# List of top-scoring protein chains for T0350.t06-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 1wmvA 54 5.18e+00 1v5xA 203 6.89e+00 c.1.2.4 100377 2fwuA 157 7.19e+00 b.1.27.1 134262 1mzjA 339 7.53e+00 c.95.1.2,c.95.1.2 79700,79701 1qdnA 204 1.25e+01 1qcsA b.52.2.3,d.31.1.1 26928,38462 1qcsA 211 1.26e+01 1qcsA b.52.2.3,d.31.1.1 26927,38461 1muwA 386 1.28e+01 c.1.15.3 79495 1dxiA 388 1.38e+01 4xis c.1.15.3 29407 1j36A 607 1.59e+01 d.92.1.5 84054 1sw6A 327 1.74e+01 1sw6A d.211.1.1 19176 1o5lA 213 1.95e+01 b.82.3.2 92506 1ng6A 148 2.15e+01 a.182.1.1 85670 1b8dA 164 2.41e+01 1cpcA a.1.1.3 15665 1ww1A 280 2.64e+01 d.157.1.7 121348 1tcoA 375 2.70e+01 1auiA d.159.1.3 42084 1t6sA 162 2.72e+01 a.4.5.60,a.4.5.60 112271,112272 1mf8A 373 2.81e+01 d.159.1.3 79040 1fpwA 190 2.99e+01 1rec a.39.1.5 17329 1ohtA 215 3.23e+01 d.118.1.1 87036 1i27A 73 3.23e+01 1i27A a.4.5.30 61555 1qazA 351 3.26e+01 1qazA a.102.3.1 18848 1nhaA 82 3.37e+01 a.4.5.30 80509 1auiA 521 3.39e+01 1auiA d.159.1.3 42085 1h72C 296 3.39e+01 d.14.1.5,d.58.26.1 60712,60713 1o4uA 285 3.48e+01 c.1.17.1,d.41.2.1 86624,86625 1o1hA 387 3.48e+01 c.1.15.3 81044 1oadA 388 3.49e+01 c.1.15.3 81253 2glkA 388 3.49e+01 c.1.15.3 135344 1gw9A 388 3.49e+01 c.1.15.3 70658 6xia 387 3.69e+01 4xis 1oxsC 353 3.76e+01 b.40.6.3,c.37.1.12 87519,87520 2gnqA 336 3.76e+01 2gtqA 867 3.78e+01 1ud0A 113 3.87e+01 a.8.4.1 99198 2carA 196 3.87e+01 c.51.4.1 130161 1oxxK 353 3.89e+01 b.40.6.3,c.37.1.12 93715,93716 1ceuA 51 4.01e+01 1ceuA j.11.1.1 46137 1w2b5 144 4.06e+01 1siqA 392 4.09e+01 a.29.3.1,e.6.1.1 105585,105586 1sirA 394 4.10e+01 a.29.3.1,e.6.1.1 105587,105588 1zxzA 197 4.30e+01 2cnqA 306 4.33e+01 d.143.1.1 130646 2axnA 520 4.35e+01 1c1lA 136 4.54e+01 1c1lA b.29.1.3 24219 1gd7A 109 4.97e+01 b.40.4.4 60441 1jchA 551 5.25e+01 b.101.1.1,b.110.1.1,h.4.9.1 66491,66492,66493 1j6qA 136 5.31e+01 b.40.9.1 77091 1w53A 84 5.54e+01 a.186.1.2 109175 1eyxA 164 5.60e+01 1cpcA a.1.1.3 15669 3proC 166 5.62e+01 3proC d.52.1.1,d.52.1.1 38812,38813 1tyjA 170 5.63e+01 b.2.2.2 119390 2cunA 410 5.85e+01 1ghj 79 6.05e+01 1ghj 1esxA 96 6.20e+01 1esxA j.11.1.1 59501 1dosA 358 6.45e+01 1dosA c.1.10.2 29175 1gkuB 1054 6.52e+01 c.37.1.16,c.37.1.16,e.10.1.1 65257,65258,65259 1uujA 88 6.59e+01 a.221.1.1 108046 1olmA 403 6.70e+01 a.5.3.1,b.132.1.1,c.13.1.1 104008,104009,104010 1olmE 403 6.81e+01 a.5.3.1,b.132.1.1,c.13.1.1 104014,104015,104016 1gl9B 1054 6.83e+01 c.37.1.16,c.37.1.16,e.10.1.1 65291,65292,65293 1jnyA 435 6.97e+01 b.43.3.1,b.44.1.1,c.37.1.8 66982,66983,66984 1mfqB 108 6.97e+01 d.201.1.1 79045 2ctmA 95 7.01e+01 d.51.1.1 130799 1ffh 294 7.03e+01 1ng1 2ng1 293 7.03e+01 1ng1 2bvpA 276 7.15e+01 b.1.1.2,d.19.1.1 129291,129292 1liaA 164 7.16e+01 1cpcA a.1.1.3 15661 1ls1A 295 7.17e+01 a.24.13.1,c.37.1.10 78170,78171 1ng1 294 7.17e+01 1ng1 1rj9B 300 7.18e+01 a.24.13.1,c.37.1.10 97555,97556 1jpnA 296 7.18e+01 a.24.13.1,c.37.1.10 67039,67040 1o87A 297 7.22e+01 a.24.13.1,c.37.1.10 92640,92641 1im8A 244 7.35e+01 c.66.1.14 66212 1ycjA 257 7.36e+01 c.94.1.1 122966 1txfA 258 7.39e+01 c.94.1.1 119386 2f34A 258 7.39e+01 c.94.1.1 132852 1jidA 128 7.43e+01 d.201.1.1 66735 1cfr 285 7.53e+01 1cfr 2fflA 756 7.54e+01 1q9cA 191 7.64e+01 a.22.1.3 96258 1b7gO 340 7.80e+01 1b7gO c.2.1.3,d.81.1.1 29992,39907 1ysqA 193 7.94e+01 2nr1 27 8.07e+01 1usuA 260 8.35e+01 d.14.1.8 99885 1wr2A 238 8.37e+01 1usvA 260 8.47e+01 d.14.1.8 99887 1pmr 80 8.48e+01 1ghj 1a3qA 285 8.54e+01 1a3qA b.1.18.1,b.2.5.3 21932,22447 1gynA 358 8.54e+01 c.1.10.2 83385 1pex 207 8.89e+01 1gen 1hk7A 288 8.92e+01 d.14.1.8 90626