# List of top-scoring protein chains for t2k-100-30-stride-ebghtl-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.soe.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 2cirA 297 4.00e-17 2htaA 309 1.38e-16 1snzA 344 6.35e-14 b.30.5.4 98930 1mmuA 347 4.76e-13 b.30.5.4 79303 1nszA 347 1.37e-12 b.30.5.4 80724 1lurA 339 8.59e-12 b.30.5.4 84717 1jovA 270 2.68e-11 b.30.5.7 84192 1z45A 699 1.86e-10 b.30.5.4,c.2.1.2 124427,124428 1ygaA 342 3.60e-09 3bs6A 280 6.50e-01 1b96A 244 1.29e+00 1rvaA c.52.1.2 33268 1b94A 244 1.42e+00 1rvaA c.52.1.2 33250 1b97A 244 1.42e+00 1rvaA c.52.1.2 33252 1hn0A 1021 1.60e+00 a.102.3.2,b.18.1.17,b.24.1.1,b.30.5.2 83616,83617,83618,83619 1eonA 245 2.09e+00 1rvaA c.52.1.2 33238 1sx5A 244 2.44e+00 c.52.1.2 99023 1ju3A 583 2.72e+00 b.18.1.13,c.69.1.21 67300,67301 1z4vA 532 2.97e+00 1kit 757 3.48e+00 1kit 1w0pA 781 3.70e+00 b.29.1.8,b.29.1.8,b.68.1.1 109038,109039,109040 1mzyA 333 3.89e+00 b.6.1.3,b.6.1.3 103848,103849 2ovrB 445 3.94e+00 3blcA 330 4.06e+00 1i7pA 274 7.59e+00 b.43.4.2,c.25.1.1 66048,66049 2d73A 738 8.95e+00 1oe1A 336 9.01e+00 b.6.1.3,b.6.1.3 86891,86892 1j9qA 341 9.09e+00 1nif b.6.1.3,b.6.1.3 62765,62766 2shpA 525 9.20e+00 2shpA c.45.1.2,d.93.1.1,d.93.1.1 32683,40533,40534 1dq3A 454 9.35e+00 1dq3A b.86.1.2,d.50.3.1,d.95.2.2,d.95.2.2 28380,38798,40585,40586 2ok8A 316 9.83e+00 1qx4A 274 1.01e+01 b.43.4.2,c.25.1.1 104624,104625 1et7A 341 1.09e+01 1nif b.6.1.3,b.6.1.3 23070,23071 1snrA 341 1.13e+01 b.6.1.3,b.6.1.3 105823,105824 1v0eA 666 1.16e+01 b.68.1.2,b.108.1.3 113466,113467 2ppeA 343 1.17e+01 1zdsA 336 1.19e+01 b.6.1.3,b.6.1.3 124952,124953 2oizA 361 1.20e+01 2agyA 361 1.20e+01 1umkA 275 1.20e+01 b.43.4.2,c.25.1.1 113312,113313 1bssA 244 1.22e+01 1rvaA c.52.1.2 33256 1as6A 343 1.30e+01 1nif b.6.1.3,b.6.1.3 23090,23091 1p57B 255 1.31e+01 b.47.1.2 94126 1ejxB 101 1.41e+01 b.85.3.1 83183 1fwcB 106 1.42e+01 1ubpB b.85.3.1 28324 1aol 228 1.45e+01 1aol 1aolA 228 1.45e+01 b.20.1.1 23840 2vduB 450 1.47e+01 1k32A 1045 1.50e+01 b.36.1.3,b.68.7.1,b.69.9.1,c.14.1.2 68068,68069,68070,68071 2gy5A 423 1.52e+01 2r55A 231 1.65e+01 1n6eA 1071 1.68e+01 b.36.1.3,b.68.7.1,b.69.9.1,c.14.1.2 80149,80150,80151,80152 2acoA 173 1.69e+01 1qwdA 177 1.69e+01 b.60.1.1 96471 1iqzA 81 1.71e+01 d.58.1.4 66281 1mt6A 280 1.74e+01 b.76.2.1,b.85.7.1 79446,79447 1ubpB 122 1.84e+01 1ubpB b.85.3.1 28346 2biqA 219 1.85e+01 2hu5A 582 1.86e+01 b.69.7.2,c.69.1.33 136763,136764 4ubpB 126 1.90e+01 1ubpB b.85.3.1 28345 1kz8A 337 1.94e+01 e.7.1.1 77633 1chmA 401 2.00e+01 1chmA c.55.2.1,d.127.1.1 33545,41142 1qlgA 355 2.06e+01 1qlgA b.68.3.1 27627 3b9cA 144 2.14e+01 1z9lA 128 2.15e+01 2dawA 154 2.40e+01 1nr0A 611 2.44e+01 b.69.4.1,b.69.4.1 86078,86079 1lmiA 131 2.46e+01 b.1.19.1 78098 1frpA 335 2.46e+01 1frpA e.7.1.1 42875 2pooA 355 2.47e+01 1qlgA b.68.3.1 27626 2retB 175 2.50e+01 1h3iA 293 2.51e+01 b.76.2.1,b.85.7.1 76635,76636 2ioiA 201 2.55e+01 2p52A 196 2.58e+01 2h1tA 188 2.62e+01 1wgvA 124 2.63e+01 b.15.1.4 114624 2pefA 373 2.65e+01 1xdyA 298 2.73e+01 d.176.1.1 115186 1ndh 272 2.74e+01 1ndh 1hxn 219 2.77e+01 1hxn 1hxnA 219 2.77e+01 b.66.1.1 27529 1ba1 386 2.91e+01 1ba1 1zpuA 534 3.03e+01 1onqA 283 3.08e+01 b.1.1.2,d.19.1.1 93365,93366 2q87A 110 3.09e+01 1d2pA 373 3.11e+01 1d2oA b.3.5.1,b.3.5.1,b.3.5.1,b.3.5.1 22629,22630,22631,22632 2h26A 291 3.15e+01 b.1.1.2,d.19.1.1 135990,135991 1ujxA 119 3.23e+01 b.26.1.2 99473 1lm8B 118 3.24e+01 d.15.1.1 74033 1bupA 386 3.27e+01 1ba1 c.55.1.1,c.55.1.1 33377,33378 1so9A 164 3.27e+01 b.146.1.1 105842 2fujA 137 3.28e+01 d.38.1.1 134175 1l8rA 101 3.31e+01 a.6.1.4 73700 2pviA 157 3.44e+01 3pviA c.52.1.6 33302 1guiA 155 3.46e+01 b.18.1.14 76351 2cqsA 842 3.56e+01 1h6lA 353 3.56e+01 b.68.3.1 60687 1cq3A 233 3.60e+01 1cq3A b.27.1.1 23923 3b2mA 295 3.75e+01 1kay 381 3.80e+01 1ba1 1vcbA 118 3.80e+01 1vcbA d.15.1.1 37603 1tupA 219 3.85e+01 1tupA b.2.5.2 22434 1uolA 219 3.86e+01 b.2.5.2 99695 1npsA 88 3.90e+01 1prs b.11.1.1 23622 1eyuA 157 3.94e+01 3pviA c.52.1.6 33304 2j21A 219 4.00e+01 1vjjA 692 4.06e+01 b.1.18.9,b.1.5.1,b.1.5.1,d.3.1.4 100814,100815,100816,100817 2h2zA 306 4.13e+01 2ac0A 200 4.28e+01 b.2.5.2 126539 1qhuA 460 4.31e+01 1qhuA b.66.1.1,b.66.1.1 27530,27531 1upqA 123 4.41e+01 b.55.1.1 113392 2ntiA 249 4.55e+01 1vhzA 198 4.57e+01 d.113.1.1 100718 1c9oA 66 4.57e+01 1mjc b.40.4.5 25325 2cavA 445 4.60e+01 1dgwA b.82.1.2,b.82.1.2 28094,28095 2vngA 180 4.64e+01 1z8gA 372 4.79e+01 b.47.1.2,d.170.1.2 124697,124698 2ojhA 297 4.83e+01 2otnA 308 4.89e+01 2pcxA 220 4.92e+01 2ix2A 249 4.95e+01 1xe7A 203 4.95e+01 b.82.1.16 115213 2hrgA 496 5.07e+01 2ag9A 164 5.16e+01 1dp0A 1023 5.18e+01 b.1.4.1,b.1.4.1,b.18.1.5,b.30.5.1,c.1.8.3 22073,22074,23722,24346,28845 1m9zA 111 5.27e+01 g.7.1.3 78881 1b2pA 119 5.30e+01 1b2pA b.78.1.1 27998 2c4xA 260 5.32e+01 2ffsA 157 5.32e+01 d.129.3.7 133391 2amdA 311 5.35e+01 1zgsA 447 5.35e+01 1f46A 140 5.38e+01 1f46A d.129.4.1 59643 1jz8A 1023 5.53e+01 b.1.4.1,b.1.4.1,b.18.1.5,b.30.5.1,c.1.8.3 67830,67831,67832,67833,67834 1fzqA 181 5.58e+01 1hurA c.37.1.8 32060 2cntA 160 5.79e+01 2j2zA 218 5.84e+01 b.1.11.1,b.7.2.1 137974,137975 1f47B 144 5.95e+01 1f46A d.129.4.1 59645 2iuwA 238 5.96e+01 b.82.2.10 137709 1z8kA 193 5.97e+01 b.159.1.1 124703 1o7dD 282 5.97e+01 1jmcA 246 5.98e+01 1jmcA b.40.4.3,b.40.4.3 25300,25301 1ycsA 199 6.03e+01 1tupA b.2.5.2 22433 1fg9C 245 6.03e+01 1jrhI b.1.2.1,b.1.2.1 22060,22061 2be1A 339 6.04e+01 1bpoA 494 6.09e+01 1bpoA a.118.1.4,b.69.6.1 19143,27670 1gzqA 300 6.11e+01 b.1.1.2,d.19.1.1 70818,70819 1u5dA 108 6.12e+01 b.55.1.1 119536 1behA 187 6.15e+01 1a44 b.17.1.1 23700 2arcA 164 6.17e+01 2arcA b.82.4.1 28148 1bcpB 199 6.20e+01 1bcpB b.40.2.1,d.169.1.2 25120,42429 1zoxA 113 6.21e+01 1pzsA 208 6.25e+01 b.1.8.1 104397 2bfgA 503 6.27e+01 b.71.1.2,c.1.8.3 128423,128424 1n0lA 224 6.29e+01 b.1.11.1,b.7.2.1 79744,79745 1e44B 96 6.32e+01 1e44B b.101.1.1 59220 2a1hA 365 6.36e+01 e.17.1.1 125997 1igtB 444 6.38e+01 1igtB b.1.1.1,b.1.1.2,b.1.1.2,b.1.1.2 19765,20867,20868,20869 3cygA 222 6.46e+01 2bs9A 503 6.57e+01 b.71.1.2,c.1.8.3 129062,129063 1qlpA 394 6.58e+01 1ovaA e.1.1.1 42628 1li5A 461 6.59e+01 a.27.1.1,c.26.1.1 73912,73913 1bglA 1023 6.60e+01 1bglA b.1.4.1,b.1.4.1,b.18.1.5,b.30.5.1,c.1.8.3 22097,22098,23734,24358,28857 1mjc 69 6.78e+01 1mjc 1mjcA 69 6.78e+01 b.40.4.5 25319 2aacA 177 6.89e+01 2arcA b.82.4.1 28150 2p08A 115 6.90e+01 1f2qA 176 6.95e+01 2fcbA b.1.1.4,b.1.1.4 21789,21790 2iqyA 190 6.98e+01 1e9pA 151 6.99e+01 1mfmA b.1.8.1 22215 2nykA 285 7.00e+01 1et9A 204 7.10e+01 1an8 b.40.2.2,d.15.6.1 25204,37793 2d1eA 248 7.26e+01 1f7wA 144 7.29e+01 1f46A d.129.4.1 59679 1qwzA 235 7.31e+01 b.100.1.1 96510 1yjmA 110 7.32e+01 b.26.1.2 123427 2gc1A 188 7.33e+01 b.82.1.7 134928 1ng5A 215 7.43e+01 b.100.1.1 91867 1znpA 154 7.43e+01 b.82.1.16 125394 1pm1X 180 7.47e+01 b.60.1.1 104189 2vg9A 217 7.52e+01 1ktzB 122 7.55e+01 g.7.1.3 68868 1j1tA 233 7.62e+01 b.29.1.18 90771 1qxrA 189 7.84e+01 b.82.1.7 96552 1csp 67 7.86e+01 1mjc 1pguA 615 7.93e+01 b.69.4.1,b.69.4.1 88069,88070 1yuwA 554 8.00e+01 b.130.1.1,c.55.1.1,c.55.1.1 124070,124071,124072