# List of top-scoring protein chains for t2k-100-30-stride-ebghtl 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 1b65A 375 1.12e-01 1b65A d.154.1.1 42020 1ezvD 245 2.23e-01 1be3D a.3.1.3 59546 f.2.1.8 59547 1irw 108 1.07e+00 1ycc a.3.1.1 15855 1qnoA 344 1.27e+00 1qnoA c.1.8.3 28838 1ccr 112 1.38e+00 1ycc a.3.1.1 15877 1qnrA 344 1.53e+00 1qnoA c.1.8.3 28834 1pjcA 361 1.57e+00 1sayA c.2.1.4 30101 c.23.12.2 31361 1sayA 361 1.58e+00 1sayA c.2.1.4 30102 c.23.12.2 31362 1ycc 108 1.95e+00 1ycc a.3.1.1 15834 1am7A 158 2.45e+00 1am7A d.2.1.4 36981 1pjbA 361 2.73e+00 1sayA c.2.1.4 30103 c.23.12.2 31363 1qqfA 277 3.00e+00 1c3d a.102.4.4 18875 1ytc 112 3.04e+00 1ycc a.3.1.1 15835 5cytR 104 4.44e+00 1ycc a.3.1.1 15878 1hc7A 477 5.39e+00 1hc7A c.51.1.1 60938 d.104.1.1 60939 g.56.1.1 60940 1d2zA 108 5.86e+00 1d2zA a.77.1.1 18437 1i7pA 274 6.20e+00 b.43.4.2 66048 c.25.1.1 66049 1gp4A 356 6.58e+00 b.82.2.1 65439 1bal 51 6.68e+00 1bbl a.9.1.1 16357 1g2nA 264 6.86e+00 1lbd a.123.1.1 60227 1qi9A 556 7.05e+00 1qhbA a.111.1.2 19053 1aj8A 371 7.94e+00 1aj8A a.103.1.1 18900 1gp6A 356 8.47e+00 b.82.2.1 65441 1byqA 228 9.70e+00 1yer d.122.1.1 41100 1e9mA 106 1.04e+01 1ayfA d.15.4.1 59397 9gafA 295 1.07e+01 1apyA d.153.1.5 42008 1ayx 492 1.12e+01 1ayx a.102.1.1 18825 1yer 228 1.16e+01 1yer d.122.1.1 41101 1ndh 272 1.32e+01 1ndh b.43.4.2 25662 c.25.1.1 31552 1pme 380 1.61e+01 1hcl d.144.1.1 41653 1g73C 121 1.71e+01 1g3fA g.52.1.1 45375 1glm 470 1.81e+01 1ayx a.102.1.1 18821 1bbl 51 1.84e+01 1bbl a.9.1.1 16356 1a79A 171 1.86e+01 1a79A c.52.2.1 33340 d.75.1.1 39739 1l7uA 263 2.00e+01 1m40A 263 2.00e+01 1kwhA 492 2.04e+01 c.94.1.1 68876 1tf4A 605 2.05e+01 1tf4A a.102.1.2 18827 b.2.2.2 22393 1a6q 382 2.05e+01 1a6q d.158.1.1 42063 1ton 235 2.08e+01 5ptp b.47.1.2 26307 1gai 472 2.08e+01 1ayx a.102.1.1 18819 1g3fA 117 2.10e+01 1g3fA g.52.1.1 45378 1nsf 273 2.29e+01 1d2nA c.37.1.13 32429 1b66A 140 2.35e+01 1b66A d.96.1.2 40657 1d2nA 272 2.35e+01 1d2nA c.37.1.13 32428 1ld8A 382 2.48e+01 1ncs 47 2.52e+01 1ncs g.37.1.1 45040 1hylA 230 2.74e+01 5ptp b.47.1.2 26076 2hlcA 230 2.74e+01 5ptp b.47.1.2 26074 1jljA 189 2.79e+01 c.57.1.1 63169 1pytA 94 2.84e+01 1pytA d.58.3.1 39064 1inp 400 2.85e+01 1inp e.7.1.1 42972 1jcrA 377 2.87e+01 a.118.6.1 66506 1ckv 141 2.91e+01 1ckv d.137.1.1 41452 1d8dA 377 2.96e+01 1ft1A a.118.6.1 19185 1fqgA 263 3.02e+01 1btl e.3.1.1 42699 1reqB 637 3.09e+01 1reqB c.1.19.1 29621 c.23.6.1 31248 1jj2W 91 3.11e+01 1ffkU d.29.1.1 63108 1bkpA 278 3.15e+01 1bkpA d.117.1.1 41029 1prxA 224 3.15e+01 1prxA c.47.1.10 33076 1ermA 263 3.27e+01 1btl e.3.1.1 42690 1reqD 637 3.30e+01 1reqB c.1.19.1 29623 c.23.6.1 31250 1bzg 34 3.31e+01 1bzg j.15.1.1 46166 1btl 263 3.33e+01 1btl e.3.1.1 42691 1qbqA 333 3.35e+01 1ft1A a.118.6.1 19187 1kwsA 261 3.47e+01 1fggA 261 3.47e+01 1fggA c.68.1.7 34576 1co6A 107 3.55e+01 1ycc a.3.1.1 15894 1ihcA 188 3.66e+01 1di6A c.57.1.1 62379 1hj9A 226 3.66e+01 b.47.1.2 65845 1qlwA 328 3.76e+01 1qlwA c.69.1.15 34722 1acf 125 3.77e+01 3nul d.110.1.1 40882 1ayoA 130 3.78e+01 1ayoA b.2.4.1 22431 1atlA 202 3.92e+01 1atlA d.92.1.9 40322 1jcqA 382 3.94e+01 a.118.6.1 66504