# List of top-scoring protein chains for t2k-100-30-alpha 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 1kk6A 209 1.70e+00 b.81.1.3 68657 1uzpA 162 1.93e+00 g.3.11.1 -12511 g.3.11.1 -12512 g.23.1.1 -12685 1pztA 286 2.87e+00 c.68.1.2 -8213 2occB 227 2.89e+00 2occB b.6.1.2 23027 f.17.2.1 43519 1fgxA 288 3.70e+00 1fgxA c.68.1.2 34508 1mr7A 209 3.74e+00 b.81.1.3 -4798 1v54B 227 3.86e+00 b.6.1.2 -2946 f.17.2.1 -12243 1aw5 326 4.59e+00 1b4kA c.1.10.3 29181 1ks9A 291 4.65e+00 a.100.1.7 68857 c.2.1.6 68858 1h5pA 95 4.83e+00 1h5pA d.217.1.1 60642 1kllA 130 5.09e+00 d.32.1.2 72720 1eal 127 5.25e+00 1hmt b.60.1.2 27227 1ylvA 342 5.82e+00 1b4kA c.1.10.3 29180 1r7lA 110 5.89e+00 1jn8B 273 6.09e+00 1j8wB 273 6.50e+00 1nf5B 286 6.94e+00 c.68.1.2 80454 1nmmB 286 7.05e+00 c.68.1.2 80662 1pqzA 238 7.79e+00 1he7A 126 8.28e+00 1wwcA b.1.1.4 60970 1czfA 362 8.95e+00 1czfA b.80.1.3 28031 1nqzA 194 9.50e+00 d.113.1.1 86077 1i7hA 111 9.74e+00 d.15.4.1 71122 1bx7 55 1.01e+01 1bx7 g.3.15.1 44355 1hzdA 272 1.02e+01 c.14.1.3 65969 1tplA 426 1.04e+01 1ax4A c.67.1.2 34387 1igrA 478 1.12e+01 1igrA c.10.2.5 30877 c.10.2.5 30878 g.3.9.1 44188 1lvmA 229 1.13e+01 b.47.1.3 78243 1sbxA 106 1.14e+01 1p9gA 41 1.14e+01 1kcxA 518 1.21e+01 b.92.1.3 -5074 c.1.9.6 -5426 1h7nA 342 1.22e+01 1b4kA c.1.10.3 60726 1g25A 65 1.25e+01 1g25A g.44.1.1 45325 1ohlA 342 1.30e+01 c.1.10.3 87035 1g1pA 33 1.30e+01 1g1pA g.3.6.1 44099 1cne 270 1.54e+01 1ndh b.43.4.2 25661 c.25.1.1 31551 1e5uI 187 1.57e+01 1f00I b.1.14.1 22372 d.169.1.3 42441 1wwaX 109 1.60e+01 1wwcA b.1.1.4 21775 1emn 82 1.61e+01 1emn g.3.11.1 44322 g.3.11.1 44323 1nzoA 363 1.61e+01 b.105.1.1 -2933 e.3.1.1 -11784 3vub 101 1.62e+01 3vub b.34.6.1 24613 1d9eA 284 1.67e+01 1d9eA c.1.10.4 29195 1qb0A 211 1.68e+01 1c25 c.46.1.1 32699 1bs9 207 1.75e+01 1bs9 unknown_sccs 31330 1g66A 207 1.81e+01 1bs9 unknown_sccs 31329 1f00I 282 1.93e+01 1f00I b.1.14.1 22368 b.1.14.1 22369 d.169.1.3 42439 1i8xA 30 1.93e+01 g.3.16.1 71132 1jb9A 316 2.14e+01 1fnc b.43.4.2 62840 c.25.1.1 62841 1sfp 114 2.23e+01 1sfp b.23.1.1 23895 1op0A 234 2.33e+01 1t82A 155 2.36e+01 1q4uA 151 2.46e+01 d.38.1.5 -9701 1p1p 26 2.52e+01 j.30.1.3 46227 1dec 39 2.59e+01 1dec g.3.15.2 44376 1a81A 254 2.71e+01 1a81A d.93.1.1 40507 d.93.1.1 40508 1qgmA 30 2.82e+01 g.3.16.1 44380 1ucsA 64 2.83e+01 b.85.1.1 88466 1extA 162 2.85e+01 1extA g.24.1.1 44900 g.24.1.1 44901 g.24.1.1 44902 1h3nA 878 2.90e+01 a.27.1.1 76641 b.51.1.1 76642 c.26.1.1 76643 1hd8A 363 2.91e+01 b.105.1.1 65803 e.3.1.1 65804 1bno 87 3.05e+01 1bpyA a.60.6.1 18079 1p97A 114 3.05e+01 unknown_sccs -10844 1dl0A 37 3.05e+01 1dl0A g.3.6.2 44112 1grx 85 3.07e+01 1kte c.47.1.1 32766 1ryjA 70 3.08e+01 d.15.3.2 -9179 1m0gA 30 3.11e+01 g.46.1.1 84743 1bh4 30 3.31e+01 g.3.3.3 44079 1cz4A 185 3.34e+01 1cz4A b.52.2.3 26934 d.31.1.1 38468 1nh2C 79 3.37e+01 b.56.1.1 -4381 1bveA 99 3.38e+01 1hvc b.50.1.1 26713 1lopA 164 3.43e+01 2cpl b.62.1.1 27510 1ffk1 177 3.47e+01 1ffk1 1oi1A 221 3.58e+01 b.34.9.3 87037 b.34.9.3 87038 1dypA 271 3.58e+01 1dypA b.29.1.2 24185 1lmrA 35 3.60e+01 g.3.6.3 -12429 1mldA 314 3.61e+01 2cmd c.2.1.5 30122 d.162.1.1 42089 1eit 37 3.64e+01 1eit g.3.6.2 44108 1mwpA 96 3.66e+01 1mwpA d.170.2.1 42453 1vib 55 3.80e+01 1vib g.2.2.1 43999 4bcl 366 3.90e+01 4bcl b.75.1.1 27968 3pviA 157 3.98e+01 3pviA c.52.1.6 33300