# 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 1dqeA 137 1.53e+00 1dqeA a.39.2.1 17388 1gm0A 142 1.55e+00 a.39.2.1 65297 1lo9A 141 2.23e+00 1fg4A 149 3.98e+00 1ewxA c.47.1.10 59814 1dp5B 68 4.27e+00 1dp5B a.137.7.1 19646 1cr5A 189 4.50e+00 1cr5A b.52.2.3 26931 d.31.1.1 38465 1l0aA 192 4.72e+00 1flkA 228 4.84e+00 1d0aB b.8.1.1 23262 h.1.2.1 45469 1qq8A 214 5.00e+00 1qq8A a.132.1.1 19508 1mxa 383 5.10e+00 1mxb d.130.1.1 41326 d.130.1.1 41327 d.130.1.1 41328 1mxb 383 5.10e+00 1mxb d.130.1.1 41329 d.130.1.1 41330 d.130.1.1 41331 1qamA 244 5.25e+00 2ercA c.66.1.9 34220 2ercA 244 5.25e+00 2ercA c.66.1.9 34224 1lo7A 141 6.31e+00 1bvqA 141 6.31e+00 1bvqA d.38.1.1 38542 1e0uA 470 6.36e+00 1a49A b.58.1.1 27072 c.1.12.1 29300 c.49.1.1 33154 1pkyA 470 6.70e+00 1a49A b.58.1.1 27068 c.1.12.1 29296 c.49.1.1 33150 1e0tA 470 6.99e+00 1a49A b.58.1.1 27064 c.1.12.1 29292 c.49.1.1 33146 1i5gA 144 7.60e+00 1ewxA c.47.1.10 61784 1fts 295 7.71e+00 1ng1 a.24.13.1 16968 c.37.1.10 32279 1qjgE 125 7.81e+00 1opy d.17.4.3 38106 1kpkA 473 8.28e+00 f.2.1.13 68776 1b07A 59 8.32e+00 1ckaA b.34.2.1 24461 1c3mA 147 8.45e+00 1jotA b.77.3.1 27983 1a3wA 500 8.52e+00 1a49A b.58.1.1 27060 c.1.12.1 29288 c.49.1.1 33142 1ckaA 57 8.56e+00 1ckaA b.34.2.1 24459 1ehiA 377 8.60e+00 1iow c.30.1.2 31716 d.142.1.1 41484 1ctm 250 8.76e+00 1hcz b.2.6.1 22465 b.84.2.2 28251 1hcz 252 8.81e+00 1hcz b.2.6.1 22464 b.84.2.2 28250 1dvgA 267 8.88e+00 1qq8A a.132.1.1 19510 1dveA 267 9.48e+00 1qq8A a.132.1.1 19512 1h9wA 237 9.75e+00 1nls b.29.1.1 60853 1h9pA 237 9.76e+00 1nls b.29.1.1 60838 1dglA 237 9.83e+00 1nls b.29.1.1 24133 1dy9A 187 1.06e+01 1jxpA b.47.1.3 26400 1ej0A 180 1.29e+01 1ej0A c.66.1.2 34179 1j5eE 161 1.31e+01 1fjgE 162 1.32e+01 1pkp d.14.1.1 37553 d.50.1.2 38789 1cjcA 460 1.37e+01 1cjcA c.3.1.1 30319 c.4.1.1 30604 1cvrA 435 1.38e+01 1cvrA b.1.1.5 21949 c.17.1.2 31006 1c8uA 285 1.39e+01 1c8uA d.38.1.3 38547 d.38.1.3 38548 1fi3A 82 1.41e+01 451c a.3.1.1 59846 1xrb 383 1.43e+01 1mxb d.130.1.1 41335 d.130.1.1 41336 d.130.1.1 41337 1qfxA 460 1.44e+01 1qfxA c.60.1.3 33994 1jylA 254 1.48e+01 c.68.1.13 67459 1eh2 106 1.49e+01 1eh2 a.39.1.6 17339 1bnlA 178 1.56e+01 1koe d.169.1.5 42444 1qjgF 125 1.71e+01 1opy d.17.4.3 38107 1jj2D 176 1.76e+01 1ffkD d.77.1.1 63088 1ffkD 176 1.76e+01 1ffkD d.77.1.1 39750 1bt3A 345 1.80e+01 1bt3A a.86.1.2 18507 1jjyA 636 1.81e+01 1jjyA e.26.1.2 63141 1ibcB 88 2.00e+01 1pauB 2prk 279 2.09e+01 1gci c.41.1.1 32548 8cho 125 2.11e+01 1opy d.17.4.3 38108 1i5lC 77 2.15e+01 b.38.1.1 61793 1qjgA 125 2.17e+01 1opy d.17.4.3 38102 1k4iA 233 2.30e+01 1f8hA 95 2.31e+01 1eh2 a.39.1.6 17336 1jykA 254 2.31e+01 c.68.1.13 67458 1bmqB 88 2.36e+01 1pauB 1sro 76 2.40e+01 1sro b.40.4.5 25327 1jqkA 639 2.50e+01 e.26.1.2 67101 1ral 308 2.57e+01 1frb c.1.7.1 28698 1lwiA 322 2.63e+01 1frb c.1.7.1 28696 1afsA 323 2.64e+01 1frb c.1.7.1 28694 1b2oA 54 2.67e+01 1rb9 g.41.5.1 45233 1aipE 405 2.72e+01 1efcA b.43.3.1 25699 b.44.1.1 25739 c.37.1.8 32134 1ht3A 279 2.76e+01 1gci c.41.1.1 61243 1lbvA 252 2.78e+01 1pls 113 2.82e+01 1pls b.55.1.1 26965 1c08B 114 2.85e+01 1f3rB b.1.1.1 19975 1qnwB 242 2.88e+01 1led b.29.1.1 24138 1p32A 209 2.94e+01 1p32A d.25.1.1 38379 1p32C 209 2.94e+01 1p32A d.25.1.1 38381 1ic6A 279 3.00e+01 1gci c.41.1.1 62257 1b13A 54 3.08e+01 1rb9 g.41.5.1 45227 1bozA 186 3.10e+01 1aoeA c.71.1.1 34905 1e87A 118 3.11e+01 1b6e d.169.1.1 42327 1ihfA 99 3.12e+01 1huuA a.55.1.1 17893 1ic5H 114 3.15e+01 1f3rB b.1.1.1 62254 1dlr 186 3.23e+01 1aoeA c.71.1.1 34909 1hfr 186 3.26e+01 1aoeA c.71.1.1 34908 1dls 186 3.26e+01 1aoeA c.71.1.1 34906 1g82A 160 3.28e+01 1bfg b.42.1.1 60337 1qc7A 101 3.29e+01 1qc7A a.82.1.1 18456 1cch 82 3.31e+01 451c a.3.1.1 15902 1hfq 186 3.34e+01 1aoeA c.71.1.1 34903 1ag8A 499 3.36e+01 1bpwA c.82.1.1 35341 1jq4A 98 3.40e+01 d.15.4.2 67083 1ic4H 114 3.40e+01 1f3rB b.1.1.1 62251 1ihkA 174 3.47e+01 1bfg b.42.1.1 62384 1ca4A 168 3.47e+01 1d0aB b.8.1.1 23238 h.1.2.1 45445 1hocA 272 3.51e+01 1agdA b.1.1.2 20815 d.19.1.1 38297 1ce6A 274 3.53e+01 1agdA b.1.1.2 20819 d.19.1.1 38299 1inqA 275 3.54e+01 1jufA 276 3.55e+01 1qlfA 276 3.55e+01 1agdA b.1.1.2 20817 d.19.1.1 38298 1d0aB 168 3.57e+01 1d0aB b.8.1.1 23224 h.1.2.1 45431 1czyA 168 3.57e+01 1d0aB b.8.1.1 23220 h.1.2.1 45427 1czyC 168 3.57e+01 1d0aB b.8.1.1 23222 h.1.2.1 45429 1bz9A 277 3.57e+01 1agdA b.1.1.2 20829 d.19.1.1 38304 1k5hA 398 3.60e+01 a.69.3.1 68192 c.2.1.3 68193 d.81.1.3 68194 1jpfA 281 3.65e+01 b.1.1.2 67016 d.19.1.1 67017 1fi2A 201 3.65e+01 1fi2A b.82.1.2 59845 1ld9A 268 3.71e+01 1agdA b.1.1.2 20835 d.19.1.1 38307 1ic7H 114 3.74e+01 1f3rB b.1.1.1 62258 1dabA 539 3.76e+01 1dabA b.80.1.7 28049 1ca9A 192 3.80e+01 1d0aB b.8.1.1 23244 h.1.2.1 45451 1ldpH 272 3.81e+01 1agdA b.1.1.2 20839 d.19.1.1 38309 1czzA 187 3.84e+01 1d0aB b.8.1.1 23259 h.1.2.1 45466