# List of top-scoring protein chains for t2k-100-30-o_notor2-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 1mugA 168 1.09e+00 1mugA c.18.1.2 31030 1ukfA 188 1.15e+00 d.3.1.10 99488 1fcyA 236 2.11e+00 2lbd a.123.1.1 19282 1auq 208 2.31e+00 1auq c.62.1.1 34137 1fnsA 196 2.39e+00 1auq c.62.1.1 34136 1ijbA 202 2.74e+00 c.62.1.1 71229 1u6zA 513 2.88e+00 1oshA 232 2.91e+00 a.123.1.1 93496 4lbd 267 3.19e+00 2lbd a.123.1.1 19289 1g5aA 628 3.44e+00 b.71.1.1,c.1.8.1 65152,65153 1kfd 605 3.82e+00 1xwl c.55.3.5,e.8.1.1 33694,42987 1d8yA 605 4.26e+00 1xwl c.55.3.5,e.8.1.1 33684,42977 1xauA 122 4.27e+00 1yvoA 172 4.54e+00 1oakA 196 4.96e+00 1auq c.62.1.1 34138 1erjA 393 5.27e+00 1erjA b.69.4.1 27660 2lbd 267 5.45e+00 2lbd a.123.1.1 19287 2kfnA 605 5.63e+00 1xwl c.55.3.5,e.8.1.1 33682,42975 1xoyA 161 7.01e+00 1v61A 132 7.31e+00 b.55.1.1 108389 1kopA 223 8.36e+00 2cba b.74.1.1 27966 1lay 256 8.44e+00 1lay b.57.1.1 27014 2bl1A 172 8.52e+00 2b8eA 273 8.70e+00 1vqoE 178 9.24e+00 1ud9A 245 9.30e+00 d.131.1.2,d.131.1.2 107768,107769 1qynA 153 9.57e+00 d.33.1.1 96597 1qysA 106 9.88e+00 k.41.1.1 96603 2gf6A 135 9.94e+00 1qwrA 319 1.09e+01 b.82.1.3 96491 1jj2E 177 1.09e+01 1ffk1 d.141.1.1,d.141.1.1 63089,63090 1j93A 353 1.16e+01 c.1.22.1 66454 1klnA 605 1.19e+01 1xwl c.55.3.5,e.8.1.1 33693,42986 1fx3A 169 1.24e+01 1fx3B d.33.1.1 38524 1g0sA 209 1.26e+01 1g0sA d.113.1.1 60187 1s72E 178 1.27e+01 d.141.1.1,d.141.1.1 105323,105324 1npuA 117 1.29e+01 b.1.1.1 92038 1z5yE 149 1.29e+01 1fx3B 169 1.31e+01 1fx3B d.33.1.1 38525 2fhi 147 1.39e+01 1fit d.13.1.1 37505 1s1eA 224 1.45e+01 1bp1 456 1.46e+01 1bp1 d.83.1.1,d.83.1.1 40026,40027 1g99A 408 1.48e+01 1g99A c.55.1.2,c.55.1.2 33457,33458 1ewfA 456 1.62e+01 1bp1 d.83.1.1,d.83.1.1 40024,40025 1fjjA 159 1.68e+01 1fjjA b.17.1.2 59852 1z54A 132 1.80e+01 1kpuB 99 1.87e+01 b.1.1.2 84458 1b26A 416 1.90e+01 1hwyA c.2.1.7,c.58.1.1 30232,33880 2c3vA 102 1.94e+01 1kjvB 100 1.99e+01 b.1.1.2 77423 2d8aA 348 2.03e+01 1ovaA 386 2.06e+01 1ovaA e.1.1.1 42619 1dytA 133 2.07e+01 7rsa d.5.1.1 37288 1fzkB 99 2.11e+01 1agdB b.1.1.2 60151 1fzoB 99 2.14e+01 1agdB b.1.1.2 60157 1fit 147 2.15e+01 1fit d.13.1.1 37499 1bh9A 45 2.15e+01 1bh9A a.22.1.3 16483 1lk2B 99 2.16e+01 b.1.1.2 91058 3pmgA 561 2.19e+01 3pmgA c.84.1.1,c.84.1.1,c.84.1.1,d.129.2.1 35408,35409,35410,41301 1d06A 130 2.21e+01 1drmA d.110.3.2 40906 1w07A 659 2.23e+01 2c6cA 707 2.26e+01 1snzA 344 2.28e+01 b.30.5.4 98930 1qfmA 710 2.29e+01 1qfmA b.69.7.1,c.69.1.4 27673,34641 1h2xA 710 2.42e+01 b.69.7.1,c.69.1.4 76598,76599 2bjfA 329 2.46e+01 1g7dA 106 2.50e+01 1g7dA a.71.1.1 18318 2dkb 433 2.51e+01 2dkb c.67.1.4 34438 1h1hA 134 2.52e+01 d.5.1.1 76468 1iz0A 302 2.52e+01 b.35.1.2,c.2.1.1 83821,83822 1g7pB 99 2.56e+01 b.1.1.2 70155 1m6uA 272 2.57e+01 b.2.5.7 78706 1a7aA 432 2.66e+01 1b3rA c.2.1.4,c.23.12.3 30104,31364 1wgeA 83 2.68e+01 1mkmA 249 2.69e+01 a.4.5.33,d.110.2.2 79242,79243 2czrA 226 2.73e+01 1oqjA 97 2.86e+01 d.217.1.1 93417 1do6A 124 2.87e+01 1do6A b.1.13.1 22361 1lshA 1056 2.91e+01 a.118.4.1,f.7.1.1,f.7.1.1 74242,74243,74244 2cevA 299 3.01e+01 1d3vA c.42.1.1 32576 1e8nA 710 3.04e+01 1qfmA b.69.7.1,c.69.1.4 27675,34643 1dqiA 124 3.06e+01 1do6A b.1.13.1 22357 1mkaA 171 3.09e+01 1mkaA d.38.1.2 38543 2c36A 285 3.14e+01 1eceA 358 3.22e+01 1eceA c.1.8.3 28813 1uhgA 385 3.30e+01 e.1.1.1 88491 1mc0A 368 3.31e+01 d.110.2.1,d.110.2.1 78937,78938 1ooeA 236 3.37e+01 c.2.1.2 87196 1wt4A 73 3.39e+01 1bndB 119 3.59e+01 1bndA g.17.1.3 44794 1mcpL 220 3.59e+01 8fabA b.1.1.1,b.1.1.2 19858,20958 1m0qA 433 3.73e+01 c.67.1.4 78350 1dzkA 157 3.77e+01 1obpA b.60.1.1 27096 1jjoC 261 3.81e+01 1qltA 560 3.81e+01 1qltA d.58.32.1,d.145.1.1 39457,41720 1sjqA 105 3.82e+01 d.58.7.1 105660 1y01A 102 3.82e+01 1li4A 432 3.83e+01 c.2.1.4,c.23.12.3 84616,84617 1mkyA 439 3.96e+01 c.37.1.8,c.37.1.8,d.52.5.1 79250,79251,79252 1pv5A 264 3.98e+01 d.251.1.1 95150 1wzcA 249 4.01e+01 1gtmA 419 4.05e+01 1hwyA c.2.1.7,c.58.1.1 30223,33871 1f2tA 149 4.06e+01 1f2tA c.37.1.12 32373 1vhmA 195 4.11e+01 d.110.2.1 100691 1e9gB 286 4.13e+01 1wgjA b.40.5.1 59394 2d9rA 104 4.25e+01 1imjA 210 4.26e+01 c.69.1.23 71246 1vq0A 302 4.32e+01 1c0dA 358 4.37e+01 1eceA c.1.8.3 28815 8prkA 287 4.41e+01 1wgjA b.40.5.1 25395 2giyA 191 4.42e+01 1qmtA 134 4.43e+01 7rsa d.5.1.1 37290 1ew0A 130 4.43e+01 1drmA d.110.3.2 40905 1gcvB 136 4.48e+01 1cg5B a.1.1.2 15589 1h2wA 710 4.51e+01 b.69.7.1,c.69.1.4 76596,76597 1oj4A 283 4.55e+01 d.14.1.5,d.58.26.5 93083,93084 1e9gA 286 4.60e+01 1wgjA b.40.5.1 59393 1e8gA 560 4.74e+01 1qltA d.58.32.1,d.145.1.1 39455,41718 1us8A 147 4.76e+01 c.37.1.12 99859 1zpyA 95 4.77e+01 1y7wA 291 4.79e+01 1n12A 138 4.82e+01 b.2.3.2 79779 1ospL 214 4.82e+01 32c2A b.1.1.1,b.1.1.2 20116,21146 1r9lA 309 4.89e+01 c.94.1.1 97262 1vjpA 394 4.95e+01 c.2.1.3,d.81.1.3 100828,100829 1mhcB 99 5.12e+01 1agdB b.1.1.2 20832 1qmrA 159 5.13e+01 1bv1 d.129.3.1 41314 1m98A 317 5.15e+01 a.175.1.1,d.17.4.6 78866,78867 1l0wA 580 5.19e+01 b.40.4.1,d.74.4.1,d.104.1.1 73426,73427,73428 1i58A 189 5.26e+01 1b3qA d.122.1.3 61773 1tvgA 153 5.51e+01 1y791 680 5.63e+01 1v9yA 167 5.67e+01 d.110.3.2 108454 1b6fA 159 5.68e+01 1bv1 d.129.3.1 41316 1nlbL 220 5.71e+01 b.1.1.1,b.1.1.2 80623,80624 1uyjA 296 5.75e+01 f.8.1.2 108143 1bssA 244 5.78e+01 1rvaA c.52.1.2 33256 2gnqA 336 5.82e+01 1b6q 63 5.82e+01 1nkd a.30.1.1 16977 1t3qC 288 5.85e+01 d.87.2.1,d.145.1.3 106371,106372 1tmcA 175 5.87e+01 1agdA d.19.1.1 38258 1q9rA 219 5.88e+01 b.1.1.1,b.1.1.2 96305,96306 1q98A 165 5.94e+01 c.47.1.10 96253 1zuhA 168 5.99e+01 1ofgA 381 6.00e+01 1ofgA c.2.1.3,d.81.1.5 30064,39979 1ay1L 210 6.02e+01 8fabA b.1.1.1,b.1.1.2 20242,21254 1tgoA 773 6.03e+01 1tgoA c.55.3.5,e.8.1.1 33721,43010 2f51A 118 6.06e+01 1a3rL 220 6.07e+01 8fabA b.1.1.1,b.1.1.2 19780,20890 1ltlA 279 6.12e+01 b.40.4.11 84701 15c8L 213 6.16e+01 8fabA b.1.1.1,b.1.1.2 20300,21292 1d7pM 159 6.16e+01 1cztA b.18.1.2 23718 1wpoB 256 6.19e+01 1lay b.57.1.1 27013 1d7uA 433 6.20e+01 2dkb c.67.1.4 34439 1koqA 253 6.21e+01 2cba b.74.1.1 27964 1n0xL 215 6.25e+01 b.1.1.1,b.1.1.2 91532,91533 1tf1A 198 6.28e+01 d.110.2.2 106826 1e6oL 212 6.31e+01 32c2A b.1.1.1,b.1.1.2 20494,21452 1mm4A 170 6.32e+01 f.4.1.2 79294 2cwzA 141 6.39e+01 1uheA 97 6.39e+01 1vz6A 393 6.43e+01 d.154.1.2 108949 2c31A 568 6.51e+01 2blfA 373 6.54e+01 1dm0A 287 6.55e+01 1dm0A d.165.1.2 42227 1h6dA 433 6.69e+01 c.2.1.3,d.81.1.5 65656,65657 1winA 143 6.75e+01 1tetL 216 6.79e+01 32c2A b.1.1.1,b.1.1.2 19902,20996 1mg7A 417 6.90e+01 d.14.1.6,d.58.26.6 84954,84955 1jr7A 311 6.91e+01 b.82.2.3 63255 1cqqA 180 6.92e+01 1cqqA b.47.1.4 26422 2cy0A 263 7.16e+01 1hkkA 364 7.16e+01 c.1.8.5,d.26.3.1 90634,90635 1tkiA 321 7.22e+01 1tkiA d.144.1.7 41638 1dqqA 214 7.26e+01 8fabA b.1.1.1,b.1.1.2 20420,21390 1qj4A 257 7.31e+01 1qj4A c.69.1.20 34796 1flrL 219 7.36e+01 8fabA b.1.1.1,b.1.1.2 19904,20998 1xgyL 216 7.37e+01 1ea0A 1479 7.40e+01 b.80.4.1,c.1.4.1,d.153.1.1 64854,64855,64856 1yqvL 211 7.42e+01 1ht9A 76 7.53e+01 4icb a.39.1.1 61252 1koiA 184 7.56e+01 b.60.1.1 68725 1j27A 102 7.56e+01 d.58.50.1 90778 4icb 76 7.56e+01 4icb a.39.1.1 17145 1yasA 257 7.59e+01 1qj4A c.69.1.20 34801 1etxA 98 7.60e+01 1fipA a.4.1.12 18978 1mua 256 7.63e+01 2cba b.74.1.1 27831 1wgjA 286 7.63e+01 1wgjA b.40.5.1 25397 2daxA 152 7.66e+01 1a4kA 217 7.67e+01 8fabA b.1.1.1,b.1.1.2 20236,21248 1h6tA 291 7.67e+01 b.1.18.15,c.10.2.1 65686,65687 1seqL 213 7.75e+01 1mjuL 219 7.75e+01 b.1.1.1,b.1.1.2 91304,91305 1cec 343 7.80e+01 1ceo c.1.8.3 28809 1lsuA 147 7.82e+01 c.2.1.9 74250 1a3yA 149 7.83e+01 1obpA b.60.1.1 27110 1xwfA 431 7.85e+01 2d5cA 263 7.88e+01 2ad9A 119 7.92e+01 2g6yA 217 8.01e+01 1ex2A 189 8.02e+01 1ex2A c.51.4.2 33225 1m9sA 605 8.03e+01 b.1.18.15,b.34.11.1,b.34.11.1,b.34.11.1,c.10.2.1 78874,78875,78876,78877,78878 1wrvA 308 8.04e+01 1ollA 188 8.04e+01 b.1.1.4,b.1.1.4 93313,93314 1vjuA 309 8.06e+01 d.248.1.1 100835 1zxq 192 8.08e+01 1zxq b.1.1.3,b.1.1.4 21657,21693 1jv4A 162 8.09e+01 b.60.1.1 67343 1qahA 136 8.13e+01 d.79.1.1 96338 1w1kA 560 8.16e+01 d.58.32.1,d.145.1.1 109059,109060 1s4bP 674 8.20e+01 d.92.1.5 105252 1njkA 156 8.20e+01 d.38.1.1 85818 1rprA 63 8.21e+01 1nkd a.30.1.1 16989 1ji8A 111 8.30e+01 d.203.1.1 66733 1tzfA 259 8.33e+01 c.68.1.13 107476 1b8kA 119 8.42e+01 1bndA g.17.1.3 44795 2fbjL 213 8.52e+01 8fabA b.1.1.1,b.1.1.2 19850,20954 1d6aB 262 8.53e+01 1qi7A d.165.1.1 42198 1i6uA 130 8.63e+01 d.140.1.1 61850 1de4C 640 8.67e+01 1cx8B a.48.2.1,c.8.4.1,c.56.5.5 17779,30760,33848 1w0bA 102 8.69e+01 a.7.11.1 108985 1fm4A 159 8.70e+01 1bv1 d.129.3.1 76186 1caj 260 8.71e+01 2cba b.74.1.1 27841 2aabL 218 8.72e+01 1hlgA 371 8.77e+01 1hlgA c.69.1.6 34656 1ztxL 212 8.81e+01 1f5yA 85 8.84e+01 1f5yA g.12.1.1,g.12.1.1 44610,44611 2ggcA 263 8.85e+01 2gi3A 476 8.88e+01 1vcaA 202 8.90e+01 1vcaA b.1.1.3,b.1.1.4 21649,21685 1cyj 90 8.91e+01 1ctj a.3.1.1 15805 1nepA 130 8.93e+01 b.1.18.7 80440 1q77A 138 8.95e+01 c.26.2.4 96023 1k5nB 100 8.99e+01 b.1.1.2 77268