# List of top-scoring protein chains for T0341.t04-w0.5 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 1zjjA 263 1.59e-24 1vjrA 271 1.50e-23 c.108.1.14 100832 1pw5A 253 5.58e-23 c.108.1.14 95199 1yv9A 264 1.69e-22 1ydfA 257 2.71e-22 1ys9A 254 3.91e-22 2c4nA 250 1.62e-21 1wviA 257 1.85e-21 1jud 232 3.93e-21 1qq5A c.108.1.1 43325 1zrn 232 4.52e-21 1qq5A c.108.1.1 43323 2gfhA 260 7.36e-20 1x42A 232 4.43e-19 2fdrA 229 8.48e-19 1te2A 226 2.51e-18 c.108.1.6 106792 2ah5A 210 3.42e-18 1aq6A 253 9.00e-18 1qq5A c.108.1.1 43331 1qq5A 253 9.63e-18 1qq5A c.108.1.1 43327 1o08A 221 1.20e-17 c.108.1.6 86525 1qq7A 253 3.22e-17 1qq5A c.108.1.1 43329 2go7A 207 6.83e-15 1rdfA 267 1.26e-12 c.108.1.3 104884 1rqlA 267 1.49e-12 c.108.1.3 97750 1fezA 256 5.07e-12 1fezA c.108.1.3 43343 2fi1A 190 6.65e-12 1swvA 267 7.44e-12 1qyiA 384 2.04e-11 c.108.1.13 96595 2b0cA 206 9.90e-11 1l7mA 211 5.78e-09 c.108.1.4 73664 1cr6A 554 7.61e-09 1cr6B c.69.1.11,c.108.1.2 34687,43337 1zd3A 555 1.77e-08 1j97A 211 2.27e-08 1f5sA c.108.1.4 62753 1l7pA 211 2.64e-08 c.108.1.4 73670 1wr8A 231 2.61e-07 1nnlA 225 3.71e-05 c.108.1.4 85906 1l8lA 225 4.19e-05 c.108.1.4 84562 1ymqA 261 1.57e-04 1rkqA 282 1.68e-04 c.108.1.10 97621 1u7pA 164 9.66e-04 1nf2A 268 1.75e-03 c.108.1.10 91849 2b8eA 273 2.47e-03 1nrwA 288 2.58e-03 c.108.1.10 86128 2feaA 236 3.06e-03 1zs9A 261 4.80e-03 2g80A 253 5.23e-03 2bdeA 470 6.80e-03 2b30A 301 9.42e-03 1xviA 275 1.97e-02 1l6rA 227 3.17e-02 c.108.1.10 77768 1rlmA 271 3.66e-02 1rkuA 206 5.17e-02 c.108.1.11 97627 1hg3A 225 5.26e-02 1hg3A c.1.1.1 61025 1q92A 197 1.02e-01 c.108.1.8 96250 1z88A 214 1.46e-01 2b82A 211 1.61e-01 1z5gA 214 1.64e-01 1rmtA 212 1.64e-01 1k1eA 180 1.98e-01 c.108.1.5 67995 1rloA 271 2.04e-01 1yj5A 383 2.32e-01 1s2oA 244 2.39e-01 2g09A 297 2.59e-01 1wv2A 265 3.96e-01 2g07A 297 4.79e-01 1z4mA 197 5.97e-01 1wpgA 994 1.47e+00 1wzcA 249 1.77e+00 1gs5A 258 2.07e+00 c.73.1.2 70395 2amyA 246 2.32e+00 1xbtA 193 3.55e+00 1w4rA 195 3.73e+00 1ek6A 348 5.29e+00 1xel c.2.1.2 29800 1hzjA 348 5.35e+00 1xel c.2.1.2 61450 1i3kA 348 5.40e+00 1xel c.2.1.2 61595 1oc2A 348 5.59e+00 c.2.1.2 92765 1ltqA 301 6.46e+00 c.108.1.9,c.37.1.1 78208,78209 1u02A 239 6.56e+00 c.108.1.15 107538 2cvjA 180 7.12e+00 1i2rA 316 7.63e+00 1onrA c.1.10.1 61580 1t33A 224 7.66e+00 a.4.1.9,a.121.1.1 106295,106296 1i2qA 316 8.67e+00 1onrA c.1.10.1 61578 1i2pA 316 8.74e+00 1onrA c.1.10.1 61576 1o1zA 234 8.75e+00 c.1.18.3 86555 1i2oA 316 8.78e+00 1onrA c.1.10.1 61574 2anuA 255 8.96e+00 1onrA 316 9.00e+00 1onrA c.1.10.1 29169 1ucwA 317 9.08e+00 1onrA c.1.10.1 29171 2gbp 309 1.06e+01 1gca c.93.1.1 35657 1kb9B 352 1.07e+01 d.185.1.1,d.185.1.1 77313,77314 1vpe 398 1.11e+01 16pk c.86.1.1 35453 1giiA 298 1.12e+01 d.144.1.7 65218 1pkdA 297 1.18e+01 d.144.1.7 88141 1w98A 298 1.18e+01 1jvpP 298 1.19e+01 d.144.1.7 67371 2cchA 299 1.19e+01 1gz8A 299 1.20e+01 d.144.1.7 83405 1oiuA 302 1.21e+01 d.144.1.7 103958 1i2nA 316 1.23e+01 1onrA c.1.10.1 61572 1h1rA 303 1.24e+01 d.144.1.7 76489 1jr6A 142 1.28e+01 c.37.1.14 71821 1vlpA 441 1.31e+01 d.41.2.2,d.41.2.3 108840,108841 1lrkA 338 1.32e+01 c.2.1.2 74225 1vywA 309 1.33e+01 d.144.1.7 108922 1nb2A 150 1.40e+01 d.58.6.1 85508 1kvu 338 1.40e+01 1xel c.2.1.2 29794 1udb 338 1.45e+01 1xel c.2.1.2 29787 1udc 338 1.46e+01 1xel c.2.1.2 29785 1oitA 299 1.50e+01 d.144.1.7 93075 1a8s 273 1.55e+01 1brt c.69.1.12 34710 1kvs 338 1.56e+01 1xel c.2.1.2 29799 1kvt 338 1.57e+01 1xel c.2.1.2 29798 1a9z 338 1.58e+01 1xel c.2.1.2 29795 1a9y 338 1.59e+01 1xel c.2.1.2 29789 1kvq 338 1.62e+01 1xel c.2.1.2 29797 1kvr 338 1.64e+01 1xel c.2.1.2 29793 1jt2A 268 1.72e+01 c.69.1.2 71858 1j3nA 408 1.78e+01 c.95.1.1,c.95.1.1 84074,84075 1jjfA 268 1.82e+01 c.69.1.2 66765 1nsqA 153 2.02e+01 1npk d.58.6.1 39135 1sauA 115 2.03e+01 1p3jA 217 2.11e+01 c.37.1.1,g.41.2.1 94022,94023 1xm3A 264 2.16e+01 1tygA 253 2.16e+01 c.1.31.1 107454 1y8aA 332 2.17e+01 1dekA 241 2.19e+01 1dekA c.37.1.1 31842 1q6uA 245 2.23e+01 d.26.1.1 95998 2gjlA 328 2.54e+01 1fd9A 213 2.56e+01 1fd9A d.26.1.1 59771 2fueA 262 2.64e+01 2bmuA 226 2.68e+01 1t8pA 267 2.72e+01 c.60.1.1 106667 2briA 225 2.72e+01 1va0A 239 2.81e+01 1rniA 216 2.82e+01 d.264.1.2 97663 1ton 235 2.90e+01 5ptp b.47.1.2 26307 2brxA 244 2.95e+01 1nbaA 264 3.00e+01 1nbaA c.33.1.3 31753 1g7uA 284 3.07e+01 1d9eA c.1.10.4 60334 1w78A 422 3.11e+01 1jw9B 249 3.26e+01 c.111.1.1 67377 1jg1A 235 3.27e+01 c.66.1.7 66661 1jul 248 3.29e+01 1a53 c.1.2.4 28566 1a53 247 3.35e+01 1a53 c.1.2.4 28564 2d69A 430 3.36e+01 1an7A 136 3.45e+01 1seiA d.140.1.1 41465 1fjgH 138 3.54e+01 1seiA d.140.1.1 41468 1va4A 279 3.56e+01 c.69.1.12 108458 1ihiA 323 3.70e+01 c.1.7.1 66142 1j96A 323 3.70e+01 c.1.7.1 71616 1ry8A 323 3.70e+01 1bcpF 99 3.78e+01 1prtF b.40.2.1 25142 1xjbA 325 3.79e+01 1mvoA 136 3.93e+01 c.23.1.1 79513 1p88A 216 3.96e+01 1s1pA 331 3.97e+01 c.1.7.1 98350 1ni9A 338 4.03e+01 e.7.1.2 85739 1mrqA 323 4.04e+01 c.1.7.1 91445 1oaoA 674 4.16e+01 e.26.1.2 86744 1s57A 153 4.18e+01 3gbp 307 4.20e+01 1gca c.93.1.1 35661 1pz1A 333 4.23e+01 c.1.7.1 95390 1zvdA 380 4.38e+01 1gca 309 4.38e+01 1gca c.93.1.1 35659 1vpvA 300 4.50e+01 1xpjA 126 4.58e+01 1uekA 275 4.58e+01 d.14.1.5,d.58.26.5 88483,88484 2fliA 220 4.59e+01 1d7oA 297 4.59e+01 1enp c.2.1.2 29907 1y1uA 585 4.63e+01 2ctzA 421 4.63e+01 1a5iA 265 4.65e+01 5ptp b.47.1.2 26331 1prtF 98 4.77e+01 1prtF b.40.2.1 25140 1b4aA 149 4.84e+01 1b4aA a.4.5.3,d.74.2.1 16088,39721 1smqA 399 4.85e+01 a.25.1.2 105766 1i10A 331 4.88e+01 3ldh c.2.1.5,d.162.1.1 61499,61500 1jk0A 419 4.92e+01 a.25.1.2 63142 1kewA 361 5.01e+01 c.2.1.2 68544 1f9nA 149 5.03e+01 a.4.5.3,d.74.2.1 64990,64991 1mgpA 313 5.14e+01 c.119.1.1 79098 2a1uA 333 5.15e+01 1efvA 315 5.18e+01 1efvA c.26.2.3,c.31.1.2 31633,31728 7taa 478 5.24e+01 7taa b.71.1.1,c.1.8.1 27778,28765 1l2fA 369 5.25e+01 b.40.4.5,d.52.3.1,d.52.3.1,d.202.1.1 91044,91045,91046,91047 1tj7A 457 5.34e+01 1vbjA 281 5.36e+01 1vzwA 244 5.43e+01 1vkiA 181 5.55e+01 d.116.1.1 108664 1j0hA 588 5.56e+01 b.1.18.2,b.71.1.1,c.1.8.1 77027,77028,77029 1j0jA 588 5.56e+01 b.1.18.2,b.71.1.1,c.1.8.1 77039,77040,77041 1fhjA 141 5.58e+01 a.1.1.2 59837 2f7kA 327 5.62e+01 1cwuA 296 5.63e+01 1enp c.2.1.2 29908 1zt2A 330 5.71e+01 1gtvA 214 5.74e+01 c.37.1.1 70537 1w6tA 444 5.76e+01 1smaA 588 5.77e+01 1bvzA b.1.18.2,b.71.1.1,c.1.8.1 21854,27781,28768 1x0lA 333 5.77e+01 1c9wA 315 5.79e+01 1frb c.1.7.1 28699 1eno 312 5.80e+01 1enp c.2.1.2 29905 1pyfA 312 5.89e+01 c.1.7.1 95334 1xx6A 191 5.89e+01 1i94H 138 6.01e+01 1seiA d.140.1.1 61999 1jrcA 311 6.07e+01 c.1.4.1 90906 1ax4A 467 6.15e+01 1ax4A c.67.1.2 34391 1vqoF 120 6.22e+01 1gviA 588 6.23e+01 b.1.18.2,b.71.1.1,c.1.8.1 70604,70605,70606 2c1iA 431 6.25e+01 1uruA 244 6.27e+01 h.4.14.1 99835 1ep0A 185 6.30e+01 1dzrA b.82.1.1 28080 2ajpA 326 6.33e+01 1vp8A 201 6.34e+01 1ro2A 216 6.39e+01 d.264.1.2 97665 1e3oC 160 6.41e+01 1au7A a.4.1.1,a.35.1.1 59197,59198 2c3zA 222 6.45e+01 2xinA 393 6.46e+01 4xis c.1.15.3 29493 1upaA 573 6.47e+01 c.31.1.3,c.36.1.5,c.36.1.9 99714,99715,99716 2gpr 154 6.48e+01 1gpr b.84.3.1 28269 1ou5A 448 6.52e+01 a.173.1.1,d.218.1.4 87445,87446 1xinA 393 6.53e+01 4xis c.1.15.3 29513 1im5A 180 6.53e+01 c.33.1.3 66211 1ly1A 181 6.69e+01 c.37.1.1 74334 1iu9A 111 6.77e+01 c.78.2.1 90694 1qcrB 423 6.77e+01 1be3B d.185.1.1,d.185.1.1 59027,59028 1wndA 495 6.79e+01 1ve2A 235 6.80e+01 1bco 327 6.80e+01 1bco b.48.1.1,c.55.3.3 26431,33676 1lv7A 257 6.87e+01 c.37.1.20 78232 2c1gA 431 7.03e+01 1v6aA 332 7.04e+01 2ctqA 112 7.07e+01 1lhpA 312 7.14e+01 c.72.1.5 77960 1jqxA 311 7.15e+01 c.1.4.1 90902 1ffyA 917 7.15e+01 1qu2A a.27.1.1,b.51.1.1,c.26.1.1 16926,26891,31593 1lc0A 294 7.25e+01 c.2.1.3,d.81.1.4 73823,73824 2ci1A 275 7.27e+01 1gcuA 295 7.30e+01 1gcuA c.2.1.3,d.81.1.4 30063,39978 1f07A 321 7.42e+01 1ezwA c.1.16.3 59560 1lw1A 177 7.55e+01 a.152.1.1 74290 1ps6A 328 7.62e+01 c.77.1.3 95070 1ptmA 329 7.63e+01 c.77.1.3 95104 3xinA 393 7.72e+01 4xis c.1.15.3 29489 1xrlA 293 7.72e+01 1v71A 323 7.74e+01 1efpA 307 7.76e+01 1efvA c.26.2.3,c.31.1.2 31635,31729 1ucnA 152 7.76e+01 d.58.6.1 99183 2c6zA 284 7.82e+01 1ximA 393 7.94e+01 4xis c.1.15.3 29473 1wcxA 261 8.04e+01 2fvlA 324 8.06e+01 1szzA 177 8.07e+01 1w0mA 226 8.07e+01 c.1.1.1 109027 1x9nA 688 8.18e+01 1n08A 163 8.23e+01 b.43.5.1 79730 1mjiA 182 8.30e+01 d.77.1.1 79208 1nthA 458 8.42e+01 c.1.25.1 80730 9ximA 393 8.44e+01 4xis c.1.15.3 29505 1jubA 311 8.46e+01 c.1.4.1 90908 1jueA 311 8.49e+01 c.1.4.1 90910 1zin 217 8.54e+01 1zin c.37.1.1,g.41.2.1 31915,45178 2boaA 404 8.55e+01 1ac5 483 8.58e+01 1ac5 c.69.1.5 34653 1z56C 264 8.63e+01 1w9yA 319 8.64e+01 1qpwA 141 8.66e+01 1abwA a.1.1.2 15390 2dikA 873 8.74e+01 1dik c.1.12.2,c.8.1.1,d.142.1.5 29306,30704,41574 1v1aA 309 8.78e+01 c.72.1.1 100249 1jqvA 311 8.84e+01 c.1.4.1 90900 1dik 874 8.84e+01 1dik c.1.12.2,c.8.1.1,d.142.1.5 29304,30702,41572 2gw8A 114 8.90e+01 1y6hA 177 8.96e+01 2bkxA 242 8.96e+01 1xqwA 293 9.00e+01