# List of top-scoring protein chains for t06-100-30-dssp-ehl2-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 2bptA 861 8.18e-27 1b3uA 588 7.36e-03 1b3uA a.118.1.2 19135 1xqsA 280 2.42e-02 1xqrA 296 3.02e-02 1e7uA 961 5.51e-02 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19147,23182,37630,41710 1a8rA 221 2.87e-01 1a8rA d.96.1.1 40587 1cb8A 678 4.77e-01 1cb8A a.102.3.2,b.24.1.1,b.30.5.2 18849,23898,24422 1lrv 244 7.41e-01 1lrv a.118.1.5 19146 1e8yA 966 8.28e-01 1e8xA a.118.1.6,b.7.1.1,d.15.1.5,d.144.1.4 19152,23187,37635,41715 1eyhA 144 1.03e+00 1eduA a.118.9.1 19214 2awiA 317 1.07e+00 1wkbA 810 1.20e+00 2bkkA 264 1.30e+00 1wa5B 530 1.60e+00 1ihbA 162 1.62e+00 1bd8 d.211.1.1 19161 1vmaA 306 1.66e+00 a.24.13.1,c.37.1.10 108887,108888 1z5hA 780 1.83e+00 1nekC 129 2.00e+00 f.21.2.2 80431 1ee4A 423 2.26e+00 1ee4A a.118.1.1 19128 1rtwA 220 2.35e+00 a.132.1.3 97823 2axtB 510 2.93e+00 1td6A 306 3.18e+00 1rxwA 336 3.98e+00 a.60.7.1,c.120.1.2 98059,98060 1rqjA 299 4.13e+00 a.128.1.1 97744 1ux5A 411 4.45e+00 a.207.1.1 100144 1tuaA 191 4.69e+00 d.51.1.1,d.51.1.1 107321,107322 1v54A 514 5.05e+00 f.24.1.1 100321 1xnfA 275 5.10e+00 2bmaA 470 5.33e+00 1bbhA 131 5.40e+00 1bbhA a.24.3.2 16546 2b5dX 528 5.46e+00 1ie9A 259 5.69e+00 1db1A a.123.1.1 62318 1lehA 364 5.87e+00 1bw9A c.2.1.7,c.58.1.1 30268,33916 1rq2A 382 5.90e+00 c.32.1.1,d.79.2.1 105048,105049 1h54A 754 6.01e+00 a.102.1.4,b.30.5.3 60634,60635 1vrbA 342 6.25e+00 1vjjA 692 6.37e+00 b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 100814,100815,100816,100817 1b25A 619 6.47e+00 1b25A a.110.1.1,d.152.1.1 19044,41796 2fk8A 318 6.52e+00 1hrhA 136 6.53e+00 1rthA c.55.3.1 33577 1twfB 1224 7.06e+00 1q8iA 783 7.23e+00 c.55.3.5,e.8.1.1 96208,96209 1clc 639 7.31e+00 1clc a.102.1.2,b.1.18.2 18835,21872 1oq9A 363 7.32e+00 a.25.1.2 87257 1vp2A 208 7.56e+00 1u5kA 244 7.70e+00 1ei5A 520 7.80e+00 1ei5A b.61.3.1,b.61.3.1,e.3.1.1 27418,27419,42772 1dekA 241 8.17e+00 1dekA c.37.1.1 31842 1zkjA 359 8.30e+00 1myt 146 8.96e+00 1a6m a.1.1.2 15207 1ho8A 480 8.98e+00 1ho8A a.118.1.9 61107 1n7oA 721 9.03e+00 a.102.3.2,b.24.1.1,b.30.5.2 80259,80260,80261 1tu9A 134 9.60e+00 a.1.1.2 107320 1zc6A 305 9.99e+00 1dceA 567 1.03e+01 1dceA a.118.6.1,b.7.4.1,c.10.2.2 19191,23218,30867 1mkiA 330 1.07e+01 e.3.1.2 84994 1rxqA 178 1.07e+01 a.213.1.1 105118 1wdyA 285 1.08e+01 1hw1A 239 1.10e+01 1e2xA a.4.5.6,a.78.1.1 16111,18441 1a5t 334 1.10e+01 1a5t a.80.1.1,c.37.1.20 18450,32423 1t3wA 148 1.10e+01 5rubA 490 1.12e+01 1burA c.1.14.1,d.58.9.1 29382,39288 1v5dA 386 1.13e+01 1z23A 163 1.15e+01 1uzeA 589 1.17e+01 d.92.1.5 108174 1uwkA 557 1.19e+01 e.51.1.1 108065 1ekeA 230 1.20e+01 1ekeA c.55.3.1 33572 1sziA 247 1.21e+01 a.24.23.1 106159 2g6tA 306 1.21e+01 2aebA 322 1.29e+01 1qsaA 618 1.32e+01 1qsaA a.118.5.1,d.2.1.6 19182,36988 1t4bA 367 1.34e+01 c.2.1.3,d.81.1.1 106406,106407 1xo1A 291 1.34e+01 1exnA a.60.7.1,c.120.1.2 18086,33356 1ig8A 486 1.36e+01 2yhx c.55.1.3,c.55.1.3 64746,64747 1upkA 341 1.36e+01 a.118.1.15 99758 1zxxA 319 1.38e+01 1obbA 480 1.46e+01 c.2.1.5,d.162.1.2 86760,86761 1thg 544 1.49e+01 1thg c.69.1.17 34763 1r5rA 119 1.58e+01 a.39.2.1 97104 1dm5A 315 1.68e+01 1avc a.65.1.1 18186 1r6fA 310 1.68e+01 e.46.1.1 97149 2d2eA 250 1.70e+01 2c30A 321 1.72e+01 1dqeA 137 1.72e+01 1dqeA a.39.2.1 17388 1jk0B 345 1.73e+01 a.25.1.2 63143 1r0pA 312 1.75e+01 d.144.1.7 96734 1w5fA 353 1.75e+01 1wu4A 396 1.76e+01 1h21A 247 1.80e+01 a.138.1.3 76510 1wg8A 285 1.82e+01 1ummA 172 1.83e+01 a.3.1.1 107958 1toaA 313 1.85e+01 1toaA c.92.2.2 35598 2c8sA 172 1.86e+01 1ouvA 273 1.86e+01 a.118.18.1 93570 1g0cA 364 1.88e+01 7a3hA c.1.8.3 60165 1yt3A 375 1.88e+01 1y10A 407 1.90e+01 1v8dA 235 1.92e+01 c.140.1.1 108425 1oyzA 280 1.93e+01 a.118.1.16 93775 1sflA 238 1.94e+01 1pvtA 238 1.98e+01 c.74.1.1 95189 1t6cA 315 2.05e+01 c.55.1.8,c.55.1.8 106558,106559 1vb3A 428 2.10e+01 2arcA 164 2.13e+01 2arcA b.82.4.1 28148 1g87A 614 2.14e+01 a.102.1.2,b.2.2.2 83275,83276 1o26A 232 2.15e+01 d.207.1.1 86566 1zwwA 256 2.17e+01 1hm6A 346 2.20e+01 1avc a.65.1.1 18147 1u1iA 392 2.20e+01 c.2.1.3,d.81.1.3 107582,107583 2f4iA 197 2.35e+01 1a6m 151 2.35e+01 1a6m a.1.1.2 15018 1h7eA 245 2.36e+01 c.68.1.13 60717 1dkuA 317 2.37e+01 1dkuA c.61.1.2,c.61.1.2 34118,34119 1lt8A 406 2.40e+01 c.1.26.1 78186 2af6A 258 2.40e+01 1mp8A 281 2.40e+01 d.144.1.7 91384 2cwlA 302 2.45e+01 2azjA 289 2.47e+01 1yzfA 195 2.49e+01 2c5uA 375 2.50e+01 1e5dA 402 2.51e+01 1e5dA c.23.5.1,d.157.1.3 31208,42061 1ebfA 358 2.52e+01 1ebuA c.2.1.3,d.81.1.2 30033,39948 1x9mA 698 2.52e+01 1fjhA 257 2.52e+01 1fjhB c.2.1.2 29870 1u2kA 309 2.53e+01 1pjhA 280 2.56e+01 c.14.1.3 94761 1uocA 289 2.58e+01 c.55.3.9 99686 1lbu 213 2.58e+01 1lbu a.20.1.1,d.65.1.1 16416,39549 1jetA 517 2.61e+01 1jevA c.94.1.1 35718 1o6zA 303 2.63e+01 c.2.1.5,d.162.1.1 81107,81108 1zm7A 230 2.64e+01 1ajsA 412 2.65e+01 1ajsA c.67.1.1 34276 2spcA 107 2.65e+01 2spcA a.7.1.1 16311 1n57A 291 2.66e+01 c.23.16.2 85328 1xfrA 128 2.75e+01 1k0fA 277 2.76e+01 c.92.2.2 71974 1qopB 396 2.77e+01 2tysB c.79.1.1 35270 1w33A 181 2.80e+01 1tn6A 382 2.82e+01 2d0tA 406 2.84e+01 1p9bA 442 2.86e+01 c.37.1.10 94385 1sw5A 275 2.88e+01 c.94.1.1 106069 1otvA 259 2.90e+01 a.132.1.4 93526 2ex3B 264 2.91e+01 1gjnA 153 2.92e+01 a.1.1.2 70191 1ew6A 137 2.97e+01 1ewaA a.1.1.2 15637 1o12A 376 2.97e+01 b.92.1.5,c.1.9.10 80758,80759 1a76 326 3.02e+01 1a76 a.60.7.1,c.120.1.2 18091,33361 1lqtA 456 3.06e+01 c.3.1.1,c.4.1.1 74198,74199 1p6xA 334 3.07e+01 c.37.1.1 94195 1h32A 261 3.12e+01 a.3.1.8,a.3.1.8 76618,76619 1eyvA 156 3.17e+01 1eyvA a.79.1.1 18446 1w61A 414 3.21e+01 1usyA 275 3.24e+01 1n46A 258 3.25e+01 a.123.1.1 85315 1gzsB 165 3.27e+01 a.168.1.1 76425 1wgzA 510 3.29e+01 1tueA 212 3.29e+01 c.37.1.20 107323 2aq8A 269 3.31e+01 1j0hA 588 3.33e+01 b.1.18.2,b.71.1.1,c.1.8.1 77027,77028,77029 1eny 268 3.34e+01 1eny c.2.1.2 29910 1rcwA 231 3.34e+01 a.132.1.4 97299 1xdwA 331 3.35e+01 2g8lA 299 3.40e+01 1ituA 369 3.41e+01 c.1.9.7 71423 1yz7A 188 3.42e+01 1t2dA 322 3.44e+01 c.2.1.5,d.162.1.1 99084,99085 1n5uA 585 3.51e+01 a.126.1.1,a.126.1.1,a.126.1.1 85339,85340,85341 2gsq 202 3.53e+01 1pd21 a.45.1.1,c.47.1.5 17715,33009 1vquA 374 3.54e+01 1pc6A 146 3.56e+01 d.262.1.1 94430 1musA 477 3.60e+01 c.55.3.4 79494 1bl0A 129 3.69e+01 1d5yA a.4.1.8,a.4.1.8 16053,16054 1wekA 217 3.74e+01 2d00A 109 3.78e+01 1ki9A 192 3.79e+01 c.37.1.1 84404 1n00A 321 3.80e+01 a.65.1.1 85241 1wdcB 156 3.86e+01 1wdcB a.39.1.5 17302 1vjoA 393 3.90e+01 c.67.1.3 100827 2gupA 292 4.00e+01 1ufaA 520 4.04e+01 a.8.3.3,c.6.2.4 99329,99330 1cg5B 141 4.10e+01 1cg5B a.1.1.2 15585 2frfA 153 4.12e+01 1kgnA 329 4.14e+01 a.25.1.2 68584 2ah6A 208 4.16e+01 1v73A 342 4.18e+01 1i6pA 220 4.24e+01 1ddzA c.53.2.1 61848 1ylmA 144 4.26e+01 1gpmA 525 4.32e+01 1gpmA c.23.16.1,c.26.2.1,d.52.2.1 31405,31608,38826 1v74B 87 4.33e+01 a.24.20.1 100443 1w5qA 337 4.43e+01 1o5kA 306 4.48e+01 c.1.10.1 92504 1i5pA 633 4.48e+01 1i5pA b.18.1.3,b.77.2.1,f.1.3.1 61817,61818,61819 1vr0A 247 4.54e+01 1e0tA 470 4.59e+01 1a49A b.58.1.1,c.1.12.1,c.49.1.1 27064,29292,33146 1zvdA 380 4.61e+01 1ps1A 337 4.63e+01 1ps1A a.128.1.4 19450 1mtyB 384 4.74e+01 1mtyB a.25.1.2 16740 1l6wA 220 4.76e+01 c.1.10.1 73632 2bbeA 108 4.87e+01 1wzvA 155 4.87e+01 1sw6A 327 4.91e+01 1sw6A d.211.1.1 19176 1otsA 465 4.91e+01 f.20.1.1 87415 2cwcA 303 4.94e+01 1qgvA 142 4.99e+01 1qgvA c.47.1.8 33056 2pgd 482 5.00e+01 2pgd a.100.1.1,c.2.1.6 18778,30190 2b8nA 429 5.13e+01 1qgdA 662 5.17e+01 c.36.1.6,c.36.1.10,c.48.1.1 88367,88368,88369 1f3vA 179 5.22e+01 1f3vA d.58.22.1 39382 1jb9A 316 5.25e+01 1fnc b.43.4.2,c.25.1.1 62840,62841 1uzbA 516 5.25e+01 c.82.1.1 100220 1e12A 253 5.29e+01 1c3wA f.13.1.1 43428 2fq9A 225 5.32e+01 1u4gA 301 5.48e+01 d.92.1.2 107670 1cliA 345 5.49e+01 1cliA d.79.4.1,d.139.1.1 39816,41459 1wa5C 960 5.49e+01 1yg2A 179 5.51e+01 1epuA 591 5.53e+01 1dn1A e.25.1.1 43358 1sumB 235 5.58e+01 a.7.12.1 106025 1m0uA 249 5.58e+01 a.45.1.1,c.47.1.5 78359,78360 2sqcA 631 5.59e+01 2sqcA a.102.4.2,a.102.4.2 18854,18855 1p35A 299 5.60e+01 1p35A b.28.1.1 23925 2bv5A 282 5.61e+01 1w0hA 204 5.70e+01 1yqgA 263 5.72e+01 1lnsA 763 5.79e+01 a.40.2.1,b.18.1.13,c.69.1.21 78101,78102,78103 2fnaA 357 5.82e+01 1j54A 186 5.89e+01 c.55.3.5 77077 1lj8A 493 5.90e+01 a.100.1.9,c.2.1.6 90392,90393 2bjkA 516 5.93e+01 2bkrA 212 5.94e+01 1v02A 565 5.97e+01 c.1.8.4 108194 1up8A 598 5.98e+01 a.111.1.2 99710 1ki1B 352 5.98e+01 a.87.1.1,b.55.1.1 72497,72498 1vd5A 377 6.03e+01 a.102.1.7 108518 1uhkA 191 6.05e+01 1yisA 478 6.08e+01 1t0qA 498 6.10e+01 a.25.1.2 106220 1a7j 290 6.11e+01 1a7j c.37.1.6 31952 1q5zA 177 6.22e+01 a.196.1.1 95954 2c4jA 218 6.28e+01 1t5oA 351 6.28e+01 c.124.1.5 106459 1fmjA 351 6.39e+01 c.37.1.5 59879 1yakA 263 6.41e+01 1wvgA 359 6.46e+01 1pmnA 364 6.46e+01 d.144.1.7 94907 1m1lA 236 6.47e+01 d.260.1.1 91166 2a4aA 281 6.47e+01 1yc9A 442 6.51e+01 2eucA 130 6.58e+01 1v0dA 329 6.65e+01 d.4.1.7 108204 1ytaA 180 6.75e+01 1m0kA 262 6.78e+01 f.13.1.1 78344 1ksoA 101 6.81e+01 a.39.1.2 72926 1ztpA 251 6.93e+01 1gw5A 621 6.99e+01 a.118.1.10 70629 1xkrA 206 7.00e+01 1mpgA 282 7.03e+01 1mpgA a.96.1.3,d.129.1.2 18747,41296 1f5qB 252 7.11e+01 1f5qB a.74.1.1,a.74.1.1 18362,18363 1lvfA 110 7.19e+01 a.47.2.1 74280 1vimA 200 7.34e+01 c.80.1.3 100758 1n45A 233 7.36e+01 a.132.1.1 79981 2eutA 294 7.39e+01 2a8eA 220 7.39e+01 1r5yA 386 7.43e+01 c.1.20.1 97134 1uthA 315 7.46e+01 c.94.1.1 108032 1k8kG 151 7.50e+01 a.118.13.1 68313 1qazA 351 7.53e+01 1qazA a.102.3.1 18848 1khoA 370 7.59e+01 a.124.1.1,b.12.1.3 72489,72490 1c7sA 858 7.59e+01 1qba b.1.18.2,b.2.2.3,c.1.8.6,d.92.2.1 21812,22408,29011,40410 1sbyA 254 7.70e+01 1y9aA 360 7.73e+01 1vqoR 155 7.78e+01 1qq5A 253 7.95e+01 1qq5A c.108.1.1 43327 2fcwA 109 7.95e+01 2fd5A 180 7.97e+01 2fpqA 444 7.99e+01 1r9dA 787 8.00e+01 c.7.1.1 104865 1jdhA 529 8.00e+01 a.118.1.1 66549 1php 394 8.00e+01 16pk c.86.1.1 35452 1sglA 209 8.03e+01 d.124.1.1 105536 1fqiA 147 8.04e+01 1agrE a.91.1.1 18542 2csbA 519 8.10e+01 2gtqA 867 8.34e+01 1pprM 312 8.34e+01 1pprM a.131.1.1,a.131.1.1 19502,19503 2g62A 325 8.35e+01 1sw5B 275 8.37e+01 c.94.1.1 106070 1mwmA 320 8.37e+01 c.55.1.1,c.55.1.1 79580,79581 1yksA 440 8.39e+01 1ex0A 731 8.40e+01 b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 90465,90466,90467,90468 1mrg 263 8.46e+01 1mrj d.165.1.1 42183 1lla 628 8.51e+01 1lla a.85.1.1,a.86.1.1,b.1.18.3 18485,18496,21861 1z5zA 271 8.59e+01 1o4sA 389 8.61e+01 c.67.1.1 86620 1o6lA 337 8.63e+01 d.144.1.7 81092 1n9bA 265 8.64e+01 e.3.1.1 85463 1ji6A 589 8.68e+01 b.18.1.3,b.77.2.1,f.1.3.1 63066,63067,63068 1bhdA 118 8.69e+01 1bkrA a.40.1.1 17398 1sf8A 126 8.78e+01 d.271.1.1 105472 1dysA 348 8.80e+01 1bvwA c.6.1.1 30669 1d7oA 297 8.89e+01 1enp c.2.1.2 29907 1k7kA 221 8.91e+01 c.51.4.1 72104 1khtA 192 8.96e+01 c.37.1.1 84401