# List of top-scoring protein chains for t04-100-30-near-backbone-11 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 1cnzA 363 7.55e-52 1cnzA c.77.1.1 35061 1a05A 358 5.00e-51 1cnzA c.77.1.1 35059 1iso 416 1.41e-46 1iso c.77.1.1 35065 1pb1A 416 6.39e-46 c.77.1.1 88014 1hqsA 423 3.94e-45 1iso c.77.1.1 61154 1lwdA 413 1.19e-40 c.77.1.1 78265 1itwA 741 4.84e-06 c.77.1.2 76793 1ptmA 329 1.47e-02 unknown_sccs -8456 1ta3B 303 2.33e-01 7a3hA 303 2.59e-01 7a3hA c.1.8.3 28817 1b66A 140 2.68e-01 1b66A d.96.1.2 40657 1t0iA 191 3.55e-01 1fc3A 120 4.08e-01 1fc3A a.4.6.3 16237 1p8kZ 254 4.83e-01 d.95.2.1 -10648 d.95.2.1 -10649 1qgvA 142 4.86e-01 1qgvA c.47.1.8 33056 1o4vA 183 6.63e-01 c.23.8.1 86628 1hskA 326 7.17e-01 2mbr d.145.1.2 61241 d.146.1.1 61242 1kyqA 274 1.21e+00 c.2.1.11 73281 e.37.1.1 73282 1q5nA 454 1.38e+00 a.127.1.1 -1756 1qxyA 252 1.43e+00 d.127.1.1 -10993 1zrn 232 1.75e+00 1qq5A c.108.1.1 43323 1lc5A 364 1.85e+00 c.67.1.1 73827 1gci 269 2.03e+00 1gci c.41.1.1 32503 1icpA 376 2.15e+00 1oyc c.1.4.1 62270 1dusA 194 2.19e+00 1dusA c.66.1.4 34182 1c3cA 429 2.45e+00 1c3cA a.127.1.1 19425 1dozA 309 2.49e+00 1ak1 c.92.1.1 35592 1fjgB 256 2.49e+00 1fjfB c.23.15.1 31400 1vizA 240 2.59e+00 c.1.4.1 -5212 1qsgA 265 2.69e+00 1eny c.2.1.2 29935 1l2lA 457 2.72e+00 c.72.1.3 77656 1fp2A 352 2.83e+00 1fpxA a.4.5.29 59941 c.66.1.12 59942 1syyA 346 2.92e+00 1ic6A 279 2.95e+00 1gci c.41.1.1 62257 1odzA 386 3.02e+00 c.1.8.3 86889 1thg 544 3.17e+00 1thg c.69.1.17 34763 1pjcA 361 3.22e+00 1sayA c.2.1.4 30101 c.23.12.2 31361 1vknA 351 3.39e+00 1fts 295 3.46e+00 1ng1 a.24.13.1 16968 c.37.1.10 32279 5reqA 727 3.58e+00 1reqA c.1.19.1 29632 c.23.6.1 31259 1el5A 389 3.59e+00 1b3mA c.3.1.2 30369 d.16.1.3 37937 1reqA 727 3.71e+00 1reqA c.1.19.1 29620 c.23.6.1 31247 1vjnA 220 3.93e+00 unknown_sccs -11458 1ewkA 490 4.29e+00 1ewkA c.93.1.1 35712 1u02A 239 4.31e+00 1g0cA 364 4.33e+00 7a3hA c.1.8.3 60165 1kwgA 645 4.81e+00 b.71.1.1 77561 c.1.8.1 77562 c.23.16.5 77563 1j9yA 385 5.10e+00 1j9yA c.1.8.3 62791 1on2A 142 5.41e+00 a.4.5.24 87103 a.76.1.1 87104 1ceo 343 5.62e+00 1ceo c.1.8.3 28808 1phk 298 5.65e+00 1cdkA d.144.1.7 41635 1rie 129 5.77e+00 1rie b.33.1.1 24427 1oywA 523 5.82e+00 unknown_sccs -270 c.37.1.19 -7209 c.37.1.19 -7210 1b6a 478 6.38e+00 1bn5 a.4.5.25 16223 d.127.1.1 41160 1dkzA 219 6.62e+00 1dkzA unknown_sccs -445 unknown_sccs -3060 1rreA 200 6.72e+00 unknown_sccs -9106 1nhp 447 6.89e+00 1nhp c.3.1.5 30549 c.3.1.5 30550 d.87.1.1 40196 1qtwA 285 7.07e+00 1qumA c.1.15.1 29392 1nni1 174 7.36e+00 1rm8A 169 7.44e+00 d.92.1.11 -10584 1jvbA 347 7.57e+00 b.35.1.2 77181 c.2.1.1 77182 1nhs 447 7.62e+00 1nhp c.3.1.5 30555 c.3.1.5 30556 d.87.1.1 40199 1qydA 313 7.64e+00 c.2.1.2 -5786 1d0qA 103 7.65e+00 1d0qA g.41.3.2 45208 1tikA 213 7.70e+00 1kl7A 514 7.95e+00 c.79.1.1 72678 1uf2A 1019 7.96e+00 unknown_sccs -12036 1hu3A 260 8.01e+00 1hu3A unknown_sccs 19137 1b74A 254 8.03e+00 1b74A c.78.2.1 35264 c.78.2.1 35265 1dvjA 246 8.23e+00 1dvjA c.1.2.3 28546 1k7jA 206 8.29e+00 d.115.1.1 72103 1ryp1 222 8.74e+00 1ryp1 1g0oA 283 8.74e+00 1ybvA c.2.1.2 60181 1ftrA 296 8.86e+00 1ftrA d.58.33.1 39485 d.58.33.1 39486 1r6uA 437 9.10e+00 c.26.1.1 -6594 1b5qA 472 9.52e+00 1b37B c.3.1.2 30404 d.16.1.5 37968 1f9vA 347 9.75e+00 1bg2 c.37.1.9 59745 1xgsA 295 1.01e+01 1bn5 a.4.5.25 16216 d.127.1.1 41153 1a0cA 438 1.04e+01 1a0cA c.1.15.3 29529 1r29A 127 1.05e+01 d.42.1.1 -9726 1alo 907 1.05e+01 1alo 1ohlA 342 1.06e+01 c.1.10.3 87035 1erv 105 1.11e+01 1erv c.47.1.1 32743 1vlbA 907 1.12e+01 1hlrA 907 1.12e+01 a.56.1.1 65850 d.15.4.2 65851 d.41.1.1 65852 d.133.1.1 65853 1srvA 145 1.15e+01 1derA c.8.5.1 30817 1thm 279 1.18e+01 1gci c.41.1.1 32544 1f74A 293 1.18e+01 1nal3 c.1.10.1 29079 1h7nA 342 1.19e+01 1b4kA c.1.10.3 60726 1mngA 203 1.19e+01 1avmA a.2.11.1 15776 d.44.1.1 38701 1pgvA 197 1.21e+01 c.10.1.1 88073 1xyzA 347 1.22e+01 1taxA c.1.8.3 28804 1qyrA 252 1.23e+01 1km4A 247 1.29e+01 c.1.2.3 72740 1m7gA 211 1.30e+01 c.37.1.4 78724 1e55A 512 1.34e+01 1e70M c.1.8.4 28934 1iibA 106 1.34e+01 1iibA c.44.2.1 32648 1rypA 243 1.34e+01 1pmaA d.153.1.4 41932 9gafA 295 1.35e+01 1apyA d.153.1.5 42008 1d8wA 426 1.36e+01 1de5A c.1.15.2 29394 1h4pA 408 1.38e+01 c.1.8.3 -5314 1tqyB 415 1.38e+01 1t4hA 290 1.41e+01 1a53 247 1.45e+01 1a53 c.1.2.4 28564 1bg4 302 1.46e+01 1taxA c.1.8.3 28806 1ur3M 319 1.49e+01 c.1.7.1 -5248 1vdkA 466 1.49e+01 a.127.1.1 -1752 1lw6E 281 1.51e+01 c.41.1.1 74293 1jf8A 131 1.52e+01 c.44.1.1 66621 1bw0A 416 1.53e+01 1bw0A c.67.1.1 34385 1cyj 90 1.54e+01 1ctj a.3.1.1 15805 1tiqA 180 1.55e+01 1c4xA 285 1.55e+01 1c4xA c.69.1.10 34684 1d1qA 161 1.55e+01 1dg9A c.44.1.1 32642 1brwA 433 1.57e+01 1brwA a.46.2.1 17764 c.27.1.1 31628 d.41.3.1 38626 2end 138 1.58e+01 2end a.18.1.1 16400 1kwfA 363 1.60e+01 a.102.1.2 73078 1mh9A 197 1.62e+01 c.108.1.8 79118 1kid 203 1.65e+01 1derA c.8.5.1 30771 1l8aA 886 1.66e+01 c.36.1.6 73678 c.36.1.10 73677 c.48.1.1 73679 1dmhA 311 1.69e+01 1dmhA b.3.6.1 22633 1wdnA 226 1.70e+01 1lst c.94.1.1 35816 1furA 467 1.70e+01 1furA a.127.1.1 19403 1jrrA 382 1.70e+01 e.1.1.1 63256 1jcfA 344 1.70e+01 c.55.1.1 62878 c.55.1.1 62879 1twiA 434 1.72e+01 1igs 248 1.72e+01 1a53 c.1.2.4 28565 1r0rE 274 1.74e+01 c.41.1.1 -7293 2fcr 173 1.78e+01 1rcf c.23.5.1 31151 1h49A 512 1.79e+01 c.1.8.4 83477 1khyA 148 1.80e+01 a.174.1.1 77410 1uirA 314 1.82e+01 c.66.1.17 -8114 8dfr 189 1.83e+01 1aoeA c.71.1.1 34895 2hgsA 474 1.83e+01 2hgsA c.30.1.4 31722 d.142.1.6 75997 1wab 232 1.87e+01 1wab c.23.10.3 31341 1pj5A 830 1.88e+01 unknown_sccs -4066 c.3.1.2 -6031 d.16.1.5 -9251 unknown_sccs -10171 1m12A 84 1.90e+01 a.64.1.1 84745 1ky3A 182 1.93e+01 c.37.1.8 73193 1cem 363 1.94e+01 1cem a.102.1.2 18826 1j31A 262 1.95e+01 d.160.1.2 -11473 1eg7A 557 2.02e+01 1eg7A c.37.1.10 32241 1hl2A 297 2.03e+01 c.1.10.1 83581 1qd9A 124 2.06e+01 1qu9A d.79.1.1 39758 1j8yF 297 2.07e+01 1ng1 a.24.13.1 62747 c.37.1.10 62748 1o0xA 262 2.08e+01 d.127.1.1 80755 1q16A 1247 2.08e+01 b.52.2.2 -4337 c.81.1.1 -8547 1l5xA 280 2.10e+01 c.106.1.1 77718 1tufA 434 2.11e+01 1aoa 275 2.15e+01 1aoa a.40.1.1 17396 a.40.1.1 17397 1eg3A 261 2.16e+01 1eg3A a.39.1.7 17376 a.39.1.7 17377 b.72.1.1 27805 1nq7A 244 2.18e+01 a.123.1.1 -1682 1vk9A 151 2.20e+01 1q92A 197 2.22e+01 c.108.1.8 -6819 1k6wA 426 2.23e+01 b.92.1.2 68236 c.1.9.5 68237 1s6yA 450 2.27e+01 1eqjA 511 2.28e+01 1ejjA c.105.1.1 59495 c.76.1.3 59496 1n8yC 608 2.35e+01 c.10.2.5 80314 c.10.2.5 80315 g.3.9.1 80316 g.3.9.1 80317 1d6jA 211 2.36e+01 1d6jA c.37.1.4 31940 1ee8A 266 2.37e+01 1ee8A a.156.1.2 75823 b.113.1.1 75824 g.39.1.8 75825 3mag 307 2.39e+01 3mag c.66.1.25 34205 1knyA 253 2.43e+01 1knyA a.24.16.1 75896 d.218.1.1 75897 1qmpA 130 2.55e+01 1dz3A c.23.1.1 31106 1f2tB 148 2.61e+01 1f2tB 1v7nV 163 2.67e+01 a.26.1.2 -715 1ngvA 534 2.71e+01 c.111.1.2 85698 1eqcA 394 2.72e+01 1cz1A c.1.8.3 28811 1cseE 274 2.77e+01 1gci c.41.1.1 32481 1dxy 333 2.77e+01 1dxy c.2.1.4 30094 c.23.12.1 31354 1fm2B 520 2.78e+01 1fm2B 1mk0A 97 2.78e+01 d.226.1.1 79216 1uslA 170 2.78e+01 c.121.1.1 -6682 1su8A 636 2.79e+01 e.26.1.2 -12015 4mbp 370 2.85e+01 4mbp c.94.1.1 35777 1mxgA 435 2.86e+01 b.71.1.1 85193 c.1.8.1 85194 1r5iD 216 2.88e+01 unknown_sccs -1272 1itcA 516 2.89e+01 b.3.1.1 83705 c.1.8.1 83706 1nq6A 302 2.91e+01 c.1.8.3 -5332 1es9A 232 2.93e+01 1wab c.23.10.3 31340 1pszA 303 2.94e+01 1toaA c.92.2.2 35600 2reb 352 2.94e+01 2reb c.37.1.11 32282 d.48.1.1 38767 1alvA 173 2.95e+01 1alvA a.39.1.8 17370 1cr1A 296 2.99e+01 1cr1A c.37.1.11 32286 1iybA 208 2.99e+01 d.124.1.1 -10977 1o6dA 163 3.00e+01 c.116.1.3 -6689 1h8eG 272 3.02e+01 1e79G c.49.2.1 60756 1anf 370 3.03e+01 4mbp c.94.1.1 35776 1ursA 402 3.04e+01 c.94.1.1 -8651 1gq6A 313 3.04e+01 c.42.1.1 70341 1dbiA 280 3.12e+01 1gci c.41.1.1 32543 1fyeA 229 3.12e+01 1fyeA c.23.16.4 31477 1cp2A 269 3.13e+01 1cp2A c.37.1.10 32269 1j96A 323 3.19e+01 c.1.7.1 71616 1obbA 480 3.21e+01 c.2.1.5 86760 d.162.1.2 86761 1sup 275 3.21e+01 1gci c.41.1.1 32510 1jjyA 636 3.21e+01 1jjyA 1lfwA 470 3.25e+01 c.56.5.4 77942 d.58.19.1 77943 1cozA 129 3.26e+01 1cozA c.26.1.2 31598 1bmtA 246 3.27e+01 1bmtA a.46.1.1 17757 c.23.6.1 31235 1sf8A 126 3.28e+01 1poiB 260 3.31e+01 1poiB unknown_sccs 34155 1vhnA 318 3.45e+01 c.1.4.1 -5209 1g8kA 825 3.46e+01 1g8jA b.52.2.2 26920 c.81.1.1 35328 1mrj 247 3.47e+01 1mrj d.165.1.1 42177 2gsq 202 3.49e+01 1pd21 a.45.1.1 17715 c.47.1.5 33009 1fo8A 343 3.50e+01 1foaA c.68.1.10 59927 1b8bA 605 3.50e+01 1b8bA 1evyA 366 3.51e+01 1evyA a.100.1.6 18811 c.2.1.6 30215 1or0B 528 3.53e+01 1mzhA 225 3.63e+01 c.1.10.1 79698 1pmd 675 3.66e+01 1pmd d.11.1.1 37491 d.11.1.1 37492 d.175.1.1 42562 e.3.1.1 42771 1oatA 439 3.67e+01 2dkb c.67.1.4 34461 1bob 320 3.67e+01 1bob d.108.1.1 40816 1f6dA 376 3.67e+01 1f6dA c.87.1.3 35467 1ni4A 365 3.67e+01 c.36.1.7 85728 1di0A 158 3.78e+01 1di0A c.16.1.1 30957 1oxkB 134 3.79e+01 c.23.1.1 -6411 1h97A 147 3.80e+01 1h97A a.1.1.2 60812 1ktbA 405 3.82e+01 b.71.1.1 72960 c.1.8.1 72961 1j5vA 351 3.84e+01 c.72.1.1 71585 1m4zA 238 3.86e+01 b.34.12.1 78630 1pii 452 3.87e+01 1pii c.1.2.4 28559 c.1.2.4 28563 1jqgA 433 3.89e+01 c.56.5.1 71791 d.58.3.1 71792 1o5xA 248 3.91e+01 c.1.1.1 -5157 1f3lA 321 3.91e+01 1g6q2 c.66.1.6 59630 1a8l 226 3.93e+01 1a8l c.47.1.2 32777 c.47.1.2 32778 1ed8A 449 3.96e+01 1b8jA c.76.1.1 34988 1inlA 296 3.99e+01 c.66.1.17 66220