# List of top-scoring protein chains for T0286.t2k-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 1jrlA 190 1.90e-22 c.23.10.5 84205 1ivnA 190 5.03e-22 c.23.10.5 83719 1j00A 190 2.09e-21 c.23.10.5 83854 1yzfA 195 6.28e-19 1fxwF 229 1.00e-16 c.23.10.3 65058 1es9A 232 1.44e-14 1wab c.23.10.3 31340 1wab 232 1.46e-14 1wab c.23.10.3 31341 1bwp 233 3.53e-14 1wab c.23.10.3 31342 1bwq 233 4.76e-14 1wab c.23.10.3 31343 1bwr 233 6.35e-14 1wab c.23.10.3 31344 1vjgA 218 2.53e-11 c.23.10.6 100810 1esc 306 1.63e-04 1esc c.23.10.1 31334 1k7cA 233 1.72e-04 c.23.10.4 68267 2f1rA 171 8.86e-01 1wd3A 482 9.35e-01 b.29.1.21,b.42.8.1 109233,109234 1vblA 416 1.01e+00 5ldhA 334 1.14e+00 1gmlA 178 1.28e+00 c.8.5.2 70273 1pzgA 331 1.31e+00 c.2.1.5,d.162.1.1 95425,95426 2ay1A 394 1.35e+00 1ajsA c.67.1.1 34357 2f8mA 244 1.49e+00 2a9vA 212 1.86e+00 1ad1A 266 2.19e+00 1aj2 c.1.21.1 29668 1wcgA 464 2.61e+00 1quuA 250 3.16e+00 1quuA a.7.1.1,a.7.1.1 16320,16321 1twiA 434 3.21e+00 b.49.2.3,c.1.6.1 107399,107400 1tufA 434 3.21e+00 b.49.2.3,c.1.6.1 107335,107336 1odfA 290 3.61e+00 c.37.1.6 92782 1n4aA 252 4.14e+00 c.92.2.2 85317 1rf6A 427 4.16e+00 d.68.2.2 97366 1n2zA 245 4.33e+00 c.92.2.2 79865 1jx7A 117 4.41e+00 c.114.1.1 77195 1hciA 476 4.72e+00 1quuA a.7.1.1,a.7.1.1,a.7.1.1,a.7.1.1 60950,60951,60952,60953 1mabA 510 5.01e+00 1skyB a.69.1.1,b.49.1.1,c.37.1.11 18311,26476,32356 2f43A 510 5.01e+00 1t2fA 333 5.03e+00 c.2.1.5,d.162.1.1 99088,99089 1i0zA 333 5.03e+00 3ldh c.2.1.5,d.162.1.1 61495,61496 1en7A 157 5.17e+00 1en7A a.140.4.1,d.4.1.5 64733,64734 1efrA 510 5.33e+00 1skyB a.69.1.1,b.49.1.1,c.37.1.11 18299,26464,32344 1h8eA 510 5.37e+00 1skyB a.69.1.1,b.49.1.1,c.37.1.11 60738,60739,60740 1vzyA 291 5.67e+00 1fp2A 352 6.36e+00 1fpxA a.4.5.29,c.66.1.12 59941,59942 1tmy 120 6.85e+00 1dbwA c.23.1.1 31083 1u0sY 118 7.01e+00 c.23.1.1 107566 1dxlA 470 7.35e+00 1lvl c.3.1.5,c.3.1.5,d.87.1.1 30585,30586,40214 1sppB 116 8.19e+00 1sfp b.23.1.1 23897 1fn4B 218 8.98e+00 b.1.1.1,b.1.1.2 59886,59887 1ass 159 9.66e+00 1a6dA c.8.5.2 30818 2cbuA 468 9.72e+00 1w1fA 65 9.95e+00 1nar 290 1.02e+01 1nar c.1.8.5 28988 1e7lA 157 1.25e+01 1en7A a.140.4.1,d.4.1.5 64728,64729 1bax 94 1.28e+01 1bax a.61.1.3 18133 1b8gA 429 1.33e+01 1b8gA c.67.1.4 34499 1m7yA 435 1.35e+01 c.67.1.4 78761 1svcP 365 1.35e+01 1a3qA b.1.18.1,b.2.5.3 21924,22443 1i1qA 520 1.36e+01 1qdlA d.161.1.1 61543 1ynuA 473 1.50e+01 1q3qA 548 1.50e+01 a.129.1.2,c.8.5.2,d.56.1.2 95704,95705,95706 1q3rA 548 1.51e+01 a.129.1.2,c.8.5.2,d.56.1.2 95716,95717,95718 1knwA 425 1.51e+01 b.49.2.3,c.1.6.1 90969,90970 2c6cA 707 1.54e+01 1z8lA 695 1.55e+01 1ooaA 326 1.57e+01 b.1.18.1,b.2.5.3 87192,87193 1q3sA 548 1.61e+01 a.129.1.2,c.8.5.2,d.56.1.2 95728,95729,95730 1pwhA 327 1.64e+01 c.79.1.1 95224 1srrA 124 1.64e+01 1dz3A c.23.1.1 31110 1c3rA 375 1.66e+01 1c3pA c.42.1.2 32607 1c3pA 375 1.70e+01 1c3pA c.42.1.2 32606 1zhiA 225 1.70e+01 1djlA 207 1.71e+01 1d4oA c.31.1.4 31746 1zmbA 290 1.75e+01 1leiB 313 1.84e+01 b.1.18.1,b.2.5.3 84601,84602 1j08A 226 1.84e+01 c.47.1.2,c.47.1.2 83855,83856 1vkxB 312 1.90e+01 1a3qA b.1.18.1,b.2.5.3 21931,22446 1m4zA 238 1.90e+01 b.34.12.1 78630 1nfkA 325 1.94e+01 1a3qA b.1.18.1,b.2.5.3 21929,22444 1qg0A 308 1.94e+01 1fnc b.43.4.2,c.25.1.1 25639,31529 1qfzA 308 1.94e+01 1fnc b.43.4.2,c.25.1.1 25633,31523 1qgaA 308 1.94e+01 1fnc b.43.4.2,c.25.1.1 25637,31527 1h9uA 224 1.95e+01 a.123.1.1 70923 1p88A 216 1.96e+01 1f51E 119 1.96e+01 1dz3A c.23.1.1 31114 1r86A 379 2.02e+01 1uhlA 236 2.09e+01 a.123.1.1 107849 1uj6A 227 2.11e+01 c.124.1.4,d.58.40.1 107898,107899 2afyX 286 2.14e+01 1xzc 214 2.18e+01 1cex c.69.1.30 31298 2aijX 286 2.18e+01 2aiiX 286 2.21e+01 1m7bA 184 2.24e+01 c.37.1.8 74572 1tuvA 114 2.27e+01 1gwnA 205 2.29e+01 c.37.1.8 70672 1d4oA 184 2.30e+01 1d4oA c.31.1.4 31748 1r6yA 115 2.33e+01 1nat 124 2.33e+01 1dz3A c.23.1.1 31113 1mi4A 427 2.35e+01 d.68.2.2 79141 1og0A 370 2.35e+01 c.1.10.4 92854 1of8A 370 2.36e+01 c.1.10.4 92819 1z70X 311 2.37e+01 1fizA 263 2.43e+01 5ptp 1ki9A 192 2.49e+01 c.37.1.1 84404 1h1dA 221 2.50e+01 c.66.1.1 83452 1s1hC 192 2.59e+01 i.1.1.1 105156 2gm2A 132 2.60e+01 1e96A 192 2.65e+01 1ctqA c.37.1.8 32007 1dz3A 130 2.72e+01 1dz3A c.23.1.1 31105 1v6aA 332 2.72e+01 1i4tD 192 2.76e+01 c.37.1.8 61731 1zbxA 219 2.89e+01 1rpnA 335 2.98e+01 c.2.1.2 97708 1iukA 140 3.03e+01 c.2.1.8 83712 1xkuA 330 3.05e+01 1xecA 329 3.05e+01 1v7bA 185 3.25e+01 1bsg 266 3.25e+01 1btl e.3.1.1 42729 1peqA 714 3.27e+01 a.98.1.1,c.7.1.2 104131,104132 3tatA 397 3.29e+01 1ajsA c.67.1.1 34379 1f3rB 257 3.30e+01 1f3rB b.1.1.1,b.1.1.1 20416,20417 1oruA 195 3.35e+01 b.58.1.2 93464 1uxgA 309 3.43e+01 c.2.1.5,d.162.1.1 108100,108101 1ecfA 504 3.44e+01 1ecfB c.61.1.1,d.153.1.1 34053,41820 1ur5A 309 3.51e+01 c.2.1.5,d.162.1.1 99807,99808 1q36A 427 3.53e+01 d.68.2.2 95662 1g6sA 427 3.58e+01 1eps d.68.2.2 39584 1xesA 413 3.63e+01 1eps 427 3.64e+01 1eps d.68.2.2 39586 1b5tA 275 3.65e+01 1b5tA c.1.23.1 29676 1um8A 376 3.68e+01 c.37.1.20 99580 1zh2A 121 3.69e+01 2bg5A 324 3.70e+01 1tn6A 382 3.73e+01 2bnh 457 3.74e+01 1a4yA c.10.1.1 30850 1uxjA 309 3.75e+01 c.2.1.5,d.162.1.1 108112,108113 1u0uA 397 3.80e+01 1dqdH 222 3.86e+01 1igtB b.1.1.1,b.1.1.2 20441,21407 1uxkA 309 3.87e+01 c.2.1.5,d.162.1.1 108116,108117 2fmnA 304 3.92e+01 1he1C 176 3.99e+01 1ctqA c.37.1.8 32003 1zp3A 304 4.01e+01 1cuj 214 4.03e+01 1cex c.69.1.30 31294 1foeB 177 4.12e+01 c.37.1.8 32008 1i4dD 192 4.15e+01 1ctqA c.37.1.8 61684 1jr5A 90 4.15e+01 a.150.1.1 67113 1sm4A 296 4.16e+01 b.43.4.2,c.25.1.1 98913,98914 1o1hA 387 4.19e+01 c.1.15.3 81044 1d6nA 214 4.19e+01 1qk3A c.61.1.1 34077 1cui 214 4.19e+01 1cex c.69.1.30 31323 1mnzA 388 4.21e+01 c.1.15.3 79328 1oadA 388 4.28e+01 c.1.15.3 81253 1gw9A 388 4.28e+01 c.1.15.3 70658 1a4sA 503 4.36e+01 1bpwA c.82.1.1 35361 1zp4A 304 4.50e+01 1frn 314 4.51e+01 1fnc b.43.4.2,c.25.1.1 25631,31521 1wsaA 330 4.51e+01 4pgaA c.88.1.1 35558 1uosB 126 4.55e+01 1mr7A 209 4.57e+01 b.81.1.3 91430 1o8oA 167 4.61e+01 c.57.1.1 92646 1xqbA 247 4.71e+01 1bx1A 314 4.72e+01 1fnc b.43.4.2,c.25.1.1 25629,31519 1xzf 214 4.72e+01 1cex c.69.1.30 31291 1frqA 314 4.72e+01 1fnc b.43.4.2,c.25.1.1 25632,31522 1bx0A 314 4.73e+01 1fnc b.43.4.2,c.25.1.1 25630,31520 2bfgA 503 4.84e+01 1wckA 220 4.88e+01 1xzg 214 4.89e+01 1cex c.69.1.30 31292 1fnd 314 4.92e+01 1fnc b.43.4.2,c.25.1.1 25626,31516 1r85A 379 4.95e+01 c.1.8.3 104839 1z7gA 217 4.96e+01 1a04A 215 5.13e+01 1a04A a.4.6.2,c.23.1.1 16234,31089 1cub 214 5.34e+01 1cex c.69.1.30 31304 1cua 214 5.34e+01 1cex c.69.1.30 31313 1w91A 503 5.39e+01 1cue 197 5.40e+01 1cex c.69.1.30 31322 1zz1A 369 5.41e+01 1cuy 214 5.44e+01 1cex c.69.1.30 31302 2bs9A 503 5.52e+01 2a9bA 372 5.54e+01 1cex 214 5.56e+01 1cex c.69.1.30 31285 2c2xA 281 5.56e+01 2a9aA 372 5.56e+01 1cuh 214 5.58e+01 1cex c.69.1.30 31311 1umrC 125 5.59e+01 d.169.1.1 99628 1cug 214 5.66e+01 1cex c.69.1.30 31308 1xzl 214 5.67e+01 1cex c.69.1.30 31295 1cuu 214 5.68e+01 1cex c.69.1.30 31309 1xzd 214 5.70e+01 1cex c.69.1.30 31321 2cut 198 5.73e+01 1cex c.69.1.30 31315 1cus 200 5.80e+01 1cex c.69.1.30 31287 1cs0A 1073 5.82e+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 1cuf 214 5.87e+01 1cex c.69.1.30 31301 2bl4A 392 5.91e+01 1inlA 296 5.95e+01 c.66.1.17 66220 1pqwA 198 5.96e+01 c.2.1.1 88278 1z7mE 208 5.97e+01 2a9dA 372 5.99e+01 1m6vA 1073 6.08e+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 74536,74537,74538,74539,74540,74541 1zq1A 438 6.13e+01 2apjA 260 6.19e+01 1soxA 466 6.20e+01 1soxA b.1.18.6,d.120.1.1,d.176.1.1 21947,41090,42563 1agy 200 6.24e+01 1cex c.69.1.30 31286 1nhyA 219 6.27e+01 a.45.1.1,c.47.1.5 80520,80521 1rrmA 386 6.31e+01 e.22.1.2 105081 1a9xA 1073 6.35e+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 1yoo 396 6.43e+01 1ajsA c.67.1.1 34295 1h7xA 1025 6.47e+01 1h7wA a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 15687,28632,30328,30613,39011 1gteA 1025 6.47e+01 a.1.2.2,c.1.4.1,c.3.1.1,c.4.1.1,d.58.1.5 70440,70441,70442,70443,70444 1p3wA 404 6.62e+01 c.67.1.3 87752 1iy9A 275 6.67e+01 c.66.1.17 76943 1k0hA 117 6.71e+01 b.106.1.2 71975 1y56A 493 6.71e+01 1czeA 396 6.76e+01 1ajsA c.67.1.1 34301 1hp7A 394 6.89e+01 1ovaA e.1.1.1 61117 1mffA 114 6.91e+01 1dptA d.80.1.3 39859 1cuz 214 6.91e+01 1cex c.69.1.30 31314 1po0A 751 6.94e+01 f.4.3.3 94960 1ztwA 255 6.97e+01 1qi9A 556 6.97e+01 1qhbA a.111.1.2 19053 1nndA 255 6.97e+01 e.8.1.2 92002 6xia 387 7.01e+01 4xis c.1.15.3 29406 1i6jA 256 7.04e+01 e.8.1.2 61845 1mkiA 330 7.10e+01 e.3.1.2 84994 1din 236 7.12e+01 1din c.69.1.9 34682 1z5xU 262 7.13e+01 1x99A 145 7.15e+01 2c72A 520 7.19e+01 2b35A 269 7.22e+01 1s3eA 520 7.23e+01 c.3.1.2,d.16.1.5 98426,98427 1qajA 259 7.24e+01 1mml e.8.1.2 43016 1mh1 186 7.25e+01 1eesA c.37.1.8 32002 1bvrA 268 7.27e+01 1eny c.2.1.2 29913 2c76A 520 7.27e+01 1eny 268 7.31e+01 1eny c.2.1.2 29910 2c75A 520 7.33e+01 2c73A 520 7.33e+01 1kmoA 774 7.35e+01 f.4.3.3 72753 1j4aA 333 7.53e+01 c.2.1.4,c.23.12.1 71502,71503 1mml 265 7.60e+01 1mml e.8.1.2 43015 1hh4A 192 7.62e+01 c.37.1.8 61037 2bk5A 520 7.68e+01 1hxmA 229 7.69e+01 1hxmA b.1.1.1,b.1.1.2 61367,61368 1mfiA 114 7.70e+01 1dptA d.80.1.3 39856 1hjqA 332 7.74e+01 c.1.8.3 83491 1g4uR 184 7.77e+01 1ctqA c.37.1.8 32005 1s8nA 205 7.84e+01 c.23.1.1 105374 1tjyA 316 7.84e+01 c.93.1.1 107062 1j49A 333 7.95e+01 c.2.1.4,c.23.12.1 71498,71499 1ezfA 340 8.10e+01 1ezfA a.128.1.2 19440 1xzj 214 8.10e+01 1cex c.69.1.30 31299 2av8A 340 8.11e+01 1xikA a.25.1.2 16792 1h80A 464 8.20e+01 b.80.1.8 65714 1a6dA 545 8.28e+01 1a6dA a.129.1.2,c.8.5.2,d.56.1.2 19488,30819,38936 1ggvA 232 8.30e+01 1din c.69.1.9 34683 1v04A 355 8.35e+01 b.68.6.2 100240 1pfrA 340 8.36e+01 1xikA a.25.1.2 16790 1ziyA 236 8.41e+01 2alxA 340 8.46e+01 1av8A 340 8.48e+01 1xikA a.25.1.2 16796 2gc9A 179 8.49e+01 2ap9A 299 8.52e+01 1rsrA 375 8.70e+01 a.25.1.2 97815 1biqA 375 8.76e+01 1xikA a.25.1.2 16786 1kct 394 8.77e+01 1ovaA e.1.1.1 42637 1pw5A 253 8.90e+01 c.108.1.14 95199 1uacH 114 8.97e+01 b.1.1.1 99132