# List of top-scoring protein chains for t04-100-30-stride-ebghtl 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 1qpoA 284 9.66e-02 1qpoA c.1.17.1 29561 d.41.2.1 38597 1cbf 285 2.52e-01 1cbf c.90.1.1 35587 1vhcA 224 2.80e-01 c.1.10.1 -5488 1j96A 323 3.79e-01 c.1.7.1 71616 1s1pA 331 4.12e-01 c.1.7.1 -5240 1gmuA 143 5.16e-01 b.107.1.1 65335 d.58.38.1 65336 1vjrA 271 5.27e-01 unknown_sccs -6853 1edt 271 5.38e-01 2ebn c.1.8.5 28993 1earA 147 6.16e-01 b.107.1.1 64875 d.58.38.1 64876 2ebn 289 6.16e-01 2ebn c.1.8.5 28990 1g0oA 283 1.17e+00 1ybvA c.2.1.2 60181 4pgaA 337 1.20e+00 4pgaA c.88.1.1 35565 1c0pA 363 1.23e+00 1an9A c.4.1.2 30647 d.16.1.3 37934 1g8lA 411 1.51e+00 1g8lA b.85.6.1 60365 b.103.1.1 60366 c.57.1.2 60367 1bkzA 135 1.56e+00 1a3k b.29.1.3 24202 1i8dA 213 1.81e+00 b.43.4.3 61953 b.43.4.3 61954 1tufA 434 1.86e+00 1iqvA 218 2.50e+00 1rss a.75.1.1 62661 1gz6A 319 2.60e+00 c.2.1.2 76410 1zfjA 491 2.88e+00 1ak5 c.1.5.1 28638 d.37.1.1 38540 d.37.1.1 38541 1ujnA 348 2.95e+00 e.22.1.1 -11998 1przA 252 3.54e+00 unknown_sccs -10158 1s4qA 228 3.63e+00 c.37.1.1 -6975 1fjgQ 105 3.78e+00 1fjfQ b.40.4.5 25352 1ju3A 583 4.10e+00 b.18.1.13 67300 c.69.1.21 67301 1iw7C 1119 4.12e+00 e.29.1.1 71474 1rqpA 299 4.13e+00 unknown_sccs -4411 unknown_sccs -7908 1v9fA 325 4.23e+00 1uz5A 402 4.25e+00 b.85.6.1 -5029 b.103.1.1 -5069 c.57.1.2 -7902 1vns 609 4.69e+00 1vns a.111.1.3 19061 1dmhA 311 4.72e+00 1dmhA b.3.6.1 22633 1gmmA 133 4.75e+00 b.18.1.10 65314 1oi7A 288 4.88e+00 c.2.1.8 87049 c.23.4.1 87050 1uayA 242 4.89e+00 c.2.1.2 88390 1d0vA 356 5.19e+00 1d0vA c.39.1.1 32476 1eqcA 394 5.26e+00 1cz1A c.1.8.3 28811 1l5oA 356 5.36e+00 c.39.1.1 77711 1o54A 277 5.37e+00 c.66.1.13 -8095 1mugA 168 5.54e+00 1mugA c.18.1.2 31030 1f20A 435 5.57e+00 b.43.4.1 64932 c.25.1.4 64933 7odcA 424 5.81e+00 7odcA b.49.2.3 26488 c.1.6.1 28650 1ds1A 324 5.83e+00 1drtA b.82.2.2 28127 1edg 380 6.03e+00 1edg c.1.8.3 28807 1e1oA 504 6.89e+00 1lylA b.40.4.1 25258 d.104.1.1 40714 1kb0A 677 7.04e+00 a.3.1.6 68378 b.70.1.1 68379 1lt8A 406 7.47e+00 c.1.26.1 78186 1l2uA 245 7.53e+00 c.1.2.3 73516 1gteA 1025 7.70e+00 a.1.2.2 70440 c.1.4.1 70441 c.3.1.1 70442 c.4.1.1 70443 d.58.1.5 70444 1h7wA 1025 7.81e+00 1h7wA a.1.2.2 15683 c.1.4.1 28628 c.3.1.1 30324 c.4.1.1 30609 d.58.1.5 39007 1g2iA 166 7.99e+00 1g2iA c.23.16.2 31438 1f6yA 262 8.06e+00 1f6yA c.1.21.2 29673 1e19A 314 8.39e+00 1b7bA c.73.1.1 34967 1cydA 244 8.66e+00 1cydA c.2.1.2 29825 1xxaA 78 8.67e+00 1xxaA d.74.2.1 39700 1l6oA 95 8.67e+00 b.36.1.1 84534 1ni9A 338 8.78e+00 e.7.1.2 85739 1geqA 248 9.05e+00 2tysA c.1.2.4 28589 1gd7A 109 9.19e+00 b.40.4.4 60441 1v9kA 228 9.65e+00 1php 394 9.72e+00 16pk c.86.1.1 35452 1shuX 182 1.00e+01 c.62.1.1 -7982 1nktA 922 1.00e+01 a.162.1.1 85830 a.172.1.1 85831 c.37.1.19 85832 c.37.1.19 85833 1f86A 115 1.03e+01 1etb1 b.3.4.1 59689 1o1xA 155 1.04e+01 c.121.1.1 86553 16pk 415 1.11e+01 16pk c.86.1.1 35454 1a7s 221 1.14e+01 1a7s b.47.1.2 26284 1hw6A 278 1.15e+01 1frb c.1.7.1 61296 1o7iA 119 1.23e+01 b.40.4.3 86642 1bqcA 302 1.24e+01 1bqcA c.1.8.3 28831 1ceo 343 1.25e+01 1ceo c.1.8.3 28808 1p2fA 220 1.26e+01 a.4.6.1 87720 c.23.1.1 87721 1ov3A 138 1.31e+01 b.34.2.1 87451 b.34.2.1 87452 1itg 166 1.36e+01 1b9dA c.55.3.2 33661 1q7bA 244 1.39e+01 c.2.1.2 -5826 1l8dA 112 1.48e+01 h.4.12.1 73687 1cf9A 753 1.53e+01 1cf9A c.23.16.3 31441 e.5.1.1 42815 1d7pM 159 1.54e+01 1cztA b.18.1.2 23718 1lssA 140 1.55e+01 c.2.1.9 74246 1euaA 213 1.56e+01 1fwrA c.1.10.1 29155 1t4bA 367 1.58e+01 1uxxX 133 1.68e+01 b.18.1.10 -3107 1kzlA 208 1.74e+01 b.43.4.3 77635 b.43.4.3 77636 1fjgB 256 1.75e+01 1fjfB c.23.15.1 31400 1ne8A 117 1.77e+01 b.34.6.2 80424 1lylA 504 1.78e+01 1lylA b.40.4.1 25261 d.104.1.1 40717 1o7jA 327 1.81e+01 c.88.1.1 81140 1nriA 306 1.85e+01 c.80.1.3 86123 1jhfA 202 1.87e+01 a.4.5.2 63057 b.87.1.1 63058 1ng2A 193 1.87e+01 b.34.2.1 85660 b.34.2.1 85661 1i06A 180 1.88e+01 1mup b.60.1.1 27131 1c3jA 351 1.88e+01 1c3jA c.87.1.1 35459 1i05A 180 1.91e+01 1mup b.60.1.1 27130 1aszB 490 1.98e+01 1b8aA b.40.4.1 25241 d.104.1.1 40762 1p80A 753 1.99e+01 c.23.16.3 -6547 e.5.1.1 -11840 1iz0A 302 1.99e+01 b.35.1.2 83821 c.2.1.1 83822 1i2oA 316 2.00e+01 1onrA c.1.10.1 61574 2occI 73 2.02e+01 2occI f.23.3.1 43523 1ps9A 671 2.02e+01 c.1.4.1 -5206 1ub1A 133 2.05e+01 d.10.1.3 -8969 1nsj 205 2.10e+01 1nsj c.1.2.4 28560 1ihnA 113 2.11e+01 1ihnA c.103.1.1 62388 1onrA 316 2.13e+01 1onrA c.1.10.1 29169 1fnd 314 2.18e+01 1fnc b.43.4.2 25626 c.25.1.1 31516 1cnt1 187 2.22e+01 1cnt3 1mkp 144 2.25e+01 1vhrA c.45.1.1 32654 1g8aA 227 2.25e+01 c.66.1.3 -8049 4fgf 146 2.25e+01 1bfg b.42.1.1 25486 1o6uA 403 2.26e+01 a.5.3.1 -366 unknown_sccs -3048 c.13.1.1 -6221 1brwA 433 2.27e+01 1brwA a.46.2.1 17764 c.27.1.1 31628 d.41.3.1 38626 1fnc 314 2.28e+01 1fnc b.43.4.2 25627 c.25.1.1 31517 1ble 163 2.28e+01 1ble c.38.1.1 32475 1jr2A 286 2.30e+01 c.113.1.1 67111 1ji0A 240 2.34e+01 c.37.1.12 71665 1erjA 393 2.35e+01 1erjA b.69.4.1 27660 1b33N 67 2.37e+01 1b33N d.30.1.1 38459 1b4kA 337 2.38e+01 1b4kA c.1.10.3 29184 1fnsA 196 2.41e+01 1auq c.62.1.1 34136 1b5tA 275 2.43e+01 1b5tA c.1.23.1 29676 1gctA 245 2.43e+01 5ptp b.47.1.2 26021 1hm9A 468 2.44e+01 b.81.1.4 65866 c.68.1.5 65867 1h3nA 878 2.50e+01 a.27.1.1 76641 b.51.1.1 76642 c.26.1.1 76643 1ur1A 378 2.50e+01 c.1.8.3 -5311 1kv9A 668 2.53e+01 a.3.1.6 73056 b.70.1.1 73057 1krhA 338 2.53e+01 b.43.4.2 72891 c.25.1.2 72892 d.15.4.2 72893 2pii 112 2.57e+01 2pii d.58.5.1 39071 1h2wA 710 2.61e+01 b.69.7.1 76596 c.69.1.4 76597 1mup 166 2.64e+01 1mup b.60.1.1 27133 1olsA 400 2.70e+01 c.36.1.11 -6959 1jvnA 555 2.77e+01 c.1.2.1 67355 c.23.16.1 67356 1v54I 73 2.79e+01 f.23.3.1 -12108 1k0rA 366 2.82e+01 b.40.4.5 67961 d.52.3.1 67962 d.52.3.1 67963 d.202.1.1 67964 1n55A 251 2.85e+01 c.1.1.1 80007 1a0rP 245 2.89e+01 1b9yC c.47.1.6 33054 1kjwA 295 2.91e+01 b.34.2.1 68643 c.37.1.1 68644 1qy1A 174 2.91e+01 b.60.1.1 -4445 1mtzA 293 2.96e+01 c.69.1.7 79467 1gkpA 458 2.97e+01 b.92.1.3 70231 c.1.9.6 70232 1jqlB 140 2.97e+01 c.37.1.20 63234 1amk 251 3.00e+01 1amk c.1.1.1 28503 1umgA 362 3.00e+01 1l6rA 227 3.07e+01 c.108.1.10 77768 1v1rA 400 3.09e+01 1kv5A 250 3.11e+01 c.1.1.1 73052 1p3dA 475 3.13e+01 c.5.1.1 87728 c.59.1.1 87729 c.72.2.1 87730 1l5xA 280 3.18e+01 c.106.1.1 77718 1eceA 358 3.20e+01 1eceA c.1.8.3 28813 1tpfA 250 3.21e+01 1amk c.1.1.1 28467 1o66A 275 3.21e+01 c.1.12.8 -5590 1d2kA 392 3.23e+01 1d2kA c.1.8.5 29008 d.26.3.1 38442 1g6oA 330 3.24e+01 1g6oA c.37.1.11 32430 1hrnA 337 3.26e+01 1smrA b.50.1.2 26869 1m6jA 261 3.27e+01 c.1.1.1 78693 1sjwA 144 3.30e+01 unknown_sccs -9296 1h70A 255 3.30e+01 1h70A d.126.1.3 60711 1qftA 175 3.37e+01 1qftA b.60.1.1 27151 1gzgA 337 3.41e+01 c.1.10.3 70805 1qj4A 257 3.42e+01 1qj4A c.69.1.20 34796 1at3A 247 3.44e+01 1at3A b.57.1.1 27021 1o17A 345 3.44e+01 a.46.2.1 80765 c.27.1.1 80766 1an9A 340 3.46e+01 1an9A c.4.1.2 30617 d.16.1.3 37904 1brmA 367 3.49e+01 1brmA c.2.1.3 30030 d.81.1.1 39945 1p5fA 189 3.50e+01 c.23.16.2 -6508 1f5fA 205 3.50e+01 1d2sA b.29.1.4 24222 1nykA 165 3.62e+01 b.33.1.1 86408 1qfmA 710 3.62e+01 1qfmA b.69.7.1 27673 c.69.1.4 34641 1o4uA 285 3.62e+01 c.1.17.1 86624 d.41.2.1 86625 1ef8A 261 3.65e+01 1ef8A c.14.1.3 30921 1or4A 178 3.66e+01 a.1.1.2 -91 1i9gA 280 3.68e+01 c.66.1.13 62090 2masA 314 3.80e+01 2masA c.70.1.1 34810 1u02A 239 3.83e+01 1pymA 295 3.84e+01 1pymA c.1.12.7 29308 1tidB 119 3.85e+01 1ll7A 392 3.86e+01 c.1.8.5 78085 d.26.3.1 78086 1op0A 234 3.93e+01