# 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 1ekbB 235 1.74e-01 5ptp b.47.1.2 26282 1l8kA 314 1.53e+00 1rraA 124 2.15e+00 7rsa d.5.1.1 37277 4thiA 362 2.67e+00 2thiA c.94.1.1 35793 3thiA 371 3.11e+00 2thiA c.94.1.1 35792 2thiA 379 3.14e+00 2thiA c.94.1.1 35794 1go3F 107 4.09e+00 a.60.8.2 65407 1c8wA 124 5.26e+00 1dq3A 454 5.40e+00 1dq3A b.86.1.2 28380 d.50.3.1 38798 d.95.2.2 40585 d.95.2.2 40586 1g6q2 328 5.58e+00 1g6q2 1bvwA 360 1.00e+01 1bvwA c.6.1.1 30668 2bvwA 362 1.02e+01 1bvwA c.6.1.1 30666 1pymA 295 1.16e+01 1pymA c.1.12.4 29308 1rec 201 1.17e+01 1rec a.39.1.5 17326 1jsa 202 1.17e+01 1rec a.39.1.5 17328 1la3A 202 1.26e+01 1f7uA 607 1.50e+01 1bs2A a.27.1.1 59673 c.26.1.1 59674 d.67.2.1 59675 1bs2A 607 1.50e+01 1bs2A a.27.1.1 16930 c.26.1.1 31597 d.67.2.1 39563 1g7oA 215 1.55e+01 1g7oA a.45.1.1 60332 c.47.1.5 60333 1hgyA 365 1.56e+01 c.6.1.1 65833 1jkeA 145 1.57e+01 c.110.1.1 66791 1qk2A 363 1.64e+01 1bvwA c.6.1.1 30659 3cbh 365 1.64e+01 1bvwA c.6.1.1 30665 1hgwA 365 1.64e+01 c.6.1.1 65831 1cb2A 365 1.65e+01 1bvwA c.6.1.1 30661 1qjwA 365 1.65e+01 1bvwA c.6.1.1 30657 1tl2A 236 1.71e+01 1tl2A b.67.1.1 27541 1c6xA 99 1.82e+01 1hvc b.50.1.1 26694 1sscA 112 1.88e+01 7rsa d.5.1.1 37230 3srnA 113 1.90e+01 7rsa d.5.1.1 37252 1ktbA 405 1.97e+01 1srnA 118 2.00e+01 7rsa d.5.1.1 37234 1a5q 124 2.02e+01 7rsa d.5.1.1 37258 1eicA 124 2.07e+01 d.5.1.1 64901 3rsd 124 2.08e+01 7rsa d.5.1.1 37184 4rsd 124 2.08e+01 7rsa d.5.1.1 37186 1eidA 124 2.09e+01 d.5.1.1 64902 7rsa 124 2.09e+01 7rsa d.5.1.1 37165 1rnd 124 2.09e+01 7rsa d.5.1.1 37178 1ras 123 2.09e+01 7rsa d.5.1.1 37204 1eieA 124 2.10e+01 d.5.1.1 64903 1c9xA 124 2.10e+01 7rsa d.5.1.1 59090 1g8iA 190 2.12e+01 1rec a.39.1.5 60363 1c0bA 128 2.13e+01 7rsa d.5.1.1 37261 1c9vA 124 2.15e+01 7rsa d.5.1.1 59089 3rsp 124 2.22e+01 7rsa d.5.1.1 37188 1yrgA 385 2.24e+01 1yrgA c.10.1.2 30854 1yrgB 385 2.24e+01 1yrgA c.10.1.2 30855 1k5dC 386 2.25e+01 c.10.1.2 68170 1lsqA 124 2.26e+01 7rsa d.5.1.1 37211 1dy5A 124 2.26e+01 7rsa d.5.1.1 37163 3rsk 124 2.28e+01 7rsa d.5.1.1 37240 1b6vA 124 2.29e+01 7rsa d.5.1.1 37286 1btn 106 2.31e+01 1btn b.55.1.1 26952 1nscA 390 2.39e+01 2qwc b.68.1.1 27591 2r63 63 2.48e+01 1r69 a.35.1.2 17036 1aj8A 371 2.49e+01 1aj8A a.103.1.1 18900 1bra 223 2.53e+01 5ptp b.47.1.2 25980 2rlnE 109 2.56e+01 7rsa 1k8uA 90 2.62e+01 1iokA 545 2.70e+01 a.129.1.1 66224 c.8.5.1 66225 d.56.1.1 66226 1d6sA 322 2.76e+01 1oasA c.79.1.1 35295 1oasA 322 2.78e+01 1oasA c.79.1.1 35293 1fcjA 322 2.78e+01 1oasA c.79.1.1 35289 1slxB 223 2.85e+01 5ptp b.47.1.2 25981 1hslA 238 2.94e+01 1lst c.94.1.1 35804 2mjpA 193 3.04e+01 1b78A c.51.4.1 33223 1b78A 193 3.04e+01 1b78A c.51.4.1 33221 1avoB 140 3.04e+01 1avoB 1slwB 223 3.11e+01 5ptp b.47.1.2 25979 1gw8A 370 3.20e+01 1ffuC 287 3.24e+01 1qj2C d.87.2.1 40225 d.145.1.3 41756 1e6iA 121 3.31e+01 1b91A a.29.2.1 16969 1a5p 124 3.39e+01 7rsa d.5.1.1 37201 4ubpA 101 3.46e+01 1ubpA d.8.1.1 37352 1ubpA 101 3.46e+01 1ubpA d.8.1.1 37353 1ie7A 100 3.62e+01 1ubpA d.8.1.1 62313 3tgkE 231 3.70e+01 5ptp b.47.1.2 63338 1qe0A 420 3.70e+01 1adjA c.51.1.1 33186 d.104.1.1 40735 1e17A 150 3.71e+01 2hfh a.4.5.14 16143 1b87A 181 3.88e+01 1b87A d.108.1.1 40797 1ezsC 223 3.96e+01 5ptp b.47.1.2 25989 2trm 223 3.97e+01 5ptp b.47.1.2 25999