# List of top-scoring protein chains for T0347.t06-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 1gawA 314 4.19e+00 1fnc b.43.4.2,c.25.1.1 25643,31533 1ne7A 289 5.67e+00 c.124.1.1 91833 1bx0A 314 7.06e+00 1fnc b.43.4.2,c.25.1.1 25630,31520 1frqA 314 7.06e+00 1fnc b.43.4.2,c.25.1.1 25632,31522 1bx1A 314 7.10e+00 1fnc b.43.4.2,c.25.1.1 25629,31519 1frn 314 7.42e+00 1fnc b.43.4.2,c.25.1.1 25631,31521 1fnd 314 7.45e+00 1fnc b.43.4.2,c.25.1.1 25626,31516 1yj5A 383 7.58e+00 1xhnA 184 8.96e+00 1qfzA 308 1.06e+01 1fnc b.43.4.2,c.25.1.1 25633,31523 1qgaA 308 1.07e+01 1fnc b.43.4.2,c.25.1.1 25637,31527 1qg0A 308 1.08e+01 1fnc b.43.4.2,c.25.1.1 25639,31529 2ffhA 425 1.09e+01 1ng1 a.24.13.1,a.36.1.1,c.37.1.10 16965,17122,32276 1nnhA 294 1.10e+01 d.104.1.1 92005 1sm4A 296 1.27e+01 b.43.4.2,c.25.1.1 98913,98914 1t70A 255 1.39e+01 1tsjA 139 1.53e+01 1kr0A 273 1.67e+01 c.1.8.5 68845 1rqgA 722 1.69e+01 a.27.1.1,c.26.1.1,g.41.1.1 105063,105064,105065 1lmzA 187 1.97e+01 a.96.1.4 74037 1kqzA 273 2.34e+01 c.1.8.5 68844 1kr1A 273 2.35e+01 c.1.8.5 68846 1wh0A 134 2.36e+01 2gdqA 382 2.41e+01 1u54A 291 2.93e+01 d.144.1.7 107675 1u46A 291 2.96e+01 d.144.1.7 107656 1broA 277 2.98e+01 1brt c.69.1.12 34700 1gerA 450 2.99e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30477,30478,40170 1zs9A 261 3.01e+01 1a8uA 277 3.01e+01 1brt c.69.1.12 34703 1spxA 278 3.04e+01 c.2.1.2 98958 1wn1A 356 3.07e+01 1l5aA 436 3.13e+01 c.43.1.2,c.43.1.2 75923,75924 1s1hD 179 3.17e+01 i.1.1.1 105157 1gesA 450 3.17e+01 3grs c.3.1.5,c.3.1.5,d.87.1.1 30473,30474,40168 1i10A 331 3.40e+01 3ldh c.2.1.5,d.162.1.1 61499,61500 2fhfA 1083 3.53e+01 1ldm 329 3.98e+01 3ldh c.2.1.5,d.162.1.1 30160,42127 6ldh 330 3.98e+01 3ldh c.2.1.5,d.162.1.1 30161,42128 1xb4A 202 4.12e+01 1s2oA 244 4.13e+01 1y6zA 263 4.27e+01 2cuaA 135 4.28e+01 2cuaA b.6.1.2 23039 1brt 277 4.31e+01 1brt c.69.1.12 34699 2fwlB 136 4.32e+01 1siyA 91 4.44e+01 261lA 173 4.46e+01 1l92 d.2.1.3 36955 2fxqA 264 4.74e+01 1o20A 427 4.88e+01 c.82.1.1 86556 1y9kA 157 4.88e+01 1xmeB 168 4.97e+01 1yo7A 120 4.99e+01 2hvm 273 5.07e+01 1cnv c.1.8.5 28985 1kiyA 374 5.07e+01 a.128.1.5 72555 1o6dA 163 5.30e+01 c.116.1.3 92567 1xkqA 280 5.38e+01 2aelA 374 5.69e+01 1jfgA 374 5.70e+01 a.128.1.5 66636 1yyqA 374 5.70e+01 1q8gA 166 5.97e+01 d.109.1.2 104555 1n8yC 608 6.07e+01 c.10.2.5,c.10.2.5,g.3.9.1,g.3.9.1 80314,80315,80316,80317 1vffA 423 6.86e+01 1xvxA 312 6.91e+01 2c12A 439 7.10e+01 1i19A 561 7.20e+01 1i19A d.58.32.3,d.145.1.1 61522,61523 2arzA 247 7.22e+01 1mk3A 178 7.32e+01 f.1.4.1 84978 1yy7A 213 7.49e+01 1pr9A 244 7.55e+01 c.2.1.2 95060 1pta 327 8.04e+01 1pscA c.1.9.3 29064 1dpmA 329 8.11e+01 1pscA c.1.9.3 29062 1eywA 331 8.26e+01 1pscA c.1.9.3 29057 1i0dA 332 8.41e+01 1pscA c.1.9.3 61487 1nigA 152 8.41e+01 a.25.2.1 85740 1jgmA 336 8.64e+01 1pscA c.1.9.3 62953 1xygA 359 8.71e+01