# List of top-scoring protein chains for t2k-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 1top 162 1.50e-03 1ncx a.39.1.5 17223 1ncx 162 2.50e-03 1ncx a.39.1.5 17222 1s29A 92 1.37e-01 unknown_sccs -315 2sas 185 1.83e-01 2sas a.39.1.5 17258 1kgdA 180 2.55e-01 c.37.1.1 68582 1aerA 205 3.34e-01 1aerA d.166.1.1 42249 1v8dA 235 4.23e-01 1dmaA 214 4.41e-01 1aerA d.166.1.1 42251 1k4iA 233 6.82e-01 d.115.1.2 72056 1ggzA 148 6.94e-01 a.39.1.5 70176 1qjtA 99 8.86e-01 1eh2 a.39.1.6 17335 3ladA 476 1.26e+00 1lvl c.3.1.5 30573 c.3.1.5 30574 d.87.1.1 40208 1upiA 225 1.41e+00 b.82.1.1 -4823 1on2A 142 1.53e+00 a.4.5.24 87103 a.76.1.1 87104 1nhkL 144 1.93e+00 1npk d.58.6.1 39142 3cln 148 2.26e+00 1cll a.39.1.5 17286 5pal 109 2.39e+00 1a75A a.39.1.4 17215 1auiB 169 2.64e+00 1auiB a.39.1.5 17325 1iqpA 327 2.83e+00 a.80.1.1 62649 c.37.1.20 62650 1nt4A 391 3.04e+00 c.60.1.2 -7942 1v25A 541 3.11e+00 1g4yR 148 3.14e+00 1cll a.39.1.5 60252 1cp3A 277 3.28e+00 1pauA c.17.1.1 30992 1ig5A 75 3.31e+00 4icb a.39.1.1 62363 1dqeA 137 3.39e+00 1dqeA a.39.2.1 17388 1sedA 117 3.97e+00 1uesA 191 4.10e+00 1avsA 90 4.21e+00 1cll a.39.1.5 17226 1s3jA 155 4.26e+00 a.4.5.28 -227 1cjsA 219 4.40e+00 1cjsA e.24.1.1 43354 1a26 361 4.55e+00 1a26 a.41.1.1 17412 d.166.1.2 42274 1wdcC 156 4.58e+00 1wdcC a.39.1.5 17317 1i2aA 219 5.65e+00 e.24.1.1 -12012 1e8aA 91 5.87e+00 1b4cA a.39.1.2 17188 3icb 75 5.92e+00 4icb a.39.1.1 17147 1nmeA 146 6.04e+00 c.17.1.1 85874 1cll 148 6.12e+00 1cll a.39.1.5 17263 1i1nA 226 6.15e+00 c.66.1.7 71102 1ltqA 301 6.23e+00 c.108.1.9 78208 c.37.1.1 78209 4gr1 478 6.49e+00 3grs c.3.1.5 30461 c.3.1.5 30462 d.87.1.1 40162 1pixA 587 6.51e+00 c.14.1.4 -6282 4icb 76 7.17e+00 4icb a.39.1.1 17145 1pvaA 110 7.63e+00 1a75A a.39.1.4 17207 1efyA 350 7.90e+00 1a26 a.41.1.1 17413 d.166.1.2 42275 1ju5A 109 7.96e+00 d.93.1.1 77173 1i60A 278 8.40e+00 c.1.15.4 71118 3grs 478 8.67e+00 3grs c.3.1.5 30441 c.3.1.5 30442 d.87.1.1 40152 1kqfA 1015 8.99e+00 b.52.2.2 72871 c.81.1.1 72872 1ct5A 256 9.10e+00 1ct5A c.1.6.2 28663 1dvbA 191 9.29e+00 1ryt a.25.1.1 16645 g.41.5.1 45244 1kexA 155 9.59e+00 b.18.1.2 77350 1osa 148 9.69e+00 1cll a.39.1.5 17300 1g3mA 294 9.85e+00 c.37.1.5 83268 1f7cA 231 1.05e+01 1f7cA a.116.1.1 19107 1lkoA 191 1.06e+01 a.25.1.1 78063 g.41.5.1 78064 1g57A 217 1.11e+01 1g57A d.115.1.2 60253 1f5jA 199 1.15e+01 1axkA b.29.1.11 24342 1qgoA 264 1.17e+01 1qgoA c.92.1.2 35596 1gesA 450 1.18e+01 3grs c.3.1.5 30473 c.3.1.5 30474 d.87.1.1 40168 1sra 151 1.19e+01 1sra a.39.1.3 17190 1h5pA 95 1.20e+01 1h5pA d.217.1.1 60642 1hy3A 294 1.20e+01 c.37.1.5 71090 1copD 66 1.22e+01 1orc a.35.1.2 17058 1b71A 191 1.23e+01 1ryt a.25.1.1 16647 g.41.5.1 45246 1ryt 190 1.29e+01 1ryt a.25.1.1 16646 g.41.5.1 45245 2alcA 65 1.30e+01 2alcA g.38.1.1 45097 1opc 110 1.30e+01 1opc a.4.6.1 16231 1b54 257 1.31e+01 1ct5A c.1.6.2 28664 1j1iA 296 1.33e+01 c.69.1.10 83977 1kg0C 136 1.35e+01 d.169.1.1 72445 1qx2A 76 1.38e+01 1k6dA 220 1.38e+01 unknown_sccs 72082 1s96A 219 1.48e+01 c.37.1.1 -6972 2olbA 517 1.48e+01 1jevA c.94.1.1 35721 1rro 108 1.49e+01 1a75A a.39.1.4 17195 1m46A 148 1.56e+01 a.39.1.5 78599 1n25A 368 1.56e+01 c.37.1.20 85264 1gydB 315 1.57e+01 b.67.2.1 70751 1s6cA 183 1.58e+01 a.39.1.5 -858 1a99A 344 1.59e+01 1pot c.94.1.1 35812 1rwyA 109 1.59e+01 a.39.1.4 -825 1kl9A 182 1.62e+01 b.40.4.5 72681 1t0yA 122 1.63e+01 d.15.1.1 -9151 1m7jA 484 1.65e+01 b.92.1.6 78732 b.92.1.6 78733 c.1.9.11 78734 1a98A 152 1.65e+01 1nulA c.61.1.1 34021 1ecxA 384 1.66e+01 1ecxA c.67.1.3 34431 1lf6A 684 1.66e+01 a.102.1.5 77918 b.30.5.5 77919 1k94A 165 1.66e+01 a.39.1.8 68333 1uisA 231 1.70e+01 d.22.1.1 -9450 1rk6A 496 1.71e+01 b.92.1.6 -5087 b.92.1.6 -5088 c.1.9.11 -5435 1exrA 148 1.72e+01 1cll a.39.1.5 17299 1eq9A 222 1.72e+01 5ptp b.47.1.2 26068 1dy2A 180 1.73e+01 1koe d.169.1.5 42451 1m2xA 223 1.73e+01 d.157.1.1 84764 1pal 108 1.75e+01 1a75A a.39.1.4 17209 1ri5A 298 1.79e+01 unknown_sccs -8063 1jetA 517 1.83e+01 1jevA c.94.1.1 35718 1ggvA 232 1.83e+01 1din c.69.1.9 34683 1rvkA 382 1.84e+01 c.1.11.2 -5568 d.54.1.1 -9826 1npk 154 1.85e+01 1npk d.58.6.1 39099 1din 236 1.88e+01 1din c.69.1.9 34682 1mu5A 471 1.94e+01 a.156.1.3 79472 d.14.1.3 79473 d.122.1.2 79474 2pvbA 107 1.96e+01 1a75A a.39.1.4 17205 1f4qA 165 1.98e+01 1alvA a.39.1.8 17360 1g8iA 190 2.03e+01 1rec a.39.1.5 60363 1ctaA 36 2.07e+01 1ctdA a.39.1.5 17232 1vkmA 297 2.08e+01 1b31A 302 2.10e+01 1taxA c.1.8.3 28892 1zac 90 2.12e+01 1ncx a.39.1.5 17236 1tplA 426 2.13e+01 1ax4A c.67.1.2 34387 1ptmA 329 2.14e+01 unknown_sccs -8456 1g33A 73 2.15e+01 a.39.1.4 65121 1jevA 517 2.15e+01 1jevA c.94.1.1 35720 1kr5A 226 2.27e+01 c.66.1.7 68847 1pauA 147 2.33e+01 1pauA c.17.1.1 30994 1bg4 302 2.35e+01 1taxA c.1.8.3 28806 7taa 478 2.36e+01 7taa b.71.1.1 27778 c.1.8.1 28765 1dfmA 223 2.37e+01 1d2iA c.52.1.5 33295 1d2iA 223 2.39e+01 1d2iA c.52.1.5 33297 1cdp 109 2.39e+01 1a75A a.39.1.4 17197 1jksA 294 2.40e+01 d.144.1.7 71710 2polA 366 2.42e+01 2polA d.131.1.1 41356 d.131.1.1 41357 d.131.1.1 41358 1vjkA 98 2.48e+01 1koe 172 2.55e+01 1koe d.169.1.5 42448 1g01A 364 2.57e+01 7a3hA c.1.8.3 60161 1qnnA 191 2.62e+01 1avmA a.2.11.1 15792 d.44.1.1 38755 1qtnA 164 2.67e+01 1pauA c.17.1.1 30999 4cpv 109 2.67e+01 1a75A a.39.1.4 17198 1ew3A 159 2.72e+01 1mup b.60.1.1 27114 1el4A 195 2.73e+01 1ej3A a.39.1.5 59453 1qtrA 317 2.75e+01 1qtrA c.69.1.7 34660 1eg5A 384 2.81e+01 1ecxA c.67.1.3 34429 1vjpA 394 2.85e+01 c.2.1.3 -5897 d.81.1.3 -10480 1ecfB 504 2.87e+01 1ecfB c.61.1.1 34054 d.153.1.1 41821 1s5uA 138 2.99e+01 d.38.1.1 -9626 1uslA 170 3.02e+01 c.121.1.1 -6682 1lqxA 82 3.03e+01 d.120.1.1 78153 1f60B 94 3.12e+01 1b64 d.58.12.1 39307 1ls8A 142 3.12e+01 a.39.2.1 78176 1g7cB 94 3.13e+01 1b64 d.58.12.1 39308 1f0lA 535 3.14e+01 1ddt b.2.1.1 22377 d.166.1.1 42239 f.1.2.1 43382 1ll1 590 3.16e+01 1lla a.85.1.1 18488 a.86.1.1 18499 b.1.18.3 21864 1g2iA 166 3.16e+01 1g2iA c.23.16.2 31438 1jf0A 195 3.17e+01 1ej3A a.39.1.5 62926 1bk1 184 3.17e+01 1axkA b.29.1.11 24340 1mmiA 366 3.22e+01 d.131.1.1 -11093 d.131.1.1 -11094 d.131.1.1 -11095 1gyhA 318 3.24e+01 b.67.2.1 70757 1veaA 148 3.37e+01 1twdA 256 3.44e+01 1t4hA 290 3.45e+01 1lktA 104 3.51e+01 1lktA b.90.1.1 28398 1ej3A 191 3.55e+01 1ej3A a.39.1.5 17259 1ecfA 504 3.55e+01 1ecfB c.61.1.1 34053 d.153.1.1 41820 1uasA 362 3.58e+01 b.71.1.1 88388 c.1.8.1 88389 1i74A 309 3.59e+01 1i74A c.107.1.1 61867 1g8mA 593 3.62e+01 1g8mA c.24.1.3 60371 c.97.2.1 60372 1aozA 552 3.65e+01 1aozA b.6.1.3 23124 b.6.1.3 23125 b.6.1.3 23126 1wm1A 317 3.67e+01 1f46A 140 3.70e+01 1f46A d.129.4.1 59643 1fadA 99 3.70e+01 1fadA a.77.1.2 18428 1m9nA 613 3.71e+01 c.24.1.3 78870 c.97.2.1 78871 1fzqA 181 3.71e+01 1hurA c.37.1.8 32060 1npiA 61 3.72e+01 g.3.7.1 80685 1jf2A 195 3.73e+01 1ej3A a.39.1.5 62930 1tedA 393 3.79e+01 1r30A 369 3.82e+01 unknown_sccs -5683