# List of top-scoring protein chains for t2k-100-30-dssp-ebghstl 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 1awcA 110 8.06e-01 1awcA a.4.5.21 16167 1j7xA 302 1.12e+00 c.14.1.2 66425 1g2rA 100 1.45e+00 1g2rA d.192.1.1 60231 1p4xA 250 2.22e+00 a.4.5.28 87784 a.4.5.28 87785 1d8iA 311 2.43e+00 1d8iA d.63.1.1 39541 1d8hA 311 3.64e+00 1d8iA d.63.1.1 39544 1psdA 409 4.24e+00 1psdA c.2.1.4 30097 c.23.12.1 31357 d.58.18.1 39354 1earA 147 4.38e+00 b.107.1.1 64875 d.58.38.1 64876 1lfjA 119 5.04e+00 1eb0A 147 5.15e+00 b.107.1.1 64890 d.58.38.1 64891 1etc 110 6.11e+00 1awcA a.4.5.21 16162 1jbgA 109 6.17e+00 a.6.1.3 66480 1lffA 119 6.30e+00 1q6cA 495 6.76e+00 c.1.8.1 -5300 1s6bB 119 6.77e+00 a.133.1.2 -1954 1byb 495 6.96e+00 1byb c.1.8.1 28790 1o86A 589 7.03e+00 d.92.1.5 81177 1iujA 106 7.51e+00 unknown_sccs -9953 3crxA 343 7.64e+00 4crxA a.60.9.1 18101 d.163.1.1 42161 1ly2A 130 8.81e+00 g.18.1.1 74335 g.18.1.1 74336 1j90A 230 8.86e+00 c.37.1.1 66448 1mai 131 9.00e+00 1mai b.55.1.1 26951 1mp9A 198 9.73e+00 a.74.1.2 -1127 a.74.1.2 -1128 2nacA 393 1.05e+01 2nadA c.2.1.4 30088 c.23.12.1 31348 1c2aA 120 1.20e+01 1c2aA g.3.13.1 44349 g.3.13.1 44350 1f4tA 368 1.22e+01 1f4tA a.104.1.1 18973 1lfjB 119 1.29e+01 1crl 534 1.39e+01 1thg c.69.1.17 34765 1gp7A 151 1.40e+01 a.133.1.2 76251 4crxA 322 1.42e+01 4crxA a.60.9.1 18095 d.163.1.1 42155 1ghqB 134 1.45e+01 1ghqB g.18.1.1 60522 g.18.1.1 60523 1vk8A 106 1.48e+01 1s6bA 119 1.50e+01 a.133.1.2 -1953 1oe0A 230 1.52e+01 c.37.1.1 -6976 1mk0A 97 1.55e+01 d.226.1.1 79216 1s7oA 113 1.56e+01 1pysB 785 1.65e+01 1pysB a.6.1.1 16299 a.6.1.1 16300 b.40.4.4 25311 d.58.13.1 39310 d.104.1.1 40779 d.138.1.1 41455 1b7yB 785 1.68e+01 1pysB a.6.1.1 16301 a.6.1.1 16302 b.40.4.4 25312 d.58.13.1 39311 d.104.1.1 40780 d.138.1.1 41456 2nadA 393 1.77e+01 2nadA c.2.1.4 30090 c.23.12.1 31350 1v3hA 495 1.81e+01 1qgvA 142 1.81e+01 1qgvA c.47.1.8 33056 1io7A 368 1.84e+01 1f4tA a.104.1.1 18971 1svsA 353 1.88e+01 1k8kD 300 1.99e+01 d.198.2.1 68309 d.198.2.1 68310 1bif 469 2.02e+01 1bif c.37.1.7 31961 c.60.1.4 34003 1ewxA 146 2.11e+01 1ewxA c.47.1.10 33062 1dgzA 37 2.20e+01 1dfeA g.42.1.1 45319 1gz0A 253 2.26e+01 c.116.1.1 76391 d.79.3.3 76392 2bifA 469 2.42e+01 1bif c.37.1.7 31963 c.60.1.4 34009 1poa 118 2.54e+01 1poa a.133.1.2 19514 1gvjA 146 2.54e+01 a.4.5.21 -293 1dfeA 37 2.66e+01 1dfeA g.42.1.1 45318 3bifA 468 2.70e+01 1bif c.37.1.7 31962 c.60.1.4 34008 1gtxA 472 2.74e+01 1gtxA 1kaeA 434 2.75e+01 c.82.1.2 72247 1q7rA 219 2.79e+01 c.23.16.1 -6507 1k75A 434 2.80e+01 c.82.1.2 68253 1q0bA 367 2.89e+01 c.37.1.9 -7105 1ohvA 472 2.91e+01 c.67.1.4 -8181 1c8bA 371 2.94e+01 1c8bA c.56.1.2 59082 1mku 123 2.97e+01 1poa a.133.1.2 19590 1ry6A 360 3.15e+01 c.37.1.9 -7111 1p8xA 344 3.18e+01 d.109.1.1 -10813 d.109.1.1 -10814 d.109.1.1 -10815 1jsdA 319 3.30e+01 b.19.1.2 63258 1h9oA 112 3.34e+01 1qadA d.93.1.1 60837 1qk8A 146 3.55e+01 1ewxA c.47.1.10 33061 1fzgD 87 3.85e+01 1fzgD h.1.8.1 45605 1lnsA 763 3.88e+01 a.40.2.1 78101 b.18.1.13 78102 c.69.1.21 78103 1cipA 353 3.94e+01 1cipA a.66.1.1 18210 c.37.1.8 32093