# List of top-scoring protein chains for t04-80-60-80-str2+near-backbone-11-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. # #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 SCOP_domain SCOP_suid 5S 5N 12S 12S 10N 1miuA 738 0.01765 a.170.1.1,a.171.1.1,b.40.4.3,b.40.4.3,b.40.4.3 79153,79154,79155,79156,79157 1iyjB 817 0.1554 a.170.1.1,a.171.1.1,b.40.4.3,b.40.4.3,b.40.4.3 76948,76949,76950,76951,76952 1w7cA 747 0.2474 1vcbC 160 1.101 b.3.3.1 22535 1lm8V 160 1.356 b.3.3.1 74035 2bibA 547 1.913 b.109.1.1,d.157.1.8 128581,128582 1jv2A 957 4.854 b.1.15.1,b.1.15.1,b.1.15.1,b.69.8.1 67334,67335,67336,67337 1yavA 159 7.141 d.37.1.1,d.37.1.1 116595,116596 3brgC 427 7.339 2nn6E 305 7.392 1zhxA 438 8.506 d.338.1.1 125112 1twfB 1224 8.650 e.29.1.1 112726 1yn9A 169 8.681 1n9eA 787 9.036 b.30.2.1,d.17.2.1,d.17.2.1 91708,91709,91710 1k28A 584 9.291 b.40.8.1,b.108.1.2,d.2.1.3 68049,68050,68051 1txkA 498 9.872 b.1.18.2,b.30.5.9 107425,107426 1gttA 429 9.97 d.177.1.1,d.177.1.1 70529,70530 2rawA 145 10.62 1tyv 542 13.89 1p90A 145 15.03 c.55.5.2 94377 1qd9A 124 19.25 d.79.1.1 39758 1khoA 370 20.25 a.124.1.1,b.12.1.3 72489,72490 2ptfA 233 20.27 1g8lA 411 21.67 b.85.6.1,b.103.1.1,c.57.1.2 60365,60366,60367 1jidA 128 21.94 d.201.1.1 66735 1tyvA 554 25.08 b.80.1.6 28038 2qkiC 343 26.28 2qsdA 187 27.71 1lml 478 27.89 1zclA 180 28.04 1ng2A 193 28.31 b.34.2.1,b.34.2.1 85660,85661 2jgpA 520 28.34 1ohfA 644 29.32 b.121.4.8 93014 1wzoA 246 30.77 1ntvA 152 30.85 b.55.1.2 86168 1u2pA 163 30.89 1ogqA 313 31.47 c.10.2.8 86996 2q7sA 290 32.37 2il5A 171 32.44 2qp2A 511 33.39 2g8jA 339 33.93 d.3.1.3 134773 1qvzA 237 34.20 c.23.16.2 96453 3d2fA 675 35.83 1ksiA 642 37.06 b.30.2.1,d.17.2.1,d.17.2.1 24408,38043,38044 1k8tA 510 37.45 e.41.1.1 68316 2ip2A 334 37.75 2daqA 110 38.67 b.34.9.2 131354 1e6yA 569 39.36 a.89.1.1,d.58.31.2 18529,39447 2ibaA 302 39.69 d.96.1.4,d.96.1.4 137178,137179 2j9iA 421 40.27 1nh8A 304 40.66 c.94.1.1,d.58.5.3 80507,80508 1i7pA 274 41.65 b.43.4.2,c.25.1.1 66048,66049 1ukxA 137 41.98 d.20.1.3 107919 1xvxA 312 42.10 c.94.1.1 116097 1zinA 217 42.17 c.37.1.1,g.41.2.1 31915,45178 1smd 496 42.52 1jd1A 129 42.62 d.79.1.1 62890 1nbaA 264 42.91 c.33.1.3 31753 1e5mA 416 43.02 c.95.1.1,c.95.1.1 58973,58974 2nqrA 411 43.19 b.85.6.1,b.103.1.1,c.57.1.2 138490,138491,138492 1v10A 521 44.00 b.6.1.3,b.6.1.3,b.6.1.3 108224,108225,108226 1tu5A 746 46.97 1ok7A 366 49.16 d.131.1.1,d.131.1.1,d.131.1.1 103992,103993,103994 3b2mA 295 49.56 1yewA 382 49.83 2hcfA 234 51.67 c.108.1.6 136333 2pbeA 294 53.49 1twfC 318 55.70 d.74.3.1,d.181.1.1 112727,112728 3d26A 301 60.60 2qfaA 142 66.32 2a74A 643 66.45 2fkbA 180 66.69 d.113.1.2 133650 2i2cA 272 67.66 1t0qC 86 68.26 d.15.12.1 106222 1cy9A 264 68.91 e.10.1.1 43236 2aa4A 289 69.26 c.55.1.10,c.55.1.10 126465,126466 1ogiA 303 71.30 b.43.4.2,c.25.1.1 92914,92915 1qu9A 128 71.33 d.79.1.1 39755 1jmsA 381 72.95 a.60.6.1,a.60.12.1,d.218.1.2 66889,75862,75863 1lt3A 240 74.12 d.166.1.1 42230 1em2A 229 74.50 d.129.3.2 41321 2oolA 337 74.67 2ej8A 160 75.26 1ye8A 178 75.93 c.37.1.11 123010 1zvdA 380 77.06 2qg3A 208 77.33 2cvlA 124 79.29 d.79.1.1 130871 2qqrA 118 80.60 1qahA 136 81.54 d.79.1.1 96338 2vq8A 139 81.91 1ois 223 84.66 2ix2B 245 85.87 2v0xA 235 86.49 2c0rA 362 87.37 c.67.1.4 129604 2je6A 277 87.61 1pamA 686 88.47 b.1.18.2,b.3.1.1,b.71.1.1,c.1.8.1 21846,22515,27753,28740