# List of top-scoring protein chains for t2k-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 1igd 61 1.67e-01 2igd d.15.7.1 37822 2igd 61 1.67e-01 2igd d.15.7.1 37821 2igh 61 1.67e-01 2igd d.15.7.1 37832 1pgx 83 1.85e-01 2igd d.15.7.1 37823 1b4bA 71 3.41e-01 1b4aA d.74.2.1 39718 1gb4 57 5.38e-01 2igd d.15.7.1 37833 1em7A 56 6.55e-01 1qkzA 64 7.26e-01 2igd d.15.7.1 37826 1b4aA 149 7.87e-01 1b4aA a.4.5.3 16088 d.74.2.1 39721 2igg 64 9.05e-01 2igd d.15.7.1 37831 1fccC 56 9.35e-01 2igd d.15.7.1 37829 1pgb 56 9.35e-01 2igd d.15.7.1 37824 1fd6A 57 9.77e-01 d.15.7.1 59769 1ibxB 145 1.35e+00 1c9fA d.15.2.1 62232 1fclA 56 1.49e+00 d.15.7.1 59768 1f9nE 149 1.80e+00 a.4.5.3 64998 d.74.2.1 64999 1dk0A 188 2.33e+00 1b2vA d.35.1.1 38530 1b2vA 188 2.33e+00 1b2vA d.35.1.1 38532 1f89A 291 3.06e+00 d.160.1.1 64988 1jyhA 157 3.55e+00 3pte 349 4.56e+00 3pte e.3.1.1 42687 1hvbA 349 4.56e+00 3pte e.3.1.1 42686 1k8wA 327 5.15e+00 d.58.35.2 68317 d.58.35.2 68318 1a4eA 488 5.23e+00 1cf9A e.5.1.1 42806 2ucz 165 5.86e+00 1u9aA d.20.1.1 38330 5pnt 157 7.13e+00 1dg9A c.44.1.1 32641 2hntE 81 7.75e+00 1ucyH 1bhxB 147 8.60e+00 1mjc 69 8.98e+00 1mjc b.40.4.5 25319 3mefA 69 9.35e+00 1mjc b.40.4.5 25320 1amuA 563 9.36e+00 1amuA e.23.1.1 43351 1aoy 78 9.53e+00 1aoy a.4.5.3 16087 1liiA 363 1.07e+01 1f3hA 142 1.08e+01 1f3hA g.52.1.1 45381 1e31B 142 1.10e+01 1f3hA g.52.1.1 45380 1lioA 363 1.20e+01 1dgmA 363 1.29e+01 1bx4A c.72.1.1 34936 1skyE 473 1.53e+01 1skyE a.69.1.1 18314 b.49.1.1 26479 c.37.1.11 32359 1hxeH 251 1.64e+01 5ptp 1be3C 379 1.65e+01 1be3C f.2.1.8 43665 1qcrC 378 1.66e+01 1be3C f.2.1.8 43673 1cfr 285 1.70e+01 1cfr c.52.1.7 33312 1h8iH 253 1.72e+01 1ucyE 1uch 230 1.79e+01 1uch d.3.1.6 37129 1dg9A 157 1.82e+01 1dg9A c.44.1.1 32637 1bvh 157 1.82e+01 1dg9A c.44.1.1 32640 1phr 157 1.82e+01 1dg9A c.44.1.1 32635 1d4bA 122 1.84e+01 1d4bA d.15.2.1 37638 1c0eA 157 1.87e+01 1dg9A c.44.1.1 32638 1bea 127 2.05e+01 1bea a.52.1.2 17826 1eb1H 257 2.15e+01 1ghxH 257 2.15e+01 1eo9B 241 2.17e+01 3pchM b.3.6.1 22826 1bfa 134 2.17e+01 1bea a.52.1.2 17827 1dx5M 259 2.17e+01 1ucyE 1hxn 219 2.18e+01 1hxn b.66.1.1 27529 1cmcA 104 2.19e+01 1cmbA a.43.1.2 17462 1cmbA 104 2.19e+01 1cmbA a.43.1.2 17460 1cmaA 104 2.19e+01 1cmbA a.43.1.2 17486 1vr1H 261 2.19e+01 5ptp 1jouB 259 2.20e+01 1ucyE 1dm4B 260 2.20e+01 1ucyE 1gj5H 258 2.20e+01 1gj4H 258 2.20e+01 1evjC 352 2.21e+01 1ofgA c.2.1.3 30072 d.81.1.5 39987 1jrjA 39 2.22e+01 j.6.1.1 67135 1bw0A 416 2.22e+01 1bw0A c.67.1.1 34385 1c5lH 259 2.23e+01 5ptp 1mjoA 104 2.23e+01 1cmbA a.43.1.2 17466 1thpB 259 2.23e+01 5ptp 1ahtH 259 2.23e+01 5ptp 8kme2 259 2.23e+01 1ucyE 1ofgA 381 2.25e+01 1ofgA c.2.1.3 30064 d.81.1.5 39979 2thfB 259 2.28e+01 1ucyE 1b7xB 259 2.31e+01 1ucyE 1d6wA 287 2.39e+01 1ucyE b.47.1.2 26098 1qckA 89 2.39e+01 1qckA a.60.5.1 17976 2ezxA 89 2.39e+01 1qckA a.60.5.1 17978 1eojA 289 2.41e+01 1ucyE b.47.1.2 26105 1h6dA 433 2.44e+01 c.2.1.3 65656 d.81.1.5 65657 1d9iA 288 2.44e+01 1ucyE b.47.1.2 26159 1bthH 259 2.44e+01 5ptp 1hagE 295 2.50e+01 1ucyE b.47.1.2 26135 1gc7A 297 2.64e+01 1ef1A a.11.2.1 16370 b.55.1.5 27005 d.15.1.4 37613 1h95A 79 2.70e+01 b.40.4.5 65742 1gwcA 230 2.95e+01 1bal 51 2.95e+01 1bbl a.9.1.1 16357 1bbl 51 2.95e+01 1bbl a.9.1.1 16356 1jr5A 90 2.95e+01 a.150.1.1 67113 1c0mC 238 3.01e+01 1cxqA b.34.7.1 24637 c.55.3.2 33642 1h8dH 260 3.07e+01 5ptp 1l3lA 234 3.16e+01 1kskA 234 3.19e+01 1h6fA 193 3.22e+01 1kzhA 555 3.37e+01 1l3wA 546 3.45e+01 1jmwA 146 3.47e+01 1vls a.24.2.1 63181 1jwtA 305 3.47e+01 b.47.1.2 67398 1ef1A 294 3.49e+01 1ef1A a.11.2.1 16368 b.55.1.5 27003 d.15.1.4 37611 1vls 146 3.51e+01 1vls a.24.2.1 16532 2sttA 96 3.58e+01 1awcA a.4.5.21 16163 1d8lA 149 3.74e+01 1hjp a.60.2.1 17948 b.40.4.2 25267 1ci4A 89 3.78e+01 1qckA a.60.5.1 17970 1e5wA 346 3.81e+01 1ef1A a.11.2.1 59280 b.55.1.5 59281 d.15.1.4 59282 1b9gA 57 3.86e+01 2gf1 g.1.1.1 43991 1cy7A 599 3.91e+01 1ecl e.10.1.1 43244 1ecl 597 3.97e+01 1ecl e.10.1.1 43238