# List of top-scoring protein chains for T0320.t2k-w0.5 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 1zunA 325 1.06e-21 1sur 215 1.58e-20 1sur c.26.2.2 31620 1gpmA 525 4.99e-03 1gpmA c.23.16.1,c.26.2.1,d.52.2.1 31405,31608,38826 1ni5A 433 9.38e-02 c.26.2.5,d.229.1.1 80533,80534 1wy5A 317 1.84e-01 1xngA 268 4.04e-01 1q15A 503 9.25e-01 c.26.2.1,d.153.1.1 95538,95539 1k92A 455 2.96e+00 c.26.2.1,d.210.1.1 68325,68326 1m1zA 513 4.61e+00 c.26.2.1,d.153.1.1 78457,78458 1d7qA 143 4.96e+00 1d7qA b.40.4.5 25331 1j32A 388 5.24e+00 c.67.1.1 77067 2d13A 227 5.77e+00 1vg1A 185 6.34e+00 c.37.1.8 108599 1vg8A 207 7.04e+00 c.37.1.8 108606 1t91A 207 7.39e+00 1k0wA 231 7.71e+00 c.74.1.1 77220 1jdiA 231 7.83e+00 c.74.1.1 66551 1vdzA 588 8.92e+00 1lf1A 308 8.97e+00 c.1.8.3 73877 1mp9A 198 9.64e+00 d.129.1.1,d.129.1.1 91385,91386 1pk1A 89 1.07e+01 1vl2A 421 1.11e+01 c.26.2.1,d.210.1.1 108708,108709 1lnuA 182 1.12e+01 b.1.1.2,d.19.1.1 74097,74098 2c5sA 413 1.15e+01 1mujA 190 1.17e+01 b.1.1.2,d.19.1.1 79488,79489 1kw4A 89 1.22e+01 a.60.1.2 73077 1d9kC 183 1.27e+01 1iakA b.1.1.2,d.19.1.1 21627,38201 1jl4A 178 1.32e+01 b.1.1.2,d.19.1.1 63157,63158 1iakA 199 1.33e+01 1iakA b.1.1.2,d.19.1.1 21625,38199 1k2dA 189 1.39e+01 b.1.1.2,d.19.1.1 84291,84292 1a3h 300 1.40e+01 7a3hA c.1.8.3 28819 1u3hC 182 1.40e+01 7a3hA 303 1.41e+01 7a3hA c.1.8.3 28817 1h5vA 304 1.41e+01 c.1.8.3 70898 1qi2A 305 1.41e+01 7a3hA c.1.8.3 28824 1pk3A 89 1.43e+01 1pk1B 89 1.44e+01 1h6kZ 98 1.63e+01 d.58.7.1 60686 1tlqA 189 1.92e+01 a.195.1.1 107134 1ru8A 232 1.95e+01 c.26.2.1 97849 1xm7A 195 2.42e+01 1im5A 180 2.60e+01 c.33.1.3 66211 1fxwF 229 2.69e+01 c.23.10.3 65058 1ky3A 182 2.88e+01 c.37.1.8 73193 1wnoA 395 3.15e+01 1y7wA 291 3.19e+01 1w9pA 433 3.27e+01 1g8pA 350 3.41e+01 1g8pA c.37.1.20 60376 1fsu 492 3.52e+01 1auk c.76.1.2 35032 1m1jB 464 3.91e+01 d.171.1.1,h.1.8.1 74370,74371 3ncmA 92 3.98e+01 3ncmA b.1.1.4 21702 1u7pA 164 3.99e+01 1zvbA 34 4.04e+01 1jf2A 195 4.08e+01 1ej3A a.39.1.5 62930 1h6kX 97 4.20e+01 d.58.7.1 60684 2bkyX 89 4.27e+01 1xrtA 467 4.44e+01 1v7lA 163 4.44e+01 2bs3B 239 4.47e+01 1gpwA 253 4.61e+01 c.1.2.1 65460 1thfD 253 4.79e+01 1thfD c.1.2.1 28535 2a0nA 265 4.83e+01 1vh7A 265 4.91e+01 c.1.2.1 100646 1lwuB 323 4.92e+01 d.171.1.1,h.1.8.1 74310,74311 1ndh 272 5.07e+01 1ndh b.43.4.2,c.25.1.1 25662,31552 1xtqA 177 5.15e+01 1aym3 238 5.16e+01 1aym3 1vavA 222 5.18e+01 b.29.1.18 108472 1epfA 191 5.30e+01 2ncm b.1.1.4,b.1.1.4 21694,21695 1mp1A 111 5.36e+01 a.188.1.1 91382 1xypA 190 5.39e+01 1axkA b.29.1.11 24327 1wyrA 121 5.39e+01 1wywB 97 5.60e+01 1umkA 275 5.63e+01 1a5r 103 5.77e+01 1a5r d.15.1.1 37597 2cioA 212 5.99e+01 1yduA 170 6.04e+01 1el4A 195 6.09e+01 1ej3A a.39.1.5 59453 2f8pA 195 6.10e+01 1qz1A 291 6.11e+01 b.1.1.4,b.1.1.4,b.1.1.4 96609,96610,96611 1t06A 235 6.14e+01 a.118.1.17 106194 1qv1A 195 6.35e+01 a.39.1.5 96347 1oewA 329 6.35e+01 b.50.1.2 86924 1cdzA 96 6.37e+01 1cdzA c.15.1.1 30925 1sl7A 195 6.41e+01 1od1A 330 6.42e+01 b.50.1.2 86820 1o7kA 131 6.55e+01 d.189.1.1 81144 1gd5A 130 6.61e+01 1gd5A d.189.1.1 60439 1zvkA 358 6.66e+01 1o91A 178 6.68e+01 b.22.1.1 92656 1siuA 364 6.68e+01 c.41.1.2 98891 1sioA 364 6.78e+01 c.41.1.2 98888 1zvjA 364 6.86e+01 1korA 400 6.86e+01 c.26.2.1,d.210.1.1 72824,72825 1xktA 289 6.87e+01 1cf2O 337 6.89e+01 1b7gO c.2.1.3,d.81.1.1 29994,39909 1n1cA 217 7.10e+01 a.184.1.1 85254 2b4gA 317 7.16e+01 1kq6A 141 7.33e+01 d.189.1.1 91020 1rvxA 327 7.52e+01 b.19.1.2 97937 2fzvA 279 7.58e+01 1pzgA 331 7.68e+01 c.2.1.5,d.162.1.1 95425,95426 1khqA 212 7.68e+01 d.3.1.1 90964 1o17A 345 7.72e+01 a.46.2.1,c.27.1.1 80765,80766 1vlmA 219 7.86e+01 c.66.1.41 108836 1ru7A 327 7.90e+01 b.19.1.2 97837 1h2vZ 156 7.99e+01 d.58.7.1 76595 1l0gA 358 8.08e+01 e.3.1.1 73400 1f3jA 182 8.43e+01 1iakA b.1.1.2,d.19.1.1 21645,38219 1nkoA 132 8.49e+01 b.1.1.1 85829 9pap 212 8.73e+01 1cs8A d.3.1.1 37006 1mdc 132 8.77e+01 1hmt b.60.1.2 27198 1dot 686 8.82e+01 1nnt c.94.1.2,c.94.1.2 35876,35877 2iadA 194 8.89e+01 1iakA b.1.1.2,d.19.1.1 21639,38213 1eal 127 8.92e+01 1hmt b.60.1.2 27227