# List of top-scoring protein chains for t2k-100-30-dssp-ebghstl 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 1h1iB 350 2.11e-01 b.82.1.5 76470 1plzA 189 2.35e-01 b.82.1.7 88160 1cur 155 2.53e-01 1rcy b.6.1.1 23021 1qxrA 189 2.86e-01 1h1iC 350 3.18e-01 b.82.1.5 76471 1jlxA 304 3.83e-01 1jlyA b.42.3.1 25583 b.42.3.1 25584 1h1iD 350 3.87e-01 b.82.1.5 76472 1e30A 155 4.61e-01 1rcy b.6.1.1 23016 1rcy 151 4.67e-01 1rcy b.6.1.1 23018 1a3z 155 4.76e-01 1rcy b.6.1.1 23019 1jlyA 304 5.50e-01 1jlyA b.42.3.1 25587 b.42.3.1 25588 1juhA 350 6.45e-01 b.82.1.5 71884 1fzdA 201 6.76e-01 3fib d.171.1.1 42484 1cauB 184 8.23e-01 1caxB b.82.1.2 28103 1j58A 385 8.26e-01 b.82.1.2 71531 1cawB 184 8.51e-01 1caxB b.82.1.2 28113 1bkb 136 1.02e+00 1bkb b.34.5.2 24609 b.40.4.5 25341 1amj 754 1.06e+00 1amj c.8.2.1 30725 c.83.1.1 35401 8acn 754 1.07e+00 1amj c.8.2.1 30724 c.83.1.1 35400 1c96A 753 1.08e+00 1amj c.8.2.1 30727 c.83.1.1 35403 7acn 754 1.08e+00 1amj c.8.2.1 30717 c.83.1.1 35393 2eifA 136 1.13e+00 1bkb b.34.5.2 24607 b.40.4.5 25339 1hyvA 166 1.21e+00 1b9dA c.55.3.2 61424 6acn 754 1.31e+00 1amj c.8.2.1 30721 c.83.1.1 35397 1b9dA 163 1.33e+00 1b9dA c.55.3.2 33649 1bl3A 160 1.36e+00 1b9dA c.55.3.2 33655 1caxB 184 1.55e+00 1caxB b.82.1.2 28105 1ep0A 185 1.61e+00 1dzrA b.82.1.1 28080 1fxzA 476 1.62e+00 b.82.1.2 65059 b.82.1.2 65060 2itg 163 1.76e+00 1b9dA c.55.3.2 33669 1b0jA 754 1.89e+00 1amj c.8.2.1 30719 c.83.1.1 35395 1fw9A 164 2.13e+00 1fw9A d.190.1.1 60059 1itg 166 2.48e+00 1b9dA c.55.3.2 33661 1bjt 793 2.89e+00 1bjt e.11.1.1 43249 1iyjB 817 2.92e+00 a.170.1.1 76948 a.171.1.1 76949 b.40.4.3 76950 b.40.4.3 76951 b.40.4.3 76952 1k07A 263 3.85e+00 d.157.1.1 77218 1fpzA 212 3.89e+00 1fpzA c.45.1.1 59976 2pcfB 250 4.08e+00 1hcz i.4.1.1 45911 1hcz 252 4.14e+00 1hcz b.2.6.1 22464 b.84.2.2 28250 1k9jA 139 4.15e+00 d.169.1.1 68353 1fxkC 133 4.21e+00 1fxkC a.2.5.1 15702 1kv9A 668 4.31e+00 a.3.1.6 73056 b.70.1.1 73057 1kb0A 677 4.76e+00 a.3.1.6 68378 b.70.1.1 68379 1dgrW 93 4.86e+00 1caxB 1fp6A 289 4.88e+00 1cp2A c.37.1.10 32243 1dgrM 93 5.13e+00 1caxB b.82.1.2 28101 1g5pA 289 5.13e+00 1cp2A c.37.1.10 32253 1bag 425 6.64e+00 1bag b.71.1.1 27720 c.1.8.1 28707 2cavA 445 6.68e+00 1dgwA b.82.1.2 28094 b.82.1.2 28095 1a7tA 232 6.71e+00 1a7tA d.157.1.1 42041 1dzrA 183 6.72e+00 1dzrA b.82.1.1 28076 1dqsA 393 7.45e+00 1dqsA e.22.1.1 43347 1apo 42 7.97e+00 1edmB g.3.11.1 44240 1umhA 184 8.57e+00 1f7dA 136 8.59e+00 1dun b.85.4.1 28353 2pia 321 8.75e+00 2pia b.43.4.2 25663 c.25.1.2 31553 d.15.4.2 37704 3ncmA 92 8.94e+00 3ncmA b.1.1.4 21702 1khiA 176 8.99e+00 b.34.5.2 77408 b.40.4.5 77409 1exqA 154 9.01e+00 1b9dA c.55.3.2 33646 1rhfA 182 9.22e+00 1miuA 738 9.40e+00 a.170.1.1 79153 a.171.1.1 79154 b.40.4.3 79155 b.40.4.3 79156 b.40.4.3 79157 1l8bA 190 9.48e+00 d.86.1.1 73683 1iybA 208 9.88e+00 1ri6A 343 9.98e+00 1yagA 375 1.01e+01 1yagA c.55.1.1 33449 c.55.1.1 33450 1cs0B 382 1.01e+01 1c3oB c.8.3.1 30740 c.23.16.1 31417 1gpr 162 1.09e+01 1gpr b.84.3.1 28267 1c3oB 382 1.12e+01 1c3oB c.8.3.1 30744 c.23.16.1 31421 1j1tA 233 1.17e+01 1j1jA 240 1.20e+01 1cskA 71 1.21e+01 1ckaA b.34.2.1 24513 1m6kA 251 1.21e+01 e.3.1.1 78695 1keyA 235 1.23e+01 a.118.16.1 72389 1jegA 83 1.23e+01 b.34.2.1 66610 1jjeA 222 1.23e+01 1a7tA d.157.1.1 63117 1oo2A 119 1.25e+01 1jgtA 513 1.26e+01 c.26.2.1 66684 d.153.1.1 66685 1smd 496 1.32e+01 1smd b.71.1.1 27768 c.1.8.1 28755 1g4mA 393 1.32e+01 b.1.18.11 65143 b.1.18.11 65144 1awo 62 1.33e+01 1bbzA b.34.2.1 24482 1aboA 62 1.34e+01 1bbzA b.34.2.1 24474 1ten 90 1.34e+01 1ten b.1.2.1 21990 1dmaA 214 1.42e+01 1aerA d.166.1.1 42251 1lr5A 163 1.42e+01 b.82.1.2 74215 1dgwY 93 1.43e+01 1caxB 1bbzA 58 1.46e+01 1bbzA b.34.2.1 24477 1bbzE 58 1.47e+01 1bbzA b.34.2.1 24479 3dni 260 1.48e+01 3dni d.151.1.1 41791 1aerA 205 1.49e+01 1aerA d.166.1.1 42249 1iz6A 138 1.53e+01 b.34.5.2 76976 b.40.4.5 76977 1nxmA 197 1.56e+01 b.82.1.1 86385 1nipA 289 1.60e+01 1cp2A c.37.1.10 32263 1evhA 112 1.76e+01 1evhA b.55.1.4 26997 1r4pA 297 1.78e+01 1jdlA 121 1.78e+01 a.3.1.1 66557 1afb1 154 1.86e+01 1rtm1 1iscA 192 1.91e+01 1avmA a.2.11.1 15733 d.44.1.1 38726 1uzxA 169 1.92e+01 1aun 208 1.93e+01 1thv b.25.1.1 23900 1jofA 365 1.95e+01 b.69.10.1 71775 1d7yA 408 1.97e+01 1d7yA c.3.1.5 30565 c.3.1.5 30566 d.87.1.1 40204 1ofnA 205 1.98e+01 1bywA 110 1.99e+01 1bywA d.110.3.6 40912 1dixA 208 1.99e+01 1bk7A d.124.1.1 41122 1fna 93 2.02e+01 1fnf b.1.2.1 21971 1hdhA 536 2.03e+01 c.76.1.2 65805 1l3yA 41 2.06e+01 g.3.11.6 73558 1hx0A 496 2.08e+01 b.71.1.1 61346 c.1.8.1 61347 1g1sA 162 2.09e+01 d.169.1.1 65100 g.3.11.1 65101 1hxs2 272 2.10e+01 1hkvA 453 2.11e+01 b.49.2.3 83559 c.1.6.1 83560 1mu5A 471 2.12e+01 a.156.1.3 79472 d.14.1.3 79473 d.122.1.2 79474 1isaA 192 2.15e+01 1avmA a.2.11.1 15731 d.44.1.1 38724 1ql0A 241 2.17e+01 1qaeA d.4.1.2 37139 1qhhA 167 2.17e+01 1pjr c.37.1.19 32393 1ejhA 190 2.19e+01 1ejhA d.86.1.1 40147 1m8uA 173 2.20e+01 1ospO 257 2.20e+01 1ospO b.76.1.1 27971 1krhA 338 2.22e+01 b.43.4.2 72891 c.25.1.2 72892 d.15.4.2 72893 1g8tA 245 2.23e+01 1qaeA d.4.1.2 37137 1lox 662 2.23e+01 1lox a.119.1.2 19238 b.12.1.1 23638 1jl0A 334 2.25e+01 1jenA d.156.1.1 63155 1qaeA 245 2.34e+01 1qaeA d.4.1.2 37141 1rdj1 113 2.36e+01 1rtm1 1rdo1 113 2.36e+01 1rtm1 1smnA 245 2.37e+01 1qaeA d.4.1.2 37143 1pvc2 271 2.41e+01 1aym2 1dm0A 287 2.43e+01 1dm0A d.165.1.2 42227 1ei5A 520 2.48e+01 1ei5A b.61.3.1 27418 b.61.3.1 27419 e.3.1.1 42772 1pjjA 271 2.49e+01 1nnjA 271 2.49e+01 a.156.1.2 80669 b.113.1.1 80670 g.39.1.8 80671 1jjtA 228 2.49e+01 1a7tA d.157.1.1 63139 1m1zA 513 2.49e+01 c.26.2.1 78457 d.153.1.1 78458 1dgmA 363 2.54e+01 1bx4A c.72.1.1 34936 1bxwA 172 2.60e+01 1bxwA f.4.1.1 43743 1bgp 309 2.62e+01 1bgp a.93.1.1 18690 1qr0A 228 2.64e+01 1qr0A d.150.1.1 59038 d.150.1.1 59039 1h8eA 510 2.66e+01 1skyB a.69.1.1 60738 b.49.1.1 60739 c.37.1.11 60740 1itwA 741 2.75e+01 c.77.1.2 76793 1ojqA 212 2.77e+01 2phlA 397 2.81e+01 1dgwA b.82.1.2 28082 b.82.1.2 28083 1c8zA 265 2.96e+01 1c8zA d.23.1.1 38375 1fy7A 278 3.01e+01 1fy7A d.108.1.1 40817 2bb2 181 3.02e+01 2bb2 b.11.1.1 23604 b.11.1.1 23605 1fsb 40 3.06e+01 1fsb g.3.11.1 44283 1a9xB 379 3.11e+01 1c3oB c.8.3.1 30732 c.23.16.1 31409 1jenA 267 3.11e+01 1jenA 1q02A 52 3.13e+01 1oi6A 205 3.19e+01 1kxgA 152 3.39e+01 b.22.1.1 73145 1imuA 107 3.40e+01 d.204.1.1 66218 1wdcC 156 3.43e+01 1wdcC a.39.1.5 17317 2izgB 123 3.49e+01 1swuA b.61.1.1 27236 1cmiA 85 3.50e+01 1cmiA d.39.1.1 38551 1thw 207 3.55e+01 1thv b.25.1.1 23903 1rqwA 207 3.56e+01 1pf5A 131 3.64e+01 1oxsC 353 3.71e+01 b.40.6.3 87519 c.37.1.12 87520 1oxxK 353 3.78e+01 1e79A 510 3.80e+01 1skyB a.69.1.1 18269 b.49.1.1 26434 c.37.1.11 32314 1b4rA 80 3.81e+01 1b4rA b.1.3.1 22072 1thv 207 3.84e+01 1thv b.25.1.1 23904 1kwnA 207 3.85e+01 b.25.1.1 77568 1h1yA 228 3.85e+01 c.1.2.2 76506 1hqcA 324 3.89e+01 1hqcA a.4.5.11 16127 c.37.1.20 32424 1egxA 115 3.92e+01 1evhA b.55.1.4 27000 1jyoA 130 3.94e+01 d.198.1.1 67483