# List of top-scoring protein chains for T0347.t04-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 1vk1A 242 1.31e+00 d.268.1.2 108634 1xhnA 184 7.00e+00 1vloA 381 7.63e+00 b.44.2.1,d.250.1.1 108838,108839 1u46A 291 1.25e+01 d.144.1.7 107656 1jb0B 740 1.35e+01 1jb0A f.29.1.1 62821 1u54A 291 1.37e+01 d.144.1.7 107675 1gawA 314 1.59e+01 1fnc b.43.4.2,c.25.1.1 25643,31533 1dot 686 1.77e+01 1nnt c.94.1.2,c.94.1.2 35876,35877 1ne7A 289 1.78e+01 c.124.1.1 91833 2hhmA 276 1.86e+01 1imbA e.7.1.1 42955 1imbA 277 1.86e+01 1imbA e.7.1.1 42957 1nnhA 294 1.94e+01 d.104.1.1 92005 1kr0A 273 2.11e+01 c.1.8.5 68845 1sm4A 296 2.29e+01 b.43.4.2,c.25.1.1 98913,98914 1qfzA 308 2.36e+01 1fnc b.43.4.2,c.25.1.1 25633,31523 1qgaA 308 2.37e+01 1fnc b.43.4.2,c.25.1.1 25637,31527 1qg0A 308 2.38e+01 1fnc b.43.4.2,c.25.1.1 25639,31529 1vlqA 337 2.43e+01 c.69.1.25 108848 1ir1S 123 2.43e+01 d.73.1.1 71290 1frn 314 2.52e+01 1fnc b.43.4.2,c.25.1.1 25631,31521 1yj5A 383 2.81e+01 1frqA 314 2.84e+01 1fnc b.43.4.2,c.25.1.1 25632,31522 1bx0A 314 2.84e+01 1fnc b.43.4.2,c.25.1.1 25630,31520 1bx1A 314 2.84e+01 1fnc b.43.4.2,c.25.1.1 25629,31519 1kqzA 273 2.89e+01 c.1.8.5 68844 1kr1A 273 2.90e+01 c.1.8.5 68846 1fnd 314 2.95e+01 1fnc b.43.4.2,c.25.1.1 25626,31516 1xb4A 202 3.02e+01 2fa8A 105 3.08e+01 2ffhA 425 3.08e+01 1ng1 a.24.13.1,a.36.1.1,c.37.1.10 16965,17122,32276 1o6dA 163 3.31e+01 c.116.1.3 92567 1sogA 294 3.53e+01 a.93.1.1 105844 1stqA 294 3.70e+01 a.93.1.1 106008 1d09A 310 4.01e+01 3csuA c.78.1.1,c.78.1.1 35100,35101 8rucI 123 4.20e+01 1rboC d.73.1.1 39629 1gq3A 310 4.39e+01 c.78.1.1,c.78.1.1 76268,76269 1f1bA 310 4.42e+01 3csuA c.78.1.1,c.78.1.1 35104,35105 1tugA 310 4.47e+01 c.78.1.1 107339 1skuA 310 4.53e+01 c.78.1.1,c.78.1.1 98902,98903 3csuA 310 4.54e+01 3csuA c.78.1.1,c.78.1.1 35094,35095 1ekxA 311 4.55e+01 3csuA c.78.1.1,c.78.1.1 35088,35089 2a0fA 310 4.55e+01 1tsjA 139 4.57e+01 1i10A 331 4.67e+01 3ldh c.2.1.5,d.162.1.1 61499,61500 2h16A 183 4.78e+01 2ffjA 300 4.89e+01 2fhfA 1083 4.94e+01 1hq0A 295 5.05e+01 1hzgA d.194.1.1 61122 1hzgA 295 5.06e+01 1hzgA d.194.1.1 61436 1ye9A 226 5.17e+01 8atcA 310 5.37e+01 3csuA c.78.1.1,c.78.1.1 35132,35133 1acmA 310 5.38e+01 3csuA c.78.1.1,c.78.1.1 35180,35181 9atcA 310 5.49e+01 3csuA c.78.1.1,c.78.1.1 35188,35189 1s2oA 244 5.51e+01 1jciA 294 5.58e+01 a.93.1.1 71632 1i19A 561 5.70e+01 1i19A d.58.32.3,d.145.1.1 61522,61523 1jdrA 294 5.86e+01 1ryc a.93.1.1 62908 2atcA 305 5.97e+01 3csuA c.78.1.1,c.78.1.1 35194,35195 2hvm 273 6.11e+01 1cnv c.1.8.5 28985 1gpmA 525 6.76e+01 1gpmA c.23.16.1,c.26.2.1,d.52.2.1 31405,31608,38826 1fc4A 401 6.81e+01 1bs0A c.67.1.4 59760 1rqgA 722 7.17e+01 a.27.1.1,c.26.1.1,g.41.1.1 105063,105064,105065 2cuaA 135 7.24e+01 2cuaA b.6.1.2 23039 2fwlB 136 7.28e+01 1xkqA 280 7.50e+01 1lmzA 187 7.80e+01 a.96.1.4 74037 1xmeB 168 8.07e+01 1vbkA 307 8.10e+01 2f6uA 234 8.13e+01 2g0wA 296 8.28e+01 1fiqC 763 8.32e+01 1fiqC d.41.1.1,d.133.1.1 38588,41418 1qezA 173 8.51e+01 2prd b.40.5.1 25410 1w28A 331 8.61e+01 1pswA 348 8.62e+01 c.87.1.7 88287 1zyvA 66 8.64e+01 1zywA 66 8.66e+01 1zutA 66 8.68e+01 1t7aA 66 8.99e+01 g.3.7.1 106620