# List of top-scoring protein chains for T0331.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 1dnlA 199 2.21e-06 1ci0A b.45.1.1 25753 1g79A 218 2.35e-06 1ci0A b.45.1.1 25752 1nrgA 261 4.70e-05 b.45.1.1 80694 1rfeA 162 7.07e-05 1t9mA 214 1.12e-04 2fhqA 141 1.44e-04 1ty9A 222 4.78e-04 2a2jA 246 1.72e-03 1vl7A 157 2.95e-03 b.45.1.1 108732 2fg9A 178 2.70e-02 2furA 209 3.62e-02 2aq6A 147 8.22e-02 1ci0A 228 1.64e-01 1ci0A b.45.1.1 25750 2av5A 120 8.36e-01 2asfA 137 2.00e+00 1qxnA 137 3.76e+00 c.46.1.3 96537 1dabA 539 5.57e+00 1dabA b.80.1.7 28049 1ty4A 170 8.14e+00 f.1.4.1 107452 1mszA 86 9.70e+00 d.68.7.1 79428 1ylnA 252 9.72e+00 1c1lA 136 1.25e+01 1c1lA b.29.1.3 24219 2fcjA 119 1.30e+01 1bygA 278 1.33e+01 1fmk d.144.1.7 41705 1u09A 476 1.37e+01 e.8.1.4 107545 1x4mA 94 1.47e+01 2f8eX 474 1.49e+01 1ejeA 192 1.53e+01 1ejeA b.45.1.2 25757 2ftsA 419 1.76e+01 1t3eA 421 1.77e+01 b.85.6.1,b.103.1.1,c.57.1.2 106348,106349,106350 1vjgA 218 2.05e+01 c.23.10.6 100810 1ye8A 178 2.34e+01 2g6tA 306 2.54e+01 2f6kA 307 2.58e+01 1weoA 93 2.63e+01 1yfsA 465 2.68e+01 1k9aA 450 2.69e+01 b.34.2.1,d.93.1.1,d.144.1.7 72188,72189,72190 1k1xA 659 2.70e+01 a.8.3.2,b.30.5.8,c.6.2.2 84279,84280,84281 1mjfA 281 2.80e+01 c.66.1.17 79198 1wfqA 89 2.89e+01 2bq3A 358 3.17e+01 2agqA 341 3.39e+01 2asdA 360 3.41e+01 1st9A 143 3.44e+01 c.47.1.10 98987 2f9sA 151 3.54e+01 1jx4A 352 3.55e+01 d.240.1.1,e.8.1.7 90378,90379 2sli 679 3.58e+01 2sli b.29.1.9,b.68.1.1 24274,27611 1xhnA 184 3.67e+01 1ethA 448 3.83e+01 1gpl b.12.1.2,c.69.1.19 23641,34789 1c25 161 4.12e+01 1c25 c.46.1.1 32698 1tr8A 102 4.49e+01 2f5qA 274 5.07e+01 2f5nA 274 5.08e+01 1p3wA 404 5.12e+01 c.67.1.3 87752 1r2zA 274 5.21e+01 a.156.1.2,b.113.1.1,g.39.1.8 96892,96893,96894 1l1zA 274 5.22e+01 a.156.1.2,b.113.1.1,g.39.1.8 75911,75912,75913 1zpwX 90 6.12e+01 1x89A 178 6.30e+01 1i69A 219 6.33e+01 c.94.1.1 61825 2d0iA 333 6.33e+01 2bjrA 368 6.41e+01 1ybyA 215 6.54e+01 1d2fA 390 6.56e+01 1d2fA c.67.1.3 34411 1x0oA 119 6.63e+01 1l6mA 180 6.65e+01 b.60.1.1 84531 1wldA 135 6.73e+01 1wlcA 135 6.74e+01 1i6aA 219 6.79e+01 c.94.1.1 61827 1mo7A 213 7.37e+01 d.220.1.1 85028 1nukA 183 7.57e+01 1nukA b.18.1.4 23721 1h4jA 599 7.71e+01 4aahA b.70.1.1 60590 1h4iA 599 7.71e+01 4aahA b.70.1.1 60586 1kgyA 181 7.72e+01 b.18.1.4 72449 1shwB 181 7.72e+01 b.18.1.4 105563 1w6sA 599 7.73e+01 1g0u1 266 7.83e+01 1dfvA 177 7.87e+01 1nglA b.60.1.1 27144 1sezA 504 7.89e+01 c.3.1.2,d.16.1.5 98822,98823 1taeA 332 7.96e+01 1ta8A 332 8.06e+01 1nglA 179 8.06e+01 1nglA b.60.1.1 27146 1v3eA 431 8.13e+01 b.68.1.1 100287 1is3A 135 8.43e+01 b.29.1.3 76773 2aeuA 374 8.45e+01 1wlwA 135 8.45e+01 1ryp2 233 8.67e+01 1ryp2