# List of top-scoring protein chains for T0347.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 1t70A 255 1.74e+00 1nnhA 294 3.35e+00 d.104.1.1 92005 1xhnA 184 5.25e+00 1ne7A 289 7.26e+00 c.124.1.1 91833 1yo7A 120 7.74e+00 1u54A 291 8.55e+00 d.144.1.7 107675 1u46A 291 8.67e+00 d.144.1.7 107656 1y9kA 157 9.87e+00 1v8nA 170 1.13e+01 2cv9A 252 1.21e+01 2fhfA 1083 1.24e+01 1v8wA 170 1.55e+01 1yy7A 213 1.65e+01 1bvoA 175 1.69e+01 1a3qA b.2.5.3 22457 1o20A 427 1.79e+01 c.82.1.1 86556 1spxA 278 1.84e+01 c.2.1.2 98958 1kr0A 273 1.85e+01 c.1.8.5 68845 1tsjA 139 1.96e+01 1v8yA 170 1.99e+01 1x0rA 249 2.04e+01 2cuaA 135 2.15e+01 2cuaA b.6.1.2 23039 2fwlB 136 2.17e+01 2cv4A 250 2.21e+01 2c12A 439 2.43e+01 1nigA 152 2.43e+01 a.25.2.1 85740 1xmeB 168 2.55e+01 1l5aA 436 2.85e+01 c.43.1.2,c.43.1.2 75923,75924 1zs9A 261 2.90e+01 1lmzA 187 2.92e+01 a.96.1.4 74037 1kr1A 273 3.01e+01 c.1.8.5 68846 1kebA 108 3.01e+01 c.47.1.1 77341 1kqzA 273 3.02e+01 c.1.8.5 68844 1o26A 232 3.03e+01 d.207.1.1 86566 1yj5A 383 3.29e+01 2gsrA 207 3.52e+01 1pgtA a.45.1.1,c.47.1.5 17586,32880 1s2oA 244 3.53e+01 2fvlA 324 3.55e+01 1dgsA 667 3.78e+01 1dgsA a.60.2.2,b.40.4.6,d.142.2.2 17963,25365,41581 1wpbA 172 3.79e+01 2fd3A 108 3.89e+01 1f6dA 376 3.92e+01 1f6dA c.87.1.3 35467 1broA 277 3.92e+01 1brt c.69.1.12 34700 1vgvA 384 3.96e+01 c.87.1.3 100608 1a8uA 277 4.00e+01 1brt c.69.1.12 34703 1gawA 314 4.05e+01 1fnc b.43.4.2,c.25.1.1 25643,31533 1o7dB 84 4.10e+01 a.8.3.1 86639 1sk7A 198 4.11e+01 a.132.1.2 105671 2asbA 251 4.53e+01 1gesA 450 4.75e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30473,30474,40168 1winA 143 4.75e+01 1gerA 450 4.78e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30477,30478,40170 1q8gA 166 4.79e+01 d.109.1.2 104555 2fchA 108 4.82e+01 2trxA 108 4.84e+01 1thx c.47.1.1 32719 1fnd 314 4.87e+01 1fnc b.43.4.2,c.25.1.1 25626,31516 1wn1A 356 4.93e+01 1frqA 314 4.94e+01 1fnc b.43.4.2,c.25.1.1 25632,31522 1bx0A 314 4.94e+01 1fnc b.43.4.2,c.25.1.1 25630,31520 1bx1A 314 4.94e+01 1fnc b.43.4.2,c.25.1.1 25629,31519 1k1xA 659 4.94e+01 a.8.3.2,b.30.5.8,c.6.2.2 84279,84280,84281 1frn 314 4.97e+01 1fnc b.43.4.2,c.25.1.1 25631,31521 2es7A 142 4.98e+01 2c5mA 294 5.05e+01 2cugA 88 5.07e+01 1zbmA 280 5.13e+01 1apxA 249 5.41e+01 1ryc a.93.1.1 18669 1sm4A 296 5.54e+01 b.43.4.2,c.25.1.1 98913,98914 1rqgA 722 5.54e+01 a.27.1.1,c.26.1.1,g.41.1.1 105063,105064,105065 1qfzA 308 5.61e+01 1fnc b.43.4.2,c.25.1.1 25633,31523 1qg0A 308 5.64e+01 1fnc b.43.4.2,c.25.1.1 25639,31529 1qgaA 308 5.64e+01 1fnc b.43.4.2,c.25.1.1 25637,31527 2tir 108 5.68e+01 1thx c.47.1.1 32721 1siyA 91 5.71e+01 1i10A 331 5.74e+01 3ldh c.2.1.5,d.162.1.1 61499,61500 1k2aA 136 5.82e+01 d.5.1.1 72005 1r1hA 696 5.82e+01 d.92.1.4 104756 2ffhA 425 6.06e+01 1ng1 a.24.13.1,a.36.1.1,c.37.1.10 16965,17122,32276 1tetH 210 6.09e+01 1igtB b.1.1.1,b.1.1.2 19903,20997 1zeaH 216 6.11e+01 1pta 327 6.14e+01 1pscA c.1.9.3 29064 1dpmA 329 6.15e+01 1pscA c.1.9.3 29062 1ojoA 731 6.17e+01 a.102.3.2,b.24.1.1,b.30.5.2 93140,93141,93142 1srx 108 6.20e+01 1thx c.47.1.1 32729 1gqvA 135 6.21e+01 d.5.1.1 70376 1i19A 561 6.23e+01 1i19A d.58.32.3,d.145.1.1 61522,61523 1lxkA 721 6.24e+01 a.102.3.2,b.24.1.1,b.30.5.2 74331,74332,74333 1ojnA 731 6.29e+01 a.102.3.2,b.24.1.1,b.30.5.2 93137,93138,93139 1n7qA 721 6.36e+01 a.102.3.2,b.24.1.1,b.30.5.2 80265,80266,80267 1mk3A 178 6.36e+01 f.1.4.1 84978 1ojmA 729 6.36e+01 a.102.3.2,b.24.1.1,b.30.5.2 93134,93135,93136 2ffjA 300 6.37e+01 1eguA 731 6.37e+01 1eguA a.102.3.2,b.24.1.1,b.30.5.2 18850,23899,24423 1n7nA 721 6.38e+01 a.102.3.2,b.24.1.1,b.30.5.2 80256,80257,80258 2hvm 273 6.48e+01 1cnv c.1.8.5 28985 1eywA 331 6.50e+01 1pscA c.1.9.3 29057 1k0rA 366 6.59e+01 b.40.4.5,d.52.3.1,d.52.3.1,d.202.1.1 67961,67962,67963,67964 1f8vA 355 6.83e+01 2bbvA b.121.4.4 23329 1i0dA 332 6.83e+01 1pscA c.1.9.3 61487 1v9pA 584 6.88e+01 a.60.2.2,b.40.4.6,d.142.2.2 100544,100545,100546 1ry8A 323 6.92e+01 1s1pA 331 7.08e+01 c.1.7.1 98350 1jgmA 336 7.13e+01 1pscA c.1.9.3 62953 2ghcX 261 7.15e+01 1ngnA 155 7.37e+01 a.96.1.2 85697 1t6t1 118 7.42e+01 1fohA 664 7.47e+01 1fohA c.3.1.2,c.47.1.10,d.16.1.2 30381,33078,37900 1u6gC 1230 7.50e+01 1pn0A 665 7.66e+01 c.3.1.2,c.47.1.10,d.16.1.2 94918,94919,94920 1gngX 39 7.68e+01 1j0rA 122 7.70e+01 a.4.5.7 90745 1f6mC 108 7.70e+01 1thx c.47.1.1 32725 1bm9A 122 7.73e+01 1bm9A a.4.5.7 16116 1lkxA 697 7.80e+01 c.37.1.9 73981 1brt 277 7.80e+01 1brt c.69.1.12 34699 1oz2A 331 7.86e+01 b.34.9.3,b.34.9.3,b.34.9.3 93781,93782,93783 1zklA 353 7.93e+01 1qw7A 336 7.94e+01 1pscA 365 8.10e+01 1pscA c.1.9.3 29058 1oafA 261 8.11e+01 a.93.1.1 86734 2cl4X 261 8.54e+01 1qezA 173 8.58e+01 2prd b.40.5.1 25410 1rfjA 149 8.59e+01 a.39.1.5 104918 2gviA 204 8.67e+01 1vffA 423 8.79e+01 2gz4A 207 8.80e+01 1xnfA 275 8.82e+01 1tqbB 212 8.94e+01 b.1.1.1,b.1.1.2 107213,107214