# List of top-scoring protein chains for T0235.t04-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 1lujB 75 1.02e+00 a.161.1.1 78226 1m1eB 81 1.55e+00 a.161.1.1 78400 1nmmA 123 4.05e+00 d.2.1.2 80661 1o7lA 262 4.84e+00 a.4.5.8 81147 b.40.6.2 81148 b.40.6.2 81149 1b9mA 265 4.86e+00 1b9mA a.4.5.8 16118 b.40.6.2 58938 b.40.6.2 58939 1snnA 227 5.03e+00 1pvwA 227 5.14e+00 d.115.1.2 -10934 1aotF 106 5.41e+00 1lckA d.93.1.1 40458 1oivA 191 5.43e+00 c.37.1.8 -7074 1oiwA 191 7.20e+00 c.37.1.8 -7076 1g83A 165 8.34e+00 1fmk b.34.2.1 60341 d.93.1.1 60342 2cro 71 1.17e+01 1r69 a.35.1.2 17038 1kxrA 339 1.18e+01 d.3.1.3 73175 2alr 324 1.33e+01 1frb c.1.7.1 28679 1m4xA 413 1.48e+01 i.6.1.1 78627 1qxpA 900 1.48e+01 a.39.1.8 -861 a.39.1.8 -870 b.14.1.1 -3041 d.3.1.3 -8887 1gpmA 525 1.49e+01 1gpmA c.23.16.1 31405 c.26.2.1 31608 d.52.2.1 38826 1m3yA 413 1.55e+01 b.121.2.3 78579 b.121.2.3 78580 1nx8A 273 1.57e+01 b.82.2.8 86374 1jj2Y 73 1.59e+01 1ffkW g.41.8.1 63110 1j5qA 437 1.63e+01 b.121.2.3 77084 b.121.2.3 77085 1jkgB 250 1.80e+01 d.17.4.2 66796 1dn0A 215 2.04e+01 32c2A b.1.1.1 19830 b.1.1.2 20934 1j79A 347 2.06e+01 1j79A c.1.9.4 62675 1hlb 158 2.08e+01 1hlb a.1.1.2 15625 1bo0A 76 2.11e+01 1qqdA 273 2.12e+01 1agdA b.1.1.2 20769 d.19.1.1 38274 1im9A 276 2.14e+01 1agdA b.1.1.2 62582 d.19.1.1 62583 1nekB 238 2.22e+01 a.1.2.1 80429 d.15.4.2 80430 1p2fA 220 2.23e+01 a.4.6.1 87720 c.23.1.1 87721 1fpoA 171 2.25e+01 1fpoA a.2.3.1 15693 a.23.1.1 16487 1qxnA 137 2.28e+01 c.46.1.3 -7363 1s4eA 352 2.38e+01 d.14.1.5 -9077 unknown_sccs -10122 1efxA 278 2.47e+01 1agdA b.1.1.2 20767 d.19.1.1 38273 1i4sA 147 2.60e+01 a.149.1.1 66026 1jfzA 154 2.63e+01 a.149.1.1 66655 1dd3A 128 2.70e+01 1dd3C a.108.1.1 19031 d.45.1.1 38760 1fw4A 71 2.84e+01 1cll a.39.1.5 60056 2hbg 147 2.86e+01 2hbg a.1.1.2 15014 1cmf 73 2.88e+01 1cll a.39.1.5 17283 1n4tA 219 2.89e+01 unknown_sccs -10234 1i6vA 314 2.90e+01 d.74.3.1 61852 d.181.1.1 61853 1owlA 484 2.96e+01 a.99.1.1 -1296 c.28.1.1 -6646 1g7dA 106 2.99e+01 1g7dA a.71.1.1 18318 1tiqA 180 3.05e+01 1k3xA 262 3.06e+01 a.156.1.2 77242 b.113.1.1 77243 g.39.1.8 77244 1fzkA 274 3.10e+01 1agdA b.1.1.2 60149 d.19.1.1 60150 1l9uD 1524 3.16e+01 i.8.1.1 73751 1f71A 67 3.18e+01 1wdcC a.39.1.5 17289 1jo8A 58 3.19e+01 b.34.2.1 71774 1hqtA 326 3.36e+01 1frb c.1.7.1 61156 2hrvA 142 3.36e+01 2hrvA b.47.1.4 26429 1rc7A 220 3.38e+01 a.149.1.1 -1135 d.50.1.1 -9772 1jguH 217 3.39e+01 b.1.1.1 66688 b.1.1.2 66689 1jgvH 218 3.41e+01 b.1.1.1 66692 b.1.1.2 66693 5nul 138 3.42e+01 5nul c.23.5.1 31191 1l9uA 314 3.43e+01 i.8.1.1 73748 1cwn 324 3.43e+01 1frb c.1.7.1 28686 1ae4 325 3.44e+01 1frb c.1.7.1 28689 1mw7A 240 3.55e+01 e.39.1.1 79557 1jf4A 147 3.56e+01 a.1.1.2 71643 1ewrA 649 3.60e+01 1ewqA a.113.1.1 19073 c.37.1.12 32387 c.55.6.1 33744 1uaxA 220 3.64e+01 3hck 107 3.66e+01 1lckA d.93.1.1 40495 1ph5A 459 3.66e+01 b.40.4.3 88091 b.40.4.3 88092 b.40.4.3 88093 1ph4A 460 3.66e+01 b.40.4.3 88087 b.40.4.3 88088 b.40.4.3 88089 1ph6A 461 3.67e+01 b.40.4.3 88095 b.40.4.3 88096 b.40.4.3 88097 1mheA 274 3.85e+01 1agdA b.1.1.2 20771 d.19.1.1 38275 1bawA 105 3.85e+01 1plc b.6.1.1 22868 1jb7A 495 3.86e+01 1otcA b.40.4.3 62836 b.40.4.3 62837 b.40.4.3 62838 1iujA 106 3.87e+01 unknown_sccs -9953 1i6vD 1264 3.87e+01 e.29.1.2 61857 1hqmD 1265 3.88e+01 i.8.1.1 45975 1g8xA 1010 3.90e+01 1lvk k.1.1.1 46378 1b6q 63 3.95e+01 1nkd a.30.1.1 16977 1pq1A 196 3.96e+01 f.1.4.1 -12055 1af3 196 3.96e+01 1maz f.1.4.1 43397