# 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 2.35e+00 1fmtA b.46.1.1 25758 c.65.1.1 34174 1m4vA 204 2.62e+00 b.40.2.2 74459 d.15.6.1 74460 1h4pA 408 2.83e+00 c.1.8.3 -5314 1kgsA 225 2.97e+00 a.4.6.1 68596 c.23.1.1 68597 1rxwA 336 4.43e+00 a.60.7.1 -1041 c.120.1.2 -6680 1ebmA 317 4.81e+00 1ebmA a.96.1.3 18751 d.129.1.2 41300 1kanA 253 4.83e+00 1knyA a.24.16.1 75878 d.218.1.1 75879 1fmtB 314 5.43e+00 1fmtA b.46.1.1 25759 c.65.1.1 34175 1owcA 427 5.61e+00 1f0xA 571 5.69e+00 1f0xA d.58.32.2 39483 d.145.1.1 41746 1lwyA 324 5.91e+00 a.96.1.3 78285 d.129.1.2 78286 1obbA 480 6.89e+00 c.2.1.5 86760 d.162.1.2 86761 1vjzA 341 7.02e+00 c.1.8.3 -5318 1su4A 994 7.04e+00 b.82.7.1 -4927 c.108.1.7 -6854 d.220.1.1 -11668 f.33.1.1 -12333 1j1iA 296 8.11e+00 c.69.1.10 83977 1eulA 994 8.24e+00 1eulA 1m3qA 317 8.35e+00 a.96.1.3 -1288 d.129.1.2 -11006 1ko9A 345 1.03e+01 a.96.1.3 68717 d.129.1.2 68718 1k3pA 426 1.03e+01 a.103.1.1 77237 1pi1A 185 1.05e+01 unknown_sccs -762 1i5nA 146 1.12e+01 1i5nA a.24.10.3 61805 1ci0A 228 1.40e+01 1ci0A b.45.1.1 25750 1fehA 574 1.47e+01 1fehA c.96.1.1 36015 d.15.4.2 37690 d.58.1.5 38998 1ryp1 222 1.56e+01 1ryp1 1qwtA 255 1.57e+01 unknown_sccs -3329 1g0uL 241 1.65e+01 d.153.1.4 41894 1dt9A 437 1.77e+01 1dt9A c.55.4.2 33738 d.79.3.2 39815 d.91.1.1 40257 1fjcA 96 1.85e+01 1fjcA d.58.7.1 39212 1umnA 165 1.92e+01 a.25.1.1 -656 1jobA 162 1.97e+01 1f35A b.94.1.1 63207 1e2o 233 1.97e+01 1eaf c.43.1.1 32631 1vj7A 393 1.97e+01 unknown_sccs -1265 unknown_sccs -9814 1fjeB 175 2.03e+01 1fj7A d.58.7.1 39210 d.58.7.1 39211 1sczA 233 2.14e+01 c.43.1.1 -7326 1dk8A 147 2.33e+01 1agrE a.91.1.1 18548 1icxA 155 2.33e+01 d.129.3.1 71191 1irxA 523 2.39e+01 a.97.1.2 71378 c.26.1.1 71379 1tfaA 329 2.39e+01 1nnt c.94.1.2 35880 1kdxA 81 2.54e+01 1kdxA a.12.1.1 16375 1f35A 162 2.56e+01 1f35A b.94.1.1 59628 1pl3A 186 2.58e+01 b.1.9.1 88158 1d7bA 186 2.60e+01 1d7bA b.1.9.1 22307 1nftA 329 2.60e+01 1nnt c.94.1.2 35881 1ihjA 98 2.61e+01 1pdr b.36.1.1 62382 1gx4A 289 2.61e+01 c.68.1.9 83362 1pbjA 125 2.66e+01 d.37.1.1 -9608 d.37.1.1 -9609 1oi0A 124 2.67e+01 unknown_sccs -8782 1qj2A 166 2.82e+01 1qj2A 1vjhA 122 2.83e+01 d.129.3.1 -11037 1d7cA 190 2.94e+01 1d7bA b.1.9.1 22309 1o08A 221 2.95e+01 c.108.1.6 86525 1lnzA 342 2.96e+01 b.117.1.1 78112 c.37.1.8 78113 1qhdA 398 3.16e+01 1qhdA a.115.1.2 63324 b.19.1.1 63325 1rljA 139 3.19e+01 1sb0A 87 3.22e+01 a.12.1.1 -455 1nedA 183 3.38e+01 1nedA d.153.1.4 41974 1btkB 169 3.39e+01 1btkA b.55.1.1 26960 1pkp 150 3.42e+01 1pkp d.14.1.1 37551 d.50.1.2 38787 1udmA 149 3.46e+01 1vj1A 363 3.54e+01 b.35.1.2 -3728 c.2.1.1 -5752 1vk6A 269 3.69e+01 unknown_sccs -10923 unknown_sccs -10924 1ewqA 765 3.99e+01 1ewqA a.113.1.1 19069 c.37.1.12 32383 c.55.6.1 33740 d.75.2.1 39743