxA 178 1.55e+01 2ck3D 482 1.56e+01 1qwkA 317 1.56e+01 c.1.7.1 96482 1w3iA 293 1.64e+01 c.1.10.1 109152 1uarA 285 1.64e+01 c.46.1.2,c.46.1.2 107762,107763 1jetA 517 1.65e+01 1jevA c.94.1.1 35718 1p6xA 334 1.66e+01 c.37.1.1 94195 1riqA 465 1.66e+01 a.203.1.1,d.104.1.1 97516,97517 1lm6A 215 1.68e+01 d.167.1.1 84628 1ei6A 406 1.70e+01 c.76.1.4 90443 1usyA 275 1.73e+01 1u5tB 169 1.73e+01 a.4.5.54,a.4.5.54 107686,107687 1wdjA 187 1.77e+01 1bmqA 167 1.79e+01 1pauA c.17.1.1 30998 1onrA 316 1.83e+01 1onrA c.1.10.1 29169 1tqyB 415 1.84e+01 c.95.1.1,c.95.1.1 107247,107248 1obbA 480 1.85e+01 c.2.1.5,d.162.1.2 86760,86761 1t5hX 504 1.86e+01 e.23.1.1 106449 1jysA 242 1.87e+01 c.56.2.1 77216 2ew2A 316 1.93e+01 1v72A 356 1.98e+01 1pinA 163 1.98e+01 1pinA b.72.1.1,d.26.1.1 27802,38431 1tca 317 1.99e+01 1tca c.69.1.17 34726 2a2fX 325 2.00e+01 1odfA 290 2.00e+01 c.37.1.6 92782 1el5A 389 2.00e+01 1b3mA c.3.1.2,d.16.1.3 30369,37937 1wmaA 276 2.00e+01 1l0wA 580 2.01e+01 b.40.4.1,d.74.4.1,d.104.1.1 73426,73427,73428 1x1oA 286 2.01e+01 1o20A 427 2.07e+01 c.82.1.1 86556 1bgvA 449 2.09e+01 1k89 c.2.1.7,c.58.1.1 30217,33865 1aa6 715 2.15e+01 2napA b.52.2.2,c.81.1.1 26916,35324 2g8lA 299 2.15e+01 1kvkA 395 2.17e+01 d.14.1.5,d.58.26.3 73060,73061 1x0pA 143 2.18e+01 1hrdA 449 2.19e+01 1k89 c.2.1.7,c.58.1.1 30219,33867 1j5xA 342 2.20e+01 c.80.1.1 71591 1m8jA 181 2.22e+01 c.26.1.3 84875 1z2aA 168 2.23e+01 1wr8A 231 2.25e+01 2b18A 164 2.28e+01 1a4sA 503 2.29e+01 1bpwA c.82.1.1 35361 1zzmA 259 2.30e+01 1i2oA 316 2.36e+01 1onrA c.1.10.1 61574 1lssA 140 2.36e+01 c.2.1.9 74246 1dgaA 375 2.38e+01 1yagA 2olbA 517 2.39e+01 1jevA c.94.1.1 35721 1khbA 625 2.39e+01 c.91.1.1,c.109.1.1 68606,68607 1hrhA 136 2.40e+01 1rthA c.55.3.1 33577 1wohA 305 2.40e+01 c.42.1.1 109446 1r5jA 337 2.40e+01 c.77.1.5 97097 1ccwA 137 2.45e+01 1be1 c.23.6.1 31238 1ej2A 181 2.49e+01 1f9aA c.26.1.3 59414 1oi7A 288 2.50e+01 c.2.1.8,c.23.4.1 87049,87050 1q9uA 130 2.56e+01 d.129.7.1 96314 1o60A 292 2.57e+01 c.1.10.4 92532 1rcuA 195 2.58e+01 c.129.1.1 97295 1ys7A 233 2.59e+01 1jx4A 352 2.62e+01 d.240.1.1,e.8.1.7 90378,90379 2fkiA 126 2.69e+01 1c25 161 2.77e+01 1c25 c.46.1.1 32698 1hwxA 501 2.78e+01 1hwyA c.2.1.7,c.58.1.1 30250,33898 1mb3A 124 2.79e+01 c.23.1.1 78907 2b33A 140 2.79e+01 1u20A 212 2.80e+01 1rzrA 332 2.81e+01 1yw3A 208 2.86e+01 1d4xA 375 2.86e+01 1yagA c.55.1.1,c.55.1.1 59107,59108 1js3A 486 2.92e+01 c.67.1.6 67215 1dd9A 338 3.00e+01 1dd9A e.13.1.1 43254 1yqgA 263 3.02e+01 1mvwB 145 3.04e+01 i.15.1.1 79524 1jq5A 370 3.10e+01 e.22.1.2 67084 1yfsA 465 3.11e+01 1ak5 503 3.12e+01 1ak5 c.1.5.1 28639 1e79D 482 3.12e+01 1skyE a.69.1.1,b.49.1.1,c.37.1.11 18272,26437,32317 1vknA 351 3.23e+01 c.2.1.3,d.81.1.1 108676,108677 1mo9A 523 3.27e+01 c.3.1.5,c.3.1.5,d.87.1.1 79341,79342,79343 1t9bA 677 3.36e+01 1ad4A 266 3.38e+01 1aj2 c.1.21.1 29670 1ww8A 439 3.40e+01 2a2dA 478 3.41e+01 1r89A 437 3.60e+01 a.160.1.3,d.218.1.7,d.58.16.2 97221,97222,97223 1ywqA 200 3.61e+01 1x92A 199 3.64e+01 1cjwA 166 3.64e+01 1cjwA d.108.1.1 40818 1txnA 328 3.64e+01 2ahqA 76 3.65e+01 2c5uA 375 3.69e+01 1h8eD 482 3.71e+01 1skyE a.69.1.1,b.49.1.1,c.37.1.11 60747,60748,60749 1wxxA 382 3.71e+01 1ad1A 266 3.73e+01 1aj2 c.1.21.1 29668 1iz0A 302 3.74e+01 b.35.1.2,c.2.1.1 83821,83822 1sbyA 254 3.80e+01 2a2cA 478 3.87e+01 1cs0A 1073 3.88e+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 1y5mA 276 3.92e+01 1nox 205 3.95e+01 1nox d.90.1.1 40242 1vggA 161 3.96e+01 1u02A 239 3.98e+01 c.108.1.15 107538 1z63A 500 4.03e+01 1z5zA 271 4.04e+01 1b16A 254 4.09e+01 1b16A c.2.1.2 29875 1me8A 503 4.16e+01 c.1.5.1 79028 1kk8B 139 4.17e+01 a.39.1.5 77430 1jztA 246 4.21e+01 c.104.1.1 63319 2bwrA 401 4.21e+01 1f06A 320 4.23e+01 1dapA c.2.1.3,d.81.1.3 59556,59557 1pvtA 238 4.27e+01 c.74.1.1 95189 1nonA 179 4.34e+01 c.61.1.1 103868 1pyoA 167 4.35e+01 c.17.1.1 95370 1h2eA 207 4.37e+01 c.60.1.1 70857 1zdrA 164 4.37e+01 1t6aA 126 4.37e+01 d.129.8.1 106555 1yasA 257 4.39e+01 1qj4A c.69.1.20 34801 2mnr 357 4.46e+01 2mnr c.1.11.2,d.54.1.1 29245,38889 1qx2A 76 4.48e+01 a.39.1.1 104622 1cvl 319 4.50e+01 1cvl c.69.1.18 34786 1tk1A 260 4.55e+01 d.248.1.1 107066 1wvfA 520 4.60e+01 1k9uA 78 4.62e+01 a.39.1.10 84348 1tbxA 99 4.62e+01 a.4.5.48 106748 1cpt 412 4.66e+01 1cpt a.104.1.1 18968 1sheA 103 4.67e+01 d.274.1.1 105551 1vhh 162 4.70e+01 1vhh d.65.1.2 39550 1qd9A 124 4.75e+01 1qu9A d.79.1.1 39758 1mdl 359 4.80e+01 2mnr c.1.11.2,d.54.1.1 29247,38891 1hr6A 475 4.81e+01 1hr6A d.185.1.1,d.185.1.1 61164,61165 2aieP 203 4.82e+01 1k0hA 117 4.83e+01 b.106.1.2 71975 1nnwA 252 4.92e+01 d.159.1.5 80674 1z6aA 500 4.96e+01 1ga6A 372 4.99e+01 1ga1A c.41.1.2 32556 1rkqA 282 5.03e+01 c.108.1.10 97621 1ii5A 233 5.08e+01 c.94.1.1 62412 2bnjA 303 5.13e+01 1uhnA 189 5.14e+01 a.39.1.5 99399 2c3zA 222 5.15e+01 2b9wA 424 5.22e+01 1vj0A 380 5.23e+01 b.35.1.2,c.2.1.1 100786,100787 1g57A 217 5.27e+01 1g57A d.115.1.2 60253 1vecA 206 5.31e+01 c.37.1.19 100575 1i1wA 303 5.33e+01 c.1.8.3 76732 1q2lA 939 5.36e+01 1zlqA 502 5.38e+01 1ylqA 96 5.40e+01 1i3cA 149 5.41e+01 c.23.1.1 71112 1mho 88 5.41e+01 1b4cA a.39.1.2 17171 1j6zA 376 5.44e+01 1yagA c.55.1.1,c.55.1.1 62667,62668 1zsyA 357 5.45e+01 2gdqA 382 5.55e+01 1o4uA 285 5.59e+01 c.1.17.1,d.41.2.1 86624,86625 1vioA 243 5.59e+01 d.265.1.3,d.66.1.5 100762,100763 2cx5A 158 5.65e+01 2be3A 226 5.68e+01 1u2xA 474 5.70e+01 c.72.1.3 107622 1x6mA 196 5.73e+01 1j0aA 325 5.82e+01 c.79.1.1 83871 2fxuA 375 6.00e+01 1gu4A 78 6.01e+01 h.1.3.1 83317 1qj4A 257 6.01e+01 1qj4A c.69.1.20 34796 1a9xA 1058 6.06e+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 1neeA 138 6.12e+01 d.241.1.1,g.59.1.1 91841,91842 1xmrA 243 6.14e+01 1yt8A 539 6.22e+01 1uu1A 335 6.32e+01 c.67.1.1 99993 1s95A 333 6.35e+01 d.159.1.3 105375 1zvdA 380 6.39e+01 1uirA 314 6.42e+01 c.66.1.17 99429 1bg2 325 6.44e+01 1bg2 c.37.1.9 32189 1wuaA 375 6.49e+01 1hu4A 288 6.50e+01 1hu4A 1mzhA 225 6.51e+01 c.1.10.1 79698 1xwyA 264 6.51e+01 1ct9A 553 6.51e+01 1ct9A c.26.2.1,d.153.1.1 31616,41834 1e42A 258 6.53e+01 1e42A b.1.10.1,d.105.1.1 22316,40792 2ajrA 331 6.55e+01 2bvfA 459 6.64e+01 1mvoA 136 6.67e+01 c.23.1.1 79513 2bkrA 212 6.70e+01 1xzoA 174 6.71e+01 1j79A 347 6.75e+01 1j79A c.1.9.4 62675 1qz5A 375 6.75e+01 c.55.1.1,c.55.1.1 96614,96615 2f1rA 171 6.75e+01 1fsiA 189 6.77e+01 1fsiA d.61.1.1 39536 1i19A 561 6.93e+01 1i19A d.58.32.3,d.145.1.1 61522,61523 2a5yB 549 6.95e+01 1gtdA 85 6.98e+01 d.284.1.1 76344 1ogsA 497 6.99e+01 b.71.1.2,c.1.8.3 86997,86998 1j7lA 264 7.03e+01 d.144.1.6 62697 1zetA 388 7.03e+01 1o5kA 306 7.04e+01 c.1.10.1 92504 1nfp 228 7.06e+01 1nfp c.1.16.2 29555 1ztdA 133 7.06e+01 1n5dA 288 7.08e+01 c.2.1.2 80030 1y9uA 323 7.22e+01 1c7qA 445 7.27e+01 2pgi c.80.1.2 35307 1tikA 213 7.27e+01 c.23.5.3 107003 1oacA 727 7.28e+01 1oacA b.30.2.1,d.17.2.1,d.17.2.1,d.82.1.1 24390,38007,38008,40003 1pzlA 237 7.29e+01 a.123.1.1 104393 1efm 393 7.39e+01 1efcA c.37.1.8 64732 1wdcB 156 7.39e+01 1wdcB a.39.1.5 17302 1adjA 421 7.49e+01 1adjA c.51.1.1,d.104.1.1 33188,40737 2fb1A 226 7.49e+01 1cjcA 460 7.49e+01 1cjcA c.3.1.1,c.4.1.1 30319,30604 1j3mA 129 7.51e+01 d.129.7.1 103836 2d13A 227 7.54e+01 1dcfA 136 7.56e+01 1dcfA c.23.1.2 31124 1st0A 337 7.60e+01 d.13.1.3,d.246.1.1 98979,98980 1ej5A 107 7.62e+01 1ej5A a.68.1.1 18268 1w6vA 141 7.67e+01 2au3A 407 7.70e+01 2g30A 258 7.74e+01 1vjtA 483 7.75e+01 c.2.1.5,d.162.1.2 100833,100834 1fxkB 109 7.85e+01 1fxkA a.2.5.1 15704 1ylhA 560 7.89e+01 1orvA 728 8.02e+01 b.70.3.1,c.69.1.24 87354,87355 1uiuA 502 8.07e+01 c.94.1.1 99434 1j1uA 306 8.09e+01 c.26.1.1 83980 1mgtA 174 8.14e+01 1mgtA a.4.2.1,c.55.7.1 16078,33753 1uzmA 247 8.16e+01 1wy9A 147 8.16e+01 1a53 247 8.16e+01 1a53 c.1.2.4 28564 2fokA 579 8.19e+01 2fokA a.4.5.12,a.4.5.12,a.4.5.12,c.52.1.12 16131,16132,16133,33323 1w9hA 427 8.23e+01 1gyxA 76 8.27e+01 d.80.1.1 76387 1o8uA 257 8.28e+01 c.14.1.3 81194 2dcnA 311 8.31e+01 1gx4A 289 8.31e+01 c.68.1.9 83362 1j2gA 319 8.36e+01 d.96.1.4,d.96.1.4,d.96.1.4,d.96.1.4,d.96.1.4 103824,103825,103826,103827,103828 2g0qA 173 8.38e+01 1o7qA 289 8.40e+01 c.68.1.9 92626 2arkA 188 8.40e+01 2bduA 297 8.42e+01 2cvlA 124 8.49e+01 1hl2A 297 8.52e+01 c.1.10.1 83581 1aisA 182 8.53e+01 1ytbA d.129.1.1,d.129.1.1 41288,41289 1v6zA 228 8.53e+01 1rkuA 206 8.61e+01 c.108.1.11 97627 1cipA 353 8.64e+01 1cipA a.66.1.1,c.37.1.8 18210,32093 1gnuA 117 8.72e+01 d.15.1.3 65403 3pmgA 561 8.75e+01 3pmgA c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 35408,35409,35410,41301 1ec7A 446 8.77e+01 1bqg c.1.11.2,d.54.1.1 29218,38862 2f8mA 244 8.81e+01 1t5iA 172 8.83e+01 c.37.1.19 106450 2cw6A 298 8.87e+01 1pjcA 361 8.94e+01 1sayA c.2.1.4,c.23.12.2 30101,31361 1zjkA 403 8.99e+01