# List of top-scoring protein chains for t2k-100-30-CB_burial_14_7 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 1knwA 425 1.81e-02 1ndk 155 2.36e-01 1npk d.58.6.1 39118 1f3fA 155 3.08e-01 1npk d.58.6.1 39101 1npk 154 4.72e-01 1npk d.58.6.1 39099 1ni9A 338 1.02e+00 e.7.1.2 85739 2frvA 264 1.07e+00 2frvA e.19.1.1 43303 1vjpA 394 1.24e+00 1lh0A 213 1.26e+00 c.61.1.1 73896 1oroA 213 1.76e+00 1opr c.61.1.1 34093 1sv7A 109 2.16e+00 1k07A 263 2.25e+00 d.157.1.1 77218 1o12A 376 2.27e+00 b.92.1.5 80758 c.1.9.10 80759 1ffkK 186 2.33e+00 1ffkK c.55.4.1 33731 1c4xA 285 2.34e+00 1c4xA c.69.1.10 34684 1g8lA 411 2.53e+00 1g8lA b.85.6.1 60365 b.103.1.1 60366 c.57.1.2 60367 1uekA 275 3.04e+00 d.14.1.5 88483 d.58.26.5 88484 1opr 213 3.06e+00 1opr c.61.1.1 34091 1h2rS 267 3.42e+00 2frvA e.19.1.1 43310 1m32A 366 3.44e+00 c.67.1.3 78508 1o57A 291 3.70e+00 1p41A 291 3.70e+00 1kk9A 221 3.98e+00 d.115.1.1 77432 1l1qA 186 4.24e+00 c.61.1.1 77653 1ubkS 267 4.28e+00 e.19.1.1 88423 1apxA 249 4.40e+00 1ryc a.93.1.1 18669 1rypI 222 4.90e+00 d.153.1.4 41877 1jj2M 186 5.11e+00 1ffkK c.55.4.1 63098 1e9iA 431 5.51e+00 c.1.11.1 64818 d.54.1.1 64819 1aa8A 347 6.06e+00 1an9A c.4.1.2 30619 d.16.1.3 37906 1agx 331 6.15e+00 4pgaA c.88.1.1 35564 1h2aS 317 6.17e+00 2frvA e.19.1.1 43311 1k7jA 206 6.25e+00 d.115.1.1 72103 1rz3A 201 6.31e+00 1j03A 102 7.10e+00 1b7bA 310 7.59e+00 1b7bA c.73.1.1 34963 1smlA 269 7.71e+00 1smlA d.157.1.1 42053 1mkyA 439 8.17e+00 c.37.1.8 79250 c.37.1.8 79251 d.52.5.1 79252 1an9A 340 8.58e+00 1an9A c.4.1.2 30617 d.16.1.3 37904 1fukA 165 8.73e+00 1fukA c.37.1.19 32409 1kvlA 358 8.82e+00 e.3.1.1 73062 1ve9A 347 9.08e+00 1hkhA 279 9.15e+00 1j6oA 268 9.26e+00 c.1.9.12 77088 1oafA 261 9.61e+00 a.93.1.1 86734 1jx2B 315 9.88e+00 c.37.1.8 67404 1l0gA 358 9.89e+00 e.3.1.1 73400 1ks9A 291 1.04e+01 a.100.1.7 68857 c.2.1.6 68858 1kagA 173 1.07e+01 c.37.1.2 72249 2bltA 361 1.11e+01 1gceA e.3.1.1 42739 3nll 138 1.11e+01 5nul c.23.5.1 31206 1gceA 364 1.14e+01 1gceA e.3.1.1 42738 2fox 138 1.15e+01 5nul c.23.5.1 31197 1onhA 364 1.17e+01 1ga0A 364 1.17e+01 1gceA e.3.1.1 60410 1rgzA 363 1.18e+01 2fvx 138 1.24e+01 5nul c.23.5.1 31200 1ii7A 333 1.24e+01 1ii7A d.159.1.4 62415 1qe5A 266 1.25e+01 1b8oA c.56.2.1 33784 5nul 138 1.28e+01 5nul c.23.5.1 31191 1pvyA 227 1.30e+01 1c7nA 399 1.33e+01 1d2fA c.67.1.3 34413 1qdbA 473 1.37e+01 1qdbA a.138.1.3 19688 1gdeA 389 1.40e+01 c.67.1.1 60456 2cgpA 210 1.46e+01 2cgpA a.4.5.4 16102 b.82.3.2 28141 1un7A 400 1.48e+01 1jx7A 117 1.49e+01 c.114.1.1 77195 1hh1A 143 1.53e+01 1gefA c.52.1.18 61036 1gjuA 637 1.65e+01 b.71.1.1 60580 c.1.8.1 60581 1yagA 375 1.65e+01 1yagA c.55.1.1 33449 c.55.1.1 33450 1hw5A 210 1.65e+01 2cgpA a.4.5.4 16098 b.82.3.2 28137 1yveI 524 1.67e+01 1qmgA a.100.1.2 18789 c.2.1.6 30186 1c0pA 363 1.67e+01 1an9A c.4.1.2 30647 d.16.1.3 37934 1h6yA 170 1.68e+01 b.18.1.7 70904 1nogA 177 1.69e+01 a.25.2.2 85923 1gd9A 389 1.69e+01 c.67.1.1 60454 1jwyB 315 1.71e+01 c.37.1.8 67401 1bfd 528 1.74e+01 1bfd c.31.1.3 31745 c.36.1.5 31801 c.36.1.9 31802 1umdB 324 1.74e+01 1mj4A 82 1.79e+01 d.120.1.1 79189 1m5q1 130 1.80e+01 1fr1A 361 1.81e+01 1gceA e.3.1.1 42734 1pjqA 457 1.81e+01 2reb 352 1.84e+01 2reb c.37.1.11 32282 d.48.1.1 38767 8dfr 189 1.85e+01 1aoeA c.71.1.1 34895 1j96A 323 1.86e+01 c.1.7.1 71616 2blsA 358 1.91e+01 1gceA e.3.1.1 42747 1cc1S 283 1.94e+01 2frvA e.19.1.1 43313 1kyhA 276 1.97e+01 c.72.1.4 73222 1t0gA 109 2.12e+01 1asx 159 2.13e+01 1a6dA c.8.5.2 30821 1e3dA 266 2.16e+01 2frvA e.19.1.1 59188 1kas 412 2.24e+01 1dd8A c.95.1.1 35964 c.95.1.1 35965 1qmgA 524 2.25e+01 1qmgA a.100.1.2 18785 c.2.1.6 30182 1pi4A 358 2.32e+01 7a3hA 303 2.38e+01 7a3hA c.1.8.3 28817 1yveJ 524 2.45e+01 1qmgA a.100.1.2 18790 c.2.1.6 30187 1p3dA 475 2.46e+01 c.5.1.1 87728 c.59.1.1 87729 c.72.2.1 87730 1alkA 449 2.47e+01 1b8jA c.76.1.1 34994 1e19A 314 2.58e+01 1b7bA c.73.1.1 34967 1qwgA 251 2.61e+01 1ni4B 341 2.61e+01 c.36.1.7 85729 c.48.1.2 85730 1rypL 212 2.68e+01 d.153.1.4 41880 1aquA 297 2.72e+01 1aquA c.37.1.5 31942 1ed8A 449 2.75e+01 1b8jA c.76.1.1 34988 1b3nA 412 2.77e+01 1dd8A c.95.1.1 35966 c.95.1.1 35967 1ass 159 2.78e+01 1a6dA c.8.5.2 30818 1akhB 83 2.80e+01 1akhB a.4.1.1 15985 1bif 469 2.84e+01 1bif c.37.1.7 31961 c.60.1.4 34003 1yrnB 83 2.85e+01 1akhB a.4.1.1 15986 1ghsA 306 2.87e+01 1aq0A c.1.8.3 28840 1icfA 175 2.90e+01 1cs8A d.3.1.1 37067 1ggzA 148 2.93e+01 a.39.1.5 70176 1phd 414 2.94e+01 1phd a.104.1.1 18913 1fsyA 358 2.98e+01 1gceA e.3.1.1 60016 2ay1A 394 3.02e+01 1ajsA c.67.1.1 34357 1kbvA 327 3.02e+01 b.6.1.3 68395 b.6.1.3 68396 1k4wA 252 3.03e+01 a.123.1.1 72068 1j1iA 296 3.07e+01 c.69.1.10 83977 1gqyA 475 3.10e+01 c.5.1.1 83305 c.59.1.1 83306 c.72.2.1 83307 1ufkA 254 3.12e+01 1lt8A 406 3.12e+01 c.1.26.1 78186 1elyA 449 3.14e+01 1b8jA c.76.1.1 35028 1dp4A 435 3.15e+01 1dp4A c.93.1.1 35710 1rgyA 360 3.16e+01 1fs7A 485 3.17e+01 1qdbA a.138.1.3 19691 1kh5A 449 3.18e+01 c.76.1.1 72475 1dts 221 3.20e+01 1byi c.37.1.10 32200 1h05A 146 3.24e+01 c.23.13.1 76433 1ng1 294 3.25e+01 1ng1 a.24.13.1 16961 c.37.1.10 32272 2bifA 469 3.26e+01 1bif c.37.1.7 31963 c.60.1.4 34009 1jflA 228 3.31e+01 c.78.2.1 71656 c.78.2.1 71657 1k1xA 659 3.32e+01 a.8.3.2 84279 b.30.5.8 84280 c.6.2.2 84281 5cpp 414 3.46e+01 1phd a.104.1.1 18935 1kyaA 499 3.52e+01 b.6.1.3 73203 b.6.1.3 73204 b.6.1.3 73205 1l8rA 101 3.53e+01 a.6.1.4 73700 1hyqA 263 3.53e+01 1hyqA c.37.1.10 61412 1dhpA 292 3.55e+01 1dhpA c.1.10.1 29097 1dkiA 371 3.56e+01 1dkiA d.3.1.1 37090 1b8jA 449 3.56e+01 1b8jA c.76.1.1 34992 1g65K 211 3.72e+01 d.153.1.4 41907 1osa 148 3.76e+01 1cll a.39.1.5 17300 1avsA 90 3.76e+01 1cll a.39.1.5 17226 1byi 224 3.77e+01 1byi c.37.1.10 32199 1a3h 300 3.77e+01 7a3hA c.1.8.3 28819 1qmqA 414 3.78e+01 1phd a.104.1.1 18907 1broA 277 3.79e+01 1brt c.69.1.12 34700 1gjwA 637 3.79e+01 b.71.1.1 60582 c.1.8.1 60583 2dhqA 146 3.80e+01 2dhqA c.23.13.1 31382 1dz4A 414 3.82e+01 1phd a.104.1.1 18903 1gqwA 283 3.86e+01 b.82.2.5 70377 1k7hA 476 3.86e+01 c.76.1.1 72101 1a7j 290 3.86e+01 1a7j c.37.1.6 31952 1vhtA 218 3.86e+01 1amuA 563 3.92e+01 1amuA e.23.1.1 43351