# List of top-scoring protein chains for t2k-100-30-str 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 1g4yR 148 1.67e-01 1cll a.39.1.5 60252 1ehyA 294 2.47e-01 1ehyA c.69.1.11 34693 1fua 215 3.86e-01 2fua c.74.1.1 34973 1yacA 208 4.11e-01 1yacA c.33.1.2 31757 2fua 215 4.58e-01 2fua c.74.1.1 34977 1exrA 148 5.12e-01 1cll a.39.1.5 17299 1osa 148 5.22e-01 1cll a.39.1.5 17300 1a6q 382 5.45e-01 1a6q d.158.1.1 42063 1e4cP 215 5.67e-01 2fua c.74.1.1 34969 1uok 558 7.37e-01 1uok b.71.1.1 27801 c.1.8.1 28788 1bmqB 88 7.45e-01 1pauB 1ibcB 88 8.54e-01 1pauB 3cln 148 8.87e-01 1cll a.39.1.5 17286 1cll 148 1.13e+00 1cll a.39.1.5 17263 1hqsA 423 1.22e+00 1iso c.77.1.1 61154 1cpt 412 1.27e+00 1cpt a.104.1.1 18968 1f37A 110 1.76e+00 1f37A c.47.1.11 33088 1sfe 180 1.77e+00 1sfe a.4.2.1 16073 c.55.7.1 33748 1hruA 188 2.10e+00 1hruA d.115.1.1 40926 1c4xA 285 2.11e+00 1c4xA c.69.1.10 34684 1ezwA 349 2.20e+00 1ezwA c.1.16.3 29558 1hnuA 280 2.83e+00 1hnoA c.14.1.3 61096 1dtvA 67 2.87e+00 1dtvA g.30.1.1 44963 1hw1A 239 2.92e+00 1e2xA a.4.5.6 16111 a.78.1.1 18441 1fjgI 128 2.94e+00 1fjfI d.14.1.1 37559 1hnoA 280 3.06e+00 1hnoA c.14.1.3 61095 1bno 87 3.09e+00 1bpyA a.60.6.1 18079 1dtdB 61 3.12e+00 1dtvA g.30.1.1 44962 3tgl 269 3.44e+00 3tgl c.69.1.17 34733 1e2xA 243 3.49e+00 1e2xA a.4.5.6 16113 a.78.1.1 18443 1ej0A 180 3.75e+00 1ej0A c.66.1.2 34179 1ggzA 148 3.89e+00 1floA 422 4.05e+00 1floA a.60.9.1 18106 d.163.1.1 42166 1qbjA 81 4.18e+00 1qbjA a.4.5.19 16155 1cus 200 5.35e+00 1cex c.23.9.1 31287 1qjgA 125 5.37e+00 1opy d.17.4.3 38102 1ggwA 140 5.69e+00 1ggwA a.39.1.5 60490 1lgyA 269 6.20e+00 3tgl c.69.1.17 34758 1g25A 65 7.06e+00 1g25A g.44.1.1 45325 1wdcC 156 7.48e+00 1wdcC a.39.1.5 17317 8cho 125 7.56e+00 1opy d.17.4.3 38108 1cex 214 7.60e+00 1cex c.23.9.1 31285 1yna 194 7.61e+00 1axkA b.29.1.11 24335 1jj2H 167 7.94e+00 1ffkF d.41.4.1 63093 1dr8B 344 8.72e+00 1cnzA c.77.1.1 35052 1tfr 305 8.88e+00 1tfr a.60.7.1 18081 c.53.1.2 33351 1tns 76 8.88e+00 1qpmA a.4.5.26 16228 1pvxA 194 9.57e+00 1axkA b.29.1.11 24341 1qgpA 77 9.79e+00 1qbjA a.4.5.19 16158 1jkeA 145 9.81e+00 c.110.1.1 66791 1vaoA 560 1.04e+01 1qltA d.58.32.1 39461 d.145.1.1 41724 7icd 416 1.06e+01 1iso c.77.1.1 35072 1hyeA 313 1.08e+01 2cmd c.2.1.5 61400 d.162.1.1 61401 1iso 416 1.11e+01 1iso c.77.1.1 35065 1i8dA 213 1.14e+01 b.43.4.3 61953 b.43.4.3 61954 1i60A 278 1.15e+01 1ldjA 760 1.16e+01 1qaeA 245 1.19e+01 1qaeA d.4.1.2 37141 1faoA 126 1.28e+01 1faoA b.55.1.1 26974 1swuA 127 1.30e+01 1swuA b.61.1.1 27230 1bi5A 389 1.39e+01 1bi5A c.95.1.2 35985 c.95.1.2 35986 1mngA 203 1.42e+01 1avmA a.2.11.1 15776 d.44.1.1 38701 1cyi 90 1.44e+01 1ctj a.3.1.1 15804 1cyj 90 1.44e+01 1ctj a.3.1.1 15805 1mai 131 1.52e+01 1mai b.55.1.1 26951 1fdyA 297 1.52e+01 1nal3 c.1.10.1 29071 1sriA 121 1.54e+01 1swuA b.61.1.1 27276 1idm 343 1.55e+01 1cnzA c.77.1.1 35035 1vasA 137 1.57e+01 2end a.18.1.1 16404 1nal1 297 1.58e+01 1nal3 2bbkL 125 1.59e+01 2bbkL g.21.1.1 44882 2prgC 88 1.59e+01 2prgC a.137.6.1 19644 2end 138 1.67e+01 2end a.18.1.1 16400 1ipd 345 1.71e+01 1cnzA c.77.1.1 35038 2izgB 123 1.75e+01 1swuA b.61.1.1 27236 1fjgC 239 1.76e+01 1fjfC d.52.3.1 38831 d.53.1.1 38839 2izhB 123 1.78e+01 1swuA b.61.1.1 27234 1smnA 245 1.79e+01 1qaeA d.4.1.2 37143 119l 164 1.95e+01 1l92 d.2.1.3 36622 1l58 164 1.97e+01 1l92 d.2.1.3 36635 1sek 378 1.97e+01 1sek e.1.1.1 42675 2act 220 1.99e+01 1cs8A d.3.1.1 37002 1gkkA 297 2.01e+01 c.69.1.2 65248 1i7qA 519 2.03e+01 1qdlA d.161.1.1 61901 1tib 269 2.03e+01 3tgl c.69.1.17 34738 1gklA 297 2.04e+01 c.69.1.2 65250 1qghA 156 2.07e+01 1qghA a.25.1.1 16728 3fisA 98 2.13e+01 1fipA a.105.1.1 18994 1zac 90 2.15e+01 1ncx a.39.1.5 17236 1pmaA 233 2.18e+01 1pmaA d.153.1.4 41918 1g6oA 330 2.22e+01 1g6oA c.37.1.13 32430 1nbaA 264 2.23e+01 1nbaA c.33.1.1 31753 1hleA 345 2.26e+01 1ovaA e.1.1.1 42618 1j5eC 239 2.34e+01 1jd1A 129 2.37e+01 1qu9A d.79.1.1 62890 1kyqA 274 2.38e+01 1dgrM 93 2.41e+01 1caxB b.82.1.2 28101 1xypA 190 2.41e+01 1axkA b.29.1.11 24327 1nal3 297 2.42e+01 1nal3 1fipA 98 2.50e+01 1fipA a.105.1.1 18980 1awcB 153 2.52e+01 1bd8 a.118.2.1 19156 1kkcA 221 2.59e+01 a.2.11.1 68660 d.44.1.1 68661 1fehA 574 2.61e+01 1fehA c.96.1.1 36015 d.15.4.2 37690 d.58.1.5 38998 1ffkF 157 2.64e+01 1ffkF d.41.4.1 38628 1jrjA 39 2.68e+01 j.6.1.1 67135 1l92 164 2.70e+01 1l92 d.2.1.3 36629 1dgrW 93 2.75e+01 1caxB 1iqvA 218 2.76e+01 1rss a.75.1.1 62661 1ck9A 104 2.84e+01 1ck9A d.79.3.1 39806 1dqsA 393 2.85e+01 1dqsA e.22.1.1 43347 1lxa 262 2.95e+01 1lxa b.81.1.1 28052 1hqi 90 3.01e+01 1hqi d.137.1.1 41454 2dubE 261 3.06e+01 1nzyA c.14.1.3 30916 1eg9A 449 3.08e+01 1ndoA b.33.1.2 24443 d.129.3.3 41322 1spbP 78 3.13e+01 1scjB d.58.3.2 39068 1aa7A 158 3.13e+01 1aa7A a.95.1.1 18741 1eny 268 3.13e+01 1eny c.2.1.2 29910 1g61A 228 3.15e+01 1g61A d.126.1.1 41126 1scjB 71 3.16e+01 1scjB d.58.3.2 39069 1fgxA 288 3.18e+01 1fgxA c.68.1.2 34508 1ql0A 241 3.19e+01 1qaeA d.4.1.2 37139 1ctj 89 3.27e+01 1ctj a.3.1.1 15798 1g8tA 245 3.28e+01 1qaeA d.4.1.2 37137 1f1oA 431 3.39e+01 1f1oA a.127.1.1 19433 1reqD 637 3.46e+01 1reqB c.1.19.1 29623 c.23.6.1 31250 1qhoA 686 3.61e+01 1cxlA b.1.1.5 21844 b.3.1.1 22513 b.71.1.1 27751 c.1.8.1 28738 1uaaA 673 3.80e+01 1pjr c.37.1.13 32401 c.37.1.13 32402 1jc4A 148 3.82e+01 1jc4A d.32.1.4 62863 1fit 147 3.86e+01 1fit d.13.1.1 37499 1e6pA 499 3.87e+01 1e15A b.72.2.1 59314 c.1.8.5 59315 d.26.3.1 59316 1j8wB 273 3.99e+01 c.68.1.2 66441 1qltA 560 4.00e+01 1qltA d.58.32.1 39457 d.145.1.1 41720