# List of top-scoring protein chains for t2k-100-30-CB_burial_14_7 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 1fmtA 314 2.90e+00 1fmtA b.46.1.1 25758 c.65.1.1 34174 1h4pA 408 3.71e+00 c.1.8.3 -5314 1m4vA 204 4.28e+00 b.40.2.2 74459 d.15.6.1 74460 1kgsA 225 5.90e+00 a.4.6.1 68596 c.23.1.1 68597 1f0xA 571 6.35e+00 1f0xA d.58.32.2 39483 d.145.1.1 41746 1ebmA 317 6.42e+00 1ebmA a.96.1.3 18751 d.129.1.2 41300 1owcA 427 6.50e+00 1fmtB 314 6.55e+00 1fmtA b.46.1.1 25759 c.65.1.1 34175 1vjzA 341 7.20e+00 c.1.8.3 -5318 1kanA 253 7.21e+00 1knyA a.24.16.1 75878 d.218.1.1 75879 1su4A 994 7.95e+00 b.82.7.1 -4927 c.108.1.7 -6854 d.220.1.1 -11668 f.33.1.1 -12333 1lwyA 324 8.39e+00 a.96.1.3 78285 d.129.1.2 78286 1ryp1 222 8.89e+00 1ryp1 1g0uL 241 9.36e+00 d.153.1.4 41894 1obbA 480 9.41e+00 c.2.1.5 86760 d.162.1.2 86761 1vj7A 393 9.84e+00 unknown_sccs -1265 unknown_sccs -9814 1eulA 994 9.96e+00 1eulA 1i5nA 146 1.05e+01 1i5nA a.24.10.3 61805 1fehA 574 1.08e+01 1fehA c.96.1.1 36015 d.15.4.2 37690 d.58.1.5 38998 1rxwA 336 1.09e+01 a.60.7.1 -1041 c.120.1.2 -6680 1k3pA 426 1.14e+01 a.103.1.1 77237 1m3qA 317 1.14e+01 a.96.1.3 -1288 d.129.1.2 -11006 1jobA 162 1.24e+01 1f35A b.94.1.1 63207 1vjhA 122 1.27e+01 d.129.3.1 -11037 1j1iA 296 1.27e+01 c.69.1.10 83977 1ci0A 228 1.33e+01 1ci0A b.45.1.1 25750 1ko9A 345 1.43e+01 a.96.1.3 68717 d.129.1.2 68718 1ffkB 338 1.60e+01 1ffkB b.43.3.2 25719 1f35A 162 1.64e+01 1f35A b.94.1.1 59628 1pi1A 185 1.65e+01 unknown_sccs -762 1fjcA 96 1.76e+01 1fjcA d.58.7.1 39212 1fjeB 175 1.80e+01 1fj7A d.58.7.1 39210 d.58.7.1 39211 1n0lA 224 1.83e+01 b.1.11.1 79744 b.7.2.1 79745 1qj2A 166 1.98e+01 1qj2A 1udmA 149 2.06e+01 1qwtA 255 2.16e+01 unknown_sccs -3329 1btkB 169 2.26e+01 1btkA b.55.1.1 26960 1ihjA 98 2.30e+01 1pdr b.36.1.1 62382 1pbjA 125 2.33e+01 d.37.1.1 -9608 d.37.1.1 -9609 1dt9A 437 2.38e+01 1dt9A c.55.4.2 33738 d.79.3.2 39815 d.91.1.1 40257 1tfaA 329 2.41e+01 1nnt c.94.1.2 35880 1nftA 329 2.60e+01 1nnt c.94.1.2 35881 1umnA 165 2.62e+01 a.25.1.1 -656 1es4A 262 2.68e+01 1skf e.3.1.1 42683 1btkA 169 2.74e+01 1btkA b.55.1.1 26959 1sczA 233 3.02e+01 c.43.1.1 -7326 1e2o 233 3.02e+01 1eaf c.43.1.1 32631 1d7bA 186 3.07e+01 1d7bA b.1.9.1 22307 1pl3A 186 3.07e+01 b.1.9.1 88158 1o1zA 234 3.16e+01 c.1.18.3 86555 1ez3A 127 3.19e+01 1dn1B a.47.2.1 17768 1icxA 155 3.22e+01 d.129.3.1 71191 1kdxA 81 3.28e+01 1kdxA a.12.1.1 16375 1o08A 221 3.38e+01 c.108.1.6 86525 1dk8A 147 3.44e+01 1agrE a.91.1.1 18548 1oi0A 124 3.50e+01 unknown_sccs -8782 1jyeA 349 3.55e+01 c.93.1.1 67455 1d7cA 190 3.55e+01 1d7bA b.1.9.1 22309 1jj2Q 154 3.60e+01 1ffkO d.55.1.1 63102 1es5A 262 3.70e+01 1skf e.3.1.1 42679 1pvdA 537 3.70e+01 1zpdA c.31.1.3 31737 c.36.1.5 31777 c.36.1.9 31778 1irxA 523 3.87e+01 a.97.1.2 71378 c.26.1.1 71379 1bdg 451 3.92e+01 1qhaA c.55.1.3 33461 c.55.1.3 33462